Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 76 of 259
Found at i:24632809 original size:22 final size:22
Alignment explanation
Indices: 24632739--24632810 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
24632729 GGTAAGTGTA
24632739 AGAAATAATGTATGGGTCAATT
1 AGAAATAATGTATGGGTCAATT
* ** * *
24632761 AGAAAGAACTAAGTATAAGT--GTA
1 AGAAATAA-T--GTATGGGTCAATT
24632784 AGAAATAATGTATGGGTCAATT
1 AGAAATAATGTATGGGTCAATT
24632806 AGAAA
1 AGAAA
24632811 GAACTAAGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 6 0.17
22 14 0.40
23 9 0.26
25 6 0.17
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.26
Consensus pattern (22 bp):
AGAAATAATGTATGGGTCAATT
Found at i:24635452 original size:40 final size:40
Alignment explanation
Indices: 24635397--24635614 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
24635387 CGGATGATAA
* *
24635397 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
24635436 CCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* **
24635477 TCGATCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
24635517 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24635557 CCGGGCTAGGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
24635597 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24635615 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 15 0.09
40 142 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24639055 original size:51 final size:51
Alignment explanation
Indices: 24638972--24639098 Score: 218
Period size: 51 Copynumber: 2.5 Consensus size: 51
24638962 AAATGATGAT
*
24638972 GAAAAAAAAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
1 GAAAGAAAAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
*
24639023 GAAAGAAAAAGAAAGAAAAAAAGCTCTGATGTTGTTCTTGGCCGAATAGAA
1 GAAAGAAAAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
* *
24639074 GAAAGAAAAAGAAGGAAAAAGAGCT
1 GAAAGAAAAAGAAAGAAAAAAAGCT
24639099 TTGAGGAAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (51 bp):
GAAAGAAAAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
Found at i:24640484 original size:39 final size:40
Alignment explanation
Indices: 24640229--24640474 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
24640219 GGATTGATAA
* *
24640229 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
24640269 TCGGGCTAAGT-CCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
24640308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24640347 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
24640387 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24640427 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
24640467 CC-GGCTAA
1 CCGGGCTAA
24640475 ACTCCGAAGG
Statistics
Matches: 190, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 79 0.42
40 111 0.58
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24640484 original size:79 final size:80
Alignment explanation
Indices: 24640229--24640474 Score: 358
Period size: 79 Copynumber: 3.1 Consensus size: 80
24640219 GGATTGATAA
* * * *
24640229 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGT-CCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
24640292 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
*
24640308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-TATCCGGGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
24640372 TGCGAGTTACTATAA
66 TGCGAGTTACTATAT
*
24640387 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
24640452 AGCTAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
24640467 CC-GGCTAA
1 CCGGGCTAA
24640475 ACTCCGAAGG
Statistics
Matches: 152, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
78 11 0.07
79 104 0.68
80 37 0.24
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:24642768 original size:22 final size:22
Alignment explanation
Indices: 24642743--24642789 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
24642733 AAAGCCGAGG
24642743 AGCTCAGTAT-GGAGAAAAGAAA
1 AGCTCA-TATGGGAGAAAAGAAA
*
24642765 AGCTGATATGGGAGAAAAGAAA
1 AGCTCATATGGGAGAAAAGAAA
24642787 AGC
1 AGC
24642790 AAAGGAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.49, C:0.09, G:0.30, T:0.13
Consensus pattern (22 bp):
AGCTCATATGGGAGAAAAGAAA
Found at i:24646900 original size:51 final size:51
Alignment explanation
Indices: 24646830--24646949 Score: 213
Period size: 51 Copynumber: 2.4 Consensus size: 51
24646820 GAAAAAAAAG
24646830 AAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
1 AAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
*
24646881 AAAGAAAGAAAAAAAGCTCTGATGTTGTTCTTGGCCGAATAGAAGAAAGAA
1 AAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
* *
24646932 AAAGAAGGAAAAAGAGCT
1 AAAGAAAGAAAAAAAGCT
24646950 TTGAGGAAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.17
Consensus pattern (51 bp):
AAAGAAAGAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAA
Found at i:24648186 original size:40 final size:40
Alignment explanation
Indices: 24648081--24648327 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
24648071 GGATTGATAA
* *
24648081 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
24648121 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
24648160 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24648200 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24648240 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
24648280 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
24648320 CC-GGCTAA
1 CCGGGCTAA
24648328 ACTCCAAAGG
Statistics
Matches: 191, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 43 0.23
40 148 0.77
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:24660094 original size:40 final size:39
Alignment explanation
Indices: 24660000--24660144 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 39
24659990 TACTCGAATG
* *
24660000 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCT-AGCGACT
* *
24660041 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
24660081 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTC-CGAAGGCATTTGTGCTAGCGACT
* *
24660121 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
24660145 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 2 0.02
40 59 0.66
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:24661773 original size:26 final size:25
Alignment explanation
Indices: 24661721--24661773 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
24661711 TTAGATTTCA
*
24661721 CCTTAAAGGCTTTTCTTCATACCATG
1 CCTTAAAGGCTTTTCGTCATA-CATG
24661747 CCTTAAAGGCATTTCTCGTCATA-ATG
1 CCTTAAAGGC-TTT-TCGTCATACATG
24661773 C
1 C
24661774 ACCACAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 14 0.58
27 3 0.12
28 7 0.29
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (25 bp):
CCTTAAAGGCTTTTCGTCATACATG
Found at i:24662103 original size:29 final size:28
Alignment explanation
Indices: 24662031--24662154 Score: 128
Period size: 27 Copynumber: 4.5 Consensus size: 28
24662021 ATTTCCATAG
* *
24662031 AGGCTTCCA-TGTCATAG-TTCTCCACAA
1 AGGCTTCCATTTTCATAGATT-GCCACAA
*
24662058 AGGCTACCATTTTCATAGATTGCCACAA
1 AGGCTTCCATTTTCATAGATTGCCACAA
*
24662086 AAGCTTCCATTTCTCATAGATTGCCACAA
1 AGGCTTCCATTT-TCATAGATTGCCACAA
* * ** *
24662115 AGGCTTCCATGTT-ATAGACTATCATAA
1 AGGCTTCCATTTTCATAGATTGCCACAA
24662142 AGGCTTCCATTTT
1 AGGCTTCCATTTT
24662155 TCTAGTGTGT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
27 30 0.37
28 24 0.29
29 28 0.34
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (28 bp):
AGGCTTCCATTTTCATAGATTGCCACAA
Found at i:24668860 original size:3 final size:3
Alignment explanation
Indices: 24668854--24668885 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
24668844 CGTACTGGCT
*
24668854 TCA TCA TCA TCA TCA TCA TCA TTA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
24668886 GTCTGGTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:24672948 original size:52 final size:52
Alignment explanation
Indices: 24672869--24672969 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
24672859 TGTATGCGGT
*
24672869 ATCCGAGCACGTTGAGTTGGTTCGAGTTCATGATGGATGCGATACATGTGGC
1 ATCCGAGCACGTTGAGTTGGTTCGAGTTCATAATGGATGCGATACATGTGGC
* *
24672921 ATCCGAGCTCGTTGAGTTGGTTTGAGTTCATAATGGATGCGATACATGT
1 ATCCGAGCACGTTGAGTTGGTTCGAGTTCATAATGGATGCGATACATGT
24672970 AATTGGGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.32
Consensus pattern (52 bp):
ATCCGAGCACGTTGAGTTGGTTCGAGTTCATAATGGATGCGATACATGTGGC
Found at i:24677192 original size:11 final size:11
Alignment explanation
Indices: 24677176--24677201 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24677166 TTAGGGAAGA
24677176 TTTCCCAAACC
1 TTTCCCAAACC
24677187 TTTCCCAAACC
1 TTTCCCAAACC
24677198 TTTC
1 TTTC
24677202 TAAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.42, G:0.00, T:0.35
Consensus pattern (11 bp):
TTTCCCAAACC
Found at i:24683422 original size:52 final size:52
Alignment explanation
Indices: 24683355--24683458 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
24683345 ATATGTATAC
* * *
24683355 GGCACCCGAGCTCGTTGTGTTGGT-TCAAGTTCATGATAGATGTGATACATGT
1 GGCACCCGAGCTCGTTGAGTTGGTCT-AAGTTCATAATAGATGCGATACATGT
* * *
24683407 GGCATCCGAGCTCGTTGAGTTGGTCTGAGTTCATAATGGATGCGATACATGT
1 GGCACCCGAGCTCGTTGAGTTGGTCTAAGTTCATAATAGATGCGATACATGT
24683459 AATTGGGTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 44 0.98
53 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (52 bp):
GGCACCCGAGCTCGTTGAGTTGGTCTAAGTTCATAATAGATGCGATACATGT
Found at i:24685313 original size:32 final size:32
Alignment explanation
Indices: 24685275--24685339 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24685265 CATAAGTGCC
24685275 ATATATGTAGCCAAAGCTACCTCATATTTCAT
1 ATATATGTAGCCAAAGCTACCTCATATTTCAT
24685307 ATATATGTAGCCAAAGCTACCTCATATTTCAT
1 ATATATGTAGCCAAAGCTACCTCATATTTCAT
24685339 A
1 A
24685340 ATACATATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (32 bp):
ATATATGTAGCCAAAGCTACCTCATATTTCAT
Found at i:24686698 original size:27 final size:27
Alignment explanation
Indices: 24686668--24686744 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
24686658 AATTTCATAT
* *
24686668 CTGTAGGCTAGTATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATGCCC
24686695 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATGCCC
* *
24686722 CTATAGGGTAGAATTATTGAAAT
