Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 126 of 182
Found at i:38748008 original size:21 final size:21
Alignment explanation
Indices: 38747982--38748028 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
38747972 GCGTCGGTTG
*
38747982 TGGTTCCTCCGGT-GGGGATTC
1 TGGTTCCTCCGGTAGGGCA-TC
*
38748003 TGGTTCTTCCGGTAGGGCATC
1 TGGTTCCTCCGGTAGGGCATC
38748024 TGGTT
1 TGGTT
38748029 ATCGGAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.06, C:0.21, G:0.36, T:0.36
Consensus pattern (21 bp):
TGGTTCCTCCGGTAGGGCATC
Found at i:38748974 original size:20 final size:20
Alignment explanation
Indices: 38748937--38748974 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38748927 TTTATTTTTA
*
38748937 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
38748957 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
38748975 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:38749966 original size:51 final size:51
Alignment explanation
Indices: 38749911--38750010 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
38749901 AATTATTTAA
38749911 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGAAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGAAAATTGAGATT
* * * * *
38749962 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGAAAATTGAGA
38750011 GGAATTGAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGAAAATTGAGATT
Found at i:38749984 original size:11 final size:11
Alignment explanation
Indices: 38749970--38750034 Score: 64
Period size: 11 Copynumber: 5.9 Consensus size: 11
38749960 TTAAATATGG
38749970 ATTTGAGAGAA
1 ATTTGAGAGAA
*
38749981 ATTTG-GAAGGA
1 ATTTGAG-AGAA
38749992 ATTTGAGAGCAA
1 ATTTGAGAG-AA
*
38750004 A-TTGAGAGGA
1 ATTTGAGAGAA
38750014 A-TTGAGAGGAA
1 ATTTGAGA-GAA
38750025 ATTTGAGAGA
1 ATTTGAGAGA
38750035 GGATTAGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
10 9 0.20
11 27 0.60
12 9 0.20
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:38749995 original size:22 final size:23
Alignment explanation
Indices: 38749970--38750037 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 23
38749960 TTAAATATGG
38749970 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGGAGAGGA
38749992 ATTTGAGAGCAAA-TT-GAGAGGA
1 ATTTGAGAG-AAATTTGGAGAGGA
38750014 A-TTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTG-GAGAGGA
38750038 TTAGTTTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
21 11 0.28
22 19 0.47
23 3 0.08
24 7 0.17
ACGTcount: A:0.41, C:0.01, G:0.34, T:0.24
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGGAGAGGA
Found at i:38750281 original size:40 final size:40
Alignment explanation
Indices: 38750215--38750292 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
38750205 AACGTGGACA
* * * *
38750215 CAAACCGCGCTTACGTGGACGCGATTTGCTGCCACGTCGG
1 CAAACCGCGCTGACATGAACGCGATTTGCTGACACGTCGG
*
38750255 CAAACCGCGCTGACATGAACGTGATTTGCTGACACGTC
1 CAAACCGCGCTGACATGAACGCGATTTGCTGACACGTC
38750293 TCCTGACATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.21
Consensus pattern (40 bp):
CAAACCGCGCTGACATGAACGCGATTTGCTGACACGTCGG
Found at i:38750323 original size:42 final size:40
Alignment explanation
Indices: 38750215--38750323 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
38750205 AACGTGGACA
* * *
38750215 CAAACCGCGCTTACGTGGACGCGATTTGCTGCCACGTCGG
1 CAAACCGCGCTGACGTGGACGCGATTTGCTGACACGTCGC
* * * *
38750255 CAAACCGCGCTGACATGAACGTGATTTGCTGACACGTCTC
1 CAAACCGCGCTGACGTGGACGCGATTTGCTGACACGTCGC
* * *
38750295 CTGACATCGCGCTGATGTGGACGCGATTT
1 C--AAACCGCGCTGACGTGGACGCGATTT
38750324 AAGAGAAAAG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 34 0.63
42 20 0.37
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (40 bp):
CAAACCGCGCTGACGTGGACGCGATTTGCTGACACGTCGC
Found at i:38759047 original size:22 final size:25
Alignment explanation
Indices: 38759003--38759051 Score: 77
Period size: 22 Copynumber: 2.1 Consensus size: 25
38758993 TGTACAAGAC
38759003 ATTTTAAAGCATAATATAATTTAAA
1 ATTTTAAAGCATAATATAATTTAAA
38759028 ATTTTAAA-CAT-AT-TAATTTAAA
1 ATTTTAAAGCATAATATAATTTAAA
38759050 AT
1 AT
38759052 ATTTTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 11 0.46
23 2 0.08
24 3 0.12
25 8 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTTTAAAGCATAATATAATTTAAA
Found at i:38759064 original size:24 final size:21
Alignment explanation
Indices: 38759015--38759065 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
38759005 TTTAAAGCAT
38759015 AATA-TAATTTAAAATTTTAA
1 AATATTAATTTAAAATTTTAA
38759035 ACATATTAATTTAAAATATTTTCAA
1 A-ATATTAATTT-AAA-ATTTT-AA
38759060 AATATT
1 AATATT
38759066 GAGAATGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 6 0.23
23 3 0.12
24 10 0.38
25 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTAATTTAAAATTTTAA
Found at i:38765238 original size:17 final size:17
Alignment explanation
Indices: 38765196--38765238 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
38765186 GGATTCGTCA
38765196 TTTGGCGAATTCCAAGT
1 TTTGGCGAATTCCAAGT
* * *
38765213 TCTGACGAATTTCAAGT
1 TTTGGCGAATTCCAAGT
38765230 TTTGGCGAA
1 TTTGGCGAA
38765239 CTCTAAGGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (17 bp):
TTTGGCGAATTCCAAGT
Found at i:38779710 original size:42 final size:42
Alignment explanation
Indices: 38779658--38779780 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
38779648 TATACTTCAA
* *
38779658 TTTAGCCGATGATACACTTACGTGTCAGTATATTTGCTTT-GG
1 TTTATCCGATGATGCACTTACGTG-CAGTATATTTGCTTTCGG
* **
38779700 TTTATCCGATGATGCACTTATGTGCTAGTATAACTG-TTTCGG
1 TTTATCCGATGATGCACTTACGTGC-AGTATATTTGCTTTCGG
* * * *
38779742 TATATTCGATGATGCACTTACATGCCAATATATTTGCTT
1 TTTATCCGATGATGCACTTACGTG-CAGTATATTTGCTT
38779781 CAATACATCC
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
41 4 0.06
42 58 0.89
43 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (42 bp):
TTTATCCGATGATGCACTTACGTGCAGTATATTTGCTTTCGG
Found at i:38779794 original size:42 final size:42
Alignment explanation
Indices: 38779748--38779843 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
38779738 TCGGTATATT
*
38779748 CGATGATGCACTTACATGCCAATAT-ATTTGCTTCAATACATC
1 CGATGATGCACTTACATGCCAACATGATTT-CTTCAATACATC
* * ** *
38779790 CGATGGTGCACTTATATGCCAACATGATTTCTTCGGTCCATC
1 CGATGATGCACTTACATGCCAACATGATTTCTTCAATACATC
*
38779832 TGATGATGCACT
1 CGATGATGCACT
38779844 ATGCGTGTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (42 bp):
CGATGATGCACTTACATGCCAACATGATTTCTTCAATACATC
Found at i:38779881 original size:43 final size:45
Alignment explanation
Indices: 38779833--38779932 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 45
38779823 CGGTCCATCT
