Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 132 of 311
Found at i:44534974 original size:37 final size:37
Alignment explanation
Indices: 44534924--44534997 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
44534914 CATACACGGG
44534924 TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
1 TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
44534961 TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
1 TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
44534998 AAAAAGTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.43
Consensus pattern (37 bp):
TTAATTCCCTACAAATTATATGATTATTTTAATCAAA
Found at i:44536292 original size:26 final size:26
Alignment explanation
Indices: 44536261--44536319 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
44536251 AAGAAGTCTT
*
44536261 TGTGGCATAATATGAAAGAAA-GCCTC
1 TGTGGCATAATATGAAA-AAAGGCCAC
*
44536287 TGTGGCGTAATATGAAAAAAGGCCAC
1 TGTGGCATAATATGAAAAAAGGCCAC
44536313 TGTGGCA
1 TGTGGCA
44536320 AACTCCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (26 bp):
TGTGGCATAATATGAAAAAAGGCCAC
Found at i:44539728 original size:85 final size:85
Alignment explanation
Indices: 44539578--44539740 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
44539568 GTCTAAGACA
** * * * * *
44539578 TCGTGTAAGACTGTGTCTGGGACATAGGCCTCGATTGAGATTTACGTATAAAACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATTGAGATTTACATATAAAACCACGTCCGGGA
44539643 CATCGACATTGTATCTGATT
66 CATCGACATTGTATCTGATT
* *
44539663 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCCGG
1 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCG--ATTGAGATTTACATATAAAACCACGTCCGG
*
44539726 GACGTCGACATTGTA
64 GACATCGACATTGTA
44539741 CTTGTTTATG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 60 0.91
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATTGAGATTTACATATAAAACCACGTCCGGGA
CATCGACATTGTATCTGATT
Found at i:44542569 original size:40 final size:39
Alignment explanation
Indices: 44542525--44542670 Score: 184
Period size: 40 Copynumber: 3.7 Consensus size: 39
44542515 TTTGATGTGT
*
44542525 GTATCCAGGCTTAAAGACCCGCAGGCTTTATGCTGGAATG
1 GTATCC-GGTTTAAAGACCCGCAGGCTTTATGCTGGAATG
* *
44542565 GTATCCGGATTTAAAGACCCGCAGGCTATATGCTGGAATT
1 GTATCCGG-TTTAAAGACCCGCAGGCTTTATGCTGGAATG
**
44542605 GTATCCGAGTTTAAAGACCCGCAGGCTTCGTGCTGGAATG
1 GTATCCG-GTTTAAAGACCCGCAGGCTTTATGCTGGAATG
* * * *
44542645 GAATCCGGGTTAAAAACCCGTAGGCT
1 GTATCCGGTTTAAAGACCCGCAGGCT
44542671 CGTGTTAGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 18 0.19
40 74 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
GTATCCGGTTTAAAGACCCGCAGGCTTTATGCTGGAATG
Found at i:44558508 original size:34 final size:34
Alignment explanation
Indices: 44558464--44558538 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
44558454 AAATAAATGT
* *
44558464 ATATATATTCA-TCTTCGGTTATATCAAACCATAC
1 ATATATATTCACT-TTCGATTATACCAAACCATAC
* *
44558498 ATATGTATTCACTTTCGATTATACCAAACTATAC
1 ATATATATTCACTTTCGATTATACCAAACCATAC
44558532 ATATATA
1 ATATATA
44558539 ATTATGTACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (34 bp):
ATATATATTCACTTTCGATTATACCAAACCATAC
Found at i:44559236 original size:19 final size:19
Alignment explanation
Indices: 44559207--44559243 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
44559197 AGGCTGAATG
44559207 TCTTGCTTCTTTTATATTTT
1 TCTTGCTTCTTTT-TATTTT
44559227 TCTT-CTTCTTTTTATTT
1 TCTTGCTTCTTTTTATTT
44559244 CGACAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.08, C:0.16, G:0.03, T:0.73
Consensus pattern (19 bp):
TCTTGCTTCTTTTTATTTT
Found at i:44571714 original size:35 final size:35
Alignment explanation
Indices: 44571675--44571744 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
44571665 CTAAGATCAT
44571675 ATATCTTTGAAGATCT-CCTTCCATATTTGCCAAGC
1 ATATCTTTGAAGAT-TACCTTCCATATTTGCCAAGC
*
44571710 ATATCTTTGAAGATTACTTTCCATATTTGCCAAGC
1 ATATCTTTGAAGATTACCTTCCATATTTGCCAAGC
44571745 TCCGAAGATG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (35 bp):
ATATCTTTGAAGATTACCTTCCATATTTGCCAAGC
Found at i:44576937 original size:35 final size:35
Alignment explanation
Indices: 44576898--44576969 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
44576888 GTCTAAGATC
44576898 GCATATCTTTGAAGATCT-CCTTCCATATTTGCCAA
1 GCATATCTTTGAAGAT-TACCTTCCATATTTGCCAA
* *
44576933 GCATATCTTTGAAGATTACTTTCCCTATTTGCCAA
1 GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
44576968 GC
1 GC
44576970 TCCGGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (35 bp):
GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
Found at i:44577563 original size:85 final size:85
Alignment explanation
Indices: 44577219--44577919 Score: 814
Period size: 85 Copynumber: 8.2 Consensus size: 85
44577209 TGGATATGCA
* * * *
44577219 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTG-TAGGAGCCTCGGCCACCATCGAC
1 GGAGCCTCGG-GACCATCGGCAACCTAGGCCCTTGGTCGTGCGA-GAGCCTCGGGCACCATCGGC
*
44577283 AACCTAGGCCCTTGGTCGTGTG
64 AACCTAGGCCCTTGGTCGTGCG
* * *
44577305 GGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTTGGGAACCATCGGCA
1 GGAGCCTCG-GGACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCA
* *
44577370 ACCTAGGCCCCTGGTCGCGCG
65 ACCTAGGCCCTTGGTCGTGCG
** * * * *
44577391 GGAGCCTCAGACACCATCAG-AACCTAGG-CCTCTGGTCGTGCGAGA-TCTCGGACACCATCAGC
1 GGAGCCTC-GGGACCATCGGCAACCTAGGCCCT-TGGTCGTGCGAGAGCCTCGGGCACCATCGGC
*
44577453 AACCTAGGCCCCTGGTCGTGCG
64 AACCTAGGCCCTTGGTCGTGCG
* * *
44577475 GGAGCCTCGGGACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGAGCACCATCGGCAA
1 GGAGCCTCGGGACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAA
* *
44577540 CCTAGGCCCCTGGTCGTGTG
66 CCTAGGCCCTTGGTCGTGCG
* * * *
44577560 GGAGCCTTGGGCACCATCGGCACCCTAGGCCC-TGGTCGTGCGAGAGCCTCGGGCACCACCGGTA
1 GGAGCCTCGGG-ACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCA
*
44577624 CCCTAGGCCCTTGGTCGTGCG
65 ACCTAGGCCCTTGGTCGTGCG
* *
44577645 AGAGCCTCGGGACCATCGAC-ACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGC-A
1 GGAGCCTCGGGACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAA
* **
44577708 CCTTGGTGCTTGGAT-GTGCG
66 CCTAGGCCCTTGG-TCGTGCG
* *
44577728 GGAGCCT-GGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
1 GGAGCCTCGGG--ACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGC
* **
44577792 -ACCTTGGTGCTTGGAT-GTGCG
64 AACCTAGGCCCTTGG-TCGTGCG
* * * * *
44577813 GGAACCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCCG-GAGTCTCGGGCACCATCGGT
1 GGAGCCTCGG-GACCATCGGCAACCTAGGCCCTTGGTCGTG-CGAGAGCCTCGGGCACCATCGGC
*
44577877 AACCTAGGCCCTTGGTCGTGTG
64 AACCTAGGCCCTTGGTCGTGCG
44577899 GGAGCCTCGGGCACCATCGGC
1 GGAGCCTCGGG-ACCATCGGC
44577920 CCTTGGTGCC
Statistics
Matches: 536, Mismatches: 60, Indels: 38
0.85 0.09 0.06
Matches are distributed among these distances:
82 3 0.01
83 38 0.07
84 109 0.20
85 238 0.44
86 145 0.27
87 3 0.01
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.18
Consensus pattern (85 bp):
GGAGCCTCGGGACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAA
CCTAGGCCCTTGGTCGTGCG
Found at i:44577918 original size:43 final size:43
Alignment explanation
Indices: 44577219--44577919 Score: 859
Period size: 43 Copynumber: 16.5 Consensus size: 43
44577209 TGGATATGCA
* **
44577219 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGTA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
44577262 GGAGCCTCGGCCACCATCGACAACCTAGGCCCTTGGTCGTGTG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
44577305 GGAGCCTCGAGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * * *
44577348 AGAGCCTTGGGAACCATCGGCAACCTAGGCCCCTGGTCGCGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
44577391 GGAGCCTCAGACACCATCAG-AACCTAGG-CCTCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCG
* * * * *
44577433 AGA-TCTCGGACACCATCAGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
44577475 GGAGCCTCGGG-ACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
44577517 GGAGCCTCGAGCACCATCGGCAACCTAGGCCCCTGGTCGTGTG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
44577560 GGAGCCTTGGGCACCATCGGCACCCTAGGCCC-TGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * *
44577602 AGAGCCTCGGGCACCACCGGTACCCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
44577645 AGAGCCTCGGG-ACCATCGAC-ACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * **
44577686 AGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
*
44577728 GGAGCCT-GGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* **
44577771 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * * *
44577813 GGAACCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCC
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
44577856 GGAGTCTCGGGCACCATCGGTAACCTAGGCCCTTGGTCGTGTG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
44577899 GGAGCCTCGGGCACCATCGGC
1 GGAGCCTCGGGCACCATCGGC
44577920 CCTTGGTGCC
Statistics
Matches: 573, Mismatches: 70, Indels: 30
0.85 0.10 0.04
Matches are distributed among these distances:
41 50 0.09
42 197 0.34
43 323 0.56
44 3 0.01
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.18
Consensus pattern (43 bp):
GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
Found at i:44586027 original size:58 final size:59
Alignment explanation
Indices: 44585935--44586055 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 59
44585925 CCCTCCCCAA
* * *
44585935 TCCCAAAAGGTAGAATTCAGATACCGTTACATGTTTGGTACCCAATAATGAATGAACCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
* *
44585994 TCCC-AAAGCTAGAATTCAGATACCGTTATATGTTCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
44586052 TCCC
1 TCCC
44586056 TGTCCCTCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 53 0.93
59 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
Found at i:44586533 original size:24 final size:24
Alignment explanation
Indices: 44586458--44586533 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
44586448 CCGGTTAGGT
* *
44586458 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
* * **
44586482 TTCCGGCGGTGGTCCGGCGAGCTT
1 TCCCGGCGGTGCTCCGGCGAGCCA
*
44586506 TCCCGGCGGTGCTCCGGTGAGCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
44586530 TCCC
1 TCCC
44586534 AGAATATAGA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.08, C:0.38, G:0.34, T:0.20
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGCGAGCCA
Found at i:44586853 original size:43 final size:43
Alignment explanation
Indices: 44586810--44587214 Score: 515
Period size: 43 Copynumber: 9.5 Consensus size: 43
44586800 TAGATATGCA
*
44586810 GGAGCCTC-GGACACCATCGGCAACCTAGGCCCTTGGTCGTGCA
1 GGAGCCTCAGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
44586853 GGAGCCTC-GGCCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCAGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
44586896 GGAGCCTCAGGCACCATCAGTAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
44586939 GGAG-CTC-GGACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCAGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * * *
44586981 GGAGCCTCAGG-ACCATCGGTAATCTAGG-CCTCTAGTCATGCA
1 GGAGCCTCAGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCG
*
44587023 GGAGCCTCAGGCACCATCGGTAACCTAGG-CCTCTGGTCGTGCG
1 GGAGCCTCAGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCG
* * *
44587066 GGAGCCTC-GGCCACCATCGGCACCCTAGGCCCCTGGTTGTGCG
1 GGAGCCTCAGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
44587109 AGAGCCTCAGGCACCATCGGCACCCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
44587152 AGAGCCTCTGG-ACCATCGGC-ACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
44587193 GGAGCCTCGGGCACCATCGGCA
1 GGAGCCTCAGGCACCATCGGCA
44587215 CCTTGGTGCT
Statistics
Matches: 323, Mismatches: 28, Indels: 22
0.87 0.08 0.06