1 CTGTAGGGTAGAATTACTGAAAT
24686745 ACCCTTGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATGCCC
Found at i:24686846 original size:54 final size:55
Alignment explanation
Indices: 24686784--24686985 Score: 207
Period size: 54 Copynumber: 3.8 Consensus size: 55
24686774 CTTGGTTTAC
* * *
24686784 AAAATTACCAAAATA-CCTTCGATTAGGAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAATACCCCTAATTTGG
* * * * *
24686838 AAAATTACCCAAATACCCTTGGTTTA-TAAAATTACTAAAATACCCCTAATTTGG
1 AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAATACCCCTAATTTGG
* ** *** *
24686892 GAAATTATTGAAATACCC-TCGATTTCTAAAATTACCAACATACCCCTAATTTGG
1 AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAATACCCCTAATTTGG
* * *
24686946 AAAATTACTGAAATACCCTT-AATTTGGAAAATTA-CAAAAT
1 AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAAT
24686986 TACCATTGAC
Statistics
Matches: 123, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
53 9 0.07
54 105 0.85
55 9 0.07
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (55 bp):
AAAATTACCGAAATACCCTTCGATTAGGAAAATTACCAAAATACCCCTAATTTGG
Found at i:24686897 original size:81 final size:79
Alignment explanation
Indices: 24686741--24687043 Score: 252
Period size: 81 Copynumber: 3.7 Consensus size: 79
24686731 AGAATTATTG
* * * * *
24686741 AAATACCCTTGGTTTAC-AAAATTACTAAATACTCTTGGTTTACAAAATTACCAAAATA-CCTTC
1 AAATACCCTAGATTT-CTAAAATTACCAAATACCCTTGGTTTACAAAATTACTAAAATACCCTT-
* *
24686804 GATTAGGAAAATTACCA
64 AATTTGGAAAATTA-CA
* * *
24686821 AAATACCCCTAG-TTTGTAAAATTACCCAAATACCCTTGGTTTATAAAATTACTAAAATACCCCT
1 AAATA-CCCTAGATTTCTAAAATTA-CCAAATACCCTTGGTTTACAAAATTACTAAAATACCCTT
* **
24686885 AATTTGGGAAATTATTG
64 AATTTGGAAAATTA-CA
* * ** ** *
24686902 AAATACCCTCGATTTCTAAAATTACCAACATACCCCTAATTTGGAAAATTACTGAAATACCCTTA
1 AAATACCCTAGATTTCTAAAATTACCAA-ATACCCTTGGTTTACAAAATTACTAAAATACCCTTA
24686967 ATTTGGAAAATTACA
65 ATTTGGAAAATTACA
* * * * * * *
24686982 AAATTACCATTGACTTTCAAAAATTACAGAAATACCATTGGTTTGCAAAATTACTGAAATAC
1 AAA-TACCCTAGA-TTTCTAAAATTAC-CAAATACCCTTGGTTTACAAAATTACTAAAATAC
24687044 TCTTGGTCTG
Statistics
Matches: 180, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
80 27 0.15
81 110 0.61
82 41 0.23
83 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (79 bp):
AAATACCCTAGATTTCTAAAATTACCAAATACCCTTGGTTTACAAAATTACTAAAATACCCTTAA
TTTGGAAAATTACA
Found at i:24687049 original size:27 final size:27
Alignment explanation
Indices: 24686733--24687050 Score: 171
Period size: 27 Copynumber: 11.8 Consensus size: 27
24686723 TATAGGGTAG
* *
24686733 AATTATTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGGTTTGCAA
* *
24686760 AATTACT-AAATACTCTTGGTTTACAA
1 AATTACTGAAATACCCTTGGTTTGCAA
** * * *
24686786 AATTACCAAAATA-CCTTCGATTAGGAA
1 AATTACTGAAATACCCTT-GGTTTGCAA
** * * *
24686813 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTGAAATACCCTTGGTTTGCAA
** **
24686840 AATTACCCAAATACCCTTGGTTTATAA
1 AATTACTGAAATACCCTTGGTTTGCAA
* * ** **
24686867 AATTACTAAAATACCCCTAATTTGGGA
1 AATTACTGAAATACCCTTGGTTTGCAA
* * *
24686894 AATTATTGAAATACCCTCGATTT-CTAA
1 AATTACTGAAATACCCTTGGTTTGC-AA
* * ** *
24686921 AATTAC-CAACATACCCCTAATTTGGAA
1 AATTACTGAA-ATACCCTTGGTTTGCAA
** *
24686948 AATTACTGAAATACCCTTAATTTGGAA
1 AATTACTGAAATACCCTTGGTTTGCAA
* * *
24686975 AATTAC-AAAATTACCATTGACTTT-CAAA
1 AATTACTGAAA-TACCCTTG-GTTTGC-AA
* *
24687003 AATTACAGAAATACCATTGGTTTGCAA
1 AATTACTGAAATACCCTTGGTTTGCAA
*
24687030 AATTACTGAAATACTCTTGGT
1 AATTACTGAAATACCCTTGGT
24687051 CTGTAGATTT
Statistics
Matches: 229, Mismatches: 50, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
26 32 0.14
27 169 0.74
28 25 0.11
29 3 0.01
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGGTTTGCAA
Found at i:24687358 original size:41 final size:41
Alignment explanation
Indices: 24687312--24687432 Score: 188
Period size: 41 Copynumber: 3.0 Consensus size: 41
24687302 CAGAGGAAGA
24687312 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAAC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAAC
* * * *
24687353 GATTGAGGATCGCATGGTTGCTTAATGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAAC
* *
24687394 AATTAAGGATCGCATGGTTTCTTGACGACCGTGGATCCA
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
24687433 TCAGTGGCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAAC
Found at i:24687614 original size:25 final size:25
Alignment explanation
Indices: 24687580--24687725 Score: 184
Period size: 25 Copynumber: 5.8 Consensus size: 25
24687570 AATTATTCTA
*
24687580 TTATCAATGGCTTTGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
24687605 TTATCGATGGCTTTGTACCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * **
24687630 ATATTGATGGCAATGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
24687655 TTATCGATGGCATTGTGCCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * *
24687680 ATATTGATGGCTATGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
24687705 TTATCGATGGCTTTGTGCCGA
1 TTATCGATGGCTTTGTGCCGA
24687726 GTGTATTATC
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 100 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (25 bp):
TTATCGATGGCTTTGTGCCGATCTG
Found at i:24687661 original size:50 final size:50
Alignment explanation
Indices: 24687593--24687725 Score: 239
Period size: 50 Copynumber: 2.7 Consensus size: 50
24687583 TCAATGGCTT
*
24687593 TGTGCCGATCTGTTATCGATGGCTTTGTACCGATATGATATTGATGGCAA
1 TGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCAA
* *
24687643 TGTGCCGATCTGTTATCGATGGCATTGTGCCGATATGATATTGATGGCTA
1 TGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCAA
24687693 TGTGCCGATCTGTTATCGATGGCTTTGTGCCGA
1 TGTGCCGATCTGTTATCGATGGCTTTGTGCCGA
24687726 GTGTATTATC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (50 bp):
TGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCAA
Found at i:24691699 original size:40 final size:40
Alignment explanation
Indices: 24691644--24691835 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
24691634 CGGATGATAA
*
24691644 CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
24691684 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
24691724 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
24691764 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
24691804 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
24691836 AGCTATATCC
Statistics
Matches: 139, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 137 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:24693832 original size:26 final size:27
Alignment explanation
Indices: 24693792--24693865 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 27
24693782 CCTAGAGGGT
24693792 AGAATTACTGAAATACCCTTGGTTTAC
1 AGAATTACTGAAATACCCTTGGTTTAC
*
24693819 AGAATTACTG-AATACTCTTGGTTTAC
1 AGAATTACTGAAATACCCTTGGTTTAC
* **
24693845 AAAATTACCAAAATACCCTTG
1 AGAATTACTGAAATACCCTTG
24693866 ATTAGGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 22 0.54
27 19 0.46
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
AGAATTACTGAAATACCCTTGGTTTAC
Found at i:24693875 original size:27 final size:27
Alignment explanation
Indices: 24693845--24694135 Score: 239
Period size: 27 Copynumber: 10.8 Consensus size: 27
24693835 CTTGGTTTAC
*
24693845 AAAATTACCAAAATACCCTTGATTAGG
1 AAAATTACCAAAATACCCTTGATTTGG
* * *
24693872 AAAATTAGCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGG
* * * **
24693899 AAAATTACCCAAATACCCCTGGTTTAT
1 AAAATTACCAAAATACCCTTGATTTGG
24693926 AAAATTACCAAAATACCC-TGATTTGTG
1 AAAATTACCAAAATACCCTTGATTTG-G
** * *
24693953 -AAATTACTGAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGG
* * *
24693979 AAAATTACCAACATACCCCTAATTTGG
1 AAAATTACCAAAATACCCTTGATTTGG
* *
24694006 AAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGG
**
24694033 AAAATTA-CAGAAATACCCTTGATTTAC
1 AAAATTACCA-AAATACCCTTGATTTGG
* * * **
24694060 AAAATTACAAAAATATCATTGACTTTCA
1 AAAATTACCAAAATACCCTTGA-TTTGG
* * * *
24694088 AAAATTACAAAAATACCATTGGTTTGC
1 AAAATTACCAAAATACCCTTGATTTGG
* *
24694115 AAAATTACCGAAATACTCTTG
1 AAAATTACCAAAATACCCTTG
24694136 GTCTGTAGAT
Statistics
Matches: 212, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
26 22 0.10
27 166 0.78
28 24 0.11
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGG
Found at i:24693966 original size:107 final size:108
Alignment explanation
Indices: 24693846--24694057 Score: 266
Period size: 107 Copynumber: 2.0 Consensus size: 108
24693836 TTGGTTTACA
* * * *
24693846 AAATTACCAAAATACCCTTGATTAGGAAAATTAGCAAAATACCCCTAGTTTGTAAAATTACCCAA
1 AAATTACCAAAATACCCTCGATTAGGAAAATTACCAAAATACCCCTAATTTGGAAAATTACCCAA
* *
24693911 ATACCCCTGGTTTATAAAATTACCA-AAATACCC-TGATTTGTG
66 ATACCCCTGATTTAGAAAATTA-CAGAAATACCCTTGATTTGTG
** * * * * *
24693953 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAACATACCCCTAATTTGGAAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTAGGAAAATTACCAAAATACCCCTAATTTGGAAAATTACCCAA
* *
24694018 ATACCCTTGATTTGGAAAATTACAGAAATACCCTTGATTT
66 ATACCCCTGATTTAGAAAATTACAGAAATACCCTTGATTT
24694058 ACAAAATTAC
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
106 2 0.02
107 80 0.91
108 6 0.07
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (108 bp):
AAATTACCAAAATACCCTCGATTAGGAAAATTACCAAAATACCCCTAATTTGGAAAATTACCCAA
ATACCCCTGATTTAGAAAATTACAGAAATACCCTTGATTTGTG
Found at i:24694137 original size:27 final size:27
Alignment explanation
Indices: 24693794--24694135 Score: 235
Period size: 27 Copynumber: 12.7 Consensus size: 27
24693784 TAGAGGGTAG
* * * *
24693794 AATTACTGAAATACCCTTGGTTTACAG
1 AATTACCGAAATACCCTTGATTTGCAA
* * * *
24693821 AATTACTG-AATACTCTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
24693847 AATTACCAAAATACCCTTGATTAGGAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * * *
24693874 AATTAGCAAAATACCCCT-AGTTTGTAA
1 AATTACCGAAATACCCTTGA-TTTGCAA
* * * **
24693901 AATTACCCAAATACCCCTGGTTTATAA
1 AATTACCGAAATACCCTTGATTTGCAA
* **
24693928 AATTACCAAAATACCC-TGATTTGTGA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
24693954 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
24693981 AATTACC-AACATACCCCTAATTTGGAA
1 AATTACCGAA-ATACCCTTGATTTGCAA
* *
24694008 AATTATCGAAATACCCTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGCAA
* *
24694035 AATTACAGAAATACCCTTGATTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
** * *
24694062 AATTACAAAAATATCATTGACTTT-CAAA