**
38779833 GATGATGCACTATGCGTGT-T-AGTATAATTACTTTGG-TTAGTTC
1 GATGATGCACTATGCGTGTGTCAGTATAATTACTTTGGCTT-GCCC
* *
38779876 GATGATGCAC-CT-CGTGTGTCAGTATAATTTCTTTGGCTTGCCC
1 GATGATGCACTATGCGTGTGTCAGTATAATTACTTTGGCTTGCCC
38779919 GATGATGCACTATG
1 GATGATGCACTATG
38779933 TAACACCTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
41 5 0.11
42 2 0.04
43 37 0.79
44 3 0.06
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (45 bp):
GATGATGCACTATGCGTGTGTCAGTATAATTACTTTGGCTTGCCC
Found at i:38782160 original size:39 final size:40
Alignment explanation
Indices: 38782068--38782305 Score: 277
Period size: 39 Copynumber: 6.0 Consensus size: 40
38782058 TAGTGATGAT
* *
38782068 TGCACATACGTGCCCCTGTTTGTACTTCAGTACTCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * *
38782108 TGCACATAAGTGCCCCGGTTTGTACTT-GGTACCCTTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* *
38782147 TGCACATACGTGCCCCTATTTGTACTTTGGT-CCCCT-AA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * *
38782185 TATCACATACATGCCCTTGTTTGTACTTCGGTACCCCTGAA
1 T-GCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * *
38782226 TGCACATATGTGTCCCGGTTTGTACTTCGGTACCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * * * *
38782266 TACACATACGTG-CCCTATTTATACTTTGGTAACCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
38782305 T
1 T
38782306 TAAATAGTAT
Statistics
Matches: 167, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
38 3 0.02
39 85 0.51
40 76 0.46
41 3 0.02
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (40 bp):
TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
Found at i:38782218 original size:79 final size:79
Alignment explanation
Indices: 38782068--38782305 Score: 277
Period size: 79 Copynumber: 3.0 Consensus size: 79
38782058 TAGTGATGAT
* * * *
38782068 TGCACATACGTGCCCCTGTTTGTACTTCAGTACTCCTGAATGCACATA-AGTGCCCCGGTTTGTA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATACACATACA-TGCCCTGGTTTGTA
*
38782132 CTTGGTACCCTTGAA
65 CTTGGTACCCCTGAA
* * *
38782147 TGCACATACGTGCCCCTATTTGTACTTTGGT-CCCCT-AATATCACATACATGCCCTTGTTTGTA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATA-CACATACATGCCCTGGTTTGTA
38782210 CTTCGGTACCCCTGAA
65 CTT-GGTACCCCTGAA
* * * * * *
38782226 TGCACATATGTGTCCCGGTTTGTACTTCGGTACCCCTGAATACACATACGTGCCCT-ATTTATAC
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATACACATACATGCCCTGGTTTGTAC
*
38782290 TTTGGTAACCCTGAA
66 -TTGGTACCCCTGAA
38782305 T
1 T
38782306 TAAATAGTAT
Statistics
Matches: 136, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
77 3 0.02
78 25 0.18
79 84 0.62
80 20 0.15
81 4 0.03
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (79 bp):
TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATACACATACATGCCCTGGTTTGTAC
TTGGTACCCCTGAA
Found at i:38782226 original size:118 final size:118
Alignment explanation
Indices: 38782070--38782295 Score: 355
Period size: 118 Copynumber: 1.9 Consensus size: 118
38782060 GTGATGATTG
* *
38782070 CACATACGTGCCCCTGTTTGTACTTCAGTACTCCTGAATGCACATAAGTGCCCCGGTTTGTACTT
1 CACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATAAGTGCCCCGGTTTGTACTT
* * *
38782135 -GGTACCCTTGAATGCACATACGTGCCCCTATTTGTACTTTGGTCCCCTAATAT
66 CGGTACCCCTGAATACACATACGTG-CCCTATTTATACTTTGGTCCCCTAATAT
* * * *
38782188 CACATACATGCCCTTGTTTGTACTTCGGTACCCCTGAATGCACATATGTGTCCCGGTTTGTACTT
1 CACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATAAGTGCCCCGGTTTGTACTT
38782253 CGGTACCCCTGAATACACATACGTGCCCTATTTATACTTTGGT
66 CGGTACCCCTGAATACACATACGTGCCCTATTTATACTTTGGT
38782296 AACCCTGAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 76 0.78
119 22 0.22
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (118 bp):
CACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATGCACATAAGTGCCCCGGTTTGTACTT
CGGTACCCCTGAATACACATACGTGCCCTATTTATACTTTGGTCCCCTAATAT
Found at i:38788762 original size:20 final size:20
Alignment explanation
Indices: 38788737--38788802 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
38788727 TACTTCGGTA
38788737 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
** * * *
38788757 CCCCTGTTTGTAC-TTCGATA
1 CCCCTGAATGCACATACG-TG
* *
38788777 CCCTTGAATGCACATATGTG
1 CCCCTGAATGCACATACGTG
38788797 CCCCTG
1 CCCCTG
38788803 TTTGTACTTT
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 3 0.10
20 26 0.84
21 2 0.06
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:38788765 original size:40 final size:40
Alignment explanation
Indices: 38788705--38788903 Score: 265
Period size: 40 Copynumber: 5.0 Consensus size: 40
38788695 TGTTGATGAT
*
38788705 TGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* *
38788745 TGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * * *
38788785 TGCACATATGTGCCCCTGTTTGTACTTTGGTTCCCTTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* *
38788825 TGCACATACATGCCCCTGTTTATACTTCGGTACCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* * * * *
38788865 TACACATACGTG-CCCTATTTATACTTTGGTAACCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
38788904 GTAAATTGTA
Statistics
Matches: 141, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 24 0.17
40 117 0.83
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.34
Consensus pattern (40 bp):
TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
Found at i:38792449 original size:40 final size:39
Alignment explanation
Indices: 38792396--38792532 Score: 122
Period size: 40 Copynumber: 3.6 Consensus size: 39
38792386 AACATCGTTG
38792396 GTTTATCCAACTAGAGCTGGGCTCACATTTGATATCGTCA
1 GTTTATCCAACTAGAGCTGGGCTCACATTT-ATATCGTCA
* * * * * **
38792436 GTGTATCCGACTAGCGCTGGGCGCA-A---ACATCGTTG
1 GTTTATCCAACTAGAGCTGGGCTCACATTTATATCGTCA
*
38792471 GTTTATCCAACTAGAGTTGGGCTCACATTTAATATCGTCTA
1 GTTTATCCAACTAGAGCTGGGCTCACATTT-ATATCGTC-A
* *
38792512 -TTTATCCGACTAGCGCTGGGC
1 GTTTATCCAACTAGAGCTGGGC
38792533 GGAAACTCTT
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
35 26 0.36
36 1 0.01
39 1 0.01
40 45 0.62
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (39 bp):
GTTTATCCAACTAGAGCTGGGCTCACATTTATATCGTCA
Found at i:38792472 original size:75 final size:74
Alignment explanation
Indices: 38792218--38792538 Score: 298
Period size: 75 Copynumber: 4.4 Consensus size: 74
38792208 CATTTGTCGA
* * *
38792218 TTTATCCGACTAACGTTGGGCGCAAACATCATTGGTTTATCCAACTAGAGCTGGGCTCACCATTT
1 TTTATCCGACTAGCGCTGGGCGCAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTCA-CATTT
* *
38792283 ATTTCGTCAA
65 ATATCGTCAG
* * * * *** * * * *
38792293 TTTATCCGACTAGCGTTGGGTGC-AACTTC-TATCAGTTTATTTGACTGGTGTTGGGCACACA-T
1 TTTATCCGACTAGCGCTGGGCGCAAACATCGT-T-GGTTTATCCAACTAGAGCTGGGCTCACATT
*
38792355 T-CATCG---G
64 TATATCGTCAG
* * * ** *