Matches are distributed among these distances:
41 33 0.10
42 90 0.28
43 192 0.59
44 8 0.02
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.17
Consensus pattern (43 bp):
GGAGCCTCAGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
Found at i:44587025 original size:170 final size:169
Alignment explanation
Indices: 44586822--44587214 Score: 535
Period size: 170 Copynumber: 2.3 Consensus size: 169
44586812 AGCCTCGGAC
44586822 ACCATCGGCAACCTAGGCCCTTGGTCGTGCAGGAGCCTCGGCCACCATCGGCAACCTAGGCC-CT
1 ACCATCGG-AACCTAGGCCCTTGGTCGTGCAGGAGCCTCGG-CACCATCGGCAACCTAGGCCTC-
* *
44586886 TGGTCGTGCGGGAGCCTCAGG-CACCATCAGTAACCTAGGCCCCTGGTCGTGCGGGAG-CTC-GG
63 TGGTCGTGCGGGAGCCTC-GGCCACCATCAGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGG
*
44586948 ACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGG
127 -CACCATCGGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGG
* * * *
44586992 ACCATCGGTAATCTAGG-CCTCTAGTCATGCAGGAGCCTCAGGCACCATCGGTAACCTAGGCCTC
1 ACCATCGG-AACCTAGGCCCT-TGGTCGTGCAGGAGCCTC-GGCACCATCGGCAACCTAGGCCTC
* * *
44587056 TGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCCTAGGCCCCTGGTTGTGCGAGAGCCTCAGGC
63 TGGTCGTGCGGGAGCCTCGGCCACCATCAGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGGC
* * *
44587121 ACCATCGGCACCCTAGGCCCTTGGTCGTGCGAGAGCCTCTGG
128 ACCATCGGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGG
* *
44587163 ACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 ACCATCGGAACCTAGGCCCTTGGTCGTGCAGGAGCCTC-GGCACCATCGGCA
44587215 CCTTGGTGCT
Statistics
Matches: 195, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
169 5 0.03
170 132 0.68
171 56 0.29
172 2 0.01
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.17
Consensus pattern (169 bp):
ACCATCGGAACCTAGGCCCTTGGTCGTGCAGGAGCCTCGGCACCATCGGCAACCTAGGCCTCTGG
TCGTGCGGGAGCCTCGGCCACCATCAGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGGCACC
ATCGGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGG
Found at i:44587050 original size:213 final size:213
Alignment explanation
Indices: 44586805--44587212 Score: 619
Period size: 213 Copynumber: 1.9 Consensus size: 213
44586795 TGCCTTAGAT
44586805 ATGCAGGAGCCTCGGACACCATCGGCAACCTAGGCC-CTTGGTCGTGCAGGAGCCTCGGCCACCA
1 ATGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCTC-TGGTCGTGCAGGAGCCTCGGCCACCA
* * *
44586869 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCAGGCACCATCAGTAACCTAGGCCCCTGGTC
65 TCGGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGGCACCATCAGCAACCTAGGCCCCTGGTC
*
44586934 GTGCGGGAG-CTC-GGACACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGG-ACCA
130 GTGCGAGAGCCTCTGG--ACCATCGGC-ACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGGCACCA
44586996 TCGGTAATCTAGGCCTCTAGTC
192 TCGGTAATCTAGGCCTCTAGTC
* *
44587018 ATGCAGGAGCCTCAGG-CACCATCGGTAACCTAGGCCTCTGGTCGTGCGGGAGCCTCGGCCACCA
1 ATGCAGGAGCCTC-GGACACCATCGGCAACCTAGGCCTCTGGTCGTGCAGGAGCCTCGGCCACCA
* * * * *
44587082 TCGGCACCCTAGGCCCCTGGTTGTGCGAGAGCCTCAGGCACCATCGGCACCCTAGGCCCTTGGTC
65 TCGGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGGCACCATCAGCAACCTAGGCCCCTGGTC
* *
44587147 GTGCGAGAGCCTCTGGACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
130 GTGCGAGAGCCTCTGGACCATCGGCACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGGCACCATCG
44587212 G
195 G
44587213 CACCTTGGTG
Statistics
Matches: 177, Mismatches: 13, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
212 30 0.17
213 139 0.79
214 6 0.03
215 2 0.01
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.17
Consensus pattern (213 bp):
ATGCAGGAGCCTCGGACACCATCGGCAACCTAGGCCTCTGGTCGTGCAGGAGCCTCGGCCACCAT
CGGCAACCTAGGCCCCTGGTCGTGCGAGAGCCTCAGGCACCATCAGCAACCTAGGCCCCTGGTCG
TGCGAGAGCCTCTGGACCATCGGCACCTAGGCCCCTGGTCGTGCGGGAGCCTCAGGCACCATCGG
TAATCTAGGCCTCTAGTC
Found at i:44589754 original size:33 final size:33
Alignment explanation
Indices: 44589717--44589782 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
44589707 AAGGTGTAAG
44589717 AATGATAAGATAATTCGAATTAAGTCTAGTGAT
1 AATGATAAGATAATTCGAATTAAGTCTAGTGAT
* *
44589750 AATGATAAGATAATTTGAATTGAGTCTAGTGAT
1 AATGATAAGATAATTCGAATTAAGTCTAGTGAT
44589783 CTGAATGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.35
Consensus pattern (33 bp):
AATGATAAGATAATTCGAATTAAGTCTAGTGAT
Found at i:44595476 original size:20 final size:20
Alignment explanation
Indices: 44595453--44595675 Score: 128
Period size: 20 Copynumber: 11.4 Consensus size: 20
44595443 TACCAAAAAC
*
44595453 ATGAGGGAATACAAAAAATT
1 ATGAGGAAATACAAAAAATT
* *
44595473 ATGAGAAAATACTAAAAATT
1 ATGAGGAAATACAAAAAATT
*
44595493 -T-A-GAAATTACCAAAAATT
1 ATGAGGAAA-TACAAAAAATT
*
44595511 ATGA-GAGAATACAAAAATTT
1 ATGAGGA-AATACAAAAAATT
44595531 ATGA-GAAAGTACAAAAAAGTT
1 ATGAGGAAA-TACAAAAAA-TT
44595552 ATGAAGGAATATA-AAAAAA--
1 ATG-AGGAA-ATACAAAAAATT
* * *
44595571 A-AAAGAAGTACAAAAAA-T
1 ATGAGGAAATACAAAAAATT
** * * *
44595589 ATGTTGTAATACCATAAATT
1 ATGAGGAAATACAAAAAATT
* *
44595609 ATGAGAAAATAC-AAAATTT
1 ATGAGGAAATACAAAAAATT
* *
44595628 ATGAGAAAATACTAAAAATT
1 ATGAGGAAATACAAAAAATT
* *
44595648 ATAAGGGAATACTAAAAAATT
1 ATGAGGAAATAC-AAAAAATT
44595669 -TGAGGAA
1 ATGAGGAA
44595676 GTAAAGAAAA
Statistics
Matches: 157, Mismatches: 31, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
16 2 0.01
17 13 0.08
18 12 0.08
19 31 0.20
20 72 0.46
21 14 0.09
22 7 0.04
23 5 0.03
24 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.23
Consensus pattern (20 bp):
ATGAGGAAATACAAAAAATT
Found at i:44595507 original size:18 final size:19
Alignment explanation
Indices: 44595420--44595649 Score: 123
Period size: 20 Copynumber: 11.8 Consensus size: 19
44595410 GGTGTTACAC
* *
44595420 AAATACCAAAAATTAAGAA
1 AAATACCAAAAATTATGAG
*
44595439 AAAGTACCAAAAA-CATGAGG
1 AAA-TACCAAAAATTATGA-G
* *
44595459 GAATACAAAAAATTATGAG
1 AAATACCAAAAATTATGAG
*
44595478 AAAATACTAAAAATT-T-AG
1 -AAATACCAAAAATTATGAG
44595496 AAATTACCAAAAATTATGAG
1 AAA-TACCAAAAATTATGAG
44595516 AGAATA-CAAAAATTTATGAG
1 A-AATACCAAAAA-TTATGAG
*
44595536 AAAGTACAAAAAAGTTATGAAG
1 AAA-TACCAAAAA-TTATG-AG
* * ** **
44595558 GAATA-TAAAAAAAAAAAG
1 AAATACCAAAAATTATGAG
* * *
44595576 AAGTA-CAAAAAATATGTTG
1 AAATACCAAAAATTATG-AG
* *
44595595 TAATACCATAAATTATGAG
1 AAATACCAAAAATTATGAG
*
44595614 AAAATA-CAAAATTTATGAG
1 -AAATACCAAAAATTATGAG
*
44595633 AAAATACTAAAAATTAT
1 -AAATACCAAAAATTAT
44595650 AAGGGAATAC
Statistics
Matches: 161, Mismatches: 34, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
17 3 0.02
18 24 0.15
19 48 0.30
20 68 0.42
21 14 0.09
22 4 0.02
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (19 bp):
AAATACCAAAAATTATGAG
Found at i:44595533 original size:58 final size:58
Alignment explanation
Indices: 44595420--44595548 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 58
44595410 GGTGTTACAC
* *
44595420 AAATACCAAAAATTAAGAAAAAGTACCAAAAACATGAGGGAATACAAAAAATTATGAGA
1 AAATACAAAAAATTAAG-AAAAGTACCAAAAACATGAGAGAATACAAAAAATTATGAGA
* * * * *
44595479 AAATACTAAAAATTTAG-AAATTACCAAAAATTATGAGAGAATACAAAAATTTATGAGA
1 AAATACAAAAAATTAAGAAAAGTACCAAAAA-CATGAGAGAATACAAAAAATTATGAGA
*
44595537 AAGTACAAAAAA
1 AAATACAAAAAA
44595549 GTTATGAAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 12 0.20
58 34 0.56
59 15 0.25
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (58 bp):
AAATACAAAAAATTAAGAAAAGTACCAAAAACATGAGAGAATACAAAAAATTATGAGA
Found at i:44595588 original size:117 final size:116
Alignment explanation
Indices: 44595460--44595721 Score: 263
Period size: 117 Copynumber: 2.2 Consensus size: 116
44595450 AACATGAGGG
* * *
44595460 AATACAAAAAATTATGAGAAAATACTAAAAATT-T-AGAAATTACCAAAAATTATGAGAGAATAC
1 AATACAAAAAATTATGAG-AAATACCAAAAATTATGAGAAAATA-CAAAAATTATGAGAAAATAC
*
44595523 -AAAAATT-TATGAGAAAGTAC-AAAAAAGTTATGAAGGAA-TATAA-AAAAAAAAAG-
64 TAAAAATTATAAG-GAAA-TACTAAAAAA-TT-TG-AGGAAGTA-AAGAAAAAAAAAGT
* * * *
44595576 AAGTACAAAAAA-TATGTTGTAATACCATAAATTATGAGAAAATACAAAATTTATGAGAAAATAC
1 AA-TACAAAAAATTATG-AGAAATACCAAAAATTATGAGAAAATACAAAAATTATGAGAAAATAC
*
44595640 TAAAAATTATAAGGGAATACTAAAAAATTTGAGGAAGTAAAGAAAAAAAAAGT
64 TAAAAATTATAAGGAAATACTAAAAAATTTGAGGAAGTAAAGAAAAAAAAAGT
* *
44595693 AATACCAAAAATTATGATGAGATACCAAA
1 AATACAAAAAATTATGA-GAAATACCAAA
44595722 TTTGGGTTGT
Statistics
Matches: 120, Mismatches: 14, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
115 7 0.06
116 39 0.32
117 48 0.40
118 23 0.19
119 3 0.03
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.23
Consensus pattern (116 bp):
AATACAAAAAATTATGAGAAATACCAAAAATTATGAGAAAATACAAAAATTATGAGAAAATACTA
AAAATTATAAGGAAATACTAAAAAATTTGAGGAAGTAAAGAAAAAAAAAGT
Found at i:44595723 original size:97 final size:96
Alignment explanation
Indices: 44595500--44595724 Score: 233
Period size: 97 Copynumber: 2.3 Consensus size: 96
44595490 ATTTAGAAAT
*
44595500 TACCAAAAATTATGAGAGAATACAAAAATTTATGAGAAAGTACAAAAAAGTTATGAAGGAATATA
1 TACCAAAAATTATGAGAG-ATAC-AAAATTTATGAGAAAATACAAAAAAGTTATGAAGGAATATA
****
44595565 AAAAAAAAAAGAAGTACAAAAAATATGTTGTAA
64 AAAAAAAAAAGAAGTACAAAAAATAAAAAGTAA
* * *
44595598 TACCATAAATTATGAGAAAATACAAAATTTATGAGAAAATACTAAAAA-TTAT-AAGGGAATACT
1 TACCAAAAATTATGAG-AGATACAAAATTTATGAGAAAATACAAAAAAGTTATGAA-GGAATA-T
*** *
44595661 AAAAAATTTGAGGAAGTA-AAGAAAA-AAAAAGTAA
63 AAAAAA-AAAAAGAAGTACAA-AAAATAAAAAGTAA
*
44595695 TACCAAAAATTATGATGAGATACCAAATTT
1 TACCAAAAATTATGA-GAGATACAAAATTT
44595725 GGGTTGTCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
95 2 0.02
96 10 0.09
97 62 0.58
98 31 0.29
99 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.23
Consensus pattern (96 bp):
TACCAAAAATTATGAGAGATACAAAATTTATGAGAAAATACAAAAAAGTTATGAAGGAATATAAA
AAAAAAAAGAAGTACAAAAAATAAAAAGTAA
Found at i:44596017 original size:20 final size:20
Alignment explanation
Indices: 44595994--44596051 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
44595984 TAAAAAAATG
44595994 AAAAAATACCAAAAATTATA
1 AAAAAATACCAAAAATTATA
* * *
44596014 AAAATATACC-AATATTATG
1 AAAAAATACCAAAAATTATA
* *
44596033 AAAAAATATCATAAATTAT
1 AAAAAATACCAAAAATTAT
44596052 GAAAGTATAC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAAATACCAAAAATTATA
Found at i:44596052 original size:20 final size:19
Alignment explanation
Indices: 44595991--44596055 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
44595981 ATATAAAAAA
44595991 ATGAAAAAATACCAAAAATT
1 ATGAAAAAATACC-AAAATT
*
44596011 AT-AAAAATATACCAATATT
1 ATGAAAAA-ATACCAAAATT
*
44596030 ATGAAAAAATATCATAAATT
1 ATGAAAAAATACCA-AAATT
44596050 ATGAAA
1 ATGAAA
44596056 GTATACCACT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (19 bp):
ATGAAAAAATACCAAAATT
Found at i:44597124 original size:24 final size:24
Alignment explanation
Indices: 44597097--44597155 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
44597087 TTTTTATTCA
* *
44597097 AATTATAATTATTCTAATTATAT-T
1 AATTATAATTATTATAATAAT-TGT
* *
44597121 AATTATGATTATTATTATAATTGT
1 AATTATAATTATTATAATAATTGT
44597145 AATTATAATTA
1 AATTATAATTA
44597156 GTTTTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (24 bp):
AATTATAATTATTATAATAATTGT
Found at i:44598100 original size:28 final size:27
Alignment explanation
Indices: 44598051--44598118 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
44598041 CAAAAATTAA
* *
44598051 AAAT-AAAAATTATATTACTTTACTCTT
1 AAATAAAAAATTTTATTACTTTA-TATT
44598078 AAATAAAAAATTTTAATTA-TTTATATT
1 AAATAAAAAATTTT-ATTACTTTATATT
* *
44598105 TAATAAATAATTTT
1 AAATAAAAAATTTT
44598119 TTTTATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 19 0.54
28 12 0.34
29 4 0.11
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATAAAAAATTTTATTACTTTATATT
Found at i:44599630 original size:62 final size:62
Alignment explanation
Indices: 44599493--44599637 Score: 202
Period size: 62 Copynumber: 2.3 Consensus size: 62