1 AATTACCGAAATACCCTTGA-TTTGC-AA
** * *
24694090 AATTACAAAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGATTTGCAA
*
24694117 AATTACCGAAATACTCTTG
1 AATTACCGAAATACCCTTG
24694136 GTCTGTAGAT
Statistics
Matches: 260, Mismatches: 46, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 46 0.18
27 188 0.72
28 26 0.10
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGCAA
Found at i:24694457 original size:41 final size:41
Alignment explanation
Indices: 24694399--24694519 Score: 161
Period size: 41 Copynumber: 3.0 Consensus size: 41
24694389 CGTATAAAGA
*
24694399 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAAC
1 AATTGAGGATCTCATGGTTGCTTGACGACCGTGGATCCAAC
* * * * * *
24694440 GATTGAGGATCTAATGGTTGTTTGATGACTGTGGATCCACC
1 AATTGAGGATCTCATGGTTGCTTGACGACCGTGGATCCAAC
* *
24694481 AATTAAAGATCTCATGGTTGCTTGACGACCGTGGATCCA
1 AATTGAGGATCTCATGGTTGCTTGACGACCGTGGATCCA
24694520 TCGGTGGCTT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
AATTGAGGATCTCATGGTTGCTTGACGACCGTGGATCCAAC
Found at i:24694701 original size:25 final size:25
Alignment explanation
Indices: 24694667--24694810 Score: 162
Period size: 25 Copynumber: 5.8 Consensus size: 25
24694657 TATTATTCTA
*
24694667 TTATCAATGGCTTTGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
24694692 TTATCGATGGCTTTGTACCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * **
24694717 ATATTGATGGCAATGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
24694742 TTATCGATGGCATTGTGCCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * * *
24694767 ATATTGATGGCTATGTGCTGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
*
24694792 TTATCGAAGGCTTTGTGCC
1 TTATCGATGGCTTTGTGCC
24694811 AAGTGTATTA
Statistics
Matches: 95, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 95 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (25 bp):
TTATCGATGGCTTTGTGCCGATCTG
Found at i:24694808 original size:50 final size:50
Alignment explanation
Indices: 24694673--24694810 Score: 222
Period size: 50 Copynumber: 2.8 Consensus size: 50
24694663 TCTATTATCA
* *
24694673 ATGGCTTTGTGCCGATCTGTTATCGATGGCTTTGTACCGATATGATATTG
1 ATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTG
* *
24694723 ATGGCAATGTGCCGATCTGTTATCGATGGCATTGTGCCGATATGATATTG
1 ATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTG
* *
24694773 ATGGCTATGTGCTGATCTGTTATCGAAGGCTTTGTGCC
1 ATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCC
24694811 AAGTGTATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (50 bp):
ATGGCTATGTGCCGATCTGTTATCGATGGCTTTGTGCCGATATGATATTG
Found at i:24697685 original size:26 final size:27
Alignment explanation
Indices: 24697645--24697718 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
24697635 CCTATAGGGT
*
24697645 AGAATTATTGAAATACCCTTGGTTTAC
1 AGAATTACTGAAATACCCTTGGTTTAC
*
24697672 AGAATTACTG-AATACTCTTGGTTTAC
1 AGAATTACTGAAATACCCTTGGTTTAC
* **
24697698 AAAATTACCAAAATACCCTTG
1 AGAATTACTGAAATACCCTTG
24697719 ATTTGGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 22 0.55
27 18 0.45
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (27 bp):
AGAATTACTGAAATACCCTTGGTTTAC
Found at i:24697728 original size:27 final size:27
Alignment explanation
Indices: 24697698--24697989 Score: 207
Period size: 27 Copynumber: 10.8 Consensus size: 27
24697688 CTTGGTTTAC
24697698 AAAATTACCAAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGG
* ** *
24697725 AAAATTAGCAAAATACCC-CCAGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGG
* * **
24697752 AAAATTACCCAAATACCCCT-AGTTTAT
1 AAAATTACCAAAATACCCTTGA-TTTGG
*
24697779 AAAATTACCAAAATACCCCTGATTTGTG
1 AAAATTACCAAAATACCCTTGATTTG-G
** * *
24697807 -AAATTACTGAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGG
* * *
24697833 AAAATTACCAACATACCCCTAATTTGG
1 AAAATTACCAAAATACCCTTGATTTGG
* *
24697860 AAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGG
* **
24697887 AAAATTA-TAGAAATACCCTTGATTTAC
1 AAAATTACCA-AAATACCCTTGATTTGG
* **
24697914 AAAATTA-CAGAAATACCATTGACTTTCA
1 AAAATTACCA-AAATACCCTTGA-TTTGG
* ** * *
24697942 AAAATTACAAAAATACAATTGGTTTGC
1 AAAATTACCAAAATACCCTTGATTTGG
* * *
24697969 AAAATTATCGAAATACTCTTG
1 AAAATTACCAAAATACCCTTG
24697990 GTCTGTAGAT
Statistics
Matches: 211, Mismatches: 46, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.00
27 188 0.89
28 21 0.10
29 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGG
Found at i:24697903 original size:54 final size:53
Alignment explanation
Indices: 24697697--24697989 Score: 232
Period size: 54 Copynumber: 5.4 Consensus size: 53
24697687 TCTTGGTTTA
* * *
24697697 CAAAATTACCAAAATACCCTTGATTTGGAAAATTAGCAAAATACCCC-CAGTTTG
1 CAAAATTA-CGAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGA-TTTG
* * * **
24697751 TAAAATTACCCAAATACCCCT-AGTTTATAAAATTACCAAAATACCCCTGATTTG
1 CAAAATTA-CGAAATACCCTTGA-TTTGGAAAATTACCAAAATACCCCTGATTTG
** * * * *
24697805 TGAAATTACTGAAATACCCTCGATTTGTAAAATTACCAACATACCCCTAATTTG
1 CAAAATTAC-GAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGATTTG
* * * *
24697859 GAAAATTATCGAAATACCCTTGATTTGGAAAATTA-TAGAAATACCCTTGATTTA
1 CAAAATTA-CGAAATACCCTTGATTTGGAAAATTACCA-AAATACCCCTGATTTG
* ** * *** *
24697913 CAAAATTACAGAAATACCATTGACTTTCAAAAATTACAAAAATACAATTGGTTTG
1 CAAAATTAC-GAAATACCCTTGA-TTTGGAAAATTACCAAAATACCCCTGATTTG
*
24697968 CAAAATTATCGAAATACTCTTG
1 CAAAATTA-CGAAATACCCTTG
24697990 GTCTGTAGAT
Statistics
Matches: 195, Mismatches: 34, Indels: 19
0.79 0.14 0.08
Matches are distributed among these distances:
53 4 0.02
54 146 0.75
55 43 0.22
56 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (53 bp):
CAAAATTACGAAATACCCTTGATTTGGAAAATTACCAAAATACCCCTGATTTG
Found at i:24697905 original size:81 final size:81
Alignment explanation
Indices: 24697693--24697930 Score: 272
Period size: 81 Copynumber: 2.9 Consensus size: 81
24697683 ATACTCTTGG
* *
24697693 TTTACAAAATTACCAAAATACCCTTGATTTGGAAAATTAGC-A-AAATACCC-CCAGTTTGTAAA
1 TTTAGAAAATTACCAAAATACCCTTGATTTGGAAAATTA-CTAGAAATACCCTCGA-TTTGTAAA
*
24697755 ATTACCCAAATACCCCTAG
64 ATTA-CCAAATACCCCTAA
* *
24697774 TTTATAAAATTACCAAAATACCCCTGATTTGTG-AAATTACT-GAAATACCCTCGATTTGTAAAA
1 TTTAGAAAATTACCAAAATACCCTTGATTTG-GAAAATTACTAGAAATACCCTCGATTTGTAAAA
24697837 TTACCAACATACCCCTAA
65 TTACCAA-ATACCCCTAA
* * * * **
24697855 TTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTA-TAGAAATACCCTTGATTTACAAAAT
1 TTTAGAAAATTACCAAAATACCCTTGATTTGGAAAATTACTAGAAATACCCTCGATTTGTAAAAT
*
24697919 TACAGAAATACC
66 TAC-CAAATACC
24697931 ATTGACTTTC
Statistics
Matches: 136, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
80 7 0.05
81 124 0.91
82 5 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
TTTAGAAAATTACCAAAATACCCTTGATTTGGAAAATTACTAGAAATACCCTCGATTTGTAAAAT
TACCAAATACCCCTAA
Found at i:24697972 original size:55 final size:54
Alignment explanation
Indices: 24697854--24697984 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 54
24697844 CATACCCCTA
* * ** * * **
24697854 ATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTATAGAAATACCCTTG
1 ATTTGCAAAATTATCGAAATACCATTGATTTCAAAAATTACAAAAATACAATTG
*
24697908 ATTTACAAAATTA-CAGAAATACCATTGACTTTCAAAAATTACAAAAATACAATTG
1 ATTTGCAAAATTATC-GAAATACCATTGA-TTTCAAAAATTACAAAAATACAATTG
*
24697963 GTTTGCAAAATTATCGAAATAC
1 ATTTGCAAAATTATCGAAATAC
24697985 TCTTGGTCTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.02
54 23 0.37
55 38 0.60
56 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (54 bp):
ATTTGCAAAATTATCGAAATACCATTGATTTCAAAAATTACAAAAATACAATTG
Found at i:24697991 original size:27 final size:26
Alignment explanation
Indices: 24697654--24697989 Score: 185
Period size: 27 Copynumber: 12.5 Consensus size: 26
24697644 TAGAATTATT
* * *
24697654 GAAATACCCTTGGTTTACAGAATTAC
1 GAAATACCCTTGATTTGCAAAATTAC
* * *
24697680 TG-AATACTCTTGGTTTACAAAATTACC
1 -GAAATACCCTTGATTTGCAAAATTA-C
* *
24697707 AAAATACCCTTGATTTGGAAAATTAGC
1 GAAATACCCTTGATTTGCAAAATTA-C
* ** *
24697734 AAAATACCC-CCAGTTTGTAAAATTACC
1 GAAATACCCTTGA-TTTGCAAAATTA-C
* * **
24697761 CAAATACCCCT-AGTTTATAAAATTACC
1 GAAATACCCTTGA-TTTGCAAAATTA-C
* * **
24697788 AAAATACCCCTGATTTGTGAAATTAC
1 GAAATACCCTTGATTTGCAAAATTAC
* *
24697814 TGAAATACCCTCGATTTGTAAAATTAC
1 -GAAATACCCTTGATTTGCAAAATTAC
* * * *
24697841 CAACATACCCCTAATTTGGAAAATTATC
1 GAA-ATACCCTTGATTTGCAAAATTA-C
* *
24697869 GAAATACCCTTGATTTGGAAAATTATA
1 GAAATACCCTTGATTTGCAAAATTA-C
*
24697896 GAAATACCCTTGATTTACAAAATTAC
1 GAAATACCCTTGATTTGCAAAATTAC
*
24697922 AGAAATACCATTGACTTT-CAAAAATTAC
1 -GAAATACCCTTGA-TTTGC-AAAATTAC
* ** *
24697950 AAAAATACAATTGGTTTGCAAAATTATC
1 -GAAATACCCTTGATTTGCAAAATTA-C
*
24697978 GAAATACTCTTG
1 GAAATACCCTTG
24697990 GTCTGTAGAT
Statistics
Matches: 255, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 25 0.10
27 202 0.79
28 28 0.11
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
GAAATACCCTTGATTTGCAAAATTAC
Found at i:24698313 original size:41 final size:41
Alignment explanation
Indices: 24698254--24698373 Score: 145
Period size: 41 Copynumber: 2.9 Consensus size: 41
24698244 GGATGAAGAA
* *
24698254 ATTGAGGATCGCAAGGTTGCTTGACGATCC-TGGATCCAACG
1 ATTGAGGATCGCATGGTTGCTTGACGA-CCGTGGATCCAACC
* *
24698295 ATTGAGGATCGCATGGTTGTTTGATGACCGTGGATCC-ACC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAACC
* * *
24698335 AGTTAAAGATCGCATGGTTACTTGACGACCGTGGATCCA
1 A-TTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
24698374 TCGGTGGCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
40 5 0.07
41 62 0.93
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAACC
Found at i:24698555 original size:25 final size:25
Alignment explanation
Indices: 24698521--24698661 Score: 130
Period size: 25 Copynumber: 5.8 Consensus size: 25
24698511 AATTATTCTA
*
24698521 TTATCAATGGCTTTGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
*
24698546 TTATCGATGGCTTTGTACCGA----
1 TTATCGATGGCTTTGTGCCGATCTG
* ** *
24698567 -TATTGATGGCAATGTGTCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
24698591 TTATCGATGGCATTGTGCCGATATG
1 TTATCGATGGCTTTGTGCCGATCTG
* * *
24698616 ATATTGATGGCTATGTGCCGATCTG
1 TTATCGATGGCTTTGTGCCGATCTG
* *
24698641 TTATCGATGCCTTTGTACCGA
1 TTATCGATGGCTTTGTGCCGA
24698662 GCGTATTATC
Statistics
Matches: 90, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
20 15 0.17
25 75 0.83
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.38