38792362 TTTATCTGATTAGCACTAAGTGCAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTCACATTTG
1 TTTATCCGACTAGCGCTGGGCGCAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTCACATTT-
38792427 ATATCGTCAG
65 ATATCGTCAG
* *
38792437 TGTATCCGACTAGCGCTGGGCGCAAACATCGTTGGTTTATCCAACTAGAGTTGGGCTCACATTTA
1 TTTATCCGACTAGCGCTGGGCGCAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTCACATTT-
38792502 ATATCGTCTA-
65 ATATCGTC-AG
*
38792512 TTTATCCGACTAGCGCTGGGCGGAAAC
1 TTTATCCGACTAGCGCTGGGCGCAAAC
38792539 TCTTTTGCAG
Statistics
Matches: 194, Mismatches: 41, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
69 37 0.19
70 8 0.04
71 1 0.01
72 7 0.04
73 3 0.02
74 8 0.04
75 129 0.66
76 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (74 bp):
TTTATCCGACTAGCGCTGGGCGCAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTCACATTTA
TATCGTCAG
Found at i:38792478 original size:35 final size:35
Alignment explanation
Indices: 38792383--38792492 Score: 103
Period size: 40 Copynumber: 3.0 Consensus size: 35
38792373 AGCACTAAGT
38792383 GCAAACATCGTTGGTTTATCCAACTAGAGCTGGGC
1 GCAAACATCGTTGGTTTATCCAACTAGAGCTGGGC
* * ** * * *
38792418 TCACATTTGATATCGTCAGTGTATCCGACTAGCGCTGGGC
1 GCA-A----ACATCGTTGGTTTATCCAACTAGAGCTGGGC
*
38792458 GCAAACATCGTTGGTTTATCCAACTAGAGTTGGGC
1 GCAAACATCGTTGGTTTATCCAACTAGAGCTGGGC
38792493 TCACATTTAA
Statistics
Matches: 55, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
35 26 0.47
36 1 0.02
39 1 0.02
40 27 0.49
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (35 bp):
GCAAACATCGTTGGTTTATCCAACTAGAGCTGGGC
Found at i:38792490 original size:144 final size:144
Alignment explanation
Indices: 38792239--38792499 Score: 348
Period size: 144 Copynumber: 1.8 Consensus size: 144
38792229 AACGTTGGGC
* *
38792239 GCAAACATCATTGGTTTATCCAACTAGAGCTGGGCTCACCATTTATTTCGTCAATTTATCCGACT
1 GCAAACATCATTGGTTTATCCAACTAGAGCTGGGCTCACCATTTATATCGTCAATGTATCCGACT
* * * *** * *
38792304 AGCGTTGGGTGCAACTTCTATCAGTTTATTTGACTGGTGTTGGGCACACATTCATCGGTTTATCT
66 AGCGCTGGGCGCAACATCTATCAGTTTATCCAACTAGAGTTGGGCACACATTCATCGGTTTATCT
38792369 GATTAGCACTAAGT
131 GATTAGCACTAAGT
* *
38792383 GCAAACATCGTTGGTTTATCCAACTAGAGCTGGGCTCA-CATTTGATATCGTCAGTGTATCCGAC
1 GCAAACATCATTGGTTTATCCAACTAGAGCTGGGCTCACCATTT-ATATCGTCAATGTATCCGAC
* *
38792447 TAGCGCTGGGCGCAAACATCGT-T-GGTTTATCCAACTAGAGTTGGGCTCACATT
65 TAGCGCTGGGCGC-AACATC-TATCAGTTTATCCAACTAGAGTTGGGCACACATT
38792500 TAATATCGTC
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
143 5 0.05
144 88 0.88
145 6 0.06
146 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (144 bp):
GCAAACATCATTGGTTTATCCAACTAGAGCTGGGCTCACCATTTATATCGTCAATGTATCCGACT
AGCGCTGGGCGCAACATCTATCAGTTTATCCAACTAGAGTTGGGCACACATTCATCGGTTTATCT
GATTAGCACTAAGT
Found at i:38800545 original size:127 final size:127
Alignment explanation
Indices: 38800319--38800572 Score: 472
Period size: 127 Copynumber: 2.0 Consensus size: 127
38800309 TTAGTTTTAT
38800319 CTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAGTAAAATTATCTTTGCCCGTGGTTTTTT
1 CTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAGTAAAATTATCTTTGCCCGTGGTTTTTT
* *
38800384 ATCCTCTTTGGAGGGGTTTTTCCACGTTAAATTTGTGTGTTCAATTTCTCAATTTATTCCGC
66 ATCCTCTTTGGAGGGATTTTTCCACGTTAAATTTGTGTGTTCAATTTCCCAATTTATTCCGC
* *
38800446 CTCCATCTTTTGTACTCTTCTTTCTTTTGCCATTATAGTAAAATTATCTTTGCCTGTGGTTTTTT
1 CTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAGTAAAATTATCTTTGCCCGTGGTTTTTT
38800511 ATCCTCTTTGGAGGGATTTTTCCACGTTAAATTTGTGTGTTCAATTTCCCAATTTATTCCGC
66 ATCCTCTTTGGAGGGATTTTTCCACGTTAAATTTGTGTGTTCAATTTCCCAATTTATTCCGC
38800573 TAATTTTTGT
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.48
Consensus pattern (127 bp):
CTCCATCTTTTGTACTCTTCGTTCTTTTGCCATTATAGTAAAATTATCTTTGCCCGTGGTTTTTT
ATCCTCTTTGGAGGGATTTTTCCACGTTAAATTTGTGTGTTCAATTTCCCAATTTATTCCGC
Found at i:38807447 original size:4 final size:4
Alignment explanation
Indices: 38807440--38807464 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
38807430 ACACACACAC
38807440 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
38807465 GAGTAGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:38808041 original size:5 final size:5
Alignment explanation
Indices: 38808031--38808057 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38808021 GCATAAAATC
38808031 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
38808058 GTGTACAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:38812618 original size:21 final size:24
Alignment explanation
Indices: 38812602--38812646 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38812592 ATTTTAACGT
*
38812602 AAAA-AGATTAATTTTTAATAGTG
1 AAAATAGATGAATTTTTAATAGTG
38812625 AAAATAGATGAATTTTTAATAG
1 AAAATAGATGAATTTTTAATAG
38812647 AAACATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (24 bp):
AAAATAGATGAATTTTTAATAGTG
Found at i:38819670 original size:127 final size:128
Alignment explanation
Indices: 38819431--38819742 Score: 443
Period size: 127 Copynumber: 2.4 Consensus size: 128
38819421 TTAATAGCTC
* * * * *
38819431 TAATCTGCTCCATTGCAACTTCAGGGGGATAGGATTGATTTCTTTCGTCTGCTCCACTATTGCTT
1 TAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTACTACTT
** * *
38819496 AGGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTTG-TTT
66 AGGGAGATAAGACTTGATGCGATCTACTCCACTACAACTTAGAGAGATAAGATCTGTGGTTTT
* *
38819558 TAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGATTTCTTTCGTCTG-TTCACTACTACTT
1 TAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTACTACTT
* * *
38819622 AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
66 AGGGAGATAAGACTTGATGCGATCTACTCCACTACAACTT-AGAGAGATAAGATCTGTGGTTTT
38819686 TAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TGAGTTTC-TTCTGTCTGCTCCAC
1 TAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGA-TTTCTTTC-GTCTGCTCCAC
38819743 CGTAACTTCC
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
126 45 0.27
127 70 0.43
128 45 0.27
129 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.33
Consensus pattern (128 bp):
TAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTACTACTT
AGGGAGATAAGACTTGATGCGATCTACTCCACTACAACTTAGAGAGATAAGATCTGTGGTTTT
Found at i:38820187 original size:44 final size:44
Alignment explanation
Indices: 38819393--38820896 Score: 454
Period size: 44 Copynumber: 34.7 Consensus size: 44
38819383 TTTTTAATCC
* * ** *
38819393 GCTCCACTGCAACTTCAGGGAGATAGGAT-TAATAGCTCTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTC-GATCT
* * * *
38819437 GCTCCATTGCAACTTCAGGGGGATAGGAT-TGATTTCTTTCG-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-A-TTATTTCGATCT
**** * *
38819481 GCTCCACTATTGCTT-AGGGAGATAAGA-CT-TGA-TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * ** * * ** *