44599483 AAACTACTTG
* *
44599493 TATGGTGTGGATAAACCACTAGGTTATGAATGCAAAATGGGTTTGCAGATAAAAGTTGCTAA
1 TATGGTGTGGATAAACCACTCGATTATGAATGCAAAATGGGTTTGCAGATAAAAGTTGCTAA
* * * * *
44599555 TACT-GTATAGATAAACCACTCGATTTTGAATGCACAATGGGTTTGCAGATAAAAGTTGTTAA
1 TA-TGGTGTGGATAAACCACTCGATTATGAATGCAAAATGGGTTTGCAGATAAAAGTTGCTAA
*
44599617 TATGGTGTGGATAAATCACTC
1 TATGGTGTGGATAAACCACTC
44599638 AATAGTGTGG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
61 1 0.01
62 69 0.97
63 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (62 bp):
TATGGTGTGGATAAACCACTCGATTATGAATGCAAAATGGGTTTGCAGATAAAAGTTGCTAA
Found at i:44599659 original size:21 final size:21
Alignment explanation
Indices: 44599621--44599694 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 21
44599611 TGTTAATATG
*
44599621 GTGTGGATAAA-TCACTCAATA
1 GTGTGGATAAACT-GCTCAATA
44599642 GTGTGGATAAACTGCTCAA-A
1 GTGTGGATAAACTGCTCAATA
*
44599662 CG-GTGCAGATAAACTGCTCAAATG
1 -GTGTG--GATAAACTGCTC-AATA
44599686 GTGTGGATA
1 GTGTGGATA
44599695 TACCAATCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
20 4 0.09
21 17 0.39
22 17 0.39
23 3 0.07
24 3 0.07
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (21 bp):
GTGTGGATAAACTGCTCAATA
Found at i:44599694 original size:22 final size:22
Alignment explanation
Indices: 44599618--44599694 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
44599608 AGTTGTTAAT
*
44599618 ATGGTGTGGATAAA-TCACTC-A
1 ATGGTGTGGATAAACT-GCTCAA
*
44599639 ATAGTGTGGATAAACTGCTCAA
1 ATGGTGTGGATAAACTGCTCAA
* **
44599661 ACGGTGCAGATAAACTGCTCAA
1 ATGGTGTGGATAAACTGCTCAA
44599683 ATGGTGTGGATA
1 ATGGTGTGGATA
44599695 TACCAATCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 16 0.36
22 29 0.64
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (22 bp):
ATGGTGTGGATAAACTGCTCAA
Found at i:44599866 original size:34 final size:33
Alignment explanation
Indices: 44599794--44599924 Score: 122
Period size: 34 Copynumber: 3.8 Consensus size: 33
44599784 ATCAATGCGG
* * * *
44599794 TAATATGCTTATAA-CATATCGAAATAGTAGCAAT
1 TAATATGCTT-TAATCAAATC-AATTAGTACCAAA
*
44599828 TAATATGCTTATAA-AAAATCAATTAAGTACCAAA
1 TAATATGCTT-TAATCAAATCAATT-AGTACCAAA
* * *
44599862 TAATATGCTTTAATTAGATCAATTCAGTATCAAA
1 TAATATGCTTTAATCAAATCAATT-AGTACCAAA
44599896 TAATATGCTTTAATCAAATCAATTTAGTA
1 TAATATGCTTTAATCAAATCAA-TTAGTA
44599925 GCTAACGACA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
33 6 0.07
34 75 0.90
35 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (33 bp):
TAATATGCTTTAATCAAATCAATTAGTACCAAA
Found at i:44602700 original size:18 final size:17
Alignment explanation
Indices: 44602677--44602710 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
44602667 GATAATCTCT
44602677 TTTTAATTATTTATCATC
1 TTTTAATTATTT-TCATC
44602695 TTTTAATTATTTTCAT
1 TTTTAATTATTTTCAT
44602711 TTCCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATTATTTTCATC
Found at i:44604137 original size:29 final size:28
Alignment explanation
Indices: 44604105--44604159 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
44604095 TTATTATTTT
* *
44604105 AAATAATATTATTTTACATTAATTACATG
1 AAATAAAATTATTTTA-ATAAATTACATG
44604134 AAATAAAATTATTTTAATAAATTACA
1 AAATAAAATTATTTTAATAAATTACA
44604160 AATTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATAAAATTATTTTAATAAATTACATG
Found at i:44605611 original size:25 final size:27
Alignment explanation
Indices: 44605583--44605634 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
44605573 AGCATCCCGA
44605583 TTAAA-GGT-TCTTTGTGA-ACTTCTCG
1 TTAAATGGTATCTTTGTGAGA-TTCTCG
*
44605608 TTAAATTGTATCTTTGTGAGATTCTCG
1 TTAAATGGTATCTTTGTGAGATTCTCG
44605635 ATAATGCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 2 0.09
27 15 0.65
28 1 0.04
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.46
Consensus pattern (27 bp):
TTAAATGGTATCTTTGTGAGATTCTCG
Found at i:44611802 original size:5 final size:6
Alignment explanation
Indices: 44611770--44611827 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
44611760 AAAGTCTAGG
* * * * **
44611770 AAAATA CAAATA AATAGA AAAATA AAAATA AAAACTA ATAGGA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
44611819 AAAATA AAA
1 AAAATA AAA
44611828 GAAAATTAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
6 35 0.90
7 4 0.10
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:44620300 original size:39 final size:39
Alignment explanation
Indices: 44620257--44620334 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
44620247 CAAGGAGAAG
44620257 GATTTGTGGCAACTACAAAAACTAGCTGATTATTCTGAT
1 GATTTGTGGCAACTACAAAAACTAGCTGATTATTCTGAT
* * **
44620296 GATTTGTGGCAACTATAGAAGGTAGCTGATTATTCTGAT
1 GATTTGTGGCAACTACAAAAACTAGCTGATTATTCTGAT
44620335 TTTCAGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.35
Consensus pattern (39 bp):
GATTTGTGGCAACTACAAAAACTAGCTGATTATTCTGAT
Found at i:44636370 original size:15 final size:15
Alignment explanation
Indices: 44636335--44636392 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
44636325 TATGATATTG
* *
44636335 TATCTTAGATTTTTT
1 TATCTTGGATTTCTT
44636350 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
* *
44636365 TGTCTTGGACTTCTT
1 TATCTTGGATTTCTT
* *
44636380 TCTCTTGGTTTTC
1 TATCTTGGATTTC
44636393 ATGTCATCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:44639573 original size:42 final size:43
Alignment explanation
Indices: 44639512--44639610 Score: 121
Period size: 42 Copynumber: 2.3 Consensus size: 43
44639502 AATTAAGAAG
* * *
44639512 TCCGAACTCGTTGAGTGGTCT-AGGTTCGTGATATATGTG-GCA
1 TCCGAGCTCGTTGAATGGTCTGA-GTTCGTGATAGATGTGAGCA
* * *
44639554 TCCGAGCTCGTTGAATGGTCTGAGTTCGTTATGGCTGTGAGCA
1 TCCGAGCTCGTTGAATGGTCTGAGTTCGTGATAGATGTGAGCA
44639597 TCCGAGCTCGTTGA
1 TCCGAGCTCGTTGA
44639611 GTTGTCCGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
42 31 0.63
43 18 0.37
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.32
Consensus pattern (43 bp):
TCCGAGCTCGTTGAATGGTCTGAGTTCGTGATAGATGTGAGCA
Found at i:44639636 original size:43 final size:43
Alignment explanation
Indices: 44639546--44639636 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
44639536 TTCGTGATAT
* * *
44639546 ATGTG-GCATCCGAGCTCGTTGAATGGTCTGAGTTCGTTATGG
1 ATGTGAGCATCCGAGCTCGTTGAATGGTCCGAGTTCATAATGG
* * *
44639588 CTGTGAGCATCCGAGCTCGTTGAGTTGTCCGAGTTCATAATGG
1 ATGTGAGCATCCGAGCTCGTTGAATGGTCCGAGTTCATAATGG
44639631 ATGTGA
1 ATGTGA
44639637 TACATGTGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.32
Consensus pattern (43 bp):
ATGTGAGCATCCGAGCTCGTTGAATGGTCCGAGTTCATAATGG
Found at i:44642322 original size:26 final size:26
Alignment explanation
Indices: 44642286--44642361 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
44642276 TCTTATCCCT
*
44642286 ATTTTACCCCTAGCAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
* *
44642312 ATTTTACCCCTAGTAAAATTTTCACG
1 ATTTTACCCCTAGTAAAATTTTGACA
* *
44642338 ATTTTGCCTCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
44642362 GAAAATATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:44648312 original size:21 final size:21
Alignment explanation
Indices: 44648288--44648327 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44648278 CGATTTCTAT
*
44648288 CAATC-CGAAATTGCTTTCAAG
1 CAATCACG-AATTACTTTCAAG
44648309 CAATCACGAATTACTTTCA
1 CAATCACGAATTACTTTCA
44648328 CTTTCTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (21 bp):
CAATCACGAATTACTTTCAAG
Found at i:44653852 original size:17 final size:17
Alignment explanation
Indices: 44653830--44653872 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
44653820 AATAAAATAG
44653830 AGTAAGCT-ATATAGCTT
1 AGTAAGCTCAT-TAGCTT
*
44653847 AGTAAGCTCGTTAGCTT
1 AGTAAGCTCATTAGCTT
44653864 AGTAAGCTC
1 AGTAAGCTC
44653873 GTATGAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (17 bp):
AGTAAGCTCATTAGCTT
Found at i:44653873 original size:17 final size:17
Alignment explanation
Indices: 44653841--44653874 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44653831 GTAAGCTATA
44653841 TAGCTTAGTAAGCTCGT
1 TAGCTTAGTAAGCTCGT
44653858 TAGCTTAGTAAGCTCGT
1 TAGCTTAGTAAGCTCGT
44653875 ATGAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (17 bp):
TAGCTTAGTAAGCTCGT
Found at i:44656262 original size:34 final size:34
Alignment explanation
Indices: 44656224--44656290 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
44656214 CGAGCTCAAA
*
44656224 AACATAAAAATCATTAAAAACGGGTCATAAAATT
1 AACATAAAAATCACTAAAAACGGGTCATAAAATT
44656258 AACATAAAAATCACTAAAAACGGGTCATAAAAT
1 AACATAAAAATCACTAAAAACGGGTCATAAAAT
44656291 CTTACTATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.21
Consensus pattern (34 bp):
AACATAAAAATCACTAAAAACGGGTCATAAAATT
Found at i:44661438 original size:30 final size:31
Alignment explanation
Indices: 44661387--44661445 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
44661377 TATCTCAATT
* *
44661387 TCTTTTTCCACTTTTTTTTTCACTCTCAAAA
1 TCTTTTTCCAATTTCTTTTTCACTCTCAAAA
*
44661418 TCTTTTT-CAATTTCTTTTTCAGTCTCAA
1 TCTTTTTCCAATTTCTTTTTCACTCTCAA
44661446 TCTCATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.56
Consensus pattern (31 bp):
TCTTTTTCCAATTTCTTTTTCACTCTCAAAA
Found at i:44665985 original size:20 final size:19
Alignment explanation
Indices: 44665962--44666001 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
44665952 ATTTATATAA
44665962 TTATATTACATATTATATTT
1 TTATATTACATATTAT-TTT
**
44665982 TTATATTTTATATTATTTT
1 TTATATTACATATTATTTT
44666001 T
1 T
44666002 AATAGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATTACATATTATTTT
Found at i:44672635 original size:68 final size:68
Alignment explanation
Indices: 44672540--44672697 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 68
44672530 TTCACTTGGA
* *
44672540 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
44672605 CGT
66 CGT
44672608 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
44672673 CGT
66 CGT
44672676 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
44672698 TATATAGTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:44672714 original size:68 final size:67
Alignment explanation
Indices: 44672540--44672723 Score: 264
Period size: 68 Copynumber: 2.7 Consensus size: 67
44672530 TTCACTTGGA
* * *
44672540 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
44672605 CGT
65 CGT
*
44672608 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
44672673 CGT
65 CGT
*
44672676 ATCACACATGTGACCTAGCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATTTA-TATCTACGTAGCTC-TCTTGT
44672724 ACACATGATG
Statistics
Matches: 109, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
67 1 0.01
68 100 0.92
69 4 0.04
70 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACATTTATATCTACGTAGCTCTCTTGTCTACATGGGATACATCCC
GT
Found at i:44680208 original size:68 final size:68
Alignment explanation
Indices: 44680059--44680216 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
44680049 CTAGCCGATT
* * * *
44680059 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
44680124 TTTA
65 TATA
* * *
44680128 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
44680190 CTATATA
63 C-ATATA
44680197 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
44680217 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:44681979 original size:115 final size:115
Alignment explanation
Indices: 44681777--44682009 Score: 432
Period size: 115 Copynumber: 2.0 Consensus size: 115
44681767 TAGTGAGCAT
44681777 ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACATAAAAGAGTTTCTTTTTA
1 ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACATAAAAGAGTTTCTTTTTA
*
44681842 ACCTATTAATGATGTATCAACTAGTAGGGTTCTCCAACTAATTCACATAG
66 ACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
*