Consensus pattern (25 bp):
TTATCGATGGCTTTGTGCCGATCTG
Found at i:24698640 original size:50 final size:45
Alignment explanation
Indices: 24698527--24698661 Score: 162
Period size: 50 Copynumber: 2.9 Consensus size: 45
24698517 TCTATTATCA
* *
24698527 ATGGCTTTGTGCCGATCTGTTATCGATGGCTTTGTACCGATATTG
1 ATGGCTATGTGCCGATCTGTTATCGATGGCATTGTACCGATATTG
* * *
24698572 ATGGCAATGTGTCGATCTGTTATCGATGGCATTGTGCCGATATGATATTG
1 ATGGCTATGTGCCGATCTGTTATCGATGGCATTGTACC-----GATATTG
* *
24698622 ATGGCTATGTGCCGATCTGTTATCGATGCCTTTGTACCGA
1 ATGGCTATGTGCCGATCTGTTATCGATGGCATTGTACCGA
24698662 GCGTATTATC
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
45 35 0.47
50 40 0.53
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.37
Consensus pattern (45 bp):
ATGGCTATGTGCCGATCTGTTATCGATGGCATTGTACCGATATTG
Found at i:24701507 original size:27 final size:27
Alignment explanation
Indices: 24701475--24701573 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 27
24701465 AATCTCATAT
* * *
24701475 CTGTAGGCTAGTATTACTAAAATATCC
1 CTGTAGGATAGAATTACTAAAATACCC
* *
24701502 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGATAGAATTACTAAAATACCC
* *
24701529 CTATAGGATAGAATTACTAAAATGCCC
1 CTGTAGGATAGAATTACTAAAATACCC
* * *
24701556 CTATAGGGTAAAATTACT
1 CTGTAGGATAGAATTACT
24701574 GAATACCTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTAAAATACCC
Found at i:24701571 original size:54 final size:53
Alignment explanation
Indices: 24701478--24701580 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 53
24701468 CTCATATCTG
* * * * *
24701478 TAGGCTAGTATTACTAAAATATCCCTGTAGGGTAGAATTACTGAAATACCCCTA
1 TAGGATAGAATTACTAAAATACCCCTATAGGGTAAAATTACTG-AATACCCCTA
*
24701532 TAGGATAGAATTACTAAAATGCCCCTATAGGGTAAAATTACTGAATACC
1 TAGGATAGAATTACTAAAATACCCCTATAGGGTAAAATTACTGAATACC
24701581 TATAGTTTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (53 bp):
TAGGATAGAATTACTAAAATACCCCTATAGGGTAAAATTACTGAATACCCCTA
Found at i:24701651 original size:27 final size:27
Alignment explanation
Indices: 24701591--24701854 Score: 187
Period size: 27 Copynumber: 9.8 Consensus size: 27
24701581 TATAGTTTAC
* *
24701591 AAAATTACCAAAATAATCC-TGGTTTGT
1 AAAATTACCAAAAT-ACCCTTGATTTGT
* * *
24701618 AAGATTACCTAAATACCCTTGATTTTT
1 AAAATTACCAAAATACCCTTGATTTGT
* ** *
24701645 GAAATTACCAAAAT-GTCTCGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* *
24701671 AAAATTACCAAAATACCCCTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
24701698 AAAATTACCGAAATACCTTTGATTTGA
1 AAAATTACCAAAATACCCTTGATTTGT
* **
24701725 AAAATTA-CAGAAATACCCTTAATTTAC
1 AAAATTACCA-AAATACCCTTGATTTGT
* **
24701752 AAAATTA-TAGAAATACCCTTGACTTTCA
1 AAAATTACCA-AAATACCCTTGA-TTTGT
* * *
24701780 AAAATTA-CAGAAATACCTTTGGTTTGC
1 AAAATTACCA-AAATACCCTTGATTTGT
* * *
24701807 AAAATTACCGAAATACCTTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
24701834 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
24701855 TAGGGTAAAG
Statistics
Matches: 189, Mismatches: 43, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
26 25 0.13
27 141 0.75
28 23 0.12
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGT
Found at i:24701730 original size:80 final size:81
Alignment explanation
Indices: 24701586--24701823 Score: 212
Period size: 80 Copynumber: 2.9 Consensus size: 81
24701576 ATACCTATAG
** * * * * * ***
24701586 TTTACAAAATTACCAAAATAATCCTGGTTTGTAAGATTACCTAAATACCCTTGATTTTTGAAATT
1 TTTACAAAATTACCAAAATACCCCTGATTTGAAAAATTACCGAAATACCTTTGATTTGAAAAATT
** *
24701651 ACCAAAAT-GTCTCGA
66 ACCAAAATACCCTCAA
** *
24701666 TTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTACCGAAATACCTTTGATTTGAAAAATT
1 TTTACAAAATTACCAAAATACCCCTGATTTGAAAAATTACCGAAATACCTTTGATTTGAAAAATT
*
24701731 A-CAGAAATACCCTTAA
66 ACCA-AAATACCCTCAA
* * * * * *
24701747 TTTACAAAATTA-TAGAAATACCCTTGACTTTCAAAAATTACAGAAATACCTTTGGTTTGCAAAA
1 TTTACAAAATTACCA-AAATACCCCTGA-TTTGAAAAATTACCGAAATACCTTTGATTTGAAAAA
*
24701811 TTACCGAAATACC
64 TTACCAAAATACC
24701824 TTTGGTTTGT
Statistics
Matches: 127, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.02
80 59 0.46
81 24 0.19
82 41 0.32
83 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTGATTTGAAAAATTACCGAAATACCTTTGATTTGAAAAATT
ACCAAAATACCCTCAA
Found at i:24701741 original size:54 final size:54
Alignment explanation
Indices: 24701628--24701832 Score: 207
Period size: 54 Copynumber: 3.8 Consensus size: 54
24701618 AAGATTACCT
*** * ** * *
24701628 AAATACCCTTGATTTTTGAAATTACCAAAATGTC-TCGATTTGTAAAATTACCA-
1 AAATACCCTTGATTTGCAAAATTACCGAAATACCTTTGATTTGAAAAATTA-CAG
* *
24701681 AAATACCCCTGATTTGGAAAATTACCGAAATACCTTTGATTTGAAAAATTACAG
1 AAATACCCTTGATTTGCAAAATTACCGAAATACCTTTGATTTGAAAAATTACAG
* * ** * *
24701735 AAATACCCTTAATTTACAAAATTATAGAAATACCCTTGACTTTCAAAAATTACAG
1 AAATACCCTTGATTTGCAAAATTACCGAAATACCTTTGA-TTTGAAAAATTACAG
* * *
24701790 AAATACCTTTGGTTTGCAAAATTACCGAAATACCTTTGGTTTG
1 AAATACCCTTGATTTGCAAAATTACCGAAATACCTTTGATTTG
24701833 TAGATTTACC
Statistics
Matches: 123, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
53 29 0.24
54 49 0.40
55 45 0.37
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (54 bp):
AAATACCCTTGATTTGCAAAATTACCGAAATACCTTTGATTTGAAAAATTACAG
Found at i:24701796 original size:55 final size:54
Alignment explanation
Indices: 24701671--24701823 Score: 191
Period size: 55 Copynumber: 2.8 Consensus size: 54
24701661 CTCGATTTGT
* * * *
24701671 AAAATTACCA-AAATACCCCTGATTTGGAAAATTACCGAAATACCTTTGATTTGA
1 AAAATTA-CAGAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTGATTTCA
* * **
24701725 AAAATTACAGAAATACCCTTAATTTACAAAATTATAGAAATACCCTTGACTTTCA
1 AAAATTACAGAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTGA-TTTCA
* *
24701780 AAAATTACAGAAATACCTTTGGTTTGCAAAATTACCGAAATACC
1 AAAATTACAGAAATACCCTTGATTTGCAAAATTACCGAAATACC
24701824 TTTGGTTTGT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.02
54 39 0.47
55 42 0.51
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACAGAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTGATTTCA
Found at i:24701852 original size:82 final size:81
Alignment explanation
Indices: 24701665--24701854 Score: 211
Period size: 82 Copynumber: 2.3 Consensus size: 81
24701655 AAATGTCTCG
* ** *
24701665 ATTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTACCGAAATACCTTTGATTTGAAAAAT
1 ATTTGTAAAATTACCAAAATACCCTTGATTTCAAAAATTACAGAAATACCTTTGATTTGAAAAAT
24701730 TACAGAAATACCCTTA
66 TACAGAAATACCCTTA
** * * *
24701746 ATTTACAAAATTA-TAGAAATACCCTTGACTTTCAAAAATTACAGAAATACCTTTGGTTTGCAAA
1 ATTTGTAAAATTACCA-AAATACCCTTGA-TTTCAAAAATTACAGAAATACCTTTGATTTGAAAA
* * *
24701810 ATTACCGAAATACCTTTG
64 ATTACAGAAATACCCTTA
* * * *
24701828 GTTTGTAGATTTACCAAAACACCCTTG
1 ATTTGTAAAATTACCAAAATACCCTTG
24701855 TAGGGTAAAG
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
80 1 0.01
81 22 0.25
82 63 0.72
83 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (81 bp):
ATTTGTAAAATTACCAAAATACCCTTGATTTCAAAAATTACAGAAATACCTTTGATTTGAAAAAT
TACAGAAATACCCTTA
Found at i:24702335 original size:50 final size:50
Alignment explanation
Indices: 24702271--24702496 Score: 389
Period size: 50 Copynumber: 4.5 Consensus size: 50
24702261 AGCAAATTAT
*
24702271 TCTGTTATCAATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
*
24702321 TCTGTTATCGATGGCTTTGTGCCAATATGATATTGATGGCTATGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
* *
24702371 TCTGTTATCGATGGCTTTATGCCGATATGATATTGATGGCTATGTGTCGA
1 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
* **
24702421 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGACTATGTATCGA
1 TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
24702471 TCTGTTATCGATGGCTTTGTGCCGAT
1 TCTGTTATCGATGGCTTTGTGCCGAT
24702497 CGTATTATCG
Statistics
Matches: 168, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 168 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.39
Consensus pattern (50 bp):
TCTGTTATCGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGA
Found at i:24702497 original size:25 final size:25
Alignment explanation
Indices: 24702271--24702506 Score: 247
Period size: 25 Copynumber: 9.4 Consensus size: 25
24702261 AGCAAATTAT
*
24702271 TCTGTTATCAATGGCTTTGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * *
24702296 TATGATATTGATGGCTATGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
*
24702321 TCTGTTATCGATGGCTTTGTGCCAA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * *
24702346 TATGATATTGATGGCTATGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
*
24702371 TCTGTTATCGATGGCTTTATGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * * *
24702396 TATGATATTGATGGCTATGTGTCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
24702421 TCTGTTATCGATGGCTTTGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * * * **
24702446 TATGATATTGATGACTATGTATCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
24702471 TCTGTTATCGATGGCTTTGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
*
24702496 TCGTATTATCG
1 TC-TGTTATCG
24702507 TAATAATGTC
Statistics
Matches: 164, Mismatches: 46, Indels: 1
0.78 0.22 0.00
Matches are distributed among these distances:
25 157 0.96
26 7 0.04
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.39
Consensus pattern (25 bp):
TCTGTTATCGATGGCTTTGTGCCGA
Found at i:24708376 original size:43 final size:41
Alignment explanation
Indices: 24708298--24708378 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 41
24708288 GTTGAAATTA
*
24708298 CGTGTAAGACCATATCTGGATATGGCATCGATATGAGACTT
1 CGTGTAAGACCATAGCTGGATATGGCATCGATATGAGACTT
*
24708339 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGA
1 CGTGTAAGACCATAGCT-GGATA-TGGCATCGATATGAGA
24708379 TCCCATGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 16 0.44
42 4 0.11
43 16 0.44
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (41 bp):
CGTGTAAGACCATAGCTGGATATGGCATCGATATGAGACTT
Found at i:24708388 original size:43 final size:42
Alignment explanation
Indices: 24708300--24708406 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
24708290 TGAAATTACG
* *
24708300 TGTAAGACCATATCT-GGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTCCA
* *
24708341 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACT-CCA
*
24708384 TGTAAGACCTTATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
24708407 ACATTGGCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