38819521 ACTCCACTACTGCTT-AGGGAGATAAGATCTGTTGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * *
38819564 GCTCCACTGCAACTTTAGGGAGATAGGAT-TGATTTCTTTCG-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-A-TTATTTCGATCT
* * * * *
38819608 G-TTCACTACTACTT-AGGGAGATAAGA-CT-TGA-TGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * * ** *
38819647 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT-TTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT--TATTTCGATCT
* *
38819692 GCTCCACTGCAACTTCAGGGAGATAGGAT-GAGTT-TCTTCTG-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTA-TTAT-TTC-GATCT
* * * * *** *
38819736 GCTCCACCGTAACTTCCGGGAGATGAGA-CTATCGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TATTTCGATCT
* * **
38819780 GCTCCACTGCAAAC-TCAGGAAAATAAGAT-TCACCATCTTC-AGTCT
1 GCTCCACTGC-AACTTCAGGGAGATAAGATCT-ATTAT-TTCGA-TCT
* * *
38819825 GC-CCACTACAACTTCA-GGAGGATAGGA-CT-TGCT-TCTTCGGTCT
1 GCTCCACTGCAACTTCAGGGA-GATAAGATCTAT--TAT-TTCGATCT
* * * * * *
38819868 GCTCCGCTGCAACCTCAGGGAGATAATA-C-CTGATGT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * * * *
38819909 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * *** * *
38819953 GCTCCACTGTAACTTCAGGGAGATAGGAT-TATCGGCTACAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TATTTCGATCT
* * ** *
38819997 ACTCCACTGCAAAC-TCATGGAGATAAGAT-TCAACATCTTCAATCT
1 GCTCCACTGC-AACTTCAGGGAGATAAGATCT-ATTAT-TTCGATCT
* * * * * *
38820042 GCCCCACTGCTACTTTAGGG-GATAAGA-CT-TGTTTCTTTGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TAT-TTCGATCT
* * * *
38820085 GCTCCGCTGTAACCTCAGGGAGATAAGACCTGA-TA--T-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTATTTCGATCT
* * * * *
38820126 ACTCTACTACAACTTCAGAGAGATAAGATCTATTATTTCGATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* *** * *
38820170 GCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTACAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TATTTCGATCT
* **
38820214 GCTCCACTACAAAC-TCAGGGAGATAAGAT-TCAACATCTTC-AGTCT
1 GCTCCACTGC-AACTTCAGGGAGATAAGATCT-ATTAT-TTCGA-TCT
* * *
38820259 GCCCCACTGCAACTTCAGGGGGATAAGA-CT-TGCT-TCTTCGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT--TAT-TTCGATCT
* * * * *
38820303 GCTCCGCTGCAACCTCAGGGAGATAAGA-C-CTGATGT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * * ** *
38820344 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTAAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * *** * *
38820388 GCTCCACTGTAACTTCAGGGAGATAGGAT-TATCGGCTACAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TATTTCGATCT
* * ** *
38820432 GCGCCACTGAAAAC-TCAGGGAGATAAGAT-TCAACATCTTCAATCT
1 GCTCCACTG-CAACTTCAGGGAGATAAGATCT-ATTAT-TTCGATCT
* * *
38820477 GCCCCACAGCAACTTCAGGGGGATAAGA-CT-TGCT-TCTTCTG-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT--TAT-TTC-GATCT
* * * * * *
38820521 GTTCCGCTGTAACCTCAGGGAGATAAGACCTA--ATGT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * * *
38820562 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCGATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * *** * *
38820606 GCTCCACTGCAACTGCAGGGAGATAGGAT-TATCGGCTACAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TATTTCGATCT
* **
38820650 GCTCTACTGCAAAC-TCAGGGAGATAAGAT-TCAACATCTTC-AGTCT
1 GCTCCACTGC-AACTTCAGGGAGATAAGATCT-ATTAT-TTCGA-TCT
* * * *
38820695 GCCCCACTGCAACTTCAGGGGGATAA-AACT-TGCT-TCTTCGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT--TAT-TTCGATCT
* * * * * *
38820739 GCTCCCCTGCAACCTCAAGGAGATAAGA-C-CTGATGT-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * * * * *
38820780 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTATATCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
* * * *** * *
38820824 GCTCCACTGCAATTTCAGAGAGATAGGAT-TATCGGCTACAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TATTTCGATCT
38820868 GCTCCACTGCAAAC-TCAGGGAGATAAGAT
1 GCTCCACTGC-AACTTCAGGGAGATAAGAT
38820897 TCAACATCTT
Statistics
Matches: 1057, Mismatches: 295, Indels: 216
0.67 0.19 0.14
Matches are distributed among these distances:
38 3 0.00
39 8 0.01
40 40 0.04
41 148 0.14
42 23 0.02
43 112 0.11
44 545 0.52
45 175 0.17
46 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTATTATTTCGATCT
Found at i:38820390 original size:218 final size:218
Alignment explanation
Indices: 38819736--38820916 Score: 1927
Period size: 218 Copynumber: 5.4 Consensus size: 218
38819726 TCTTCTGTCT
* * * * * *
38819736 GCTCCACCGTAACTTCCGGGAGAT-GAGACTATCGGCTTCAATCTGCTCCACTGCAAACTCAGGA
1 GCTCCACTGCAACTTCAGGGAGATAG-GATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGG
* * * * * *
38819800 AAATAAGATTCACCATCTTCAGTCTG-CCCACTACAACTTCAGGAGGATAGGACTTGCTTCTTCG
65 AGATAAGATTCAACATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCG
*
38819864 GTCTGCTCCGCTGCAACCTCAGGGAGATAATACCTGATGTGATCTACTCTACTGCAACTTCAGAG
130 GTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAG
38819929 AGATAAGATCTATTATTTCAATCC
195 AGATAAGATCTATTATTTCAATCC
* * *
38819953 GCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTACAATCTACTCCACTGCAAACTCATGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGA
* * * *
38820018 GATAAGATTCAACATCTTCAATCTGCCCCACTGCTACTTTA-GGGGATAAGACTTGTTTCTTTGG
66 GATAAGATTCAACATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGG
* * *
38820082 TCTGCTCCGCTGTAACCTCAGGGAGATAAGACCTGATATGATCTACTCTACTACAACTTCAGAGA
131 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
*
38820147 GATAAGATCTATTATTTCGATCC
196 GATAAGATCTATTATTTCAATCC
*
38820170 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTACAAACTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGA
*
38820235 GATAAGATTCAACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGG
66 GATAAGATTCAACATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGG
38820300 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
131 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
*
38820365 GATAAGATCTATTATTTAAATCC
196 GATAAGATCTATTATTTCAATCC
* * *
38820388 GCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCGCCACTGAAAACTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGA
* *
38820453 GATAAGATTCAACATCTTCAATCTGCCCCACAGCAACTTCAGGGGGATAAGACTTGCTTCTTCTG
66 GATAAGATTCAACATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGG
* * *
38820518 TCTGTTCCGCTGTAACCTCAGGGAGATAAGACCTAATGTGATCTACTCTACTGCAACTTCAGAGA
131 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
*
38820583 GATAAGATCTATTATTTCGATCC
196 GATAAGATCTATTATTTCAATCC
* *
38820606 GCTCCACTGCAACTGCAGGGAGATAGGATTATCGGCTACAATCTGCTCTACTGCAAACTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGA
* *