44681892 ATTTTTGAATTAGATAAAGTTTGTGATGCATGTTTTAAGGGTAAACATCAAAA-AGTTTCTTTTT
1 ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACAT-AAAAGAGTTTCTTTTT
44681956 AACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
65 AACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
44682007 ATT
1 ATT
44682010 AATTTGGTCC
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
115 111 0.97
116 4 0.03
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (115 bp):
ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACATAAAAGAGTTTCTTTTTA
ACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
Found at i:44684272 original size:15 final size:15
Alignment explanation
Indices: 44684254--44684283 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44684244 ACATATTGAG
44684254 ATTAGACATCATTTC
1 ATTAGACATCATTTC
*
44684269 ATTAGAGATCATTTC
1 ATTAGACATCATTTC
44684284 CATAAAGGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (15 bp):
ATTAGACATCATTTC
Found at i:44684873 original size:19 final size:20
Alignment explanation
Indices: 44684845--44684883 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
44684835 CGATACAATT
44684845 TTATTCATACCT-TTTAAAA
1 TTATTCATACCTGTTTAAAA
* *
44684864 TTATTGATACTTGTTTAAAA
1 TTATTCATACCTGTTTAAAA
44684884 AGCATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
TTATTCATACCTGTTTAAAA
Found at i:44686014 original size:58 final size:58
Alignment explanation
Indices: 44685924--44686099 Score: 316
Period size: 58 Copynumber: 3.0 Consensus size: 58
44685914 CTGGATTTGG
*
44685924 CTTTAATCTTATTCAATGACATTATCAAACGTATTGGTCAAAAGCTTAAGGGTAAGCT
1 CTTTAATCTTATTCAATGACATTATCAAACGTATTGGTCAAAAGCTTGAGGGTAAGCT
* * *
44685982 CTTTAATCTTATTTAATGATATTATTAAACGTATTGGTCAAAAGCTTGAGGGTAAGCT
1 CTTTAATCTTATTCAATGACATTATCAAACGTATTGGTCAAAAGCTTGAGGGTAAGCT
44686040 CTTTAATCTTATTCAATGACATTATCAAACGTATTGGTCAAAAGCTTGAGGGTAAGCT
1 CTTTAATCTTATTCAATGACATTATCAAACGTATTGGTCAAAAGCTTGAGGGTAAGCT
44686098 CT
1 CT
44686100 CTTTGCCCTT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 111 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (58 bp):
CTTTAATCTTATTCAATGACATTATCAAACGTATTGGTCAAAAGCTTGAGGGTAAGCT
Found at i:44689332 original size:19 final size:19
Alignment explanation
Indices: 44689308--44689348 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44689298 TTTATATTTT
44689308 TTAAAAAAT-TATAAAAATA
1 TTAAAAAATCTA-AAAAATA
*
44689327 TTAAAAAATCTAAAGAATA
1 TTAAAAAATCTAAAAAATA
44689346 TTA
1 TTA
44689349 CAATACCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
TTAAAAAATCTAAAAAATA
Found at i:44700381 original size:20 final size:20
Alignment explanation
Indices: 44700344--44700388 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
44700334 CTGTTTTATT
*
44700344 ATGGG-CCAATTGTATTGAA
1 ATGGGCCCAACTGTATTGAA
* *
44700363 ATGGGCCCAACTGTGTTGAT
1 ATGGGCCCAACTGTATTGAA
44700383 ATGGGC
1 ATGGGC
44700389 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTGAA
Found at i:44700447 original size:60 final size:59
Alignment explanation
Indices: 44700379--44700517 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
44700369 CCAACTGTGT
* *
44700379 TGATATGGGCAAGGCCCAATATATCTCGACT-TGTAATAGGGCTACCGCCCAGATTGATAC
1 TGATATGGGCAAGGCCCAATATA-CTCGAATATGTAA-AGGGCTACCGCCCAGATTAATAC
* * * * ** *
44700439 TGATATGGGCTAGGCCCAGTATACTCTAATACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCAAGGCCCAATATACTCGAATA-TGTAAAGGGCTACCGCCCAGATTAATAC
44700499 TGATATGGGCTAAGGCCCA
1 TGATATGGGC-AAGGCCCA
44700518 GATAGCTCTG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
59 5 0.08
60 49 0.74
61 12 0.18
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (59 bp):
TGATATGGGCAAGGCCCAATATACTCGAATATGTAAAGGGCTACCGCCCAGATTAATAC
Found at i:44700508 original size:28 final size:27
Alignment explanation
Indices: 44700425--44700520 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 27
44700415 TAGGGCTACC
*
44700425 GCCCAGATTGATACTGATATGGGCTAG
1 GCCCAGATTAATACTGATATGGGCTAG
*
44700452 GCCCAGTATACTCTAATACTG-TAAGGGGCTATG
1 GCCCAG---A-T-TAATACTGAT-ATGGGCTA-G
*
44700485 GCCCAGATTAATATTGATATGGGCTAAG
1 GCCCAGATTAATACTGATATGGGCT-AG
44700513 GCCCAGAT
1 GCCCAGAT
44700521 AGCTCTGATT
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
27 6 0.11
28 22 0.39
29 3 0.05
30 2 0.04
31 2 0.04
32 14 0.25
33 7 0.12
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (27 bp):
GCCCAGATTAATACTGATATGGGCTAG
Found at i:44703677 original size:21 final size:19
Alignment explanation
Indices: 44703632--44703679 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
44703622 AATTTATCAG
*
44703632 TTTTAATTATCTTATAACA
1 TTTTAATTATCATATAACA
* *
44703651 TATTAATCTATGCATATGACA
1 TTTTAAT-TAT-CATATAACA
44703672 TTTTAATT
1 TTTTAATT
44703680 TCACTTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
21 13 0.57
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.50
Consensus pattern (19 bp):
TTTTAATTATCATATAACA
Found at i:44716457 original size:18 final size:16
Alignment explanation
Indices: 44716430--44716470 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
44716420 TTCAAAATAT
44716430 TTATAAATTTTTAAAAA
1 TTATAAA-TTTTAAAAA
*
44716447 TATATATATTTTAAAAA
1 T-TATAAATTTTAAAAA
44716464 TTATAAA
1 TTATAAA
44716471 AATTTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 11 0.52
18 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTATAAATTTTAAAAA
Found at i:44716488 original size:15 final size:14
Alignment explanation
Indices: 44716468--44716519 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
44716458 TAAAAATTAT
44716468 AAAAATTTCAAAAAA
1 AAAAATTT-AAAAAA
44716483 AAAAATTT-AAAAA
1 AAAAATTTAAAAAA
* *
44716496 ATAAAGTTAAAAAA
1 AAAAATTTAAAAAA
44716510 TTAAAAATTT
1 --AAAAATTT
44716520 TCTAGGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 11 0.37
14 5 0.17
15 8 0.27
16 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAAATTTAAAAAA
Found at i:44716852 original size:20 final size:20
Alignment explanation
Indices: 44716808--44716861 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
44716798 AAAAAAATTG
* *
44716808 AAATGATTTTAAAATCAAGTTA
1 AAATGATTTT--AACCAAGTCA
44716830 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACCAAGTCA
44716850 AAATGATTTTAA
1 AAATGATTTTAA
44716862 AATGATTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 20 0.67
22 10 0.33
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:44716883 original size:30 final size:31
Alignment explanation
Indices: 44716818--44716891 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
44716808 AAATGATTTT
** *
44716818 AAAATCAAGTTAAAATGATTTTAACCAAGTC
1 AAAATCATTTTAAAATGATTTCAACCAAGTC
* * *
44716849 AAAATGATTTTAAAATGA-TTCAATCAAGTT
1 AAAATCATTTTAAAATGATTTCAACCAAGTC
44716879 AAAATCATTTTAA
1 AAAATCATTTTAA
44716892 CATATCAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 21 0.58
31 15 0.42
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (31 bp):
AAAATCATTTTAAAATGATTTCAACCAAGTC
Found at i:44717834 original size:20 final size:18
Alignment explanation
Indices: 44717809--44717845 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
44717799 ATTACTAAGT
44717809 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
44717829 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
44717846 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:44719694 original size:50 final size:50
Alignment explanation
Indices: 44719636--44719789 Score: 276
Period size: 50 Copynumber: 3.1 Consensus size: 50
44719626 TTTTAATGTG
44719636 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
* *
44719685 AGTATTGTAATATTATGATTTAGCGAAAGGCATGGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
44719735 AGTATTGTAATATTATGATTTAGCCAAA-GCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
44719784 AGTATT
1 AGTATT
44719790 AGTCATGTAA
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
49 30 0.30
50 70 0.70
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:44721391 original size:40 final size:40
Alignment explanation
Indices: 44721336--44721553 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
44721326 CGGATGATAA
** * *
44721336 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
44721376 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44721416 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44721456 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
44721496 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
44721536 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44721554 TACCTGGCTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44723933 original size:21 final size:21
Alignment explanation
Indices: 44723909--44723950 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44723899 TAAAAAAATA
44723909 AGATTTATCAACTAAAAATTT
1 AGATTTATCAACTAAAAATTT
* * *
44723930 AGATTTGTCAAGTAGAAATTT
1 AGATTTATCAACTAAAAATTT
44723951 TTTCACCCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (21 bp):
AGATTTATCAACTAAAAATTT
Found at i:44725513 original size:23 final size:22
Alignment explanation
Indices: 44725480--44725555 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
44725470 TAGGTGTTAT
*
44725480 AGAATATACCACAAAGGCTCTAC
1 AGAATA-ACCACAAAGGCTCCAC
*
44725503 AGAATACACCATAAAGGCTCCAC
1 AGAATA-ACCACAAAGGCTCCAC
* *
44725526 ATAATAAGCCACAAAAGCTCCAC
1 AGAATAA-CCACAAAGGCTCCAC
44725549 A-AATAAC
1 AGAATAAC
44725556 TTGCTGCTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.02
22 6 0.13
23 39 0.85
ACGTcount: A:0.47, C:0.28, G:0.11, T:0.14
Consensus pattern (22 bp):
AGAATAACCACAAAGGCTCCAC
Found at i:44726390 original size:12 final size:12
Alignment explanation
Indices: 44726373--44726402 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44726363 CCCCAAACGC
44726373 CTGTGTGCTAGG
1 CTGTGTGCTAGG
44726385 CTGTGTGCTAGG
1 CTGTGTGCTAGG
*
44726397 CCGTGT
1 CTGTGT
44726403 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.40, T:0.33
Consensus pattern (12 bp):
CTGTGTGCTAGG
Found at i:44739999 original size:28 final size:29
Alignment explanation
Indices: 44739959--44740113 Score: 126
Period size: 28 Copynumber: 5.5 Consensus size: 29
44739949 GATTTTGAAA
*
44739959 ATGGCACTTAGTGTGCGAGTTAC-T-GAGG
1 ATGGCACTTAGTGTGCGAG-TACATCCAGG
* *
44739987 ATGGCACTTAGTGTGCGA-AACATCCAGAA
1 ATGGCACTTAGTGTGCGAGTACATCCAG-G
* * * * *
44740016 ATGGCTCTTAGTGAGCGAAT-TATCGAGG
1 ATGGCACTTAGTGTGCGAGTACATCCAGG
* *
44740044 ATGGCACTTAGTGTGCTAG-ACATCCAAG
1 ATGGCACTTAGTGTGCGAGTACATCCAGG
44740072 ATGGCACTTAGTGTGCGA-TACATCC-GTG
1 ATGGCACTTAGTGTGCGAGTACATCCAG-G
* *
44740100 AAGGCACTGAGTGT
1 ATGGCACTTAGTGT
44740114 CCGAAGCTTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
26 2 0.02
27 1 0.01
28 76 0.76
29 21 0.21
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (29 bp):
ATGGCACTTAGTGTGCGAGTACATCCAGG
Found at i:44740026 original size:57 final size:56
Alignment explanation
Indices: 44739956--44740089 Score: 189
Period size: 57 Copynumber: 2.4 Consensus size: 56
44739946 GTCGATTTTG
*
44739956 AAAATGGCACTTAGTGTGCGAGTTA-CTGAGGATGGCACTTAGTGTGCGAAACATCC
1 AAAATGGCACTTAGTGTGCGAATTATC-GAGGATGGCACTTAGTGTGCGAAACATCC
* * * *
44740012 AGAAATGGCTCTTAGTGAGCGAATTATCGAGGATGGCACTTAGTGTGCTAGACATCC
1 A-AAATGGCACTTAGTGTGCGAATTATCGAGGATGGCACTTAGTGTGCGAAACATCC
*
44740069 AAGATGGCACTTAGTGTGCGA
1 AAAATGGCACTTAGTGTGCGA
44740090 TACATCCGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
56 18 0.26
57 49 0.72
58 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (56 bp):
AAAATGGCACTTAGTGTGCGAATTATCGAGGATGGCACTTAGTGTGCGAAACATCC
Found at i:44746273 original size:835 final size:828
Alignment explanation
Indices: 44744116--44746610 Score: 3360
Period size: 833 Copynumber: 3.0 Consensus size: 828
