Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 145 of 186
Found at i:47861911 original size:4 final size:4
Alignment explanation
Indices: 47861902--47861931 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
47861892 ATAGAAACAC
*
47861902 GAAA GAAA GAAA GAAA GAAA AAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
47861932 GACGAAGTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:47868134 original size:56 final size:56
Alignment explanation
Indices: 47868072--47868203 Score: 219
Period size: 56 Copynumber: 2.4 Consensus size: 56
47868062 ACCATGGCAT
*
47868072 CGATATATATGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* **
47868128 CGATATATGTGTATGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
*
47868184 CGTTATATATGTGCGAGTAA
1 CGATATATATGTGCGAGTAA
47868204 AACCCTGTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (56 bp):
CGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:47869276 original size:16 final size:17
Alignment explanation
Indices: 47869245--47869279 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47869235 AGCTATAAGA
*
47869245 TGAATTTGCTTTATTTG
1 TGAATTTGCGTTATTTG
47869262 TGAATTTG-GTTATTTG
1 TGAATTTGCGTTATTTG
47869278 TG
1 TG
47869280 TGTGTTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.17, C:0.03, G:0.23, T:0.57
Consensus pattern (17 bp):
TGAATTTGCGTTATTTG
Found at i:47874175 original size:31 final size:31
Alignment explanation
Indices: 47874137--47874198 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
47874127 ATTCCTCAAC
**
47874137 CTATTCATATAGCTTTTCAAGGAGCAGGAAT
1 CTATTCATATAGCTCCTCAAGGAGCAGGAAT
47874168 CTATTCATATAGCTCCTCAAGGAGCAGGAAT
1 CTATTCATATAGCTCCTCAAGGAGCAGGAAT
47874199 GGCTAGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
CTATTCATATAGCTCCTCAAGGAGCAGGAAT
Found at i:47879869 original size:48 final size:48
Alignment explanation
Indices: 47879810--47879978 Score: 209
Period size: 48 Copynumber: 3.6 Consensus size: 48
47879800 TAATATGTGT
* *
47879810 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGAGATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGAGATACAA
* * * *
47879858 GCCAGTGTAAGACATGTTTGGGACATGCATCGACATTGAGACG--A-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGA-GATACAA
* * *
47879904 GCTAGTGTAAGACATGTCCGGGACATACATCGACCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGAGATACAA
* *
47879952 GCTAGTGTAAAACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
47879979 GCGTTAGCTT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 37 0.36
47 2 0.02
48 62 0.61
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGAGATACAA
Found at i:47880077 original size:49 final size:49
Alignment explanation
Indices: 47879998--47880091 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 49
47879988 TATTGTGTGT
* * *
47879998 CAGTGTAAGACTTGTTTGGGACATTGCATCGGCCCCGATAGATGAGAGC
1 CAGTGTAAGACTTATTTGGGACATCGCATCGACCCCGATAGATGAGAGC
* *
47880047 CAGTGTAAGAGC-TATTTGGGACA-CGACATCGACCTCGATATATGA
1 CAGTGTAAGA-CTTATTTGGGACATCG-CATCGACCCCGATAGATGA
47880092 AAGTGGGTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 1 0.03
49 36 0.95
50 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACTTATTTGGGACATCGCATCGACCCCGATAGATGAGAGC
Found at i:47889422 original size:21 final size:21
Alignment explanation
Indices: 47889384--47889428 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
47889374 CTGTTAAACT
47889384 GAATGTCGATAATGGCAATATA
1 GAATGTCGATAATGGCAATA-A
47889406 GAATGATCG-TAA-GGCAATAA
1 GAATG-TCGATAATGGCAATAA
47889426 GAA
1 GAA
47889429 AGAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 7 0.32
22 8 0.36
23 3 0.14
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.22
Consensus pattern (21 bp):
GAATGTCGATAATGGCAATAA
Found at i:47891501 original size:19 final size:20
Alignment explanation
Indices: 47891477--47891516 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
47891467 ATGATCATGT
47891477 CAATGTACATTTTGT-AAAA
1 CAATGTACATTTTGTGAAAA
*
47891496 CAATGTAGATTTTGTGAAAA
1 CAATGTACATTTTGTGAAAA
47891516 C
1 C
47891517 GGTCCTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
CAATGTACATTTTGTGAAAA
Found at i:47896666 original size:55 final size:55
Alignment explanation
Indices: 47896605--47896734 Score: 149
Period size: 55 Copynumber: 2.4 Consensus size: 55
47896595 CCCATGTTTA
*
47896605 TTTAACAGGTTCGACCACGGGTGTTCCACACGGGCGTGTCG-A-ACGCCTGTGTTGT
1 TTTAACAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCGCATAC-CC-GTGTTGT
* * *
47896660 TTTAACAGGTTC-ACCCATGGTTCTTCCACACGGGCGTGTCGCATACTCGTGTTGT
1 TTTAACAGGTTCGA-CCACGGGTCTTCCACACGGGCGTGTCGCATACCCGTGTTGT
** *
47896715 TTTGGCAGGCTCGACCACGG
1 TTTAACAGGTTCGACCACGG
47896735 CTATATCGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
54 1 0.02
55 57 0.90
56 3 0.05
57 2 0.03
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.28
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCGCATACCCGTGTTGT
Found at i:47914497 original size:20 final size:20
Alignment explanation
Indices: 47914472--47914510 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
47914462 TATTAAAAAT
*
47914472 TCATGCGAAATGCCTTACCA
1 TCATGCAAAATGCCTTACCA
47914492 TCATGCAAAATGCCTTACC
1 TCATGCAAAATGCCTTACC
47914511 TCTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (20 bp):
TCATGCAAAATGCCTTACCA
Found at i:47919938 original size:48 final size:47
Alignment explanation
Indices: 47919880--47919974 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 47
47919870 AATGATGCCT
* ** * *
47919880 AAATTTGTTAAATTTGTTTATATAGATCAAGAAAAGCAGTATTCGAAA
1 AAATTAGTTAAATTTGACTATATAGAT-AAAAAAAGCAATATTCGAAA
*
47919928 AAATTAGTTAAATTTGACTATATAGATAAAAAAAGCAATATTTGAAA
1 AAATTAGTTAAATTTGACTATATAGATAAAAAAAGCAATATTCGAAA
47919975 TTAAATCGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
47 17 0.41
48 24 0.59
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.34
Consensus pattern (47 bp):
AAATTAGTTAAATTTGACTATATAGATAAAAAAAGCAATATTCGAAA
Found at i:47927538 original size:17 final size:17
Alignment explanation
Indices: 47927513--47927559 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
47927503 GGCCAAATTT
*
47927513 GGGCTTGTGGGCCACAC
1 GGGCATGTGGGCCACAC
47927530 GGGCATGTGGGCCACAC
1 GGGCATGTGGGCCACAC
* *
47927547 AGGCATGTAGGCC
1 GGGCATGTGGGCC
47927560 CACATTGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (17 bp):
GGGCATGTGGGCCACAC
Found at i:47927723 original size:27 final size:27
Alignment explanation
Indices: 47927685--47927892 Score: 308
Period size: 27 Copynumber: 7.7 Consensus size: 27
47927675 CCCAAATTAA
47927685 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
47927712 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
47927739 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
47927766 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
47927793 TAAAATGACTATTTTTCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
47927820 TAAAATGACTATTTTGCTCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * * *
47927847 TAAAATGATTGTTTTACCTTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
47927874 TAAGATGATTGTTTTGCCC
1 TAAAATGACTGTTTTGCCC
47927893 CTATATGTTG
Statistics
Matches: 164, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 164 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:47933853 original size:25 final size:25
Alignment explanation
Indices: 47933800--47933854 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
47933790 GGACTCGGCA
* * * *
47933800 CAGCTCGTATGAGCTTACCGATTTG
1 CAGCTCGTAAGAGCTTAACGATATC
*
47933825 CAGCTCGTAAGAGCTTAATGATATC
1 CAGCTCGTAAGAGCTTAACGATATC
47933850 CAGCT
1 CAGCT
47933855 TGGTGGAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTAACGATATC
Found at i:47935382 original size:37 final size:37
Alignment explanation
Indices: 47935327--47935400 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
47935317 TGAATTATGG
*
47935327 ATCTATTTGAGTAATGTGAATAATAAATAAGTTAAAT
1 ATCTATTTGAGCAATGTGAATAATAAATAAGTTAAAT
*
47935364 ATCTGTTTGAGCAATGTGAATAATAAATAAGTTAAAT
1 ATCTATTTGAGCAATGTGAATAATAAATAAGTTAAAT
47935401 TTGGCATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (37 bp):
ATCTATTTGAGCAATGTGAATAATAAATAAGTTAAAT
Found at i:47937290 original size:20 final size:20
Alignment explanation
Indices: 47937265--47937316 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
47937255 TGGGTAAGGG
47937265 ACACGGGCGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATGC
47937285 ACACGGGCGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATGC
47937305 ACACGGGCGTGT
1 ACACGGGCGTGT
47937317 GCATTACCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAATGC
Found at i:47938306 original size:31 final size:30
Alignment explanation
Indices: 47938268--47938334 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
47938258 ACAGTTAGTG
*
47938268 AATATGAGAGAGAATTCATTAGACTCAGCAA
1 AATATGAGAGAGAATTCATCAGACTCAGC-A
**
47938299 AATATGAGAGAGAATTTGTCAGACTCAGCA
1 AATATGAGAGAGAATTCATCAGACTCAGCA
47938329 AATATG
1 AATATG
47938335 CTCGGGAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (30 bp):
AATATGAGAGAGAATTCATCAGACTCAGCA
Found at i:47948829 original size:55 final size:53
Alignment explanation
Indices: 47948704--47948892 Score: 227
Period size: 55 Copynumber: 3.5 Consensus size: 53
47948694 AACTTACCAT
* * *
47948704 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * * *
47948757 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATTAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
47948812 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
47948866 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
47948893 ATATCCTTAT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 34 0.30
55 43 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:47948995 original size:95 final size:90
Alignment explanation
Indices: 47948874--47949088 Score: 216
Period size: 95 Copynumber: 2.3 Consensus size: 90
47948864 AATGCCATGC
* * *
47948874 CTTGGCATGGTCTTACATGATATCCTTATC-TTACCAAATGCCATGTTCCAAACATGGTCTTACA
1 CTTGACATGGTCTTACATG-GATCCTTATCAATACC-AATGCCATG-TCCAAACATGGTCTTACA
* *
47948938 TGGTATCCTTGTCTTAGTGCCAATGCCACAT
63 TGGGATCCTTGCCTTA---CCAATGCCACAT
** * * ***
47948969 CTTGATGTGGTCTTACATGGAGTCCTTAATCAATGCCAATGCCTTGTCTTGACATGGTCTTACAT
1 CTTGACATGGTCTTACATGGA-TCCTT-ATCAATACCAATGCCATGTCCAAACATGGTCTTACAT
**
47949034 GGGATCCTTGCCTTACCAATGCCATGT
64 GGGATCCTTGCCTTACCAATGCCACAT
47949061 CTTGACATGGTCTTACATGGTATCCTTA
1 CTTGACATGGTCTTACATGG-ATCCTTA
47949089 ATAGTCAATT
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
91 1 0.01
92 33 0.33
93 1 0.01
94 1 0.01
95 50 0.50
96 11 0.11
97 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (90 bp):
CTTGACATGGTCTTACATGGATCCTTATCAATACCAATGCCATGTCCAAACATGGTCTTACATGG
GATCCTTGCCTTACCAATGCCACAT
Found at i:47960513 original size:14 final size:13
Alignment explanation
Indices: 47960488--47960561 Score: 58
Period size: 14 Copynumber: 5.4 Consensus size: 13
47960478 GGGATATCAA
*
47960488 AACAAGAATTAAG