38820671 GATAAGATTCAACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAAACTTGCTTCTTCGG
66 GATAAGATTCAACATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGG
* *
38820736 TCTGCTCCCCTGCAACCTCAAGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
131 TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
*
38820801 GATAAGATCTATTATATCAATCC
196 GATAAGATCTATTATTTCAATCC
* *
38820824 GCTCCACTGCAATTTCAGAGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGA
38820889 GATAAGATTCAACATCTTCAATCTGCCC
66 GATAAGATTCAACATCTTCAATCTGCCC
38820917 TACTACCCCA
Statistics
Matches: 892, Mismatches: 69, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
217 279 0.31
218 613 0.69
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (218 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGA
GATAAGATTCAACATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGG
TCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAACTTCAGAGA
GATAAGATCTATTATTTCAATCC
Found at i:38825204 original size:60 final size:60
Alignment explanation
Indices: 38825084--38825223 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
38825074 CCACTATTCG
* ***
38825084 GCCCACTATTCTGTCCACTAGTAGGCCCAAGAGACTGGCCTACATTTGGCCCAAAATACT
1 GCCCACTATTCTGTCCACTAGTAGGCCCAAGAGACTGACCTACATCCAGCCCAAAATACT
** * * **
38825144 GCCCACTATTCTGTCTGCTAGTAGGCCCAAGAGACTGACCTGCATCCAGTCCAAGGTACT
1 GCCCACTATTCTGTCCACTAGTAGGCCCAAGAGACTGACCTACATCCAGCCCAAAATACT
* *
38825204 GCCCACTATTATGCCCACTA
1 GCCCACTATTCTGTCCACTA
38825224 TTGTGCACCA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.24
Consensus pattern (60 bp):
GCCCACTATTCTGTCCACTAGTAGGCCCAAGAGACTGACCTACATCCAGCCCAAAATACT
Found at i:38837847 original size:24 final size:25
Alignment explanation
Indices: 38837819--38837918 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 25
38837809 GAGTTACCCG
*
38837819 TTAAGCTCACATGAGCTTTCTGTT-
1 TTAAGCTCACATGAGCTTCCTGTTA
***
38837843 TTAAGCTCTTTTGAGCTTCCTGTTA
1 TTAAGCTCACATGAGCTTCCTGTTA
* ** *
38837868 TTAAGCCCGGATAAGCTTCCTGTTA
1 TTAAGCTCACATGAGCTTCCTGTTA
* * *
38837893 -CATGGCTCACATGAGCTTCCCGTTA
1 TTA-AGCTCACATGAGCTTCCTGTTA
38837918 T
1 T
38837919 ATGGCTCGAG
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
24 21 0.37
25 36 0.63
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (25 bp):
TTAAGCTCACATGAGCTTCCTGTTA
Found at i:38841979 original size:24 final size:25
Alignment explanation
Indices: 38841952--38842000 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
38841942 GAGTTAGTAT
38841952 ATAAATTAATTGAAATT-TGGTTAA
1 ATAAATTAATTGAAATTGTGGTTAA
* *
38841976 ATAATTTAGTTGAAATTGTGGTTAA
1 ATAAATTAATTGAAATTGTGGTTAA
38842001 TTAAGGCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (25 bp):
ATAAATTAATTGAAATTGTGGTTAA
Found at i:38858662 original size:25 final size:25
Alignment explanation
Indices: 38858633--38858682 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
38858623 AAAGATTGAT
38858633 CCCTATGTAATTCTAATCTAGATGA
1 CCCTATGTAATTCTAATCTAGATGA
38858658 CCCTATGTAATTCTAATCTAGATGA
1 CCCTATGTAATTCTAATCTAGATGA
38858683 AATTTACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (25 bp):
CCCTATGTAATTCTAATCTAGATGA
Found at i:38860484 original size:39 final size:39
Alignment explanation
Indices: 38860430--38860506 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
38860420 ATAATGTAGT
38860430 AGAGCTGCCAGTAGTCAGAATGGCTAAGAGCCGTAAACC
1 AGAGCTGCCAGTAGTCAGAATGGCTAAGAGCCGTAAACC
*
38860469 AGAGCTGCTAGTAGTCAGAATGGCTAAGAGCCGTAAAC
1 AGAGCTGCCAGTAGTCAGAATGGCTAAGAGCCGTAAAC
38860507 AAGATAGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.17
Consensus pattern (39 bp):
AGAGCTGCCAGTAGTCAGAATGGCTAAGAGCCGTAAACC
Found at i:38860608 original size:32 final size:32
Alignment explanation
Indices: 38860572--38860838 Score: 209
Period size: 32 Copynumber: 8.3 Consensus size: 32
38860562 ATTAGTACAA
* *
38860572 AGCCATCAGTAGCAATGATATGATCGGCACAC
1 AGCCATCAGTAACAGTGATATGATCGGCACAC
* * * * *
38860604 AGCCATCAATAACGGTAACATGA-CTGGCACAA
1 AGCCATCAGTAACAGTGATATGATC-GGCACAC
* *
38860636 AGCCATCAGTAGCAGTGATATGATTGGCACAC
1 AGCCATCAGTAACAGTGATATGATCGGCACAC
* *
38860668 AGCCATCACTAACAGTGAAATGATCGGCACAC
1 AGCCATCAGTAACAGTGATATGATCGGCACAC
* * * * *
38860700 AGCCATCGGTAACGGTAATATGATTGGCACAA
1 AGCCATCAGTAACAGTGATATGATCGGCACAC
* ** * *
38860732 AGCCATCAATAATGGT-ACTATGATCGGCATAA
1 AGCCATCAGTAACAGTGA-TATGATCGGCACAC
* * * *
38860764 AGTCATCAGCAACGGT-ATTATGATCGGCACAA
1 AGCCATCAGTAACAGTGA-TATGATCGGCACAC
** * *
38860796 AGCCATCAGTAATGGT-ACTATGATCGGCAGAA
1 AGCCATCAGTAACAGTGA-TATGATCGGCACAC
38860828 AGCCATCAGTA
1 AGCCATCAGTA
38860839 GCATCGCAGT
Statistics
Matches: 191, Mismatches: 41, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
31 2 0.01
32 189 0.99
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (32 bp):
AGCCATCAGTAACAGTGATATGATCGGCACAC
Found at i:38860646 original size:64 final size:64
Alignment explanation
Indices: 38860568--38860841 Score: 286
Period size: 64 Copynumber: 4.3 Consensus size: 64
38860558 TGTGATTAGT
* *
38860568 ACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAATAACGGTAAC-ATGA-CTGG
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCCATCAATAACGGT-ACTATGATC-GG
38860631 C
64 C
* * * * *
38860632 ACAAAGCCATCAGTAGCAGTGATATGATTGGCACACAGCCATCACTAACAGTGA-AATGATCGGC
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCCATCAATAACGGT-ACTATGATCGGC
* * * * * * *
38860696 ACACAGCCATCGGTAACGGTAATATGATTGGCACAAAGCCATCAATAATGGTACTATGATCGGC
1 ACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCCATCAATAACGGTACTATGATCGGC
* * * * * * *
38860760 ATAAAGTCATCAGCAACGGT-ATTATGATCGGCACAAAGCCATCAGTAATGGTACTATGATCGGC
1 ACAAAGCCATCAGTAGCAGTGA-TATGATCGGCACAAAGCCATCAATAACGGTACTATGATCGGC
*
38860824 AGAAAGCCATCAGTAGCA
1 ACAAAGCCATCAGTAGCA
38860842 TCGCAGTAAA
Statistics
Matches: 179, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
63 2 0.01
64 176 0.98
65 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (64 bp):
ACAAAGCCATCAGTAGCAGTGATATGATCGGCACAAAGCCATCAATAACGGTACTATGATCGGC
Found at i:38860691 original size:96 final size:95
Alignment explanation
Indices: 38860540--38860739 Score: 265
Period size: 96 Copynumber: 2.1 Consensus size: 95
38860530 GAATGACTAC
* * * * * *
38860540 AAGCCATAAGTACAGTAATGTGATTAGTACAAAGCCATCAGTAGCAATGATATGATCGGCACACA
1 AAGCCATCAGTACAGTAATATGATTAGCACAAAGCCATCACTAACAATGAAATGATCGGCACACA
38860605 GCCATCAATAACGGTAACATGACTGGCACA
66 GCCATCAATAACGGTAACATGACTGGCACA
* * * *
38860635 AAGCCATCAGTAGCAGTGATATGATTGGCACACAGCCATCACTAACAGTGAAATGATCGGCACAC
1 AAGCCATCAGTA-CAGTAATATGATTAGCACAAAGCCATCACTAACAATGAAATGATCGGCACAC
** * *
38860700 AGCCATCGGTAACGGTAATATGATTGGCACA