44744106 GCTCTAGATA
* * * *
44744116 AAGAATCAAGTATATTAAGATGATTTGAACCATTCTTGGATGAAAATATGATGTCAAATAAATAT
1 AAGAATCAAGTATATTAAGATGATTTGAAGCATTCTTGGATGAAAATATGATGTCGAATCAAGAT
* * * *
44744181 CTAAACAAAATAAATAAAACCAATTAGATTTTTTGTTAAAAGAAA-GAAAAAGAAAACCAAACAG
66 CTAAACAAAAGAAATAAAACAAATTAGA-TTTTTGTTAAAA-AAATGAAAAAGTAAACCAAACAA
* * * * * * * * *
44744245 CACGGAA--AGAGA-GATATCCAAAGAGAAGTCCAAGAAAGAGTGGGAAATGGTTTCGTGGCTGA
129 CATGGAAGGAGAGAGGTTA-GCAAAGAGAAGTGCAAGAACGACTGGGATATGGTTTCTTGGATGA
** * * *
44744307 G-AAGAAACAATTCTTGAACCAAAAGAAGGCCTCCAACTAGTTCTAAAATTGAGATAAGAAAATA
193 GAAAGAAA-AATTCTTGAACCAAAAGAAGG-CTTAAACTAGATCTAAAATTGAAAGAAGAAAATA
* * ** * * * * * *
44744371 GATTATCAGAATGGATTTTTAAGTAAGAAAATAATTATTTTGGGGTAAAAGTAATTGACACAATA
256 GATTGTTAGAATGGATTTTTAAGCCATAAAA-AATTGTTTTGTGATAAAAGCAATCGACACAATA
* * *
44744436 AGAAAAGAAGAGACTTCCTAGTTTTTAATGGTTCTTTGTGTATTAAGAAGGGGGGAATGTCTTTT
320 AGAAAAGAAGAGACTTCCTAGTTTTTAATGGTTCTTGGTGTATTAAGAAGGGGAGAACGTCTTTT
* *
44744501 CTTGTTGATTCCTGATATGGAAGTAAAGAAATAAAAGATTAGAAATAAATAAACAAGAATCGAAC
385 CTTGTTGATTCTTGATATGGAAGTAAAGAAATAAAAGATTAGAAACAAATAAACAAGAATCGAAC
* *
44744566 TACAAATTCAAGGAAAGAGAGAAGAAAGTTAGGAAAAGACTAAAGTGGCGTGAAGATGTCCTAAG
450 TACAAATTCAAGGAAAGAGAGAAGAAAGTTAGGAAATGACTAAAGTGGTGTGAAGATGTCCTAAG
* * * *
44744631 GAGCATTAGATTGTTGCGTTCTCAAGATTAAGGAATCATGAAGTTGAACCCCACCTAGAACTCAA
515 GAGCATTAGATTGTTGCGTTCTCAAGATTAAGGAATCATGGAGTTCAACCCCACCCAAAACTCAA
* *
44744696 ACAATCCAAGTTAGAATGAAAAGGGCAACAACACAAATAAACTTATAAAAGAACTAGGAAATTGA
580 ACAATCCAAGTTAGAATTAAAAGGGCAACAACACAAATAAACTTATAAAAGAACAAGGAAATTGA
* * *
44744761 ATCCAAATTAGGGTTCTTGGAGGAGACCAAGTAGGTTAAAGAA-GCATAATTCTGTATAAAATCC
645 ATCCAAATTAGGGTTCTTGGAGGAGACCAAGTAGGTTAAGGAATGCAT-ATTTTGTAAAAAATCC
44744825 -AAAGGGTTTAGGGCCGCAAATTAAGTGAAAACAAATGGTTAGACAGATTTGAAGCATAAAAGAT
709 AAAAGGG-TTAGGGCCGCAAATTAAGTGAAAACAAAT-GTTAGACAGATTTGAAGCA-AAAAGAT
* * * *
44744889 CAAAATTGAATGAAATCAGAAGAAAGATGAAAGGAAGGCCTGGTGAGTAAAGAACATG
771 CAAAATTGAATGAAATCACAAGAAAGATTAATGGAAGGCCTGATGAGTAAAGAACATG
* * *
44744947 AAGAATCAAGTATATTAAGATTATTTAAAGCATTCTTGGATGAAAATATGATATCGAATCAAGAT
1 AAGAATCAAGTATATTAAGATGATTTGAAGCATTCTTGGATGAAAATATGATGTCGAATCAAGAT
* * *
44745012 CTAAACAAAAGAAATAAAACAAATTAGATTTTTGGTTAAAAGAATGAAAAAGTACACCAACCAAC
66 CTAAACAAAAGAAATAAAACAAATTAGATTTTT-GTTAAAAAAATGAAAAAGTAAACCAAACAAC
** *
44745077 ATGGAAGGAGAGAGGTGGGCAAAGAGAAGTGCAAGAACCACTGGGATATGGTTTCTTGGATGAGA
130 ATGGAAGGAGAGAGGTTAGCAAAGAGAAGTGCAAGAACGACTGGGATATGGTTTCTTGGATGAGA
* * * * *
44745142 AAGAAACATTTTTGAACCAAAAGAAGGCCTAAAACTAGATCTAAAATTGACAGAAGAAAACAGAT
195 AAGAAAAATTCTTGAACCAAAAGAAGG-CTTAAACTAGATCTAAAATTGAAAGAAGAAAATAGAT
* * *
44745207 TGTTAGAATGGATTTTTAAGCCATAACAAAATTGTTTTATAATAAAAGCAATCGTCACAATAAGA
259 TGTTAGAATGGATTTTTAAGCCATAA-AAAATTGTTTTGTGATAAAAGCAATCGACACAATAAGA
* * *
44745272 AAAGAAGAGACTTCCTAGTTTTCAATGGTTCTTGGTGAATTAAGAAGGGGAGAACATCTTTTCTT
323 AAAGAAGAGACTTCCTAGTTTTTAATGGTTCTTGGTGTATTAAGAAGGGGAGAACGTCTTTTCTT
** * * * *
44745337 GTTGATTCTTGATACAGAAGTAAAGAAATAAAAGATTAAAAACAAATAGACAAGAATCAAACTAA
388 GTTGATTCTTGATATGGAAGTAAAGAAATAAAAGATTAGAAACAAATAAACAAGAATCGAACTAC
* * *
44745402 AAATTTAAGGATAGAGAAAAGAAAGTTAGGAAATGACTAAAGTGGTGTGAAGATGTCTCCTAAGG
453 AAATTCAAGGAAAGAGAGAAGAAAGTTAGGAAATGACTAAAGTGGTGTGAAGATG--TCCTAAGG
* *
44745467 AGCACTAGATTGTTGCATTCTCAAGATTAAGGAATCATGGAGTTCAACCCCACCCAAAACAT-AA
516 AGCATTAGATTGTTGCGTTCTCAAGATTAAGGAATCATGGAGTTCAACCCCACCCAAAAC-TCAA
* *
44745531 ACAATCTAAGTTAGAATTAAAAGGGCATCAACACAAATAAACTTATAAAAGAACAAGGAAATTGA
580 ACAATCCAAGTTAGAATTAAAAGGGCAACAACACAAATAAACTTATAAAAGAACAAGGAAATTGA
*
44745596 ATCCAAATTAGGGTTCTTGGATGAGACC-AGTTAGGTTAAGGAAGTGC-TATTTTGTAAAAAATC
645 ATCCAAATTAGGGTTCTTGGAGGAGACCAAG-TAGGTTAAGGAA-TGCATATTTTGTAAAAAATC
* * *
44745659 CAAAAGGGTTAGGGCCACAAATTAAGTGAAAACAAACTGTTTGACGGATTTGAAGCAAAAAGATC
708 CAAAAGGGTTAGGGCCGCAAATTAAGTGAAAACAAA-TGTTAGACAGATTTGAAGCAAAAAGATC
* * * * * **
44745724 AAAATAGAATGAAATTATAAGAATGATTAATGGAAGGCTTGACCAGTAAAGAACATG
772 AAAATTGAATGAAATCACAAGAAAGATTAATGGAAGGCCTGATGAGTAAAGAACATG
* * * *
44745781 AAGAATCAAGTATATTAAGATGACTTGAAGCATTCTTGGATTAAAAGATGATGTCGAATCGAGAT
1 AAGAATCAAGTATATTAAGATGATTTGAAGCATTCTTGGATGAAAATATGATGTCGAATCAAGAT
* * *
44745846 CTAAATAAAAGAAATAAAACAAATTAGATTTCTGATTAAAAAAATGAGAAAGTAAACCAAACAAC
66 CTAAACAAAAGAAATAAAACAAATTAGATTTTTG-TTAAAAAAATGAAAAAGTAAACCAAACAAC
* * * * *
44745911 ATAGAAGGAGAGAGGTTAGAAAAGAGGAGTGCAAGAACGATTGAGATATGGTTTCTTGGATGAGA
130 ATGGAAGGAGAGAGGTTAGCAAAGAGAAGTGCAAGAACGACTGGGATATGGTTTCTTGGATGAGA
** * * **
44745976 AAGAAAAATTCTTGAACTGAAAGAAGGCTTTAATCTAGATCTGAAATCAAAAGAAGAAAATAGAT
195 AAGAAAAATTCTTGAACCAAAAGAAGGC-TTAAACTAGATCTAAAATTGAAAGAAGAAAATAGAT
*
44746041 TGTTAGAATGGATTTTTAAGCCATAATAAAATTGTTTTGTGATAAAAGCAATCGACGCAATAAGA
259 TGTTAGAATGGATTTTTAAGCCATAA-AAAATTGTTTTGTGATAAAAGCAATCGACACAATAAGA
* * *
44746106 AAAGAATAAACTTCCTAGTTTTTGAATGGTTCGTGGTGTATTAAGAAGGGGAGAACGTCTTTTCT
323 AAAGAAGAGACTTCCTAGTTTTT-AATGGTTCTTGGTGTATTAAGAAGGGGAGAACGTCTTTTCT
* ** *
44746171 TGTTGATTCTTGATATGGAAGTAATGAAACGAAAGATTAGAAACAAACAAACAAGAATCGAACTA
387 TGTTGATTCTTGATATGGAAGTAAAGAAATAAAAGATTAGAAACAAATAAACAAGAATCGAACTA
* * * *
44746236 CAAATTCAAGAAAAGAGAGGAGAAA-TTTGGTAAATGACTAAAGTGGTGTGGAGATGTCCTAAGG
452 CAAATTCAAGGAAAGAGAGAAGAAAGTTAGG-AAATGACTAAAGTGGTGTGAAGATGTCCTAAGG
**
44746300 AGCATTAGATTGTTGCGTTCTCAAGATTAAGGAATCATGGAGTTCAACCCCATGCAAAACTCAAA
516 AGCATTAGATTGTTGCGTTCTCAAGATTAAGGAATCATGGAGTTCAACCCCACCCAAAACTCAAA
* * * * *
44746365 CAATCCAAGTTTGAATTAAAAGGGAAACAATACAAAAAAAATTATAAAAGAACAAGGAAATTGAA
581 CAATCCAAGTTAGAATTAAAAGGGCAACAACACAAATAAACTTATAAAAGAACAAGGAAATTGAA
* * *
44746430 TCCAAATTAGGGTTCTTGGGGGAGACCAAGTATGTTAAGGAAT-CATTATTTTGTACAAAATCCA
646 TCCAAATTAGGGTTCTTGGAGGAGACCAAGTAGGTTAAGGAATGCA-TATTTTGTAAAAAATCCA
* * * * * * * *
44746494 AAGGGGTCAGGACTGCAAATTAAGTGAAAA-AATTGTTGGACAGATTTGAAGCATAAAGATGAAA
710 AAAGGGTTAGGGCCGCAAATTAAGTGAAAACAAATGTTAGACAGATTTGAAGCAAAAAGATCAAA
* *
44746558 ATTGAATGAAATCACAAGAAAGATTAATAGAAGCCCTGATGAGTAAAGAACAT
775 ATTGAATGAAATCACAAGAAAGATTAATGGAAGGCCTGATGAGTAAAGAACAT
44746611 CAAGTGTAAC
Statistics
Matches: 1454, Mismatches: 187, Indels: 46
0.86 0.11 0.03
Matches are distributed among these distances:
830 7 0.00
831 184 0.13
832 4 0.00
833 514 0.35
834 376 0.26
835 358 0.25
836 9 0.01
837 2 0.00
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (828 bp):
AAGAATCAAGTATATTAAGATGATTTGAAGCATTCTTGGATGAAAATATGATGTCGAATCAAGAT
CTAAACAAAAGAAATAAAACAAATTAGATTTTTGTTAAAAAAATGAAAAAGTAAACCAAACAACA
TGGAAGGAGAGAGGTTAGCAAAGAGAAGTGCAAGAACGACTGGGATATGGTTTCTTGGATGAGAA
AGAAAAATTCTTGAACCAAAAGAAGGCTTAAACTAGATCTAAAATTGAAAGAAGAAAATAGATTG
TTAGAATGGATTTTTAAGCCATAAAAAATTGTTTTGTGATAAAAGCAATCGACACAATAAGAAAA
GAAGAGACTTCCTAGTTTTTAATGGTTCTTGGTGTATTAAGAAGGGGAGAACGTCTTTTCTTGTT
GATTCTTGATATGGAAGTAAAGAAATAAAAGATTAGAAACAAATAAACAAGAATCGAACTACAAA
TTCAAGGAAAGAGAGAAGAAAGTTAGGAAATGACTAAAGTGGTGTGAAGATGTCCTAAGGAGCAT
TAGATTGTTGCGTTCTCAAGATTAAGGAATCATGGAGTTCAACCCCACCCAAAACTCAAACAATC
CAAGTTAGAATTAAAAGGGCAACAACACAAATAAACTTATAAAAGAACAAGGAAATTGAATCCAA
ATTAGGGTTCTTGGAGGAGACCAAGTAGGTTAAGGAATGCATATTTTGTAAAAAATCCAAAAGGG
TTAGGGCCGCAAATTAAGTGAAAACAAATGTTAGACAGATTTGAAGCAAAAAGATCAAAATTGAA
TGAAATCACAAGAAAGATTAATGGAAGGCCTGATGAGTAAAGAACATG
Found at i:44746897 original size:19 final size:23
Alignment explanation
Indices: 44746850--44746899 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
44746840 TTAAGGCTCT
*
44746850 ACATGCCCGTGTGGGTATAGGGC
1 ACATGCCCGTGTGGCTATAGGGC
44746873 ACATGCCCGTGT-GCT-T-GGG-
1 ACATGCCCGTGTGGCTATAGGGC
44746892 ACATGCCC
1 ACATGCCC
44746900 ATGTCCTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 3 0.12
21 1 0.04
22 2 0.08
23 12 0.46
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (23 bp):
ACATGCCCGTGTGGCTATAGGGC
Found at i:44748108 original size:47 final size:44
Alignment explanation
Indices: 44747997--44748108 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
44747987 ACGTTCGGAT
* *
44747997 GCATGTCCCGGACATGTCTTACACTAGCACAACTCTCAGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCACAACTCTCAGCCGAG
*
44748041 GCATGTCCCAGACACGTCTTACACTAGCTATC-A-TCGTCGAGGCCGAG
1 GCATGTCCCAGACATGTCTTACACTAGC-A-CAACTC-TC-A-GCCGAG
*
44748088 GCATGTCCCAGACATATCTTA
1 GCATGTCCCAGACATGTCTTA
44748109 TGCTGGCACT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
44 28 0.48
45 4 0.07
46 2 0.03
47 24 0.41
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCACAACTCTCAGCCGAG
Found at i:44748122 original size:47 final size:46
Alignment explanation
Indices: 44747997--44748211 Score: 172
Period size: 47 Copynumber: 4.7 Consensus size: 46
44747987 ACGTTCGGAT
* * * *
44747997 GCATGTCCCGGACATGTCTTACACTAGCAC-AACTCTC-A-GCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCACTCA-TCTCGACGCCGAG
* * *
44748041 GCATGTCCCAGACACGTCTTACACTAGCTA-TCATCGTCGAGGCCGAG
1 GCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCGACGCCGAG
* ** *
44748088 GCATGTCCCAGACATATCTTATGCTGGCACTCATCTCTACGCCGATG
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGACGCCGA-G
* * * * * *
44748135 TCATGTCCCAGAGATGGTCTTACACTGGCACTCATAAT-G-TGTCCAAT
1 GCATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCGACG-CCGAG
44748182 GCATGTCCCAGACATGTCTTACACTGGCAC
1 GCATGTCCCAGACATGTCTTACACTGGCAC
44748212 ATAAGTAATT
Statistics
Matches: 138, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 28 0.20
45 4 0.03
46 25 0.18
47 61 0.44
48 19 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGACGCCGAG
Found at i:44750054 original size:37 final size:37
Alignment explanation
Indices: 44749995--44750140 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
44749985 AGCTCAGACG
* *
44749995 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
44750032 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
44750069 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
44750106 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
44750141 ATATGTTTCC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:44750399 original size:47 final size:47
Alignment explanation
Indices: 44750347--44750540 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
44750337 CATACATATT
* * * *
44750347 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
44750394 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
44750441 TCGCATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
44750488 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
44750535 TCACAT
1 TCACAT
44750541 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:44762476 original size:13 final size:13
Alignment explanation
Indices: 44762458--44762487 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44762448 CTGGAAATCA
44762458 TGTCACACGGCCG
1 TGTCACACGGCCG
*
44762471 TGTCACACGGGCG
1 TGTCACACGGCCG
44762484 TGTC
1 TGTC
44762488 CCTACTGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:44767241 original size:74 final size:74
Alignment explanation
Indices: 44767118--44767265 Score: 233
Period size: 74 Copynumber: 2.0 Consensus size: 74
44767108 CAAGTTGAGT
* ** *
44767118 TTATTACTATACAAACTTACTAAGCTTTATAGCATACTTTGTTTTCTTTTTTGTGTTTTTTAGTG
1 TTATTACTATACAAACTTACTAAGCTTTATAGCATACTTTGTTTACTTTTCCGTGTTTTATAGTG
*
44767183 AATATCGAA
66 AACATCGAA
* *
44767192 TTATTACTATACAAATTTACTAAGCTTTATAGCTTACTTTGTTTACTTTTCCGTGTTTTATAGTG
1 TTATTACTATACAAACTTACTAAGCTTTATAGCATACTTTGTTTACTTTTCCGTGTTTTATAGTG
44767257 AACATCGAA
66 AACATCGAA
44767266 GCTAGCTCTG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.48
Consensus pattern (74 bp):
TTATTACTATACAAACTTACTAAGCTTTATAGCATACTTTGTTTACTTTTCCGTGTTTTATAGTG
AACATCGAA
Found at i:44769991 original size:27 final size:27
Alignment explanation