1 AACAATAATTAAG
47960501 AACACATAATTAAG
1 AACA-ATAATTAAG
* **
47960515 AACAAGTTAAATATT
1 AACAA--TAATTAAG
* *
47960530 TACAAGAATTAAG
1 AACAATAATTAAG
47960543 AACACATAATTAAG
1 AACA-ATAATTAAG
47960557 AACAA
1 AACAA
47960562 GTTAAATATT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
13 13 0.28
14 24 0.52
15 9 0.20
ACGTcount: A:0.58, C:0.11, G:0.09, T:0.22
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:47960548 original size:42 final size:42
Alignment explanation
Indices: 47960489--47960573 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
47960479 GGATATCAAA
47960489 ACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
1 ACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
47960531 ACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
1 ACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
47960573 A
1 A
47960574 TCATACAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.26
Consensus pattern (42 bp):
ACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
Found at i:47960557 original size:21 final size:21
Alignment explanation
Indices: 47960491--47960558 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
47960481 ATATCAAAAC
47960491 AAGAATTAAGAACACATAATT
1 AAGAATTAAGAACACATAATT
* * *
47960512 AAGAA-CAAGTTA-A-ATATTT
1 AAGAATTAAG-AACACATAATT
47960531 ACAAGAATTAAGAACACATAATT
1 --AAGAATTAAGAACACATAATT
47960554 AAGAA
1 AAGAA
47960559 CAAGTTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 17 0.49
22 4 0.11
23 5 0.14
ACGTcount: A:0.57, C:0.09, G:0.10, T:0.24
Consensus pattern (21 bp):
AAGAATTAAGAACACATAATT
Found at i:47960594 original size:42 final size:42
Alignment explanation
Indices: 47960489--47960588 Score: 155
Period size: 42 Copynumber: 2.3 Consensus size: 42
47960479 GGATATCAAA
*
47960489 ACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
1 ACAACAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
*
47960531 ACAAGAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
1 ACAACAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
*
47960573 ATCATACAATTTAGAA
1 A-CA-ACAATTAAGAA
47960589 AATAATAGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
42 43 0.80
43 2 0.04
44 9 0.17
ACGTcount: A:0.54, C:0.10, G:0.09, T:0.27
Consensus pattern (42 bp):
ACAACAATTAAGAACACATAATTAAGAACAAGTTAAATATTT
Found at i:47967674 original size:42 final size:41
Alignment explanation
Indices: 47967611--47967781 Score: 152
Period size: 42 Copynumber: 4.1 Consensus size: 41
47967601 AGTCCGACTC
* *
47967611 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGAT
1 TTAGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGAT
* * * *
47967651 TTAGACTACTGGCTCGAAGGCCCTTCGAAACTAAG-TCCGA-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGAT
* ** * *
47967691 TCATGACACTGGCTCTAAAAAGCCCTTCGAAATTAAGTTCGGTT
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAAACCAAGCTCGGAT
* *
47967735 ATTAG-CACTGGCTCAAAAGCCCATCGAGACCAAGCTCGGAT
1 -TTAGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGAT
47967776 TTAGAC
1 TTAGAC
47967782 CCCGATTAGC
Statistics
Matches: 103, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
40 18 0.17
41 30 0.29
42 40 0.39
43 12 0.12
44 1 0.01
45 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGAT
Found at i:47972681 original size:43 final size:42
Alignment explanation
Indices: 47972594--47972701 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 42
47972584 ATCTCATACA
* * ** * *
47972594 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGAAATCAAATAACG
*
47972636 ATGCCGATAGCCCAGCTATGGTCTTACACGAAATCAAATAACG
1 ATGCC-ATAGCCCAGATATGGTCTTACACGAAATCAAATAACG
*
47972679 ATGCCA-ATGTCCCAGACATGGTC
1 ATGCCATA-G-CCCAGATATGGTC
47972702 ACGTAATCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 7 0.13
43 46 0.85
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACGAAATCAAATAACG
Found at i:47990690 original size:30 final size:27
Alignment explanation
Indices: 47990654--47990720 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
47990644 ATATTAGGAG
47990654 TTATTATTATTATTTGATGTGTAT-AGT
1 TTATTATTATTATTTGATGTGT-TCAGT
47990681 TTATTATTATTATTTGATGTGTTCAGT
1 TTATTATTATTATTTGATGTGTTCAGT
*
47990708 TTTTTATTATTAT
1 TTATTATTATTAT
47990721 CTAATACTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.24, C:0.01, G:0.12, T:0.63
Consensus pattern (27 bp):
TTATTATTATTATTTGATGTGTTCAGT
Found at i:47992689 original size:41 final size:40
Alignment explanation
Indices: 47992560--47992729 Score: 137
Period size: 41 Copynumber: 4.2 Consensus size: 40
47992550 TTTGAATACT
* * * * * *
47992560 TGAAAATGTTGAAAAGGAAGTTACTCGAAAGGGATAACATA
1 TGAAAAGGTTGAAAAAG-AGTTATTCGAAAAGGATATCAAA
* ** * *
47992601 CGAAAAGGTTGAAAAAGAAATATCCAAAAAGGATATCAAA
1 TGAAAAGGTTGAAAAAGAGTTATTCGAAAAGGATATCAAA
*
47992641 TGAAAAGGTTGAAAAAGACGTTATTCGAAAATGATATCAAA
1 TGAAAAGGTTGAAAAAGA-GTTATTCGAAAAGGATATCAAA
** * * *
47992682 TGAAAAGGAAGAAAATGA-TGGAATCAGAAAAGGATATC-AA
1 TGAAAAGGTTGAAAAAGAGT-TATTC-GAAAAGGATATCAAA
47992722 TGAAAAGG
1 TGAAAAGG
47992730 CCGAAAAGGA
Statistics
Matches: 103, Mismatches: 23, Indels: 7
0.77 0.17 0.05
Matches are distributed among these distances:
39 1 0.01
40 45 0.44
41 57 0.55
ACGTcount: A:0.52, C:0.07, G:0.22, T:0.19
Consensus pattern (40 bp):
TGAAAAGGTTGAAAAAGAGTTATTCGAAAAGGATATCAAA
Found at i:47992696 original size:81 final size:80
Alignment explanation
Indices: 47992560--47992729 Score: 173
Period size: 81 Copynumber: 2.1 Consensus size: 80
47992550 TTTGAATACT
* * * * **
47992560 TGAAAATGTTGAAAAGGAAGTTACTCGAAAGGGATAACATACGAAAAGGTTGAAAAAGA-AATAT
1 TGAAAAGGTTGAAAAAGAAGTTACTCGAAAAGGATAACAAACGAAAAGGAAGAAAAAGAGAA-AT
47992624 CCA-AAAAGGATATCAAA
65 -CAGAAAAGGATATC-AA
* * * * * * *
47992641 TGAAAAGGTTGAAAAAGACGTTATTCGAAAATGATATCAAATGAAAAGGAAGAAAATGATGGAAT
1 TGAAAAGGTTGAAAAAGAAGTTACTCGAAAAGGATAACAAACGAAAAGGAAGAAAAAGA-GAAAT
47992706 CAGAAAAGGATATCAA
65 CAGAAAAGGATATCAA
47992722 TGAAAAGG
1 TGAAAAGG
47992730 CCGAAAAGGA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
81 59 0.81
82 13 0.18
83 1 0.01
ACGTcount: A:0.52, C:0.07, G:0.22, T:0.19
Consensus pattern (80 bp):
TGAAAAGGTTGAAAAAGAAGTTACTCGAAAAGGATAACAAACGAAAAGGAAGAAAAAGAGAAATC
AGAAAAGGATATCAA
Found at i:48003126 original size:20 final size:22
Alignment explanation
Indices: 48003101--48003147 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
48003091 TATAGTCTCA
*
48003101 ATATAAGACCAAA-C-ATTTAT
1 ATATAAGACCAAATCAATATAT
48003121 ATAT-A-ACCAAATCAATATAT
1 ATATAAGACCAAATCAATATAT
48003141 ATATAAG
1 ATATAAG
48003148 CATGGTGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 13 0.59
21 1 0.05
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (22 bp):
ATATAAGACCAAATCAATATAT
Found at i:48005131 original size:12 final size:12
Alignment explanation
Indices: 48005114--48005138 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48005104 ATGTAAGTGA
48005114 TCTTGATGATTT
1 TCTTGATGATTT
48005126 TCTTGATGATTT
1 TCTTGATGATTT
48005138 T
1 T
48005139 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:48005927 original size:47 final size:47
Alignment explanation
Indices: 48005857--48006174 Score: 248
Period size: 47 Copynumber: 6.7 Consensus size: 47
48005847 TTTCTTGTGT
*
48005857 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTA
* *
48005904 -CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGA-GATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATGATGAGTA
* * *
48005951 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGTA
* * *
48005998 GCCAATGTAAGACGTGTCTGGGACATGCATCGG---C-TGA-GAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAG-T-A
* * * *
48006042 GCTAGTGTAAGACACGTCTGGGACATGCATCAG-CACGTAT-AT-ACTAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--ATGATGAGT--A
* * * **
48006090 GCTAGTGTAAGACCATGTCTGGGATATGGCATCAGCCTTGATGATGA-TA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC-ACATGATGAGTA
48006139 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
48006175 AACTTATCCC
Statistics
Matches: 222, Mismatches: 26, Indels: 44
0.76 0.09 0.15
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 1 0.00
44 29 0.13
46 22 0.10
47 64 0.29
48 39 0.18
49 49 0.22
50 9 0.04
51 4 0.02
52 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTA
Found at i:48006021 original size:94 final size:91
Alignment explanation
Indices: 48005855--48006072 Score: 289
Period size: 94 Copynumber: 2.4 Consensus size: 91
48005845 GATTTCTTGT
* ** *
48005855 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTACCAGTGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTACCAATGTAAGACCATG
48005920 TCTGGGACATGGCATCGGC-GTAGAGATGA
66 TCTGGGACAT-GCATCGGCTG-AGAG-T-A
* *
48005949 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TAGCCAATGTAAGA-CG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGTA-CCAATGTAAGACCA
*
48006012 TGTCTGGGACATGCATCGGCTGAGAGTT
64 TGTCTGGGACATGCATCGGCTGAGAGTA
*
48006040 GTGCTAGTGTAAGACACGTCTGGGACATGCATC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
48006073 AGCACGTATA
Statistics
Matches: 113, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
91 32 0.28
92 1 0.01
93 12 0.11
94 53 0.47
95 15 0.13
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (91 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTACCAATGTAAGACCATG
TCTGGGACATGCATCGGCTGAGAGTA
Found at i:48010325 original size:20 final size:19
Alignment explanation
Indices: 48010284--48010321 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
48010274 ATCCAAAACA
*
48010284 CCAAAAAAGTAAATTATTT
1 CCAAAAAAGTAAATCATTT
48010303 CCAAAAAAGTAAATCATTT
1 CCAAAAAAGTAAATCATTT
48010322 TCCAGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (19 bp):
CCAAAAAAGTAAATCATTT
Found at i:48010335 original size:14 final size:14
Alignment explanation
Indices: 48010313--48010352 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48010303 CCAAAAAAGT
*
48010313 AAATCATTTTCCAG
1 AAATTATTTTCCAG
*
48010327 AAATTATTTTCCGG
1 AAATTATTTTCCAG
*
48010341 AAACTATTTTCC
1 AAATTATTTTCC
48010353 CAACAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:48014522 original size:33 final size:33
Alignment explanation
Indices: 48014485--48014549 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
48014475 TGAATACTGA
48014485 GATAATTAAATAATTTAATTTTGATTACATATG
1 GATAATTAAATAATTTAATTTTGATTACATATG
48014518 GATAATTAAATAATTTAATTTTGATTACATAT
1 GATAATTAAATAATTTAATTTTGATTACATAT
48014550 AGATCAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (33 bp):
GATAATTAAATAATTTAATTTTGATTACATATG
Found at i:48014804 original size:42 final size:42
Alignment explanation
Indices: 48014751--48014831 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
48014741 CTAATTATGT
* *
48014751 CACTTAGTGTGCGAAATCGAGATAGCTTCGGCTATATATTTG
1 CACTTACTGTGCGAAATCAAGATAGCTTCGGCTATATATTTG
*
48014793 CACTTACTGTGCGAGATCAAGATAGCTTCGGCTATATAT
1 CACTTACTGTGCGAAATCAAGATAGCTTCGGCTATATAT
48014832 ATAAATTGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (42 bp):
CACTTACTGTGCGAAATCAAGATAGCTTCGGCTATATATTTG