41 14 0.25
42 7 0.12
43 35 0.62
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTCCA
Found at i:24708521 original size:20 final size:20
Alignment explanation
Indices: 24708493--24708539 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
24708483 CAGCAAAGTT
24708493 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
24708513 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
24708533 TAAGTTG
1 TAAGTTG
24708540 CAAGTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:24719362 original size:43 final size:42
Alignment explanation
Indices: 24719293--24719373 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
24719283 AATGGCAACA
** *
24719293 TCCCAGACGTAGTCTTACTTGTAATCAAATATCGATGCCTCTG
1 TCCCAGACGTAGTCTTACACGAAATCAAATAT-GATGCCTCTG
24719336 TCCCAGACAG-AGTCTTACACGAAATCAAATATGATGCC
1 TCCCAGAC-GTAGTCTTACACGAAATCAAATATGATGCC
24719374 AACATCCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 6 0.18
43 27 0.79
44 1 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
TCCCAGACGTAGTCTTACACGAAATCAAATATGATGCCTCTG
Found at i:24724871 original size:49 final size:49
Alignment explanation
Indices: 24724814--24725001 Score: 270
Period size: 49 Copynumber: 3.8 Consensus size: 49
24724804 TAGACAAGGC
* *
24724814 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
24724863 TATCTGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* *
24724914 TATC-GAGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTG-GTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
*
24724963 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
24725002 CCTGACCTCA
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
49 77 0.62
50 8 0.06
51 39 0.31
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:24724954 original size:100 final size:100
Alignment explanation
Indices: 24724820--24725002 Score: 330
Period size: 100 Copynumber: 1.8 Consensus size: 100
24724810 AGGCTATCTG
* *
24724820 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
*
24724885 GCACTTAGTATTACACACGTGATCGAAGTTATCGA
66 GCACTTAGTACTACACACGTGATCGAAGTTATCGA
*
24724920 GTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
24724985 GCACTTAGTACTACACAC
66 GCACTTAGTACTACACAC
24725003 CTGACCTCAC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTTATCGA
Found at i:24725271 original size:27 final size:27
Alignment explanation
Indices: 24725231--24725284 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24725221 AGGTACAACC
* *
24725231 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
24725258 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
24725285 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:24728393 original size:40 final size:40
Alignment explanation
Indices: 24728319--24728490 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
24728309 TGATAACCGA
* *
24728319 CTAAGATCCGAAGGCATTCATGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCGGG
* * * *
24728359 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTG-CTATATCCGGG
* *
24728399 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATTCGGG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCGGG
* *
24728439 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCGGG
24728478 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
24728491 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 97 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTATGCGAGTTGCTATATCCGGG
Found at i:24745702 original size:14 final size:15
Alignment explanation
Indices: 24745683--24745711 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24745673 TCACGAAAAT
24745683 TTCACACAT-ATAAA
1 TTCACACATAATAAA
24745697 TTCACACATAATAAA
1 TTCACACATAATAAA
24745712 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:24750748 original size:40 final size:40
Alignment explanation
Indices: 24750650--24750912 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
24750640 TCCTCGTTCA
* * * * *
24750650 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
24750689 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24750729 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24750769 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24750809 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
24750849 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24750889 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24750913 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24758051 original size:40 final size:40
Alignment explanation
Indices: 24757961--24758223 Score: 318
Period size: 40 Copynumber: 6.6 Consensus size: 40
24757951 TCCTCGTTCA
* * * * *
24757961 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
24758000 AATGCCTTCGGGA-TATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACT-TAACCCGGATTTAATAACTCGCACG
24758040 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24758080 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24758120 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
24758160 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24758200 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24758224 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 35 0.18
40 154 0.78
41 9 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24772182 original size:43 final size:42
Alignment explanation
Indices: 24772070--24772182 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 42
24772060 GAGATTTACG
* * * *
24772070 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTAAATTCG
1 TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTAAATACA
* * *
24772112 TGTAAGACC-CTATCTGGGACAG-AGGCATCG-ATACTGAATGACA
1 TGTAAGACCAC-GTCTGGGAC-GTCGGCATCGTAT-CTAAAT-ACA
24772155 TGTAAGACCACGTCTGGGACGTCGGCAT
1 TGTAAGACCACGTCTGGGACGTCGGCAT
24772183 TGTACCTGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.04
42 30 0.54
43 23 0.41
44 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTCGGCATCGTATCTAAATACA
Found at i:24775058 original size:40 final size:40
Alignment explanation
Indices: 24774939--24775160 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
24774929 TTGAATGCTG
* * * * *
24774939 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * *
24774979 TCCGGACTAAGAT-CCGAAGGC-TTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
24775018 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
24775058 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
24775098 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
24775137 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24775161 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 56 0.35
40 103 0.64
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:24775075 original size:79 final size:79
Alignment explanation
Indices: 24774939--24775162 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 79
24774929 TTGAATGCTG
* * * * * *
24774939 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGC-TT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
24775002 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
24775018 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
24775083 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
24775098 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
24775163 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 81 0.65
80 42 0.34
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:24775180 original size:79 final size:80
Alignment explanation
Indices: 24775013--24775195 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 80
24775003 GTGCGAGATA
* * *
24775013 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
24775078 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
24775093 TTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
24775157 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
24775172 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
24775196 TACGTGATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 15 0.17
79 46 0.52
80 28 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:24782424 original size:40 final size:40
Alignment explanation
Indices: 24782298--24782520 Score: 220
Period size: 40 Copynumber: 5.6 Consensus size: 40
24782288 TTGAATGCTG
* * * * * *
24782298 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
24782338 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
24782378 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
24782418 -CTCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TC-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
24782458 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
24782497 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24782521 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 36 0.23
40 114 0.72
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:24787117 original size:40 final size:37
Alignment explanation
Indices: 24787038--24787168 Score: 156
Period size: 40 Copynumber: 3.4 Consensus size: 37
24787028 CATTTGTGGT
24787038 GCTAAGTCCCGAA-GCATTGTGCGAGTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTGTGCGAGTACTATAT-CGG
24787075 GCTAAGTCCCGAAGGCATTGGTGCGAGCTACTATATCTGG
1 GCTAAGTCCCGAAGGCATT-GTGCGAG-TACTATATC-GG
* * *
24787115 GCTAAGTCCCAAAGGCATTTGAGCGAGTACCTATATCCG
1 GCTAAGTCCCGAAGGCA-TTGTGCGAGTA-CTATATCGG
* *
24787154 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
24787169 TACTTGGTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
37 13 0.16
38 5 0.06
39 23 0.28
40 39 0.48
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (37 bp):
GCTAAGTCCCGAAGGCATTGTGCGAGTACTATATCGG
Found at i:24795302 original size:40 final size:40
Alignment explanation
Indices: 24795258--24795502 Score: 343
Period size: 40 Copynumber: 6.2 Consensus size: 40
24795248 CGGATGATAA
* * * *
24795258 CGAAGGCATTTATGCTAGTGACTA-ATTTCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
*
24795298 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCT
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
24795338 CGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
24795378 CGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
24795418 CGAAGGCATTGGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
24795458 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