65 AGCCATCAATAACGGTAACATGACTGGCACA
38860731 AAGCCATCA
1 AAGCCATCA
38860740 ATAATGGTAC
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 11 0.12
96 79 0.88
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (95 bp):
AAGCCATCAGTACAGTAATATGATTAGCACAAAGCCATCACTAACAATGAAATGATCGGCACACA
GCCATCAATAACGGTAACATGACTGGCACA
Found at i:38860754 original size:96 final size:96
Alignment explanation
Indices: 38860568--38860835 Score: 290
Period size: 96 Copynumber: 2.8 Consensus size: 96
38860558 TGTGATTAGT
* * * * * *
38860568 ACAAAGCCATCAGTAGCAATGATATGATCGGCACACAGCCATCAATAACGGTAACATGACTGGCA
1 ACAAAGCCATCACTAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAATATGATTGGCA
* * *
38860633 CAAAGCCATCAGTAGCAGTGATATGATTGGC
66 CAAAGCCATCAATAACAGTGATATGATCGGC
* * *
38860664 ACACAGCCATCACTAACAGTGAAATGATCGGCACACAGCCATCGGTAACGGTAATATGATTGGCA
1 ACAAAGCCATCACTAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAATATGATTGGCA
**
38860729 CAAAGCCATCAATAATGGT-ACTATGATCGGC
66 CAAAGCCATCAATAACAGTGA-TATGATCGGC
* * * * * * *
38860760 ATAAAGTCATCAGC-AACGGT-ATTATGATCGGCACAAAGCCATCAGTAATGGTACTATGATCGG
1 ACAAAGCCATCA-CTAACAGTGA-TATGATCGGCACACAGCCATCAGTAACGGTAATATGATTGG
*
38860823 CAGAAAGCCATCA
64 CACAAAGCCATCA
38860836 GTAGCATCGC
Statistics
Matches: 144, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
95 2 0.01
96 141 0.98
97 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (96 bp):
ACAAAGCCATCACTAACAGTGATATGATCGGCACACAGCCATCAGTAACGGTAATATGATTGGCA
CAAAGCCATCAATAACAGTGATATGATCGGC
Found at i:38861144 original size:27 final size:27
Alignment explanation
Indices: 38861090--38861258 Score: 220
Period size: 27 Copynumber: 6.3 Consensus size: 27
38861080 AAAATTGTCA
*
38861090 TTTACCC-ACCAGGGCATTACGATCAT
1 TTTACCCTACAAGGGCATTACGATCAT
* * *
38861116 TTTACCCTACAGGGGTATTACGATTAT
1 TTTACCCTACAAGGGCATTACGATCAT
*
38861143 TTTACCCTACAGGGGCATTACGATCAT
1 TTTACCCTACAAGGGCATTACGATCAT
38861170 TTTACCCTACAAGGGCATTAC-AGTCAT
1 TTTACCCTACAAGGGCATTACGA-TCAT
38861197 TTTACCCTACAAGGGCATTAC-AGTCAT
1 TTTACCCTACAAGGGCATTACGA-TCAT
* * *
38861224 TTTACCCTACAAGAG-TTTACGGTCAT
1 TTTACCCTACAAGGGCATTACGATCAT
38861250 TTTACCCTA
1 TTTACCCTA
38861259 TAGGGGTATT
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
26 25 0.19
27 105 0.81
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (27 bp):
TTTACCCTACAAGGGCATTACGATCAT
Found at i:38864030 original size:19 final size:19
Alignment explanation
Indices: 38864006--38864046 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
38863996 TAAATAAAAA
38864006 TATTTTATTAAGAAGTTAG
1 TATTTTATTAAGAAGTTAG
38864025 TATTTTATTAAGAAGTTAG
1 TATTTTATTAAGAAGTTAG
38864044 TAT
1 TAT
38864047 CTTTTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (19 bp):
TATTTTATTAAGAAGTTAG
Found at i:38866473 original size:32 final size:32
Alignment explanation
Indices: 38866437--38866541 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
38866427 CATATATGTA
38866437 AATAATTTAAGTTGATACAAGAATGAAAATTC
1 AATAATTTAAGTTGATACAAGAATGAAAATTC
*** * * * * *
38866469 AATAAAAAAAATAGAAAC-ATAATGCAAATATATGTA
1 AATAATTTAAGTTGATACAAGAATG--AA-A-AT-TC
38866505 AATAATTTAAGTTGATACAAGAATGAAAATTC
1 AATAATTTAAGTTGATACAAGAATGAAAATTC
38866537 AATAA
1 AATAA
38866542 AAAAATAGAA
Statistics
Matches: 51, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
31 5 0.10
32 18 0.35
33 4 0.08
34 2 0.04
35 4 0.08
36 13 0.25
37 5 0.10
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.28
Consensus pattern (32 bp):
AATAATTTAAGTTGATACAAGAATGAAAATTC
Found at i:38866500 original size:68 final size:68
Alignment explanation
Indices: 38866379--38866607 Score: 401
Period size: 67 Copynumber: 3.4 Consensus size: 68
38866369 TTCATCTAAG
*
38866379 AAGTTGATA-AAGAATGAAAATTCAATAAAAAAAA-AGAAACATAATGCACATATATGTAAATAA
1 AAGTTGATACAAGAATGAAAATTCAATAAAAAAAATAGAAACATAATGCAAATATATGTAAATAA
38866442 TTT
66 TTT
38866445 AAGTTGATACAAGAATGAAAATTCAATAAAAAAAATAGAAACATAATGCAAATATATGTAAATAA
1 AAGTTGATACAAGAATGAAAATTCAATAAAAAAAATAGAAACATAATGCAAATATATGTAAATAA
38866510 TTT
66 TTT
*
38866513 AAGTTGATACAAGAATGAAAATTCAAT-AAAAAAATAGAAACATAATGAAAATATATGTAAATAA
1 AAGTTGATACAAGAATGAAAATTCAATAAAAAAAATAGAAACATAATGCAAATATATGTAAATAA
38866577 TTT
66 TTT
* *
38866580 AAGTTGATTCAAGAATGAAAGTTCAATA
1 AAGTTGATACAAGAATGAAAATTCAATA
38866608 CATAAATCAC
Statistics
Matches: 156, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
66 9 0.06
67 89 0.57
68 58 0.37
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.27
Consensus pattern (68 bp):
AAGTTGATACAAGAATGAAAATTCAATAAAAAAAATAGAAACATAATGCAAATATATGTAAATAA
TTT
Found at i:38869806 original size:81 final size:85
Alignment explanation
Indices: 38869666--38869841 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 85
38869656 ATTATACAAG
* * *
38869666 TTTT-TTTTTATTTTTTCAGCTTAAAAAAATTAAAAATATTTGGGTGCCGCCTGACACATCGGTT
1 TTTTATTTTTATATTTTCAGCTTAAAAAAATTAAAAATATTTGGGTGCCGCCTAACACATCGGTG
* *
38869730 GTACCAATAAATAATT-TT-
66 GCACCAATAAAAAATTATTA
* *
38869748 TTTTATTTTTATCATTTT-AGC-TAAAAAAATT-AAAATATTTGGGTGCTGCCTAAGACATCGGT
1 TTTTATTTTTAT-ATTTTCAGCTTAAAAAAATTAAAAATATTTGGGTGCCGCCTAACACATCGGT
38869810 GGCACCAATAAAAAATTATTA
65 GGCACCAATAAAAAATTATTA
38869831 TTTTCATTTTT
1 TTTT-ATTTTT
38869842 CGTATACTAT
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
81 42 0.51
82 16 0.20
83 14 0.17
84 10 0.12
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (85 bp):
TTTTATTTTTATATTTTCAGCTTAAAAAAATTAAAAATATTTGGGTGCCGCCTAACACATCGGTG
GCACCAATAAAAAATTATTA
Found at i:38871770 original size:16 final size:16
Alignment explanation
Indices: 38871746--38871783 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38871736 TTTGGTTCGC
* *
38871746 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
38871762 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
38871778 TGTAAT
1 TGTAAT
38871784 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:38871867 original size:39 final size:43
Alignment explanation
Indices: 38871762--38871871 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
38871752 GGATTAGAGG
38871762 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
38871807 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
38871847 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
38871872 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:38872038 original size:18 final size:17
Alignment explanation
Indices: 38872017--38872051 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38872007 TTATTATTAA
*
38872017 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38872035 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38872052 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38872105 original size:157 final size:157