Indices: 44769960--44770135 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
44769950 TAAATTGTAC
44769960 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44769987 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
44770013 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
44770040 CG-GCTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44770067 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44770094 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44770121 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44770136 GACTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
25 12 0.10
26 9 0.07
27 92 0.74
28 12 0.10
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44770072 original size:80 final size:79
Alignment explanation
Indices: 44769964--44770114 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 79
44769954 TTGTACAGCA
* *
44769964 CTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGC
1 CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTGC
44770028 GAATTGACCATGCGG
65 GAATTGACCATGCGG
** *
44770043 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGC
1 CTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
*
44770108 GAGTTGA
65 GAATTGA
44770115 TTATATAGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 12 0.19
80 51 0.80
81 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (79 bp):
CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCG
AATTGACCATGCGG
Found at i:44778076 original size:27 final size:27
Alignment explanation
Indices: 44778045--44778201 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
44778035 TAAATTGTAC
44778045 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44778072 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44778098 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44778126 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44778154 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44778181 AGCACTAAGTGTGCGAGTTGA
1 AGCACTAAGTGTGCGATTTGA
44778202 TTATACAGCA
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 88 0.79
28 23 0.21
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44778159 original size:82 final size:81
Alignment explanation
Indices: 44778046--44778201 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44778036 AAATTGTACA
* *
44778046 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44778110 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44778127 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44778192 TGCGAGTTGA
65 TGCGAATTGA
44778202 TTATACAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44778186 original size:55 final size:54
Alignment explanation
Indices: 44778045--44778199 Score: 195
Period size: 55 Copynumber: 2.9 Consensus size: 54
44778035 TAAATTGTAC
* **
44778045 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
* * ** *
44778098 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
* *
44778153 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTT
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTT
44778200 GATTATACAG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 38 0.44
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAATATG
Found at i:44778211 original size:27 final size:27
Alignment explanation
Indices: 44778044--44778220 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
44778034 TTAAATTGTA
*
44778044 CAGCACTAAGTGTGCGATTTGACTATG
1 CAGCACTAAGTGTGCGAATTGACTATG
** * *
44778071 TTGCACTAAGTGTGCGAAATGAATATG
1 CAGCACTAAGTGTGCGAATTGACTATG
*
44778098 -ATGCACTAAGTGTGCGAATTGACCATG
1 CA-GCACTAAGTGTGCGAATTGACTATG
* *
44778125 CGGCACTAAGTGTGCGAGTTTGACTATG
1 CAGCACTAAGTGTGCGA-ATTGACTATG
* * * *
44778153 TAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAATTGACTATG
* * * *
44778180 TAGCACTAAGTGTGCGAGTTGATTATA
1 CAGCACTAAGTGTGCGAATTGACTATG
44778207 CAGCACT--GTGTGCG
1 CAGCACTAAGTGTGCG
44778221 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
25 7 0.06
27 97 0.76
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
CAGCACTAAGTGTGCGAATTGACTATG
Found at i:44778213 original size:82 final size:81
Alignment explanation
Indices: 44778042--44778220 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44778032 GATTAAATTG
* *
44778042 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44778107 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44778123 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44778187 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
44778205 TACAGCACT--GTGTGCG
1 TACAGCACTAAGTGTGCG
44778221 GACTCAATAT
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 7 0.08
81 18 0.21
82 59 0.70
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44781539 original size:33 final size:33
Alignment explanation
Indices: 44781496--44781572 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
44781486 ACACTGTCAT
* * *
44781496 TGTATCGGGCTAAGGTAGAGATTGTACTATTAC
1 TGTATAGGGCTAAGGTACAGACTGTACTATTAC
* *
44781529 TGTATAGGGCTAAGGTCCAGACTGTACTGTTAC
1 TGTATAGGGCTAAGGTACAGACTGTACTATTAC
**
44781562 TAAATAGGGCT
1 TGTATAGGGCT
44781573 CAGGCCCAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (33 bp):
TGTATAGGGCTAAGGTACAGACTGTACTATTAC
Found at i:44781582 original size:33 final size:33
Alignment explanation
Indices: 44781518--44781583 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
44781508 AGGTAGAGAT
** *
44781518 TGTACTATTACTGTATAGGGCTAAGGTCCAGAC
1 TGTACTATTACTAAATAGGGCTAAGGCCCAGAC
* *
44781551 TGTACTGTTACTAAATAGGGCTCAGGCCCAGAC
1 TGTACTATTACTAAATAGGGCTAAGGCCCAGAC
44781584 CGTTACTGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (33 bp):
TGTACTATTACTAAATAGGGCTAAGGCCCAGAC
Found at i:44784423 original size:13 final size:13
Alignment explanation
Indices: 44784405--44784430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44784395 GGTAGAGTTA
44784405 AAGGCTCAAATTC
1 AAGGCTCAAATTC
44784418 AAGGCTCAAATTC
1 AAGGCTCAAATTC
44784431 GACCGAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
AAGGCTCAAATTC
Found at i:44789020 original size:27 final size:27
Alignment explanation
Indices: 44788990--44789171 Score: 305
Period size: 27 Copynumber: 6.8 Consensus size: 27
44788980 CGATTTGTAA
44788990 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
44789017 AATTACT-AAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
44789043 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
44789070 AATTACTGAAA-ACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
44789096 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
44789123 AATTAATGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
44789150 AATTACTGAAATACCCCTGTAG
1 AATTACTGAAATACCCCTGTAG
44789172 AGTTGTATTA
Statistics
Matches: 143, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
26 49 0.34
27 94 0.66
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:44789028 original size:53 final size:54
Alignment explanation
Indices: 44788990--44789171 Score: 332
Period size: 53 Copynumber: 3.4 Consensus size: 54
44788980 CGATTTGTAA
44788990 AATTACTGAAATACCCCTGTAGGGTAGAATTACT-AAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
*
44789043 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA-ACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
*
44789096 AATTACTGAAATACCCCTGTAGGGTAGAATTAATGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
44789150 AATTACTGAAATACCCCTGTAG
1 AATTACTGAAATACCCCTGTAG
44789172 AGTTGTATTA
Statistics
Matches: 124, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
53 84 0.68
54 40 0.32
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:44789108 original size:80 final size:80
Alignment explanation
Indices: 44788990--44789170 Score: 301
Period size: 80 Copynumber: 2.3 Consensus size: 80
44788980 CGATTTGTAA
* *
44788990 AATTACTGAAATACCCCTGTAGGGTAGAATTACTAAATACCCCTGTAAGGTAGAATTACCGAAAT
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACTAAATACCCCTGTAAGGTAGAATTAACGAAAT
*
44789055 ACCCCTGTAGGGTAG
66 ACCCCTGTAAGGTAG
* *
44789070 AATTACTGAAA-ACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAATGAAA
1 AATTACTGAAATACCCCTGTAAGGTAGAATTACT-AAATACCCCTGTAAGGTAGAATTAACGAAA
44789134 TACCCCTGTAAGGTAG
65 TACCCCTGTAAGGTAG
44789150 AATTACTGAAATACCCCTGTA
1 AATTACTGAAATACCCCTGTA
44789171 GAGTTGTATT
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
79 21 0.22
80 64 0.68
81 9 0.10
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (80 bp):
AATTACTGAAATACCCCTGTAAGGTAGAATTACTAAATACCCCTGTAAGGTAGAATTAACGAAAT
ACCCCTGTAAGGTAG
Found at i:44789201 original size:80 final size:79
Alignment explanation
Indices: 44788990--44789198 Score: 255
Period size: 80 Copynumber: 2.6 Consensus size: 79
44788980 CGATTTGTAA
* * *
44788990 AATTACTGAAATACCCCTGTAGGGTAGAATTACTA-AATACCCCTGTAAGGTAGAATTACCGAAA
1 AATTACTGAAATACCCCTGTAGAGTAGAATTAC-AGAATACCCCTG-AGGGTAGAATTAACGAAA
*
44789054 TACCCCTGTAGGGTAG
64 TACCCCTGTAAGGTAG
* *
44789070 AATTACTGAAA-ACCCCTGTA-AGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAATGAA
1 AATTACTGAAATACCCCTGTAGA-GTAGAATTACAG-AATACCCCTG-AGGGTAGAATTAACGAA
44789133 ATACCCCTGTAAGGTAG
63 ATACCCCTGTAAGGTAG
* * *
44789150 AATTACTGAAATACCCCTGTAGAGTTGTATTACAGATTTACCCCT-AGGG
1 AATTACTGAAATACCCCTGTAGAGTAGAATTACAGA-ATACCCCTGAGGG
44789199 GTAAAATGAC
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
79 23 0.20
80 64 0.57
81 25 0.22
82 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (79 bp):
AATTACTGAAATACCCCTGTAGAGTAGAATTACAGAATACCCCTGAGGGTAGAATTAACGAAATA
CCCCTGTAAGGTAG
Found at i:44789876 original size:27 final size:26
Alignment explanation
Indices: 44789832--44789883 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
44789822 TTCGCTGTAA
*
44789832 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
44789859 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
44789884 CCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:44792264 original size:27 final size:27
Alignment explanation
Indices: 44792234--44792454 Score: 307
Period size: 27 Copynumber: 8.2 Consensus size: 27
44792224 CGATTTGCAA
44792234 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
44792261 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
44792288 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
44792315 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
44792342 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** ** *
44792369 AATTACTGAAATACCATTGTAACGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
44792396 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
44792423 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
44792450 AATTA
1 AATTA
44792455 TCAATTTACC
Statistics
Matches: 166, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 166 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:44792467 original size:54 final size:54
Alignment explanation
Indices: 44792234--44792454 Score: 343
Period size: 54 Copynumber: 4.1 Consensus size: 54
44792224 CGATTTGCAA
* *
44792234 AATTACTGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
44792288 AATTACCGAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* ** * *
44792342 AATTACCGAAATACTCCTGTAGGGTAGAATTACTGAAATACCATTGTAACGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
* *
44792396 AATTACCGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
44792450 AATTA
1 AATTA
44792455 TCAATTTACC
Statistics
Matches: 151, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 151 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
Found at i:44800602 original size:605 final size:605
Alignment explanation
Indices: 44799513--44800602 Score: 1370
Period size: 605 Copynumber: 1.8 Consensus size: 605
44799503 ATGTTGAATC
* * **