24795497 CGAAGG
1 CGAAGG
24795503 TACTTGGTTT
Statistics
Matches: 187, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.09
40 170 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:24800884 original size:24 final size:24
Alignment explanation
Indices: 24800826--24800898 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
24800816 GGAGGAAGTG
*
24800826 CAAAAG-GGCTTTGCTCCAGTTTAT
1 CAAAAGAGGCTTTGCCCCAG-TTAT
24800850 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
24800874 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
24800899 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 20 0.49
25 21 0.51
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:24801129 original size:31 final size:31
Alignment explanation
Indices: 24801089--24801174 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 31
24801079 ATCATTTATA
*
24801089 GTAAAGGCTTCAGCCCAGTGATATGAACAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAACAAT
* *
24801120 G-AAAGGGCTTCGGCCCAGTGACATGAATAAT
1 GTAAA-GGCTTCGGCCCAGTGATATGAACAAT
24801151 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGGCCCAGTGATATG
24801175 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 7 0.14
31 39 0.80
32 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTGATATGAACAAT
Found at i:24803252 original size:3 final size:3
Alignment explanation
Indices: 24803244--24803274 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
24803234 TGTTTCTGAA
24803244 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24803275 GTAATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:24804326 original size:14 final size:14
Alignment explanation
Indices: 24804307--24804333 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24804297 TTAGCTGTTC
24804307 TCTTTCTTCTTCTT
1 TCTTTCTTCTTCTT
24804321 TCTTTCTTCTTCT
1 TCTTTCTTCTTCT
24804334 CTAGCCGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TCTTTCTTCTTCTT
Found at i:24805916 original size:31 final size:31
Alignment explanation
Indices: 24805878--24805961 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
24805868 CATTTACAGT
*
24805878 AAAGGCTTCAGCCTAGTGATATGAACAAT-G
1 AAAGGCTTCGGCCTAGTGATATGAACAATGG
* * * *
24805908 AAATGGCTTTGGCCAAGTGACATGAATAATGG
1 AAA-GGCTTCGGCCTAGTGATATGAACAATGG
24805940 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCTAGTGATATG
24805962 CTGAGATTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 7 0.16
31 33 0.75
32 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCTAGTGATATGAACAATGG
Found at i:24810297 original size:25 final size:25
Alignment explanation
Indices: 24810251--24810300 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
24810241 TTATAATACG
* *
24810251 AAAAATGACTATTTCTCTCCTAGGT
1 AAAAATGACCATTTCTCCCCTAGGT
24810276 AAAAATGACCATTT-TACCCCTAGGT
1 AAAAATGACCATTTCT-CCCCTAGGT
24810301 TTTAATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (25 bp):
AAAAATGACCATTTCTCCCCTAGGT
Found at i:24810444 original size:25 final size:25
Alignment explanation
Indices: 24810413--24810481 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
24810403 AGAAAGTGCC
*
24810413 AAAGGGCTTTGCGCCAGTTTATCAA
1 AAAGGGCTTTGCCCCAGTTTATCAA
*
24810438 AAAGGGCTTTGCCCCACTTTATCAA
1 AAAGGGCTTTGCCCCAGTTTATCAA
24810463 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
24810482 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAA
Found at i:24810756 original size:31 final size:31
Alignment explanation
Indices: 24810705--24810841 Score: 166
Period size: 31 Copynumber: 4.4 Consensus size: 31
24810695 TACAGTAAAG
* *
24810705 GCTTCGGCCTAGTGATATGAACAATGAAAAA
1 GCTTCGGCCCAGTGACATGAACAATGAAAAA
* * * *
24810736 GCTTTGGCCCAGTGACATGAATAATGTAAAG
1 GCTTCGGCCCAGTGACATGAACAATGAAAAA
*
24810767 GCTTCGGCCCAGTGATATGAACAATGAAAAA
1 GCTTCGGCCCAGTGACATGAACAATGAAAAA
* * * * *
24810798 GCTTTGGCTCAGTGACATGAATAATGTAAAG
1 GCTTCGGCCCAGTGACATGAACAATGAAAAA
24810829 GCTTCGGCCCAGT
1 GCTTCGGCCCAGT
24810842 ATATGCTGAG
Statistics
Matches: 87, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 87 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (31 bp):
GCTTCGGCCCAGTGACATGAACAATGAAAAA
Found at i:24810796 original size:62 final size:62
Alignment explanation
Indices: 24810699--24810846 Score: 271
Period size: 62 Copynumber: 2.4 Consensus size: 62
24810689 GTCGTTTACA
*
24810699 GTAAAGGCTTCGGCCTAGTGATATGAACAATGAAAAAGCTTTGGCCCAGTGACATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAACAATGAAAAAGCTTTGGCCCAGTGACATGAATAAT
*
24810761 GTAAAGGCTTCGGCCCAGTGATATGAACAATGAAAAAGCTTTGGCTCAGTGACATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAACAATGAAAAAGCTTTGGCCCAGTGACATGAATAAT
24810823 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGGCCCAGTGATATG
24810847 CTGAGATTGA
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
61 5 0.06
62 79 0.94
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (62 bp):
GTAAAGGCTTCGGCCCAGTGATATGAACAATGAAAAAGCTTTGGCCCAGTGACATGAATAAT
Found at i:24812273 original size:37 final size:37
Alignment explanation
Indices: 24812214--24812320 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
24812204 AGCTCAGACG
* *
24812214 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
* *
24812251 AAATCTCCACACGTAGTCATCGGGTCTTACCGGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
*
24812288 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
24812321 GAATATATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
Found at i:24812643 original size:48 final size:48
Alignment explanation
Indices: 24812469--24812652 Score: 300
Period size: 47 Copynumber: 3.8 Consensus size: 48
24812459 GCACATCGCC
*
24812469 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
24812519 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
24812567 TACAT-TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
24812614 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
24812653 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 44 0.35
48 39 0.31
49 1 0.01
50 42 0.33
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:24812657 original size:97 final size:97
Alignment explanation
Indices: 24812469--24812651 Score: 309
Period size: 97 Copynumber: 1.9 Consensus size: 97
24812459 GCACATCGCC
*
24812469 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
24812534 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
24812567 TACAT-TTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
24812629 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
24812652 ATGCATGTTC
Statistics
Matches: 82, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
94 1 0.01
95 36 0.44
97 40 0.49
98 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:24812683 original size:95 final size:94
Alignment explanation
Indices: 24812485--24812780 Score: 318
Period size: 94 Copynumber: 3.1 Consensus size: 94
24812475 TTTCACACTA
*
24812485 GCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGACCATTCGGCTTTAC
1 GCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTG-CCATTCGGCTTTAC
* * *
24812550 CAC--ATATGCATATCTCATACATT-TTCACATTA
63 CACATATATGCATGT-TCAT--ATTCATCACATTG
24812582 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
1 GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATT-GCCATTCGGCTTTACCA
*
24812647 CATATATGCATGTTCATATTCACCACATTG
65 CATATATGCATGTTCATATTCATCACATTG
* * * * * * *
24812677 GACATTCGGCCTTATCACACATATGCAT-GCTC--ACAT-TCATCACATTGGTCATTCGGCCTTA
1 GCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATT-GCCATTCGGCTTTA
* *
24812738 TCACATATATGCATGTTCACATTCATCACATTG
62 CCACATATATGCATGTTCATATTCATCACATTG
24812771 GCCATTCGGC
1 GCCATTCGGC
24812781 CTTATCTCAT
Statistics
Matches: 175, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
93 1 0.01
94 65 0.37
95 50 0.29
96 9 0.05
97 50 0.29
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.34
Consensus pattern (94 bp):
GCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTGCCATTCGGCTTTACCAC
ATATATGCATGTTCATATTCATCACATTG
Found at i:24812701 original size:47 final size:47
Alignment explanation
Indices: 24812622--24812815 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
24812612 CATACATATT
* * * *
24812622 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
24812669 CCACATTGGACATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
24812716 TCACATTGGTCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
24812763 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
24812810 TCACAT
1 TCACAT
24812816 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:24815773 original size:22 final size:22
Alignment explanation
Indices: 24815748--24815794 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
24815738 TTTATTAAAT
*
24815748 CACCACCATTGAACCACCATAC
1 CACCACCATAGAACCACCATAC
* *
24815770 CACCACCCTAGCACCACCATAC
1 CACCACCATAGAACCACCATAC
24815792 CAC
1 CAC
24815795 TACCCTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.51, G:0.04, T:0.11
Consensus pattern (22 bp):
CACCACCATAGAACCACCATAC
Found at i:24815774 original size:11 final size:11
Alignment explanation
Indices: 24815760--24815794 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
24815750 CCACCATTGA
24815760 ACCACCATACC
1 ACCACCATACC
* *
24815771 ACCACCCTAGC
1 ACCACCATACC
24815782 ACCACCATACC
1 ACCACCATACC
24815793 AC
1 AC
24815795 TACCCTTACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.54, G:0.03, T:0.09
Consensus pattern (11 bp):
ACCACCATACC
Found at i:24815799 original size:22 final size:22
Alignment explanation
Indices: 24815760--24815809 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
24815750 CCACCATTGA
24815760 ACCACCATACCACCACCC-TAGC
1 ACCACCATACCACCACCCTTA-C
*
24815782 ACCACCATACCACTACCCTTAC
1 ACCACCATACCACCACCCTTAC
24815804 ACCACC
1 ACCACC
24815810 TTGAAAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.32, C:0.54, G:0.02, T:0.12
Consensus pattern (22 bp):
ACCACCATACCACCACCCTTAC
Found at i:24832079 original size:40 final size:40
Alignment explanation
Indices: 24832027--24832351 Score: 409
Period size: 40 Copynumber: 7.8 Consensus size: 40
24832017 ATTACCACAA
* * ** *
24832027 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
24832067 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
24832107 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