Found at i:48031377 original size:13 final size:13
Alignment explanation
Indices: 48031359--48031387 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48031349 ATAAAATTGG
48031359 AAAGATGAAAAAT
1 AAAGATGAAAAAT
48031372 AAAGATGAAAAAT
1 AAAGATGAAAAAT
48031385 AAA
1 AAA
48031388 AAAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:48031562 original size:10 final size:10
Alignment explanation
Indices: 48031547--48031571 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48031537 AAAATCGTAA
48031547 TAGCTTAATC
1 TAGCTTAATC
48031557 TAGCTTAATC
1 TAGCTTAATC
48031567 TAGCT
1 TAGCT
48031572 ATTTTCGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (10 bp):
TAGCTTAATC
Found at i:48033465 original size:91 final size:91
Alignment explanation
Indices: 48033153--48033429 Score: 518
Period size: 91 Copynumber: 3.0 Consensus size: 91
48033143 ACATGAATTA
* *
48033153 ATATAAAATATGCATGAAAATCATGAAATTAAGCATAATTTCACATACTTTCCAAATTCATGTCT
1 ATATAAAAGATGCATGAAAATCATGCAATTAAGCATAATTTCACATACTTTCCAAATTCATGTCT
48033218 AAAATTACTAATTAAGTAAAATTCAC
66 AAAATTACTAATTAAGTAAAATTCAC
48033244 ATATAAAAGATGCATGAAAATCATGCAATTAAGCATAATTTCACATACTTTCCAAATTCATGTCT
1 ATATAAAAGATGCATGAAAATCATGCAATTAAGCATAATTTCACATACTTTCCAAATTCATGTCT
48033309 AAAATTACTAATTAAGTAAAATTCAC
66 AAAATTACTAATTAAGTAAAATTCAC
* *
48033335 ATATAAAAGATGCATGAAAATCATGCAATTAAGCATAATTTCACATACTTTCCAAATTCATTTAT
1 ATATAAAAGATGCATGAAAATCATGCAATTAAGCATAATTTCACATACTTTCCAAATTCATGTCT
48033400 AAAATTACTAATTAAGTAAAATTCAC
66 AAAATTACTAATTAAGTAAAATTCAC
48033426 ATAT
1 ATAT
48033430 TTCAATAATA
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 182 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (91 bp):
ATATAAAAGATGCATGAAAATCATGCAATTAAGCATAATTTCACATACTTTCCAAATTCATGTCT
AAAATTACTAATTAAGTAAAATTCAC
Found at i:48036634 original size:57 final size:57
Alignment explanation
Indices: 48036560--48036674 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
48036550 AATATTGAGG
48036560 GTAAATCATTTAATGGCTTGTTAGGGTCAAAGGGGGTCACTAAGGGTTAATTATGAA
1 GTAAATCATTTAATGGCTTGTTAGGGTCAAAGGGGGTCACTAAGGGTTAATTATGAA
* *
48036617 GTAAATCATTTAATGGCTTGTTAGGTTCAAAGGGGTTCACTAAGGGTTAATTATGAA
1 GTAAATCATTTAATGGCTTGTTAGGGTCAAAGGGGGTCACTAAGGGTTAATTATGAA
48036674 G
1 G
48036675 GTAGGCTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (57 bp):
GTAAATCATTTAATGGCTTGTTAGGGTCAAAGGGGGTCACTAAGGGTTAATTATGAA
Found at i:48038958 original size:21 final size:23
Alignment explanation
Indices: 48038933--48038992 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
48038923 GTTTTAAAAA
*
48038933 TTGTTTTAGTA-TTATTTTTAT-
1 TTGTTTTAATATTTATTTTTATG
*
48038954 TTGTTTTAATATTTGTTTTTATG
1 TTGTTTTAATATTTATTTTTATG
*
48038977 TT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
48038993 GATTTATTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.48
22 15 0.45
23 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTGTTTTAATATTTATTTTTATG
Found at i:48039060 original size:5 final size:5
Alignment explanation
Indices: 48039050--48039084 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
48039040 AATTTAATAT
48039050 GGGCC GGGCC GGGCC GGGCC GGGCC GGGCTC GGGC
1 GGGCC GGGCC GGGCC GGGCC GGGCC GGGC-C GGGC
48039085 TTAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.37, G:0.60, T:0.03
Consensus pattern (5 bp):
GGGCC
Found at i:48046448 original size:20 final size:20
Alignment explanation
Indices: 48046419--48046456 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48046409 ATATTATTAT
*
48046419 TTCCAAATTTACTCATTCAC
1 TTCCAAATTTACACATTCAC
*
48046439 TTCCAGATTTACACATTC
1 TTCCAAATTTACACATTC
48046457 CCTTAAGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (20 bp):
TTCCAAATTTACACATTCAC
Found at i:48077949 original size:34 final size:34
Alignment explanation
Indices: 48077906--48077983 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
48077896 AAAATAATAA
* *
48077906 ATAATTTAATCATATTTTTATATTATTATTAAAT
1 ATAATTTAATCATATCTTAATATTATTATTAAAT
48077940 ATAATTTAATCATATCTTAATATTATTATTAAAT
1 ATAATTTAATCATATCTTAATATTATTATTAAAT
48077974 ATAATTTAAT
1 ATAATTTAAT
48077984 AATTTATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (34 bp):
ATAATTTAATCATATCTTAATATTATTATTAAAT
Found at i:48077999 original size:25 final size:26
Alignment explanation
Indices: 48077957--48078005 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
48077947 AATCATATCT
* *
48077957 TAATATTATTATTAAATATAATTTAA
1 TAATATTATAATTAAATAAAATTTAA
*
48077983 TAAT-TTATAATTGAATAAAATTT
1 TAATATTATAATTAAATAAAATTT
48078006 TTAACATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TAATATTATAATTAAATAAAATTTAA
Found at i:48083154 original size:24 final size:23
Alignment explanation
Indices: 48083118--48083162 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
48083108 CTCTTTCGAG
48083118 AGGAGGAAGAAGAGAGAATGAAAA
1 AGGAGGAAGAAGAGAG-ATGAAAA
48083142 AGGAGAGAA-AAGAGAGATGAA
1 AGGAG-GAAGAAGAGAGATGAA
48083163 TGGGATAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.58, C:0.00, G:0.38, T:0.04
Consensus pattern (23 bp):
AGGAGGAAGAAGAGAGATGAAAA
Found at i:48086097 original size:11 final size:12
Alignment explanation
Indices: 48086070--48086095 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48086060 GAGCTGTAGT
48086070 AAACTAAATTAA
1 AAACTAAATTAA
48086082 AAACTAAATTAA
1 AAACTAAATTAA
48086094 AA
1 AA
48086096 CTTAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAACTAAATTAA
Found at i:48088357 original size:44 final size:44
Alignment explanation
Indices: 48088263--48088357 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 44
48088253 ATATGATTTA
* *
48088263 TTTATGAACTCACATGTATAAGTCATTGAATCTATGAATCTTTT
1 TTTATGAACTCACATGTATAAGCCATTGAATCCATGAATCTTTT
* * * * * *
48088307 TCTATGAATTCACATGTGTGAGCCTTTGTATCCATGAAT-TTTCT
1 TTTATGAACTCACATGTATAAGCCATTGAATCCATGAATCTTT-T
48088351 TTTATGA
1 TTTATGA
48088358 GTCTACATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
43 3 0.07
44 38 0.93
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (44 bp):
TTTATGAACTCACATGTATAAGCCATTGAATCCATGAATCTTTT
Found at i:48092222 original size:24 final size:24
Alignment explanation
Indices: 48092190--48092257 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
48092180 GGCTATTCAG
48092190 ACTTCCCGATATGGTTCTTTGTGA
1 ACTTCCCGATATGGTTCTTTGTGA
*
48092214 ACTTCCCGATGTGGTTCTTTGTGA
1 ACTTCCCGATATGGTTCTTTGTGA
* * *
48092238 ACATCTCGAATATGGCTCTT
1 ACTTCCCG-ATATGGTTCTT
48092258 ATGAGCTACC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
24 29 0.76
25 9 0.24
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.40
Consensus pattern (24 bp):
ACTTCCCGATATGGTTCTTTGTGA
Found at i:48105563 original size:15 final size:16
Alignment explanation
Indices: 48105543--48105572 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48105533 AAGCCTAGTT
48105543 GAACTC-ATTTCCACC
1 GAACTCAATTTCCACC
48105558 GAACTCAATTTCCAC
1 GAACTCAATTTCCAC
48105573 ATAGCAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.27
Consensus pattern (16 bp):
GAACTCAATTTCCACC
Found at i:48122528 original size:17 final size:18
Alignment explanation
Indices: 48122502--48122535 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48122492 TTTTTGTTTA
48122502 AATAAATTAAT-AGCATT
1 AATAAATTAATAAGCATT
*
48122519 AATAATTTAATAAGCAT
1 AATAAATTAATAAGCAT
48122536 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AATAAATTAATAAGCATT
Found at i:48138560 original size:27 final size:27
Alignment explanation
Indices: 48138509--48138745 Score: 332
Period size: 27 Copynumber: 8.8 Consensus size: 27
48138499 ATTACCAAAG
* * *
48138509 TACCATCGATTTACAGAAATACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
48138536 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
48138563 TACCCTCGATTTATA-AATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
48138589 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * * *
48138616 CACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
48138643 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
48138670 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
48138697 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
48138724 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
48138746 TGAAATACCC
Statistics
Matches: 191, Mismatches: 18, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
26 26 0.14
27 165 0.86
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:48138754 original size:27 final size:27
Alignment explanation
Indices: 48138464--48138836 Score: 154
Period size: 27 Copynumber: 13.9 Consensus size: 27
48138454 AATACTTTAG
* * * *
48138464 TTTACCAAATTACTGAAATGCCCTCAA
1 TTTACAAAATTACCGAAATACCCTCGA
** *
48138491 TTTGTAAAATTACC-AAAGTACCATCGA
1 TTTACAAAATTACCGAAA-TACCCTCGA
**
48138518 TTTACAGAAA-TACC-ATTTTACCCTCGA
1 TTTACA-AAATTACCGA-AATACCCTCGA
* * **
48138545 TTTATAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* **
48138572 TTTA-TAAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* * ** *
48138598 TTTATAGAATTACCG-TTTCACCCTTGA
1 TTTACAAAATTACCGAAAT-ACCCTCGA
*** *
48138625 TTTACAAAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCGAAATACCCTCGA
* * **
48138652 TTTATAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTCGA
* ***
48138679 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* * ***
48138706 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* * *
48138733 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCGAAATACCCTCGA
* *
48138760 TTTACAAAATTACCAAAATACCCTTGA
1 TTTACAAAATTACCGAAATACCCTCGA
* * *
48138787 -TTAGTAAAATTACCAAAATAACCCT-GG
1 TTTA-CAAAATTACCGAAAT-ACCCTCGA
** *
48138814 TTTGTAAAATTACCAAAATACCC
1 TTTACAAAATTACCGAAATACCC
48138837 GTGGCTTGTA
Statistics
Matches: 291, Mismatches: 42, Indels: 27
0.81 0.12 0.08
Matches are distributed among these distances:
26 39 0.13
27 239 0.82
28 13 0.04
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTCGA
Found at i:48138755 original size:81 final size:80
Alignment explanation
Indices: 48138496--48138773 Score: 326
Period size: 81 Copynumber: 3.5 Consensus size: 80
48138486 CTCAATTTGT
* * * *
48138496 AAAATTACCA-AAGTACCATCGATTTACAGAAATACCATTTTACCCTCGATTTATAGAATTACCA
1 AAAATTACCATAA-TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
48138560 TTTTACCCTCGATTTA
65 TTTTACCCTCGATTTA
* ** * * * * *
48138576 TAAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTTGATTTACAAAATTACCGT
1 AAAATTACCATAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGT
*
48138641 TTTACCCTTGATTTA
66 TTTACCCTCGATTTA
* **
48138656 TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
1 -AAAATTACCATAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCG
48138721 TTTTACCCTCGATTTA
65 TTTTACCCTCGATTTA
* * * *
48138737 CAAAATTACTGA-AATACCCTTGGTTTACAAAATTACC
1 -AAAATTAC-CATAATACCCTCGATTTACAGAATTACC
48138774 AAAATACCCT
Statistics
Matches: 166, Mismatches: 29, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
80 66 0.40
81 99 0.60
82 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (80 bp):
AAAATTACCATAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGT
TTTACCCTCGATTTA
Found at i:48138899 original size:27 final size:27
Alignment explanation
Indices: 48138738--48138915 Score: 212
Period size: 27 Copynumber: 6.6 Consensus size: 27
48138728 CTCGATTTAC
** * **
48138738 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
48138765 AAAATTACCAAAATACCCTTGATTAGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
48138792 AAAATTACCAAAATAACCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
48138819 AAAATTACCAAAATACCCGTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
48138846 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
48138873 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
48138900 GAAATTATCGAAATAC
1 AAAATTACCAAAATAC
48138916 TCTCAATTTT
Statistics
Matches: 132, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:48138930 original size:54 final size:53
Alignment explanation
Indices: 48138738--48138946 Score: 188
Period size: 54 Copynumber: 3.9 Consensus size: 53
48138728 CTCGATTTAC
** * ** * *
48138738 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGATTAGT
1 AAAATTACCAAAATA-CCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* **
48138792 AAAATTACCAAAATAACC-CTGGTTTGTAAAATTACCAAAATACCCGTGGCTTGT
1 AAAATTACCAAAAT-ACCTC-GGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* *
48138846 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCTC-GGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * ** * *
48138900 GAAATTATCGAAATACTCTCAATTTTTAAAA-TATCAAAATACCCCTG
1 AAAATTACCAAAATAC-CTCGGTTTGTAAAATTACCAAAATACCCCTG
48138947 TAGGGTAGAA
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
53 18 0.14
54 108 0.84
55 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:48138930 original size:81 final size:82
Alignment explanation
Indices: 48138765--48138946 Score: 210
Period size: 81 Copynumber: 2.3 Consensus size: 82
48138755 CTTGGTTTAC
* *
48138765 AAAATTACCAAAATA-CCCTTGATTAGTAAAATTACCAAAATAACCCTGGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCTGGATTAGTAAAATTACCAAAATAACCCTGATTTGTAAAATTACCA
**
48138829 AAATACCCGTGGCTTGT
66 AAATACCCGTAACTTGT
* * * * *
48138846 AAAATTACCAAAATACCCCTGGCTT-GTAAAATTACCAAAATACCCCTGATTTGTGAAATTATCG
1 AAAATTACCAAAATACCCCTGGATTAGTAAAATTACCAAAATAACCCTGATTTGTAAAATTACCA
* * *
48138910 AAATACTC-TCAATTTTT
66 AAATACCCGT-AACTTGT
*
48138927 AAAA-TATCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
48138947 TAGGGTAGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 16 0.19
81 63 0.73
82 7 0.08
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (82 bp):
AAAATTACCAAAATACCCCTGGATTAGTAAAATTACCAAAATAACCCTGATTTGTAAAATTACCA
AAATACCCGTAACTTGT
Found at i:48139103 original size:27 final size:27
Alignment explanation
Indices: 48138936--48139120 Score: 223
Period size: 27 Copynumber: 7.0 Consensus size: 27
48138926 TAAAATATCA
*
48138936 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
48138963 AAAAACCCCTGTAGGGTAGAGTTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
48138990 AAATAACTCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
48139017 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
48139044 AAATTCCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
48139071 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
48139098 AGATA-CCCT-T-GGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
48139121 ATTTGCCCCT
Statistics
Matches: 137, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
24 12 0.09
25 1 0.01
26 4 0.03
27 120 0.88
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:48139353 original size:25 final size:25
Alignment explanation
Indices: 48139320--48139386 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
48139310 ATGAAGTGCT
*
48139320 AAAAGGGCTTTGCCCTAATTTAC-CA
1 AAAAGGGCTTTGCCCCAATTT-CTCA
*
48139345 AAAAGGGCTTTGCCCCAGTTTCTCA
1 AAAAGGGCTTTGCCCCAATTTCTCA
*
48139370 AAATGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
48139387 GTTATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAATTTCTCA
Found at i:48141468 original size:299 final size:299
Alignment explanation
Indices: 48140922--48141514 Score: 1107
Period size: 299 Copynumber: 2.0 Consensus size: 299
48140912 TCAAACCTGT
48140922 GCTTTAGCAAAAATTTTGGTATTAAGTGAAAAAAAACCTGGATGCTTGGATGAGGGCCTTTTAAA
1 GCTTTAGCAAAAATTTTGGTATTAAGTGAAAAAAAACCTGGATGCTTGGATGAGGGCCTTTTAAA
48140987 TTATTGTGTTAAATAAATGACACAAGGAAGCTTGTAGTCTAGTGGTTGTGGCATCATTAAGGTTG
66 TTATTGTGTTAAATAAATGACACAAGGAAGCTTGTAGTCTAGTGGTTGTGGCATCATTAAGGTTG
48141052 TATGGGAGCCTGGGTTCAACCTTGGCTCTTGCAATTTATTCTGGTTTTTTTAAGGGAACCTGGAC
131 TATGGGAGCCTGGGTTCAACCTTGGCTCTTGCAATTTATTCTGGTTTTTTTAAGGGAACCTGGAC
** *
48141117 TTTGGCCTTTAGACCTTATAATTAATTGGGGATAAAATACGACAACAAAAGAGCCTGTGGTGAAG
196 TTTGGCCTTTAGACCTTATAATTAATTGAAGATAAAATACGACAACAAAAGAGCCTATGGTGAAG
48141182 TGGCAAGGTGGCGCCATAGAGTTGGCAAGGAGGTCCAAG
261 TGGCAAGGTGGCGCCATAGAGTTGGCAAGGAGGTCCAAG
48141221 GCTTTAGCAAAAATTTTGGTATTAAGTGAAAAAAAACCTGGATGCTTGGATGAGGGCCTTTTAAA
1 GCTTTAGCAAAAATTTTGGTATTAAGTGAAAAAAAACCTGGATGCTTGGATGAGGGCCTTTTAAA
48141286 TTATTGTGTTAAATAAATGACACAAGGAAGCTTGTAGTCTAGTGGTTGTGGCATCATTAAGGTTG
66 TTATTGTGTTAAATAAATGACACAAGGAAGCTTGTAGTCTAGTGGTTGTGGCATCATTAAGGTTG
48141351 TATGGGAGCCTGGGTTCAACCTTGGCTCTTGCAATTTATTCTGGTTTTTTTAAGGGAACCTGGAC
131 TATGGGAGCCTGGGTTCAACCTTGGCTCTTGCAATTTATTCTGGTTTTTTTAAGGGAACCTGGAC
* *
48141416 TTTGGCCTTTAGACCTTATAATTAATTGAAGATAAAATATGAC-ACAAAAAGAGCCTATGGTTAA
196 TTTGGCCTTTAGACCTTATAATTAATTGAAGATAAAATACGACAAC-AAAAGAGCCTATGGTGAA
* *
48141480 GTGGCAAGGTGGCGTCATATAGTTGGCAAGGAGGT
260 GTGGCAAGGTGGCGCCATAGAGTTGGCAAGGAGGT
48141515 TTAGGGTTCG
Statistics
Matches: 286, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
298 2 0.01
299 284 0.99
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (299 bp):
GCTTTAGCAAAAATTTTGGTATTAAGTGAAAAAAAACCTGGATGCTTGGATGAGGGCCTTTTAAA
TTATTGTGTTAAATAAATGACACAAGGAAGCTTGTAGTCTAGTGGTTGTGGCATCATTAAGGTTG
TATGGGAGCCTGGGTTCAACCTTGGCTCTTGCAATTTATTCTGGTTTTTTTAAGGGAACCTGGAC
TTTGGCCTTTAGACCTTATAATTAATTGAAGATAAAATACGACAACAAAAGAGCCTATGGTGAAG
TGGCAAGGTGGCGCCATAGAGTTGGCAAGGAGGTCCAAG
Found at i:48142129 original size:27 final size:27
Alignment explanation
Indices: 48142099--48142194 Score: 147
Period size: 27 Copynumber: 3.6 Consensus size: 27
48142089 AAGTATCCGT
* *
48142099 GATTTACAGAATTACCGTTTTACACTC
1 GATTTACAAAATTACCGTTTTACCCTC
* *
48142126 GATTTACAAAATTAGCATTTTACCCTC
1 GATTTACAAAATTACCGTTTTACCCTC
*
48142153 GATTTACAAAATTACCGTTTTACCCTT
1 GATTTACAAAATTACCGTTTTACCCTC
48142180 GATTTACAAAATTAC
1 GATTTACAAAATTAC
48142195 TAAAATACCC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (27 bp):
GATTTACAAAATTACCGTTTTACCCTC
Found at i:48142137 original size:54 final size:53
Alignment explanation
Indices: 48142079--48142222 Score: 162
Period size: 54 Copynumber: 2.7 Consensus size: 53
48142069 CTCAATTTGT
* * *
48142079 AAAATTACCAAAGTATCCGTGATTTACAGAATTACCGTTTTACACTCGATTTAC
1 AAAATTACCAAAATA-CCCTGATTTACAAAATTACCGTTTTACACTCGATTTAC
* *** * *
48142133 AAAATTAGCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCT-GATTTACAAAATTACCGTTTTACACTCGATTTAC
* *
48142187 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACCAAAATACCC-TGATTTACAAAATTACC
48142223 AAAATACCCT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
53 3 0.04
54 70 0.95
55 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTGATTTACAAAATTACCGTTTTACACTCGATTTAC
Found at i:48142203 original size:27 final size:27
Alignment explanation
Indices: 48142173--48142395 Score: 193
Period size: 27 Copynumber: 8.3 Consensus size: 27
48142163 ATTACCGTTT
* * *
48142173 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCCTGATTTATAAAATTACCAAAA
* * *
48142200 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCCTGATTTATAAAATTACCAAAA
*
48142227 TA-CCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCCT-GATTTA-TAAAATTACCAAAA
* * *
48142254 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCCTGATTTATAAAATTACCAAAA
* *
48142281 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCCTGATTTATAAAATTACCAAAA
** *
48142308 TACCCCTGGCTTGTAAAATTACCAAAA
1 TACCCCTGATTTATAAAATTACCAAAA
* * * *
48142335 TACCCCTGATTTGTGAAATTATCGAAA
1 TACCCCTGATTTATAAAATTACCAAAA
* * *
48142362 TA-CTCTCGATTTGTAAAA-TATCAAAA
1 TACCCCT-GATTTATAAAATTACCAAAA
48142388 TACCCCTG
1 TACCCCTG
48142396 TAGGGTAGAA
Statistics
Matches: 169, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
26 18 0.11
27 146 0.86
28 5 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCCTGATTTATAAAATTACCAAAA
Found at i:48142348 original size:81 final size:82
Alignment explanation
Indices: 48142173--48142395 Score: 258
Period size: 81 Copynumber: 2.8 Consensus size: 82
48142163 ATTACCGTTT
* ** * ** *
48142173 TACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGAT
1 TACCCCTGATTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGAT
48142237 CAGTAAAATTACCAAAA
66 CAGTAAAATTACCAAAA
* *
48142254 TACCCCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGCT
1 TACCCCTGATTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGAT
*
48142319 -TGTAAAATTACCAAAA
66 CAGTAAAATTACCAAAA
* * * * *
48142335 TACCCCTGATTTGTGAAATTA-TCGAAATA-CTCTCGATTTGTAAAA-TATCAAAATACCCCTG
1 TACCCCTGATTTGTAAAATTACT-AAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCTG
48142396 TAGGGTAGAA
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
80 19 0.15
81 98 0.80
82 6 0.05
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (82 bp):
TACCCCTGATTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGAT
CAGTAAAATTACCAAAA
Found at i:48142376 original size:54 final size:54
Alignment explanation
Indices: 48142173--48142395 Score: 245
Period size: 54 Copynumber: 4.1 Consensus size: 54
48142163 ATTACCGTTT
* ** * * **
48142173 TACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
** *
48142227 TA-CCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCCT-GATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
* *
48142281 TACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAA
1 TACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
* * * * * *
48142335 TACCCCTGATTTGTGAAATTATCGAAATA-CTCTCGATTTGTAAAA-TATCAAAA
1 TACCCCTGATTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAA
48142388 TACCCCTG
1 TACCCCTG
48142396 TAGGGTAGAA
Statistics
Matches: 143, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
53 21 0.15
54 118 0.83
55 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
Found at i:48142424 original size:27 final size:27
Alignment explanation
Indices: 48142385--48142581 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
48142375 TAAAATATCA
48142385 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
48142412 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
48142439 AAATAACCCTGTAGGGTAAAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* *
48142466 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
48142493 AAATACCCCTATAGGGCAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