Alignment explanation
Indices: 38871904--38872220 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
38871894 TAGAATACCC
*
38871904 TTAGCATAAATTTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
38871969 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
38872034 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
38872061 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
38872126 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
38872191 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
38872218 TTA
1 TTA
38872221 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATAATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:38872191 original size:16 final size:16
Alignment explanation
Indices: 38872154--38872195 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38872144 TTAATCATAT
*
38872154 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
38872170 TT-AAATATATTATAA
1 TTAAAATATATTATAA
38872185 TTAAAATATAT
1 TTAAAATATAT
38872196 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:38872202 original size:14 final size:15
Alignment explanation
Indices: 38872163--38872204 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38872153 TTTAAACATA
*
38872163 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38872178 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
38872192 A-TATAATTTAATA
1 ATTATAATTAAATA
38872205 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38872292 original size:120 final size:121
Alignment explanation
Indices: 38872157--38872448 Score: 434
Period size: 120 Copynumber: 2.4 Consensus size: 121
38872147 ATCATATTTA
*
38872157 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATAATT-TAATTAAAATATATAATTTAATAAAATTCTTAATAAATA
* * *
38872221 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-AT-
65 AAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATATC
38872277 AACATAATTATTATTAAATATAATTTAA-TATAAATATATAATTTAATAAAATTCTTAATAAATA
1 AACATAATTATTATTAAATATAATTTAATTA-AAATATATAATTTAATAAAATTCTTAATAAATA
* *
38872341 AAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTC
65 AAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATATC
* * *
38872398 AA-ATAATTAATATTAAATATGATTTAATT-AAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATT
38872449 TAAAATTATT
Statistics
Matches: 158, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
119 26 0.16
120 126 0.80
121 6 0.04
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
AATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATATC
Found at i:38872305 original size:157 final size:155
Alignment explanation
Indices: 38871956--38872286 Score: 378
Period size: 157 Copynumber: 2.1 Consensus size: 155
38871946 TTTAAATTTT
* * *
38871956 AATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAT
1 AATAACATAATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAT
* * * * * **
38872021 ATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAAT
66 ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAAT
* * * **
38872086 TATTATTGTTATTGTTATTTAAATTTT
131 TAATATTGATACTGTTA--TAAATTAA
* *
38872113 AATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAT
1 AATAACATAATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAT
* **
38872178 ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTC
66 ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-
38872243 AAATCATAATATATGATACTG-TA-AAATATAA
127 AAAT--TAATAT-TGATACTGTTATAAAT-TAA
38872274 AATAACATAATTA
1 AATAACATAATTA
38872287 TTATTAAATA
Statistics
Matches: 148, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
157 107 0.72
159 4 0.03
160 8 0.05
161 16 0.11
163 7 0.05
164 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (155 bp):
AATAACATAATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATAT
ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAAT
TAATATTGATACTGTTATAAATTAA
Found at i:38872317 original size:18 final size:17
Alignment explanation
Indices: 38872294--38872328 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
38872284 TTATTATTAA
38872294 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
38872312 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38872329 TCTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38872375 original size:59 final size:59
Alignment explanation
Indices: 38872192--38872375 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 59
38872182 TAATTAAAAT
*
38872192 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
* * ** * *
38872251 ATAT-ATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATTTAAT-ATAA--
1 ATATAAT-TTA--ATAAAAT-TCTTAATAA-ATAA-TATTCTT--ATATGAATTTACTCA-AATC
38872310 AT-
57 ATA
* *
38872312 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
38872371 ATATA
1 ATATA
38872376 TGATACTATA
Statistics
Matches: 94, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
55 3 0.03
56 9 0.10
57 6 0.06
58 9 0.10
59 22 0.23
61 17 0.18
62 8 0.09
63 7 0.07
64 9 0.10
65 4 0.04
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:38872429 original size:15 final size:15
Alignment explanation
Indices: 38872409--38872447 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
38872399 AATAATTAAT
38872409 ATTAAATATGATTTA
1 ATTAAATATGATTTA
38872424 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
38872441 ATAAAAT
1 ATTAAAT
38872448 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:38872434 original size:17 final size:17
Alignment explanation
Indices: 38872414--38872447 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38872404 TTAATATTAA
*
38872414 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
38872431 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
38872448 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:38872536 original size:24 final size:25
Alignment explanation
Indices: 38872490--38872537 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
38872480 TATGAATTTG
38872490 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
38872516 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
38872538 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:38874266 original size:20 final size:19
Alignment explanation
Indices: 38874207--38874253 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
38874197 CAACTACACA
38874207 AATTCACAATGTAACCTACT
1 AATT-ACAATGTAACCTACT
38874227 AATTACAATGTAACCTACT
1 AATTACAATGTAACCTACT
38874246 AATTACAA
1 AATTACAA
38874254 CTTCGACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTACAATGTAACCTACT
Found at i:38874312 original size:41 final size:41
Alignment explanation