24832149 GCACAAATG-CTTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTT-CGGGTCTTAGCCCGGATATATCAACTC
*
24832189 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
24832229 GCACAAATGCCTGCGGGTCTGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAA----TGC----CT---T-CGGGTCTTAGCCCGGATATATCAACTC
*
24832281 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
24832321 GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
24832352 AAATTCAAAT
Statistics
Matches: 253, Mismatches: 16, Indels: 32
0.84 0.05 0.11
Matches are distributed among these distances:
40 170 0.67
41 5 0.02
42 34 0.13
44 5 0.02
48 5 0.02
52 34 0.13
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:24832253 original size:12 final size:12
Alignment explanation
Indices: 24832236--24832260 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24832226 CTCGCACAAA
24832236 TGCCTGCGGGTC
1 TGCCTGCGGGTC
24832248 TGCCTGCGGGTC
1 TGCCTGCGGGTC
24832260 T
1 T
24832261 TAGCCCGGAT
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:0.00, C:0.32, G:0.40, T:0.28
Consensus pattern (12 bp):
TGCCTGCGGGTC
Found at i:24832274 original size:52 final size:52
Alignment explanation
Indices: 24832196--24832300 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
24832186 CTCGCACAAA
24832196 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTC
1 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTC
24832248 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTC
1 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTC
24832300 T
1 T
24832301 TAGCCCGGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (52 bp):
TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTC
Found at i:24832317 original size:92 final size:92
Alignment explanation
Indices: 24832160--24832337 Score: 347
Period size: 92 Copynumber: 1.9 Consensus size: 92
24832150 CACAAATGCT
24832160 TGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCA
1 TGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCA
24832225 ACTCGCACAAATGCCTGCGGGTCTGCC
66 ACTCGCACAAATGCCTGCGGGTCTGCC
24832252 TGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCA
1 TGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCA
*
24832317 ACTCGCACAAATGCCTTCGGG
66 ACTCGCACAAATGCCTGCGGG
24832338 ACTTAGCCCG
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (92 bp):
TGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCA
ACTCGCACAAATGCCTGCGGGTCTGCC
Found at i:24840775 original size:40 final size:40
Alignment explanation
Indices: 24840723--24840955 Score: 349
Period size: 40 Copynumber: 5.8 Consensus size: 40
24840713 ATTACCACAA
* * ** *
24840723 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
24840763 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
24840803 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
24840845 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
24840885 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
24840925 GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
24840956 AAATTCAAAT
Statistics
Matches: 177, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 140 0.79
42 37 0.21
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:24840874 original size:82 final size:80
Alignment explanation
Indices: 24840723--24840955 Score: 358
Period size: 82 Copynumber: 2.9 Consensus size: 80
24840713 ATTACCACAA
* ** * *
24840723 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
24840788 CGGATATATCAACTT
66 CGGATATATCAACTC
*
24840803 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCACAAATGCCTTCGGGTCTTAG
24840868 CCCGGATATATCAACTC
64 CCCGGATATATCAACTC
* * *
24840885 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGACTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
24840950 CGGATA
66 CGGATA
24840956 AAATTCAAAT
Statistics
Matches: 140, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
80 68 0.49
82 72 0.51
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (80 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTC
Found at i:24840940 original size:122 final size:122
Alignment explanation
Indices: 24840723--24840955 Score: 367
Period size: 122 Copynumber: 1.9 Consensus size: 122
24840713 ATTACCACAA
* * * * *
24840723 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
* * *
24840788 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATATATCAACTC
* * *
24840845 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
24840910 CGGATATATCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
66 CGGATATATCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
24840956 AAATTCAAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
122 100 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (122 bp):
GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATATATCAACTC
Found at i:24851181 original size:24 final size:24
Alignment explanation
Indices: 24851121--24851182 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
24851111 AAATGGTGCT
* *
24851121 AAGTGAAATAAGACCATGGCATCT
1 AAGTGAAATAAGTCCATGGCATCA
24851145 AAGTGAAATAAGTCCATGGCATCA
1 AAGTGAAATAAGTCCATGGCATCA
24851169 AAGTGAAATAAGTC
1 AAGTGAAATAAGTC
24851183 AAGGCATTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (24 bp):
AAGTGAAATAAGTCCATGGCATCA
Found at i:24851285 original size:51 final size:51
Alignment explanation
Indices: 24851225--24851422 Score: 328
Period size: 51 Copynumber: 3.9 Consensus size: 51
24851215 TGAACCTTAG
24851225 GAAT-AAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
24851275 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
24851326 GAATAAAATAGCTTTGGACACAAGTGTGGTACTAGGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
24851377 GAATAAAATAGCTTTGG-CTACAAGGGTGGAACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
24851423 CCTATATCCG
Statistics
Matches: 138, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
50 5 0.04
51 133 0.96
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:24855609 original size:27 final size:27
Alignment explanation
Indices: 24855579--24855757 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
24855569 ATATTGAGCC
* * * *
24855579 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAGTCATAT
* * *
24855606 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCATAT
*
24855633 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCATA-T
** *
24855661 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTACATAGTCATA-T
* *
24855688 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCATAT
*
24855715 CGCACACTTAGTGCAACATAGTCATAT
1 CGCACACTTAGTGCTACATAGTCATAT
24855742 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
24855758 TACAATTTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCATAT
Found at i:24855718 original size:82 final size:81
Alignment explanation
Indices: 24855605--24855755 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
24855595 TATAATCATC
* *
24855605 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
24855670 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* ** *
24855687 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
24855751 AGTGC
65 AGTGC
24855756 TATACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:24856325 original size:13 final size:13
Alignment explanation
Indices: 24856307--24856331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24856297 TACTAAATTT
24856307 TCATGGATTCAAG
1 TCATGGATTCAAG
24856320 TCATGGATTCAA
1 TCATGGATTCAA
24856332 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:24863345 original size:27 final size:27
Alignment explanation
Indices: 24863315--24863493 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
24863305 ATATTGAGCC
* * * *
24863315 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAGTCATAT
* * *
24863342 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCATAT
*
24863369 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCATA-T
** *
24863397 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTACATAGTCATA-T
* *
24863424 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCATAT
*
24863451 CGCACACTTAGTGCAACATAGTCATAT
1 CGCACACTTAGTGCTACATAGTCATAT
24863478 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
24863494 TACAATTTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCATAT
Found at i:24863454 original size:82 final size:81
Alignment explanation
Indices: 24863341--24863491 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
24863331 TATAATCATC
* *
24863341 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
24863406 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* ** *
24863423 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
24863487 AGTGC
65 AGTGC
24863492 TATACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:24864059 original size:13 final size:13
Alignment explanation
Indices: 24864041--24864065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24864031 TACTAAACTT
24864041 TCATGGATTCAAG
1 TCATGGATTCAAG
24864054 TCATGGATTCAA
1 TCATGGATTCAA
24864066 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:24878984 original size:39 final size:40
Alignment explanation
Indices: 24878936--24879025 Score: 121
Period size: 39 Copynumber: 2.3 Consensus size: 40
24878926 GGACTAAGAT
*
24878936 CCGAAGGCATTGGTGCGAGTTACTA-ATTCCAGGCTAAG-C
1 CCGAAGGCATTGGTGCGAGTTACTATA-ACCAGGCTAAGTC
* * *
24878975 CCGAAGGCATTGGTGTGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGGTGCGAGTTACTATAACCAGGCTAAGTC
24879015 CCGAAGGCATT
1 CCGAAGGCATT
24879026 TGAACAAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 32 0.71
40 13 0.29
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTGGTGCGAGTTACTATAACCAGGCTAAGTC
Found at i:24883163 original size:17 final size:17
Alignment explanation
Indices: 24883133--24883168 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
24883123 TAACATATAT
24883133 TAACATTTTTACC-TAA
1 TAACATTTTTACCTTAA
24883149 TAACATTTTTAACCTTAA
1 TAACATTTTT-ACCTTAA
24883167 TA
1 TA
24883169 TAATTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (17 bp):
TAACATTTTTACCTTAA
Found at i:24886140 original size:34 final size:33
Alignment explanation
Indices: 24886102--24886166 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
24886092 ATTTCAATTA
*
24886102 GGGCCTTAACCCATTACAGTATCAGTATCAGAGT