48142520 AAATACCCTTGTAGGGTAGAAATA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
*
48142547 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
48142574 AGATACCC
1 AAATACCC
48142582 TTAGGTAAAA
Statistics
Matches: 146, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:48142451 original size:54 final size:54
Alignment explanation
Indices: 48142385--48142583 Score: 283
Period size: 54 Copynumber: 3.7 Consensus size: 54
48142375 TAAAATATCA
*
48142385 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
* * * * * *
48142439 AAATAACCCTGTAGGGTAAAATTATCGAAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
* * *
48142493 AAATACCCCTATAGGGCAGAATTACCGAAATACCCTTGTAGGGTAGAAATA-TCG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACT-G
*
48142547 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTT
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTT
48142584 AGGTAAAATT
Statistics
Matches: 125, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 1 0.01
54 124 0.99
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
Found at i:48142580 original size:81 final size:80
Alignment explanation
Indices: 48142374--48142581 Score: 301
Period size: 81 Copynumber: 2.6 Consensus size: 80
48142364 CTCTCGATTT
* * * * *
48142374 GTAAAATATCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTG
1 GTAAAATATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGCAGAATTACCG
48142439 AAATAACCCTGTAGG
66 AAATAACCCTGTAGG
* *
48142454 GTAAAATTATCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGCAGAATTACC
1 GTAAAA-TATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGCAGAATTACC
48142519 GAAAT-ACCCTTGTAGG
65 GAAATAACCC-TGTAGG
* *
48142535 GTAGAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCC
1 GTA-AAATATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCC
48142582 TTAGGTAAAA
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
80 10 0.09
81 101 0.89
82 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (80 bp):
GTAAAATATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGCAGAATTACCG
AAATAACCCTGTAGG
Found at i:48142876 original size:24 final size:25
Alignment explanation
Indices: 48142801--48142869 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
48142791 AGGAAGTGCT
* * *
48142801 AAAGGGCTTTGCCGCAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTATCAA
*
48142826 AAAGGGCTTGGCCCCAGTTTATCAA
1 AAAGGGCTTTGCCCCAGTTTATCAA
48142851 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
48142870 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAA
Found at i:48142882 original size:24 final size:25
Alignment explanation
Indices: 48142801--48142887 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
48142791 AGGAAGTGCT
* * *
48142801 AAAG-GGCTTTGCCGCAGTTTACCGA
1 AAAGAGGCTTGGCCCCAGTTTATC-A
48142826 AAAG-GGCTTGGCCCCAGTTTATCA
1 AAAGAGGCTTGGCCCCAGTTTATCA
* *
48142850 AAA-AGGGCTTTGCCCCAG-TTATTA
1 AAAGA-GGCTTGGCCCCAGTTTATCA
*
48142874 AAAGAGGCTAGGCC
1 AAAGAGGCTTGGCC
48142888 TCTAGTTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
24 19 0.37
25 33 0.63
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (25 bp):
AAAGAGGCTTGGCCCCAGTTTATCA
Found at i:48145296 original size:27 final size:27
Alignment explanation
Indices: 48145277--48145541 Score: 350
Period size: 27 Copynumber: 9.8 Consensus size: 27
48145267 ATTACCAAAA
* *
48145277 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
48145304 TACCCTCGATTTACAGAATTGCCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
48145331 TACCCGCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
**
48145358 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
48145385 CACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
48145412 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
48145439 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
48145466 TACCCTCGAATTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
48145493 TACCCTCGATTTACAGAATTACCCTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
48145520 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
48145542 TGAAATACCC
Statistics
Matches: 215, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 215 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:48145310 original size:54 final size:54
Alignment explanation
Indices: 48145252--48145598 Score: 320
Period size: 54 Copynumber: 6.4 Consensus size: 54
48145242 TACTGAAATG
* * ** *
48145252 CCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTACCATTTTA
* * * * * *
48145306 CCCTCGATTTACAGAATTGCCATTTTACCCGCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTACCATTTTA
* ** * * *
48145360 CCCTCGATTTATAGAATTA-CTGTTTCACCCTCGATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCAATTT-ACCCTCGATTTACAGAATTACCATTTTA
* ** *
48145414 CCCTCGATTTATAAAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTACCATTTTA
* * ** *
48145468 CCCTCGAATTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCCTTTTA
1 CCCTCGATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTACCATTTTA
* * * * * * * ***
48145522 CCCTCAATTTACAAAATTACTGAA-ATACCCTTGGTTTACAAAATTACCAAAATA
1 CCCTCGATTTATAAAATTAC-CAATTTACCCTCGATTTACAGAATTACCATTTTA
**
48145576 CCCTCGATCAATAAAATTACCAA
1 CCCTCGATTTATAAAATTACCAA
48145599 AATACCTCTG
Statistics
Matches: 242, Mismatches: 48, Indels: 7
0.81 0.16 0.02
Matches are distributed among these distances:
53 6 0.02
54 232 0.96
55 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (54 bp):
CCCTCGATTTATAAAATTACCAATTTACCCTCGATTTACAGAATTACCATTTTA
Found at i:48145550 original size:27 final size:27
Alignment explanation
Indices: 48145493--48145604 Score: 89
Period size: 27 Copynumber: 4.1 Consensus size: 27
48145483 ATTACCGTTT
* * ****
48145493 TACCCTCGATTTACAGAATTACCCTTT
1 TACCCTCAATTTACAAAATTACCAAAA
**
48145520 TACCCTCAATTTACAAAATTACTGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
***
48145547 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* ** *
48145574 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
48145601 TACC
1 TACC
48145605 TCTGGTTTAT
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.29
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:48145619 original size:81 final size:81
Alignment explanation
Indices: 48145529--48145685 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
48145519 TTACCCTCAA
* *
48145529 TTTACAAAATTACTGAAATAC-CCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAATAAAA
1 TTTACAAAATTACTAAAATACTCC-AGGTTTACAAAATTACCAAAATACCCCTCGAT-AATAAAA
48145592 TTACCAAAATACCTCTGG
64 TTACCAAAATACCTCTGG
* * ** * * **
48145610 TTTATAAAATTACTAAAATTCTCCAGGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATT
1 TTTACAAAATTACTAAAATACTCCAGGTTTACAAAATTACCAAAATACCCCTCGATAATAAAATT
48145675 ACCAAAATACC
66 ACCAAAATACC
48145686 CCTAATTTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 56 0.88
82 8 0.12
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
TTTACAAAATTACTAAAATACTCCAGGTTTACAAAATTACCAAAATACCCCTCGATAATAAAATT
ACCAAAATACCTCTGG
Found at i:48145687 original size:27 final size:27
Alignment explanation
Indices: 48145529--48145688 Score: 160
Period size: 27 Copynumber: 5.9 Consensus size: 27
48145519 TTACCCTCAA
* ** *
48145529 TTTACAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
48145556 TTTACAAAATTACCAAAATA-CCCTCGA
1 TTTATAAAATTACCAAAATACCCCT-GG
** *
48145583 TCAATAAAATTACCAAAATACCTCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* * * *
48145610 TTTATAAAATTACTAAAATTCTCCAGG
1 TTTATAAAATTACCAAAATACCCCTGG
*
48145637 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
48145664 CTTGTAAAATTACCAAAATACCCCT
1 TTTATAAAATTACCAAAATACCCCT
48145689 AATTTGTGAA
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.03
27 103 0.94
28 3 0.03
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:48145695 original size:27 final size:27
Alignment explanation
Indices: 48145534--48145768 Score: 145
Period size: 27 Copynumber: 8.7 Consensus size: 27
48145524 CTCAATTTAC
** * * **
48145534 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
***
48145561 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * *
48145588 AAAATTACCAAAATACCTCTGGTTTAT
1 AAAATTACCAAAATACCCCTGATTTGT
* * * * *
48145615 AAAATTACTAAAATTCTCCAGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
**
48145642 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
48145669 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * * *
48145696 GAAATTATCGAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * **
48145723 AAAA-TATCGAAATACCCCTG-TAGGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* *
48145749 AGAATTATCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
48145769 ATAAGTTAGA
Statistics
Matches: 166, Mismatches: 36, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
25 1 0.01
26 22 0.13
27 140 0.84
28 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:48145695 original size:54 final size:54
Alignment explanation
Indices: 48145534--48145711 Score: 162
Period size: 54 Copynumber: 3.3 Consensus size: 54
48145524 CTCAATTTAC
** * * * ***
48145534 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCT-AATTTGT
* * * * *
48145588 AAAATTACCAAAATACCTCTGGTTTATAAAATTACTAAAATTCTCC-AGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTA-ATTTGT
* *
48145642 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAATTTGT
* * *
48145696 GAAATTATCGAAATAC
1 AAAATTACCAAAATAC
48145712 TCTCGATTTG
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
54 95 0.97
55 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCCTAATTTGT
Found at i:48145918 original size:54 final size:54
Alignment explanation
Indices: 48145724--48145928 Score: 248
Period size: 54 Copynumber: 3.8 Consensus size: 54
48145714 TCGATTTGTA
* * * *
48145724 AAATATCGAAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTATAAGTTAG
1 AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * * * *
48145778 AATTATTGAAATAACCCTGTAGGGTAGAATTATCGAAATACCCCTAAAGGGTAG
1 AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * * * * *
48145832 AATTATTGAAATACCCTTGTAGGGCAGAATTACCGAAATACCCTTGTAGGGTAG
1 AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * *
48145886 AAATACCGAAATACCCCTGTAGGGTAGAATTACAGAGATACCC
1 AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCC
48145929 TTGGGTAAAA
Statistics
Matches: 130, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 130 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
Found at i:48145926 original size:27 final size:27
Alignment explanation
Indices: 48145731--48145928 Score: 211
Period size: 27 Copynumber: 7.3 Consensus size: 27
48145721 GTAAAATATC
48145731 GAAATACCCCTGTAGGGTAGAATTATCA
1 GAAATACCCCTGTAGGGTAGAATTA-CA
* * * **
48145759 -AAATACCCCTATAAGTTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACA
*
48145785 GAAATAACCCTGTAGGGTAGAATTATC-
1 GAAATACCCCTGTAGGGTAGAATTA-CA
** **
48145812 GAAATACCCCTAAAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACA
* * *
48145839 GAAATACCCTTGTAGGGCAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACA
* * *
48145866 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACA
48145893 GAAATACCCCTGTAGGGTAGAATTACA
1 GAAATACCCCTGTAGGGTAGAATTACA
*
48145920 GAGATACCC
1 GAAATACCC
48145929 TTGGGTAAAA
Statistics
Matches: 141, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACA
Found at i:48145927 original size:81 final size:81
Alignment explanation
Indices: 48145724--48145931 Score: 258
Period size: 81 Copynumber: 2.6 Consensus size: 81
48145714 TCGATTTGTA
* * ** **
48145724 AAATATCGAAATACCCCTGTAGGGTAGAATTATCA-AAATACCCCTATAAGTTAGAATTATTGAA
1 AAATATCGAAATACCCCTGTAGGGTAGAATTA-CAGAAATACCCTTGTAAGGCAGAATTACCGAA
48145788 ATAACCCTGTAGGGTAG
65 ATAACCCTGTAGGGTAG
* ** ** *
48145805 AATTATCGAAATACCCCTAAAGGGTAGAATTATTGAAATACCCTTGTAGGGCAGAATTACCGAAA
1 AAATATCGAAATACCCCTGTAGGGTAGAATTACAGAAATACCCTTGTAAGGCAGAATTACCGAAA
48145870 T-ACCCTTGTAGGGTAG
66 TAACCC-TGTAGGGTAG
* *
48145886 AAATACCGAAATACCCCTGTAGGGTAGAATTACAGAGATACCCTTG
1 AAATATCGAAATACCCCTGTAGGGTAGAATTACAGAAATACCCTTG
48145932 GGTAAAATTA
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 4 0.04
81 102 0.96
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (81 bp):
AAATATCGAAATACCCCTGTAGGGTAGAATTACAGAAATACCCTTGTAAGGCAGAATTACCGAAA
TAACCCTGTAGGGTAG
Found at i:48146106 original size:16 final size:16
Alignment explanation
Indices: 48146085--48146115 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48146075 CAAATATGGG
*
48146085 CATGACATTCTGCATA
1 CATGACATGCTGCATA
48146101 CATGACATGCTGCAT
1 CATGACATGCTGCAT
48146116 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (16 bp):
CATGACATGCTGCATA
Found at i:48150974 original size:49 final size:48
Alignment explanation
Indices: 48150823--48151046 Score: 156
Period size: 49 Copynumber: 4.6 Consensus size: 48
48150813 ATAAGATGCC
* ** *
48150823 GATGCCATGTCCCAGACAAGTCTTACACTGATTTTCATATATC--GAGGCC
1 GATG-CATGTCCCAGACAGGTCTTACACT-AGCTT-ATATATCTTGAGGCT
* * * * * * * *
48150872 GATATCATGTCCTAGATAGGTCTTACACTGGCTCTCATCTATC-GGTGTC-
1 GAT-GCATGTCCCAGACAGGTCTTACACTAGCT-T-ATATATCTTGAGGCT
*
48150921 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCT
1 GATG-CATGTCCCAGACAGGTCTTACACTAGCTTATATATCTTGAGGCT
* * * * *
48150970 GATGCATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTTAATG-T
1 GATGCATGTCCCAGACAGGTCTTACACTAGCTTATATATCTTGAGGCT
*
48151015 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 -GATGCATGTCCCAGACAGGTCTTACACTAGC
48151047 ACACATATCA
Statistics
Matches: 144, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 38 0.26
47 7 0.05
48 31 0.22
49 64 0.44
50 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
GATGCATGTCCCAGACAGGTCTTACACTAGCTTATATATCTTGAGGCT
Found at i:48151026 original size:46 final size:46
Alignment explanation
Indices: 48150877--48151046 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
48150867 AGGCCGATAT
* * * *
48150877 CATGTCCTAGATAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATCT-T-GATGTCGATG
* * *
48150925 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGA-GGCTGATG
1 -CATGTCCCAGACAGGTCTTACACTAGC-TCT-CATCTTGATGTC-GATG
* *
48150974 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTTAATGTCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATCTTGATGTCGATG
*
48151020 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACAGGTCTTACACTAGC
48151047 ACACATATCA
Statistics
Matches: 105, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
46 37 0.35
47 4 0.04
48 28 0.27
49 29 0.28
50 3 0.03
51 4 0.04
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACAGGTCTTACACTAGCTCTCATCTTGATGTCGATG
Found at i:48151055 original size:94 final size:97
Alignment explanation
Indices: 48150822--48151055 Score: 244
Period size: 98 Copynumber: 2.4 Consensus size: 97
48150812 GATAAGATGC
* ** * * * * *
48150822 CGATGCCATGTCCCAGACAAGTCTTACACT-G-ATTTTCATATATCGAGGCCGATATCATGTCCT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCA--CACATATCTTGAGGCTGAT-GCATGTCCC
* * **
48150885 AGATAGGTCTTACACTGGCTCTCATCTATCGGTGT
63 AGACAGGTCTTACACTAGCTCTCATCTATCAATGT
****
48150920 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCTGATGCATGTCCCAGA
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCACACATATCTTGAGGCTGATGCATGTCCCAGA
*
48150985 CATGTCTTACACTAGCTCTCATCT-T-AATGT
66 CAGGTCTTACACTAGCTCTCATCTATCAATGT
*
48151015 CGATG-CATGTCCCAGACATGTCTTACACTAGCACACATATC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCACACATATC
48151056 ACCCAATGTC
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
94 31 0.27
95 8 0.07
96 1 0.01
97 31 0.27
98 43 0.37
99 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCACACATATCTTGAGGCTGATGCATGTCCCAGA
CAGGTCTTACACTAGCTCTCATCTATCAATGT
Found at i:48152829 original size:29 final size:30
Alignment explanation
Indices: 48152761--48152835 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
48152751 CTCTATTTTT
*
48152761 AATATGCACTTCGATG-TCATCCTGTTCTA
1 AATATGCACTTCGGTGCTCATCCTGTTCTA
*
48152790 AATATGTACTTCGGTGCT-ATCCTGTTCT-
1 AATATGCACTTCGGTGCTCATCCTGTTCTA
* *
48152818 ATTATTGCACTTTGGTGC
1 AATA-TGCACTTCGGTGC
48152836 ATTACTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 3 0.08
29 35 0.90
30 1 0.03
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.41
Consensus pattern (30 bp):
AATATGCACTTCGGTGCTCATCCTGTTCTA
Found at i:48153481 original size:45 final size:45
Alignment explanation
Indices: 48153413--48153503 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
48153403 TACATAAGTT
48153413 ATTGCAAGTGTTTTCATACAATTTGAGTATTATAATGATTAATTG
1 ATTGCAAGTGTTTTCATACAATTTGAGTATTATAATGATTAATTG
*
48153458 ATTGCAAGTGTTTTCATATAATTTGAGTATTATAATGATTAATTG
1 ATTGCAAGTGTTTTCATACAATTTGAGTATTATAATGATTAATTG
48153503 A
1 A
48153504 CGTGAAATCG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (45 bp):
ATTGCAAGTGTTTTCATACAATTTGAGTATTATAATGATTAATTG
Found at i:48153501 original size:21 final size:21
Alignment explanation
Indices: 48153432--48153501 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
48153422 GTTTTCATAC
48153432 AATTTGAGTATTATAATGATT
1 AATTTGAGTATTATAATGATT
* * *
48153453 AATTGATTGCAAGTGTTTTCAT-A-T
1 AA-T--TTG--AGTATTATAATGATT
48153477 AATTTGAGTATTATAATGATT
1 AATTTGAGTATTATAATGATT
48153498 AATT
1 AATT
48153502 GACGTGAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
19 8 0.22
20 1 0.03
21 10 0.28
22 1 0.03
23 1 0.03
24 6 0.17
25 1 0.03
26 8 0.22
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTTGAGTATTATAATGATT
Found at i:48155837 original size:16 final size:17
Alignment explanation
Indices: 48155816--48155851 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
48155806 GCAAATCCCA
48155816 AAATACCGAAAAG-TTG
1 AAATACCGAAAAGTTTG
48155832 AAATACCGAAAAGTTTG
1 AAATACCGAAAAGTTTG
48155849 AAA
1 AAA
48155852 GTTTGGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (17 bp):
AAATACCGAAAAGTTTG
Found at i:48156104 original size:29 final size:29
Alignment explanation
Indices: 48156062--48156157 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
48156052 GAAAGCATGT
48156062 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
48156091 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
48156120 ATATGAAAGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
48156148 ATATGCATGT
1 ATATGAATGT
48156158 ATGTAGACTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 22 0.36
29 39 0.64
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:48159700 original size:16 final size:16
Alignment explanation
Indices: 48159679--48159712 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48159669 CCTAAGTTAC
48159679 TATTCATATGGTCATT
1 TATTCATATGGTCATT
48159695 TATTCATATGGTCATT
1 TATTCATATGGTCATT
48159711 TA
1 TA
48159713 CTAAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (16 bp):
TATTCATATGGTCATT
Found at i:48160948 original size:3 final size:3
Alignment explanation
Indices: 48160942--48161000 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
48160932 ATTTAAGAAA
* *
48160942 AAT AAT ACAT AAT AAGT AAT AAT AAT ATAT AATT AA- AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
48160990 AAT AA- AAT AAT
1 AAT AAT AAT AAT
48161001 TTTATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 30 0.65
4 12 0.26
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:48160955 original size:7 final size:6
Alignment explanation
Indices: 48160942--48161000 Score: 50
Period size: 7 Copynumber: 9.5 Consensus size: 6
48160932 ATTTAAGAAA
* *
48160942 AATAAT ACATAAT AAGTAAT AATAAT ATATAATT AA-AAT AATACT TATAAT
1 AATAAT A-ATAAT AA-TAAT AATAAT A-ATAA-T AATAAT AATAAT AATAAT
48160993 AA-AAT AAT
1 AATAAT AAT
48161001 TTTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 8 0.19
6 16 0.37
7 17 0.40
8 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (6 bp):
AATAAT
Found at i:48160968 original size:36 final size:34
Alignment explanation
Indices: 48160922--48161028 Score: 98
Period size: 36 Copynumber: 3.2 Consensus size: 34
48160912 TAAAAGAGAT
48160922 GTAAAATAATATTTAAGAAAAATAATACATAATAA
1 GTAAAATAATATTTAAGAAAAATAATAC-TAATAA
* ** *
48160957 GTAATAATAATATATAATTAAAATAATACTTATAA
1 GTAA-AATAATATTTAAGAAAAATAATACTAATAA
* *
48160992 -TAAAATAAT-TTTATA-ATATATAATA-TAA-AA
1 GTAAAATAATATTTA-AGAAAAATAATACTAATAA
48161022 GTAAAAT
1 GTAAAAT
48161029 TAAAATAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
30 2 0.03
31 8 0.13
32 10 0.17
33 7 0.12
34 3 0.05
35 9 0.15
36 21 0.35
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (34 bp):
GTAAAATAATATTTAAGAAAAATAATACTAATAA
Found at i:48160983 original size:16 final size:16
Alignment explanation
Indices: 48160922--48161028 Score: 76
Period size: 16 Copynumber: 6.4 Consensus size: 16
48160912 TAAAAGAGAT
*
48160922 GTAAAATAATATTTAA
1 GTAAAATAATATATAA
*
48160938 GAAAAATAATACATAATAA
1 GTAAAATAAT--AT-ATAA
48160957 GTAATAATAATATATAA
1 GTAA-AATAATATATAA
*
48160974 TTAAAATAATACTTATAA
1 GTAAAATAATA--TATAA
*
48160992 -TAAAATAATTTTATAA
1 GTAAAATAA-TATATAA
* *
48161008 -T-ATATAATATAAAA
1 GTAAAATAATATATAA
48161022 GTAAAAT
1 GTAAAAT
48161029 TAAAATAAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
14 5 0.07
15 6 0.08
16 25 0.34
17 15 0.21
18 10 0.14
19 6 0.08
20 6 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
GTAAAATAATATATAA
Found at i:48162744 original size:83 final size:83
Alignment explanation
Indices: 48162492--48162737 Score: 357
Period size: 84 Copynumber: 3.0 Consensus size: 83
48162482 TTCAATTTGT
* * * * *
48162492 AAGGATGTCAAATCATCTTGAGTCTGTCTGAAAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
48162557 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * * *
48162575 AAGGGTGCTTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTTG
1 AAGGATGC-CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCG
*
48162640 ATTTGTTCCTTATAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* * *
48162659 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
48162724 TTTGTTCCTTGTAA
66 TTTGTTCCTTGTAA
48162738 ATACAAGAAT