44799513 GAGATCTAAACAAAAGAAATAAAACAAATTAGATTTCTAGTTAAAAGAATGAAAAAGTAAACGGC
1 GAGACCTAAACAAAAGAAATAAAACAAATTAGATTTCTAGTTAAAAGAATGAAAAAGAAAACGAA
* * * *
44799578 ACAGAATAGAAGGAGAGAGGTGGGCAAAGATGAGCGTAAAAACGAGTGGGATACGATTTCTTGGA
66 ACAGAATAGAAAGAGAGAGATGGCCAAAGAGGAGCGTAAAAACGAGTGGGATACGATTTCTTGGA
** * * ***
44799643 TAAGAAAGAACCATTCTTGAACCAAAAGAAGGCCTCAATCTAGATCTGGTATCGAAAAAAGAAAA
131 TAAGAAAGAACCACCCATCAACCAAAAGAAGGCCTCAATCTAGATCTAAAATCGAAAAAAGAAAA
* * * * * * *
44799708 TAGATTATCAGGATGGATTTTTAAGCCATAATAATTTTTTTTGTGATAAAAGCAATTGGCAAAAT
196 CAGATTATCAGAATGGATTTCTAAGCCATAATAACTTATTTTGTGATAAAAGCAATCGACAAAAT
* * * * * *
44799773 AAGAATATAAGAGACTTCCTTATTTTGAATGGTTCTTGGTGTATTAAGAAGGGATAACTTATTTT
261 AAGAAAAGAAGAGACATCCTTATTTTGAATGGTTATTGGTGTATTAAGAAGGGAGAACGTATTTT
* * * * * *
44799838 CTTGTTGATTCTTTATTTAGTAGAAAAGAAATAAAGTATTAGAAAGAAACGGACAAGAATCGAAC
326 CTTGTTGATTCCTAATATAGAAGAAAAGAAATAAAGTATTAGAAACAAACAGACAAGAATCGAAC
* ** *
44799903 TACAAATTAGAGGAAAGAGAGTTGAAAGCTTTGAAAACACTAAAGTGGCATGAAGATGTCCTAAG
391 TACAAATTAAAGGAAAGAGAGAAGAAAGCTTGGAAAACACTAAAGTGGCATGAAGATGTCCTAAG
* * * * *
44799968 GAGCCTTGGATTGTAGGATTCTTAAGATTATTCAAAATCAAAGTTTCATCTTTCATCTAGACCTG
456 GAACATTAGATTGTAGCATTCTCAAGATTATTCAAAATCAAAGTTTCATCTTTCATCTAGACCTG
44800033 TAAAATAGATCCACGACTTGGACTAACTTGAGATCCTATTTTTCACGCATTCTTATCAATTTTGT
521 TAAAATAGATCCACGACTTGGACTAACTTGAGATCCTATTTTTCACGCATTCTTATCAATTTTGT
44800098 CAAATCAATGATGTCAAATT
586 CAAATCAATGATGTCAAATT
* * * * *
44800118 GAGACCTAAACAAAAGAAATAAAATC-AATTAGATTTTTTGTTGAAGGAATGAAAAAGAAAACTA
1 GAGACCTAAACAAAAGAAATAAAA-CAAATTAGATTTCTAGTTAAAAGAATGAAAAAGAAAACGA
* *
44800182 AAC--AATAAGGAAAGAGAGAGATGGCCAAAGAGGAGTC-TAAGAAA-GAGTGGGATATGATTTT
65 AACAGAAT-A-GAAAGAGAGAGATGGCCAAAGAGGAG-CGTAA-AAACGAGTGGGATACGATTTC
* * * * * * *
44800243 TTTGATGAGAAGGAACCACCCATCAACCAAAAGAAGGCTTCCAA-CTAGTTCTAAAATTGAAAGA
126 TTGGATAAGAAAGAACCACCCATCAACCAAAAGAAGGCCT-CAATCTAGATCTAAAATCGAAAAA
* * *
44800307 AGAAAACAGATTGTCAGAATGGATTTCTAAGGCATAATAACTTATTTTGTTATAAAAGCAATCGA
190 AGAAAACAGATTATCAGAATGGATTTCTAAGCCATAATAACTTATTTTGTGATAAAAGCAATCGA
* * * *
44800372 CACAATAAGAAAAGAAGATG-CATCCTTGTTTTTAATGGTTATTGGTGTATTAAGAAGGGGGAAC
255 CAAAATAAGAAAAGAAGA-GACATCCTTATTTTGAATGGTTATTGGTGTATTAAGAAGGGAGAAC
* *
44800436 GTCTTTTCTTGTTGATTCCTAATATAGAAGTAAAGAAATAAAAG-ATTAGAAACAAACAGACAAG
319 GTATTTTCTTGTTGATTCCTAATATAGAAGAAAAGAAAT-AAAGTATTAGAAACAAACAGACAAG
* * * * *
44800500 AATCGAACTATAAATTAAAGGAAAGGGAGAAG-AAGGTTGGGAAAAGACTAAAGTGGCGTGAAGA
383 AATCGAACTACAAATTAAAGGAAAGAGAGAAGAAAGCTT-GGAAAACACTAAAGTGGCATGAAGA
* * *
44800564 TGTCCTGAGGAATATTAGATTGTTGCATTCTCAAGATTA
447 TGTCCTAAGGAACATTAGATTGTAGCATTCTCAAGATTA
44800603 AGGAAACATG
Statistics
Matches: 402, Mismatches: 74, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
603 3 0.01
604 6 0.01
605 380 0.95
606 13 0.03
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (605 bp):
GAGACCTAAACAAAAGAAATAAAACAAATTAGATTTCTAGTTAAAAGAATGAAAAAGAAAACGAA
ACAGAATAGAAAGAGAGAGATGGCCAAAGAGGAGCGTAAAAACGAGTGGGATACGATTTCTTGGA
TAAGAAAGAACCACCCATCAACCAAAAGAAGGCCTCAATCTAGATCTAAAATCGAAAAAAGAAAA
CAGATTATCAGAATGGATTTCTAAGCCATAATAACTTATTTTGTGATAAAAGCAATCGACAAAAT
AAGAAAAGAAGAGACATCCTTATTTTGAATGGTTATTGGTGTATTAAGAAGGGAGAACGTATTTT
CTTGTTGATTCCTAATATAGAAGAAAAGAAATAAAGTATTAGAAACAAACAGACAAGAATCGAAC
TACAAATTAAAGGAAAGAGAGAAGAAAGCTTGGAAAACACTAAAGTGGCATGAAGATGTCCTAAG
GAACATTAGATTGTAGCATTCTCAAGATTATTCAAAATCAAAGTTTCATCTTTCATCTAGACCTG
TAAAATAGATCCACGACTTGGACTAACTTGAGATCCTATTTTTCACGCATTCTTATCAATTTTGT
CAAATCAATGATGTCAAATT
Found at i:44800943 original size:10 final size:10
Alignment explanation
Indices: 44800928--44800973 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
44800918 AGGTCACTTG
44800928 AGCTCGTTTC
1 AGCTCGTTTC
*
44800938 AGCTCGTTTG
1 AGCTCGTTTC
* *
44800948 AGCTTGATTTT
1 AGCTCG-TTTC
44800959 AGCTCGTTTC
1 AGCTCGTTTC
44800969 AGCTC
1 AGCTC
44800974 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:44800964 original size:21 final size:20
Alignment explanation
Indices: 44800925--44800973 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
44800915 ATCAGGTCAC
44800925 TTGAGCTCGTTTCAGCTCGT
1 TTGAGCTCGTTTCAGCTCGT
* *
44800945 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTCG-TTTCAGCTCGT
*
44800966 TTCAGCTC
1 TTGAGCTC
44800974 ATTCCTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGAGCTCGTTTCAGCTCGT
Found at i:44815851 original size:46 final size:46
Alignment explanation
Indices: 44815702--44815864 Score: 168
Period size: 47 Copynumber: 3.5 Consensus size: 46
44815692 GATTTGTGCA
* *
44815702 CCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTAAGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTAAGAGAG
* * * * *
44815748 CCAATGTAAGACCATGTCTGGGACATGGCATCAG-CATCCA-GACGAGGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCTTCAGCCAT--ATTAAGAGAG
* * *
44815796 CTAGTGTAAGATATGTCTGGGACATGCTTCAGCCATATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTAAGAGAG
*
44815842 CCAGTGTAAGACCATGTTTGGGA
1 CCAGTGTAAGA-CATGTCTGGGA
44815865 GATGGCATCG
Statistics
Matches: 93, Mismatches: 17, Indels: 13
0.76 0.14 0.11
Matches are distributed among these distances:
45 1 0.01
46 31 0.33
47 41 0.44
48 19 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTAAGAGAG
Found at i:44815911 original size:94 final size:93
Alignment explanation
Indices: 44815702--44815916 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 93
44815692 GATTTGTGCA
*
44815702 CCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTAAGAGAGCCAATGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTAAGAGAGCCAATGTAAGACCATGTCT
44815767 GGGACATGGCATCAGCATCCAGACGAGGG
66 GGGACATGGCATCAGCA-CCAGACGAGGG
* * * * * *
44815796 CTAGTGTAAGATATGTCTGGGACATGCTTCAGCCATATTATGAGAGCCAGTGTAAGACCATGTTT
1 CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTAAGAGAGCCAATGTAAGACCATGTCT
* * * *
44815861 GGGAGATGGCATCGGCA-CAGAAATGAGTG
66 GGGACATGGCATCAGCACCAG--ACGAGGG
* * *
44815890 CCAGAGTAGGACATGTTTGGGACATGC
1 CCAGTGTAAGACATGTCTGGGACATGC
44815917 ATCGGCCTCG
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
92 3 0.03
94 100 0.97
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (93 bp):
CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTAAGAGAGCCAATGTAAGACCATGTCT
GGGACATGGCATCAGCACCAGACGAGGG
Found at i:44817796 original size:23 final size:24
Alignment explanation
Indices: 44817762--44817817 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
44817752 AATTATTTTC
* *
44817762 ACTCCCTTTTAGCCGAATTC-TGG
1 ACTCCCTATTAGCCAAATTCTTGG
*
44817785 ACTCCCTATTAGCTAAATTCTTGG
1 ACTCCCTATTAGCCAAATTCTTGG
44817809 ACTCCCTAT
1 ACTCCCTAT
44817818 ACTCTTTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.36
Consensus pattern (24 bp):
ACTCCCTATTAGCCAAATTCTTGG
Found at i:44818733 original size:27 final size:27
Alignment explanation
Indices: 44818614--44818732 Score: 175
Period size: 27 Copynumber: 4.4 Consensus size: 27
44818604 CCCTCAAATT
*
44818614 GGTAAAATGATAGTTTTGCCCTTATGA
1 GGTAAAATGACAGTTTTGCCCTTATGA
*
44818641 GGTAAAATGACAGTATTGCCCTTATGA
1 GGTAAAATGACAGTTTTGCCCTTATGA
*
44818668 GGTAAAATGACAGTTTTGCCTTTATGA
1 GGTAAAATGACAGTTTTGCCCTTATGA
* ***
44818695 GGTAAAATGACTGTTTTGGAGTTATGA
1 GGTAAAATGACAGTTTTGCCCTTATGA
44818722 GGTAAAATGAC
1 GGTAAAATGAC
44818733 TACCCCTAAC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (27 bp):
GGTAAAATGACAGTTTTGCCCTTATGA
Found at i:44832631 original size:136 final size:138
Alignment explanation
Indices: 44832466--44832744 Score: 384
Period size: 138 Copynumber: 2.0 Consensus size: 138
44832456 TTCTCATTTT
* * * * * *
44832466 GGGGTGCTCCTGTATTGTTTGTGGAAAAGAAAGATGGCACGATGAGAATGTGTATAGACTAC-GA
1 GGGGCGCTCCTGTATTGATTGTGAAAAAGAAAGATGGCACGATAAGAATGCGTATAAACTACTGA
* *
44832530 CAACTT-AAAAAAGTGACGATTAA-AAACAAATATCCTTCGCTGCGAATTGATGATTTATTTGAT
66 CAACTTAAAAAAAGTGACGATTAAGAAA-AAATATCCTTCACCGCGAATTGATGATTTATTTGAT
*
44832593 CAATTGAAA
130 AAATTGAAA
*
44832602 GGGGCGCTCCTGTATTGATTGTGAAAAAGAAAGATGGCACGATAAGAATGCGTATAAACTACTGT
1 GGGGCGCTCCTGTATTGATTGTGAAAAAGAAAGATGGCACGATAAGAATGCGTATAAACTACTGA
* * * * * *
44832667 CAGCTTAAAAAAAGTGATGATTAAGAAAAAGTATCTTTTACCGTGAATTGATGATTTATTTGATA
66 CAACTTAAAAAAAGTGACGATTAAGAAAAAATATCCTTCACCGCGAATTGATGATTTATTTGATA
44832732 AATTGAAA
131 AATTGAAA
44832740 GGGGC
1 GGGGC
44832745 TACAACGTTT
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
136 56 0.45
137 6 0.05
138 59 0.48
139 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (138 bp):
GGGGCGCTCCTGTATTGATTGTGAAAAAGAAAGATGGCACGATAAGAATGCGTATAAACTACTGA
CAACTTAAAAAAAGTGACGATTAAGAAAAAATATCCTTCACCGCGAATTGATGATTTATTTGATA
AATTGAAA
Found at i:44836224 original size:28 final size:28
Alignment explanation
Indices: 44836184--44836254 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
44836174 TATAGTAAAT
*
44836184 TCGCACACTTAGTGCT-TAATAATCAAAC
1 TCGCACACTTAGTGCTAT-ACAATCAAAC
* *
44836212 TCGCACACTTAGTGCTATACAATTAAAT
1 TCGCACACTTAGTGCTATACAATCAAAC
*
44836240 TCACACACTTAGTGC
1 TCGCACACTTAGTGC
44836255 CAATCTCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:44838989 original size:40 final size:41
Alignment explanation
Indices: 44838934--44839084 Score: 184
Period size: 40 Copynumber: 3.8 Consensus size: 41
44838924 GGATATAACT
* *
44838934 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* *
44838974 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
*
44839014 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT--AGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
* ** * *
44839053 ACTAGTGCAGATGCCTTCGGGATTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
44839085 TTTTCATCCA
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 30 0.30
40 67 0.68
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGAGTA
Found at i:44847239 original size:39 final size:37
Alignment explanation
Indices: 44847105--44847245 Score: 126
Period size: 37 Copynumber: 3.7 Consensus size: 37
44847095 ACTACTCGCT
* *
44847105 CAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT----TAACTCACA
*
44847145 CAATTGCCTTCGGGACTTAGCCCGGATTTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAACTCACA
** *
44847182 CAAATGCCTTCAAGACTTAGCCCGGA-TT-AGTCACTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAACTCAC-A
*
44847218 GTGCAGATGCCTTCGGGACTTAGCCCGG
1 ---CAAATGCCTTCGGGACTTAGCCCGG
44847246 TTTTCATCCA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
35 5 0.06
36 3 0.03
37 31 0.36
39 22 0.26
40 23 0.27
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (37 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAACTCACA
Found at i:44853563 original size:34 final size:34
Alignment explanation
Indices: 44853520--44853587 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
44853510 TATGACTAAA
44853520 TGAATAATTGCATATATGCATGTTCTCAAAAATC
1 TGAATAATTGCATATATGCATGTTCTCAAAAATC
44853554 TGAATAATTGCATATATGCATGTTCTCAAAAATC
1 TGAATAATTGCATATATGCATGTTCTCAAAAATC
44853588 ATACTTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (34 bp):
TGAATAATTGCATATATGCATGTTCTCAAAAATC
Found at i:44853870 original size:40 final size:40
Alignment explanation
Indices: 44853794--44854017 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
44853784 CAAACTCAAG
* * * *
44853794 TGCCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAGA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAA
* *
44853833 TGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* * *
44853873 AGCCTTCGGGACTTAGCACGGATATAATCATTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
44853913 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
44853953 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
44853993 TGCCCTCGGGACTTAACCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