1 GGGCCTTAACCCATTACAGTAACAGTA-CAGAGT
*
24886136 GGGCCTTAGCCCATTACAGTAACAGTACAGA
1 GGGCCTTAACCCATTACAGTAACAGTACAGA
24886167 ATGCAAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (33 bp):
GGGCCTTAACCCATTACAGTAACAGTACAGAGT
Found at i:24887857 original size:18 final size:17
Alignment explanation
Indices: 24887834--24887867 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24887824 AACACTCACC
*
24887834 CCCCAAAGTCGAATTCCT
1 CCCCAAAATCG-ATTCCT
24887852 CCCCAAAATCGATTCC
1 CCCCAAAATCGATTCC
24887868 AGAGGGTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.41, G:0.09, T:0.21
Consensus pattern (17 bp):
CCCCAAAATCGATTCCT
Found at i:24893356 original size:39 final size:39
Alignment explanation
Indices: 24893306--24893488 Score: 296
Period size: 39 Copynumber: 4.7 Consensus size: 39
24893296 AGCTCTAGCT
*
24893306 CAAATGCCTTCGGGATTTAGCCCGGTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
*
24893345 CAAATGCCTTCGGGACTTAGCCCGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
24893384 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * *
24893424 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
24893463 CAAATGCCTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
24893489 TATCAATCCG
Statistics
Matches: 134, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 95 0.71
40 38 0.28
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:24893433 original size:79 final size:78
Alignment explanation
Indices: 24893300--24893488 Score: 299
Period size: 79 Copynumber: 2.4 Consensus size: 78
24893290 GGATATAGCT
* *
24893300 CTAGCTCAAATGCCTTCGGGATTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAG
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGG-CTTAG
**
24893365 CCCGTTA-TAGTAA
65 CCCGGAATTAGTAA
*
24893378 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAG
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGCTTAG
*
24893443 CCCGGAATTAGTCA
65 CCCGGAATTAGTAA
24893457 CTAGCACAAATGCCTTCGGGACTTAGCCCGGT
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGT
24893489 TATCAATCCG
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 39 0.38
79 63 0.62
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
CTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGCTTAGC
CCGGAATTAGTAA
Found at i:24913554 original size:14 final size:15
Alignment explanation
Indices: 24913537--24913565 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24913527 TCACGAAAAT
24913537 TTCACACAT-ATAAA
1 TTCACACATAATAAA
24913551 TTCACACATAATAAA
1 TTCACACATAATAAA
24913566 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:24918587 original size:40 final size:40
Alignment explanation
Indices: 24918504--24918766 Score: 318
Period size: 40 Copynumber: 6.6 Consensus size: 40
24918494 TCCTCGTTCA
* * * *
24918504 AATGCCTTCGGGACATAGCCC-GATTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGA-TTTAATAACTCGCACG
* *
24918543 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24918583 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24918623 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24918663 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
24918703 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24918743 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24918767 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 35 0.17
40 157 0.79
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24925917 original size:40 final size:40
Alignment explanation
Indices: 24925819--24926081 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
24925809 TCCTCGTTCA
* * * * *
24925819 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
24925858 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24925898 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24925938 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24925978 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
24926018 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24926058 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24926082 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24934086 original size:93 final size:93
Alignment explanation
Indices: 24933972--24934143 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
24933962 CGCCCATAAG
* * *
24933972 CGAACTCGTACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
24934037 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
24934065 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
24934130 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
24934144 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24934140 original size:46 final size:46
Alignment explanation
Indices: 24933965--24934140 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
24933955 TGTAACCCGC
* * * *
24933965 CCATAAGCGAACTCGTACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
24934011 CCATAAGTGAACTCGAACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
24934061 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24934104 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24934141 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24939604 original size:46 final size:46
Alignment explanation
Indices: 24939542--24939716 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
24939532 TGTAACCCGC
* * *
24939542 CCATAAGCGAATTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
24939588 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
24939638 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
24939681 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
24939717 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:24939680 original size:93 final size:93
Alignment explanation
Indices: 24939549--24939720 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
24939539 CGCCCATAAG
* * * * *
24939549 CGAATTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24939614 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
24939642 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24939707 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
24939721 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:24939736 original size:46 final size:44
Alignment explanation
Indices: 24939593--24939736 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
24939583 CGCATCCATA
24939593 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
24939640 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGC-CAACCATCT
24939686 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
24939732 AGTGA
1 AGTGA
24939737 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.40
47 29 0.37
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:24946730 original size:40 final size:40
Alignment explanation
Indices: 24946632--24946801 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
24946622 TCCTCGTTCA
* * ** *
24946632 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
24946671 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
*
24946711 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
* * * *
24946751 AATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
*
24946791 AAGGCCTTCGG
1 AATGCCTTCGG
24946802 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 34 0.28
40 86 0.72
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
Found at i:24946838 original size:80 final size:79
Alignment explanation
Indices: 24946668--24946854 Score: 207
Period size: 80 Copynumber: 2.3 Consensus size: 79
24946658 TAGTAACTCA
* * *
24946668 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCG
* *
24946733 GATTTAACAACTCG
66 GATATAACAACTAG
* * **
24946747 CACGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTC-GGATCTTAGTC
1 CAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACC
* *
24946811 CGGATATATTC-TCTTAG
64 CGGATATA-ACAAC-TAG
* *
24946828 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAATGCCTTCGGGACTTAACCCGGA
24946855 CATCATTCAA
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
79 6 0.07
80 79 0.87
81 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (79 bp):
CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCG
GATATAACAACTAG
Found at i:24954806 original size:14 final size:15
Alignment explanation
Indices: 24954789--24954817 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24954779 TCATGAAAAT
24954789 TTCACACAT-ATAAA
1 TTCACACATAATAAA
24954803 TTCACACATAATAAA
1 TTCACACATAATAAA
24954818 CAAAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:24956490 original size:10 final size:10
Alignment explanation
Indices: 24956475--24956512 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
24956465 GCTCGTTTCC
*
24956475 AGCTCACTCG
1 AGCTCAATCG
24956485 AGCTCAAGTC-
1 AGCTCAA-TCG
24956495 AGCTCAATCG
1 AGCTCAATCG
24956505 AGCTCAAT
1 AGCTCAAT
24956513 TTAGCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:24956499 original size:20 final size:20
Alignment explanation
Indices: 24956474--24956511 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24956464 AGCTCGTTTC
*
24956474 CAGCTCACTCGAGCTCAAGT
1 CAGCTCAATCGAGCTCAAGT
24956494 CAGCTCAATCGAGCTCAA
1 CAGCTCAATCGAGCTCAA
24956512 TTTAGCTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCAAGT
Found at i:24956518 original size:20 final size:20
Alignment explanation
Indices: 24956475--24956535 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
24956465 GCTCGTTTCC
* * *
24956475 AGCTCACTCGAGCTCAAGTC
1 AGCTCAATCGAGCTCAATTT
24956495 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
24956515 AGCTACAATTC-AGCTC-ATTT
1 AGCT-CAA-TCGAGCTCAATTT
24956535 A
1 A
24956536 TTTTATTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 26 0.72
21 8 0.22
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Found at i:24956529 original size:11 final size:10
Alignment explanation
Indices: 24956485--24956531 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
24956475 AGCTCACTCG
*
24956485 AGCTCAAGTC
1 AGCTCAATTC
24956495 AGCTCAA-TC
1 AGCTCAATTC
*
24956504 GAGCTCAATTT
1 -AGCTCAATTC
24956515 AGCTACAATTC
1 AGCT-CAATTC
24956526 AGCTCA
1 AGCTCA
24956532 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 20 0.62
11 10 0.31
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (10 bp):
AGCTCAATTC
Done.