Statistics
Matches: 143, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
83 70 0.49
84 73 0.51
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:48162759 original size:83 final size:83
Alignment explanation
Indices: 48162492--48162761 Score: 333
Period size: 83 Copynumber: 3.2 Consensus size: 83
48162482 TTCAATTTGT
* * * * *
48162492 AAGGATGTCAAATCATCTTGAGTCTGTCTGAAAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
1 AAGGATATCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
48162557 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * * * *
48162575 AAGGGTGCTTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTTG
1 AAGGAT-ATCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCG
*
48162640 ATTTGTTCCTTATAAGCAC
65 ATTTGTTCCTTGTAAGCAC
** * * *
48162659 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGA
1 AAGGATATCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
**
48162724 TTTGTTCCTTGTAAATAC
66 TTTGTTCCTTGTAAGCAC
* **
48162742 AAGAATATCAAGTCATCTTG
1 AAGGATATCAAACCATCTTG
48162762 GATCTGCTTC
Statistics
Matches: 158, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
83 86 0.54
84 72 0.46
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (83 bp):
AAGGATATCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:48162897 original size:119 final size:119
Alignment explanation
Indices: 48162685--48163249 Score: 905
Period size: 119 Copynumber: 4.7 Consensus size: 119
48162675 CTTGAGTCTG
* * *
48162685 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAATACAAGAATAT
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * * *
48162750 CAAGTCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTCCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* *
48162804 TTTGAGAACGTCTGAGAATCAAATCTGCTATGTCCTCGATTTGCTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
48162869 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTA-TC
*
48162924 TTTGAGAACGTCGGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
48162989 CAAATCATCTTGGATCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* * * *
48163043 TTTGAGAACGTCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTATAAATACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
48163108 CAAATCATCTTGGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGTTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* * * * *
48163162 TTTGAGAATGTTTGAGAGTCAAATCTGCTATGTCCTCGATATGTTTCTTGTAAACACAAGAATAT
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
48163227 CAAATCATCTTGGATCTGCTTCA
66 CAAATCATCTTGGATCTGCTTCA
48163250 ACATAAATGT
Statistics
Matches: 416, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
119 303 0.73
120 113 0.27
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
Found at i:48163104 original size:239 final size:238
Alignment explanation
Indices: 48162685--48163265 Score: 919
Period size: 239 Copynumber: 2.4 Consensus size: 238
48162675 CTTGAGTCTG
* *
48162685 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAATACAAGAATAT
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAT
*
48162750 CAAGTCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTCCTATATTTGAGAACGT
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTCCTATATTTGAGAACGT
* *
48162815 CTGAGAATCAAATCTGCTATGTCCTCGATTTGCTCCTTGTAAACACAAGAATACCAAATCATCTT
131 CTAAGAATCAAATCTGCTATGTCCTCGATTTGCTCCTTATAAACACAAGAATACCAAATCATCTT
*
48162880 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATTT
196 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTA-TC
* *
48162924 TTTGAGAACGTCGGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAT
* * * * *
48162989 CAAATCATCTTGGATCTACTTCAGTATAATCATCTGAAGGTTAGATCTGCTATCTTTGAGAACGT
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTCCTATATTTGAGAACGT
* * * *
48163054 CTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTATAAATACAAGAATACCAAATCATCTT
131 CTAAGAATCAAATCTGCTATGTCCTCGATTTGCTCCTTATAAACACAAGAATACCAAATCATCTT
* *
48163119 GGATCTGCTTCAGTATAATCATCTGAAGGTTAGATCTGTTATC
196 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* * * *
48163162 TTTGAGAATGTTTGAGAGTCAAATCTGCTATGTCCTCGATATGTTTCTTGTAAACACAAGAATAT
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAT
* **
48163227 CAAATCATCTTGGATCTGCTTCAACATAAATGTCTGAAG
66 CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAG
48163266 TCTAAATCTG
Statistics
Matches: 311, Mismatches: 31, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
238 93 0.30
239 218 0.70
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (238 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAT
CAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTCCTATATTTGAGAACGT
CTAAGAATCAAATCTGCTATGTCCTCGATTTGCTCCTTATAAACACAAGAATACCAAATCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
Found at i:48168498 original size:40 final size:39
Alignment explanation
Indices: 48168414--48168635 Score: 227
Period size: 39 Copynumber: 5.6 Consensus size: 39
48168404 TCGAATGATG
* * * *
48168414 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAT
* * *
48168453 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
48168494 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
* *
48168533 TCCGGGCTAAGCCCGAAGGCATTGGTGGGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
* *
48168572 TCTGGGTTAAGTCCCGAAGGCATCT-GTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCAT-TGGTGCGAGTTACTAAT
* *
48168611 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAG-CCCGAAGGCATT
48168636 TGAACGAGTA
Statistics
Matches: 158, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 74 0.47
40 74 0.47
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
Found at i:48168515 original size:39 final size:40
Alignment explanation
Indices: 48168414--48168637 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
48168404 TCGAATGATG
* * *
48168414 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
48168453 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
48168494 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
48168533 TCCGGGCTAAG-CCCGAAGGCATTGGTGGGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
48168572 TCTGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
48168611 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48168638 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 73 0.46
40 76 0.48
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:48168588 original size:79 final size:79
Alignment explanation
Indices: 48168414--48168635 Score: 238
Period size: 79 Copynumber: 2.8 Consensus size: 79
48168404 TCGAATGATG
* * * * * *
48168414 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATCTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
48168477 TTGTGCGAGTTACTAAT
63 TGGTGCGAGTTACTAAA
*
48168494 TCCGGGCTAAGCCCGAAGGCAT-TGGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATCT-GTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
48168556 GGTGGGAGTTACTAAA
64 GGTGCGAGTTACTAAA
* * *
48168572 TCTGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATCTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
48168636 TGAACGAGTA
Statistics
Matches: 123, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
78 34 0.28
79 59 0.48
80 30 0.24
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATCTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTAAA
Found at i:48168659 original size:79 final size:77
Alignment explanation
Indices: 48168467--48168670 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 77
48168457 GGACTAAGAT
*
48168467 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAA-TCC-GGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA
*
48168531 ATTCCGGGCTAAGC
64 ATACCGGGCTAAGC
* * *
48168545 CCGAAGGCATTGGTGGGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATCT-GTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGTTACT-AATC-CGGTTAAGTCCCGAAGGCAT-TGGTGCGAGTTACT
*
48168609 -ATAACCGGGCTATGTC
63 AAT-ACCGGGCTAAG-C
** * *
48168625 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGTTA-CTA-ATCCGGTTAAGTCCCGAAGG
48168671 TACGTGATTC
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
78 32 0.30
79 51 0.49
80 22 0.21
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGTTACTAATCCGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT
ACCGGGCTAAGC
Found at i:48175902 original size:47 final size:47
Alignment explanation
Indices: 48175784--48176082 Score: 490
Period size: 47 Copynumber: 6.3 Consensus size: 47
48175774 NNNNNNNNNN
*
48175784 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
48175831 TATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
48175880 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
48175927 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
48175974 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
48176021 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
48176068 TATAAATGTGATAAG
1 TATATATGTGATAAG
48176083 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 192 0.80
49 47 0.20
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:48177499 original size:40 final size:40
Alignment explanation
Indices: 48177446--48178519 Score: 1912
Period size: 40 Copynumber: 26.9 Consensus size: 40
48177436 TTGAGAGTTA
*
48177446 TATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177486 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177526 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177566 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177606 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177646 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177686 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177726 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177766 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177806 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177846 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177886 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177926 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48177966 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48178006 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48178046 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48178086 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48178126 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48178166 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48178206 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48178246 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
48178286 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
*
48178326 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGA-TGT
* *
48178366 TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT-A-GT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
* * * *
48178404 AATGTATCCGGGCTAAGTTCCGAAGAGCACTCGTGCT-AGTGA
1 --TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGA-TGT
* * *