44854018 CATTCGAATA
Statistics
Matches: 165, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 14 0.08
40 148 0.90
41 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:44858496 original size:42 final size:37
Alignment explanation
Indices: 44858413--44858523 Score: 100
Period size: 42 Copynumber: 2.8 Consensus size: 37
44858403 GTCCCATACG
*
44858413 TGGTCTTACATGTAATCAAATATCGATGCCACTGTCA
1 TGGTCTTACATGTAATCAAATATCGATGCCACTGACA
*
44858450 TGGTCTTAGATGTAATCATATATGATGCTGATGCC-CTAGACA
1 TGGTCTTACATGTAATCA-A-AT-AT-C-GATGCCACT-GACA
* *
44858492 TGGTCTTACACGTAAATCTCAA-ATCGATGCCA
1 TGGTCTTACATGT-AATC-AAATATCGATGCCA
44858524 ACGTCCCAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
37 17 0.28
38 7 0.12
39 3 0.05
40 4 0.07
41 3 0.05
42 21 0.35
43 5 0.08
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (37 bp):
TGGTCTTACATGTAATCAAATATCGATGCCACTGACA
Found at i:44861871 original size:43 final size:43
Alignment explanation
Indices: 44861817--44861931 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
44861807 ATATCGTACA
* *
44861817 ATGCCAATGTCCCAGACGTGGTCTTACA-TGTAATCACATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACT-TAATCACATATCG
* *
44861860 ATGCCACTGTCCCAGACAAGGTCTTACACTTAATCACTTATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACTTAATCACATATCG
44861903 ATGCCAAC-GTCCCAGACATGGTCTTACAC
1 ATGCC-ACTGTCCCAGACATGGTCTTACAC
44861932 AAGAACACAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 62 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACTTAATCACATATCG
Found at i:44861945 original size:43 final size:43
Alignment explanation
Indices: 44861817--44861946 Score: 133
Period size: 43 Copynumber: 3.0 Consensus size: 43
44861807 ATATCGTACA
* * *
44861817 ATGCCAATGTCCCAGACGTGGTCTT--ACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACAAG-AA-CACATATCG
* * * *
44861860 ATGCC-ACTGTCCCAGACAAGGTCTTACACTTA-ATCACTTATCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACAC-AAGAACACATATCG
44861903 ATGCCAACGTCCCAGACATGGTCTTACACAAGAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACAAGAACACATATCG
44861946 A
1 A
44861947 AAATCCTATG
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.03
43 63 0.90
44 3 0.04
45 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACAAGAACACATATCG
Found at i:44866751 original size:48 final size:47
Alignment explanation
Indices: 44866699--44866974 Score: 217
Period size: 47 Copynumber: 5.8 Consensus size: 47
44866689 ACGACATTAT
44866699 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGAC
* * * * * *
44866747 GAGAGCTAGTGTAAGA-CATGTTTGGAACAT-GCATCGGTCTTGTGAA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAC
* *
44866793 GTA-AGCCAGTGTAAGACCATGTTTGGGACATGGCATTAGCACGTAT-AGA-
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCG-AC-T-TGAGAC
* * * * * *
44866842 G-GTGTCAGTGTAAGACCATGTCTAGGACATAGCATCGGCAC-AGATATGC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGAGA--C
* * * *
44866891 AAGAGCTATTGTAAGACCATGTTTGGGACATGGCATCGACTTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAC
*
44866938 -ATGGGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
44866975 TGCATTATAC
Statistics
Matches: 178, Mismatches: 33, Indels: 35
0.72 0.13 0.14
Matches are distributed among these distances:
46 26 0.15
47 61 0.34
48 52 0.29
49 7 0.04
50 31 0.17
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAC
Found at i:44866852 original size:94 final size:96
Alignment explanation
Indices: 44866656--44866974 Score: 238
Period size: 94 Copynumber: 3.4 Consensus size: 96
44866646 GGTTATTGTA
* * *
44866656 AGCTAGTGTAAGA-CACGTCTAGGACAT-GCATCGACGACATTATG-AG--AGCCAGTGTAAGAC
1 AGCTAGTGTAAGACCATGTCTAGGACATAGCATCG--GTC-TTGTGAAGTAAGCCAGTGTAAGAC
*
44866716 CATGTCTGGGACATGGCATCGACATTGAGACGAG
63 CATGTCTGGGACATGGCATAGACATTGAGACGAG
*
44866750 AGCTAGTGTAAGA-CATGT-TTGGAACAT-GCATCGGTCTTGTGAAGTAAGCCAGTGTAAGACCA
1 AGCTAGTGTAAGACCATGTCTAGG-ACATAGCATCGGTCTTGTGAAGTAAGCCAGTGTAAGACCA
* *
44866812 TGTTTGGGACATGGCATTAGCACGTAT-AGA-G-G
65 TGTCTGGGACATGGCA-TAG-ACAT-TGAGACGAG
* * * * * *
44866844 TG-TCAGTGTAAGACCATGTCTAGGACATAGCATCGGCACAGATATGCAAG--AGCTATTGTAAG
1 AGCT-AGTGTAAGACCATGTCTAGGACATAGCATCGG-TC--TTGTG-AAGTAAGCCAGTGTAAG
* *
44866906 ACCATGTTTGGGACATGGCATCGAC-TTGAGAC-ATG
61 ACCATGTCTGGGACATGGCATAGACATTGAGACGA-G
* * * *
44866941 GGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCTAGTGTAAGACCATGTCTAGGACATAGCATC
44866975 TGCATTATAC
Statistics
Matches: 186, Mismatches: 19, Indels: 37
0.77 0.08 0.15
Matches are distributed among these distances:
91 4 0.02
92 4 0.02
93 4 0.02
94 70 0.38
95 16 0.09
96 18 0.10
97 34 0.18
98 30 0.16
99 3 0.02
100 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
AGCTAGTGTAAGACCATGTCTAGGACATAGCATCGGTCTTGTGAAGTAAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATAGACATTGAGACGAG
Found at i:44866965 original size:145 final size:142
Alignment explanation
Indices: 44866705--44866973 Score: 353
Period size: 145 Copynumber: 1.9 Consensus size: 142
44866695 TTATGAGAGC
* * ** *
44866705 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTTT
1 CAGTGTAAGACCATGTCTAGGACATAGCATCGACACAGAGACAAGAGCTAGTGTAAGACATGTTT
* * *
44866770 GGAACATGCATCGGTCTTGTGAAGTAAGCCAGTGTAAGACCATGTTTGGGACATGGCATTAGCAC
66 GGAACATGCATCGGACTTGAGAAGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCAC
44866835 GTATAGAGGTGT
131 GTATAGAGGTGT
* * *
44866847 CAGTGTAAGACCATGTCTAGGACATAGCATCGGCACAGATATGCAAGAGCTATTGTAAGACCATG
1 CAGTGTAAGACCATGTCTAGGACATAGCATCGACACAGAGA--CAAGAGCTAGTGTAAGA-CATG
* **
44866912 TTTGGGACATGGCATC-GACTTGAGACA-TGGGCCAGTGTAAGACCATGTCTGGGACATGGCAT
63 TTTGGAACAT-GCATCGGACTTGAGA-AGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
44866974 CTGCATTATA
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
142 35 0.32
144 15 0.14
145 52 0.48
146 6 0.06
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (142 bp):
CAGTGTAAGACCATGTCTAGGACATAGCATCGACACAGAGACAAGAGCTAGTGTAAGACATGTTT
GGAACATGCATCGGACTTGAGAAGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCAC
GTATAGAGGTGT
Found at i:44871861 original size:39 final size:40
Alignment explanation
Indices: 44871760--44871981 Score: 253
Period size: 39 Copynumber: 5.7 Consensus size: 40
44871750 TTGAATGATG
* * *
44871760 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
44871799 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
44871840 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44871878 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
44871917 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-TTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44871955 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44871982 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
38 26 0.16
39 86 0.53
40 40 0.25
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:44871972 original size:117 final size:118
Alignment explanation
Indices: 44871760--44871979 Score: 286
Period size: 117 Copynumber: 1.9 Consensus size: 118
44871750 TTGAATGATG
* *
44871760 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
44871825 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
* * * * **
44871878 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* *
44871941 TGTGCGA-TTACT-ATAACCGGGCTATGTCCCGAAGGCATT
65 TGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
44871980 TGAACGAGGA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
115 2 0.02
116 14 0.16
117 46 0.52
118 26 0.30
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:44872012 original size:78 final size:78
Alignment explanation
Indices: 44871760--44872014 Score: 220
Period size: 78 Copynumber: 3.3 Consensus size: 78
44871750 TTGAATGATG
* * * * * * * *
44871760 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCA-T
*
44871824 TGTGCGAGAT-ACTAAT
63 TGTGCGAG-TGACTAAA
* * *
44871840 TCCGGGCT-AAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTGT
1 TCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGT
*
44871904 GCGAGTTACTAAA
66 GCGAGTGACTAAA
* *
44871917 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-TTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
44871980 -TGAACGAG-GAGCTATA
64 GTG--CGAGTGA-CTAAA
*
44871996 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
44872015 TACGTGATTT
Statistics
Matches: 148, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
76 1 0.01
77 24 0.16
78 78 0.53
79 37 0.25
80 8 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAATCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGT
GCGAGTGACTAAA
Found at i:44882902 original size:40 final size:39
Alignment explanation
Indices: 44882850--44883033 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
44882840 TAACTCATTC
*
44882850 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
44882890 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* *
44882930 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
* ** * ** *
44882970 AATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-AAAC-TCGCACA
*
44883011 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44883034 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 5 0.04
40 99 0.85
41 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:44882912 original size:79 final size:80
Alignment explanation
Indices: 44882813--44883033 Score: 193
Period size: 80 Copynumber: 2.8 Consensus size: 80
44882803 CTCGTTCAAG
* * ** * *
44882813 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
44882876 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * * *
44882892 TGCCTTCGGGACTTAACCCGGAATTGGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
44882957 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
44882972 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
44883034 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
78 1 0.01
79 36 0.31
80 73 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:44882993 original size:80 final size:80
Alignment explanation
Indices: 44882853--44883033 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
44882843 CTCATTCAAT
* * *
44882853 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
* *
44882917 GGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
**
44882932 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
44882995 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
*
44883013 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
44883034 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:44886322 original size:43 final size:43
Alignment explanation
Indices: 44886208--44886341 Score: 152
Period size: 43 Copynumber: 3.2 Consensus size: 43
44886198 TCACACATAT
**
44886208 CATA-CAATGCCAACGTCCCAGACGTGGTCTTACGTGTAATCA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCA
* * *
44886250 CATAT-TATGCC-ACTTCCCAAACAG-GGTCTTACACGTAATCA
1 CATATCAATGCCAACGTCCCAGAC-GTGGTCTTACACGTAATCA
* *
44886291 CTTATCAATGCCAACGTCCCAGACGTGGTCTTACACG-AGAACA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTA-ATCA
44886334 CATATCAA
1 CATATCAA
44886342 AAATCCTATG
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
41 28 0.37
42 17 0.23
43 30 0.40
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCA
Found at i:44887311 original size:16 final size:16
Alignment explanation
Indices: 44887292--44887324 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44887282 ATATAATTCT
44887292 TGGCCAAAACCATCCA
1 TGGCCAAAACCATCCA
*
44887308 TGGCCAAAACCGTCCA
1 TGGCCAAAACCATCCA
44887324 T
1 T
44887325 ATCATGTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.36, G:0.15, T:0.15
Consensus pattern (16 bp):
TGGCCAAAACCATCCA
Done.