48178446 TGTATCCGGG-TAAGTTCCGAAGAGCATTCGTGCT-AGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGA-TGT
* * *
48178485 TATATCCAGGCTAA-ACCTCGAAG-GCATTCATGCTG
1 TATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTG
48178520 GAGTTATGAG
Statistics
Matches: 1013, Mismatches: 13, Indels: 16
0.97 0.01 0.02
Matches are distributed among these distances:
38 1 0.00
39 48 0.05
40 963 0.95
42 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
Found at i:48178611 original size:29 final size:28
Alignment explanation
Indices: 48178530--48178629 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
48178520 GAGTTATGAG
* * * *
48178530 GCACTGTGTGTGCAAGTTCTTCAACTGA
1 GCACTATGTGTGCGAGTTCTTTAATTGA
**
48178558 GCACTATGTGTGCGAGATT-GGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTTAATTGA
*
48178586 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTCTTTAATTGA
*
48178615 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
48178630 AATCAGTCAG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 35 0.59
29 24 0.41
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCTTTAATTGA
Found at i:48182252 original size:49 final size:49
Alignment explanation
Indices: 48182178--48182336 Score: 218
Period size: 49 Copynumber: 3.3 Consensus size: 49
48182168 NNNNNNNNNN
* *
48182178 GTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGT
48182227 GTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * * * *
48182276 G--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGT
1 GTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGT
48182323 GTATA-A-ATGTGATA
1 GTATATATATGTGATA
48182337 AGTCCCGAAG
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 48 0.48
48 1 0.01
49 50 0.51
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
GTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:48182302 original size:47 final size:47
Alignment explanation
Indices: 48182181--48182334 Score: 191
Period size: 47 Copynumber: 3.2 Consensus size: 47
48182171 NNNNNNNGTA
* * **
48182181 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGACAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* *
48182228 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGACAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
48182277 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGACAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
48182324 TATAAATGTGA
1 TATATATGTGA
48182335 TAAGTCCCGA
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 51 0.53
49 45 0.47
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGACAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:48182513 original size:37 final size:37
Alignment explanation
Indices: 48182457--48182535 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48182447 CCGAGCTCTA
* * *
48182457 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48182494 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48182531 AAGAC
1 AAGAC
48182536 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48188478 original size:3 final size:3
Alignment explanation
Indices: 48188472--48188530 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
48188462 ATTTAAGAAA
* *
48188472 AAT AAT ACAT AAT AAGT AAT AAT AAT ATAT AATT AA- AAT AAT ACT TAT
1 AAT AAT A-AT AAT AA-T AAT AAT AAT A-AT AA-T AAT AAT AAT AAT AAT
48188520 AAT AA- AAT AAT
1 AAT AAT AAT AAT
48188531 TTTATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 30 0.65
4 12 0.26
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:48188485 original size:7 final size:6
Alignment explanation
Indices: 48188472--48188530 Score: 50
Period size: 7 Copynumber: 9.5 Consensus size: 6
48188462 ATTTAAGAAA
* *
48188472 AATAAT ACATAAT AAGTAAT AATAAT ATATAATT AA-AAT AATACT TATAAT
1 AATAAT A-ATAAT AA-TAAT AATAAT A-ATAA-T AATAAT AATAAT AATAAT
48188523 AA-AAT AAT
1 AATAAT AAT
48188531 TTTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 8 0.19
6 16 0.37
7 17 0.40
8 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (6 bp):
AATAAT
Found at i:48188498 original size:36 final size:34
Alignment explanation
Indices: 48188452--48188558 Score: 98
Period size: 36 Copynumber: 3.2 Consensus size: 34
48188442 TAAAAGAGAT
48188452 GTAAAATAATATTTAAGAAAAATAATACATAATAA
1 GTAAAATAATATTTAAGAAAAATAATAC-TAATAA
* ** *
48188487 GTAATAATAATATATAATTAAAATAATACTTATAA
1 GTAA-AATAATATTTAAGAAAAATAATACTAATAA
* *
48188522 -TAAAATAAT-TTTATA-ATATATAATA-TAA-AA
1 GTAAAATAATATTTA-AGAAAAATAATACTAATAA
48188552 GTAAAAT
1 GTAAAAT
48188559 TAAAATAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
30 2 0.03
31 8 0.13
32 10 0.17
33 7 0.12
34 3 0.05
35 9 0.15
36 21 0.35
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (34 bp):
GTAAAATAATATTTAAGAAAAATAATACTAATAA
Found at i:48188513 original size:16 final size:16
Alignment explanation
Indices: 48188452--48188558 Score: 76
Period size: 16 Copynumber: 6.4 Consensus size: 16
48188442 TAAAAGAGAT
*
48188452 GTAAAATAATATTTAA
1 GTAAAATAATATATAA
*
48188468 GAAAAATAATACATAATAA
1 GTAAAATAAT--AT-ATAA
48188487 GTAATAATAATATATAA
1 GTAA-AATAATATATAA
*
48188504 TTAAAATAATACTTATAA
1 GTAAAATAATA--TATAA
*
48188522 -TAAAATAATTTTATAA
1 GTAAAATAA-TATATAA
* *
48188538 -T-ATATAATATAAAA
1 GTAAAATAATATATAA
48188552 GTAAAAT
1 GTAAAAT
48188559 TAAAATAAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
14 5 0.07
15 6 0.08
16 25 0.34
17 15 0.21
18 10 0.14
19 6 0.08
20 6 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
GTAAAATAATATATAA
Found at i:48190938 original size:20 final size:20
Alignment explanation
Indices: 48190915--48190976 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
48190905 TCCATAAACA
48190915 CATATATTTTTCATTTACAT
1 CATATATTTTTCATTTACAT
* *
48190935 CATATA----TGATTAACA-
1 CATATATTTTTCATTTACAT
48190950 CATATATTTTTCATTTACAT
1 CATATATTTTTCATTTACAT
48190970 CATATAT
1 CATATAT
48190977 GATTTGCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
19 7 0.21
20 13 0.39
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (20 bp):
CATATATTTTTCATTTACAT
Found at i:48190951 original size:35 final size:35
Alignment explanation
Indices: 48190911--48190980 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
48190901 ACTTTCCATA
48190911 AACACATATATTTTTCATTTACATCATATATGATT
1 AACACATATATTTTTCATTTACATCATATATGATT
48190946 AACACATATATTTTTCATTTACATCATATATGATT
1 AACACATATATTTTTCATTTACATCATATATGATT
48190981 TGCAACACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (35 bp):
AACACATATATTTTTCATTTACATCATATATGATT
Found at i:48191252 original size:41 final size:43
Alignment explanation
Indices: 48191153--48191257 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 43
48191143 CAACGCCAAC
* * * * *
48191153 GTCCCATACGTGGTCTTACATGATATCACATATCGATGCCACT
1 GTCCCAAACATGGTCTTACACGATATCAAATATCAATGCCACT
*
48191196 GTCCCAAACAGGGTCTTACACGA-ATCAAATA-CAATGCCGA-T
1 GTCCCAAACATGGTCTTACACGATATCAAATATCAATGCC-ACT
*
48191237 GTCCCAGACATGGTCTTACAC
1 GTCCCAAACATGGTCTTACAC
48191258 ATAACCACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 26 0.49
42 8 0.15
43 19 0.36
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCCCAAACATGGTCTTACACGATATCAAATATCAATGCCACT
Found at i:48191312 original size:45 final size:44
Alignment explanation
Indices: 48191147--48191317 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 44
48191137 ATCGTACAAC
* * *
48191147 GCCAACGTCCCATACGTGGTCTTACATGATATCAC-ATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGATAACACAATATCGAT
* * *
48191190 GCC-ACTGTCCCAAACAG-GGTCTTACACGA-ATCA-AATA-CAAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGATAACACAATATCGAT
* * * *
48191231 GCCGATGTCCCAGACATGGTCTTACAC-ATAACCACATATATTGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGATAA-CACA-ATATCGAT
*
48191276 GCCAACGTCCCAGACGTGGTCTTACACGAGAACAC-ATATCGA
1 GCCAACGTCCCAGACGTGGTCTTACACGATAACACAATATCGA
48191318 AAATCCTATG
Statistics
Matches: 103, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
40 1 0.01
41 25 0.24
42 12 0.12
43 29 0.28
44 4 0.04
45 29 0.28
46 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (44 bp):
GCCAACGTCCCAGACGTGGTCTTACACGATAACACAATATCGAT
Found at i:48194287 original size:21 final size:21
Alignment explanation
Indices: 48194263--48194302 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48194253 AAAACCCCTC
*
48194263 TTAAAATAAAAGAAACCTTAA
1 TTAAAATAAAAAAAACCTTAA
**
48194284 TTAACTTAAAAAAAACCTT
1 TTAAAATAAAAAAAACCTT
48194303 TTAGTTACGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (21 bp):
TTAAAATAAAAAAAACCTTAA
Found at i:48205822 original size:37 final size:37
Alignment explanation
Indices: 48205772--48205846 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 37
48205762 AATTATCGTG
48205772 TAAGACCGTGTCTGGGAT-GCAGTCCTCGATTGGAAAT
1 TAAGACCGTGTCTGGG-TCGCAGTCCTCGATTGGAAAT
48205809 TAAGACCGTGTCTGGGTCGCAGTCCTCGATTGGAAAT
1 TAAGACCGTGTCTGGGTCGCAGTCCTCGATTGGAAAT
48205846 T
1 T
48205847 TATGTGTAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (37 bp):
TAAGACCGTGTCTGGGTCGCAGTCCTCGATTGGAAAT
Found at i:48205951 original size:43 final size:42
Alignment explanation
Indices: 48205851--48205955 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
48205841 GAAATTTATG
* * ** * *
48205851 TGTAAGACCATGTCCGGGACATTGGCATCGCATCTGATTTCA
1 TGTAAGACCACGTCTGGGACAGAGGCATCGAATCTGATTACA
*
48205893 TATAAGACC-CTGTCTGGGACAGAGGCATC-AATACTGAATTACA
1 TGTAAGACCAC-GTCTGGGACAGAGGCATCGAAT-CTG-ATTACA
48205936 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
48205956 GTTAGACTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.04
42 26 0.51
43 22 0.43
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGAGGCATCGAATCTGATTACA
Found at i:48218874 original size:49 final size:49
Alignment explanation
Indices: 48218802--48219125 Score: 222
Period size: 49 Copynumber: 6.7 Consensus size: 49
48218792 TGTGTGTGCT
* *
48218802 AGTGTAAAACCTATCTGGGACATGGCATCGGCATCGATAGATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAAAGCC
* * * * * * **
48218851 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCAAGATATGCAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAAAGCC
* * * * * *
48218900 AGTGTAAAACCTGTCTGGGACATGGTATCGGC-TTG--AGGTG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAAAGCC
* *
48218944 AGTGTAAGACCTGTCTGGGACATGGCATCGACA-CAGATA-AGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATC-GATAGA-TGAAAGCC
* * * * * **
48218993 AGTGTAAGACCTGTCTAGGACATGACATCAG-ACTTGAT-GTATGGAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCA-TCGATAG-ATGAAAGCC
* * *
48219042 AGTGTAAGACCTGTCTGGGACATGGCATC-GAATTAGAT-G-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCA-TCGATAGATGAAAGCC
* * * *
48219089 AGCGTAAGACCATGTTTGGAACATGGCATCGGGATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCATCG
48219126 TACCCTATGT
Statistics
Matches: 213, Mismatches: 48, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
44 31 0.15
45 1 0.00
46 3 0.01
47 17 0.08
48 21 0.10
49 139 0.65
50 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCATCGATAGATGAAAGCC
Done.