Indices: 38874261--38874353 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
38874251 CAACTTCGAC
38874261 CTACTACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTAC-ACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
38874303 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
38874344 CTACACAAAT
1 CTACACAAAT
38874354 TCACAATGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (41 bp):
CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
Found at i:38875011 original size:14 final size:14
Alignment explanation
Indices: 38874986--38875020 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
38874976 AAGAAGAAGC
38874986 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
38875001 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
38875015 AGAAAA
1 AGAAAA
38875021 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:38875018 original size:19 final size:18
Alignment explanation
Indices: 38874996--38875040 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
38874986 AGAAATATGG
38874996 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
38875015 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
38875032 AGAAAAGAA
1 AGAAAAGAA
38875041 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:38876506 original size:23 final size:23
Alignment explanation
Indices: 38876480--38876529 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
38876470 TAAACAAATT
38876480 CAATTTCCAGCAGAC-AATCAA-AA
1 CAATTTCCAG-A-ACAAATCAAGAA
38876503 CAATTTCCAGAACAAATCAAGAA
1 CAATTTCCAGAACAAATCAAGAA
38876526 CAAT
1 CAAT
38876530 ATCAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.08
22 7 0.28
23 16 0.64
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.18
Consensus pattern (23 bp):
CAATTTCCAGAACAAATCAAGAA
Found at i:38876538 original size:22 final size:22
Alignment explanation
Indices: 38876495--38876541 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
38876485 TCCAGCAGAC
* *
38876495 AATCAAAACAATTTCCAGAACA
1 AATCAAAACAATATCCAAAACA
38876517 AATCAAGAACAATAT-CAAAACA
1 AATCAA-AACAATATCCAAAACA
38876539 AAT
1 AAT
38876542 GCAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (22 bp):
AATCAAAACAATATCCAAAACA
Found at i:38877292 original size:17 final size:17
Alignment explanation
Indices: 38877270--38877305 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
38877260 ACTCAAAGGG
38877270 AAATAAACAGCAATAGA
1 AAATAAACAGCAATAGA
38877287 AAATAAACAGCAATAGA
1 AAATAAACAGCAATAGA
38877304 AA
1 AA
38877306 CATGCAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (17 bp):
AAATAAACAGCAATAGA
Found at i:38877430 original size:88 final size:88
Alignment explanation
Indices: 38877281--38877455 Score: 341
Period size: 88 Copynumber: 2.0 Consensus size: 88
38877271 AATAAACAGC
38877281 AATAGAAAATAAACAGCAATAGAAACATGCAATCGGGGAAACTAACCTGTACTGACTTGATCGGG
1 AATAGAAAATAAACAGCAATAGAAACATGCAATCGGGGAAACTAACCTGTACTGACTTGATCGGG
38877346 GCAGAGATATATGAAGAACAACT
66 GCAGAGATATATGAAGAACAACT
*
38877369 AATAGAAAATAAATAGCAATAGAAACATGCAATCGGGGAAACTAACCTGTACTGACTTGATCGGG
1 AATAGAAAATAAACAGCAATAGAAACATGCAATCGGGGAAACTAACCTGTACTGACTTGATCGGG
38877434 GCAGAGATATATGAAGAACAAC
66 GCAGAGATATATGAAGAACAAC
38877456 CTGTAATCGA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (88 bp):
AATAGAAAATAAACAGCAATAGAAACATGCAATCGGGGAAACTAACCTGTACTGACTTGATCGGG
GCAGAGATATATGAAGAACAACT
Found at i:38886943 original size:27 final size:28
Alignment explanation
Indices: 38886859--38886956 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
38886849 CATGAGATTG
* * * *
38886859 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
38886888 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
38886916 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38886943 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
38886957 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38886967 original size:27 final size:27
Alignment explanation
Indices: 38886887--38886969 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
38886877 TAAATTGTAC
* *
38886887 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
38886915 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
38886942 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
38886969 A
1 A
38886970 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:38886970 original size:29 final size:27
Alignment explanation
Indices: 38886859--38886970 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
38886849 CATGAGATTG
** * *
38886859 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
38886888 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
38886916 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
38886943 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
38886971 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:38891983 original size:19 final size:19
Alignment explanation
Indices: 38891959--38891995 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
38891949 AATCATATCT
38891959 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
38891978 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
38891996 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38892003 original size:17 final size:19
Alignment explanation
Indices: 38891962--38892003 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
38891952 CATATCTTCT
*
38891962 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
38891981 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
38891998 AAGATT
1 AAGATT
38892004 ATGTTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:38893655 original size:22 final size:23
Alignment explanation
Indices: 38893610--38893657 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
38893600 ATATTGCCAA
**
38893610 TTTTATCAATCTAATTATCCTAT
1 TTTTATCAATCTAATTATAATAT
*
38893633 TTTTAT-AATCTAATTTTAATAT
1 TTTTATCAATCTAATTATAATAT
38893655 TTT
1 TTT
38893658 CCATACTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTATCAATCTAATTATAATAT
Found at i:38893989 original size:10 final size:10
Alignment explanation
Indices: 38893955--38894082 Score: 65
Period size: 9 Copynumber: 12.9 Consensus size: 10
38893945 ATTTTTTTAA
38893955 TTTTAAAATAT
1 TTTTAAAAT-T
*
38893966 TTTTACATACTT
1 TTTTA-A-AATT
38893978 TTTTAAAA-T
1 TTTTAAAATT
38893987 TTTT-AAATT
1 TTTTAAAATT
**
38893996 TTTTTTAA--
1 TTTTAAAATT
38894004 TTTTAAAATAT
1 TTTTAAAAT-T
*
38894015 TTTT-TAATT
1 TTTTAAAATT
**
38894024 TTTTTTAA--
1 TTTTAAAATT
38894032 TTTTAAAATAT
1 TTTTAAAAT-T
38894043 TTTTAAAATACT
1 TTTTAAAAT--T
**
38894055 TTTTTTAATT
1 TTTTAAAATT
38894065 TTTTAAAA-T
1 TTTTAAAATT
38894074 TTTTAAAAT
1 TTTTAAAAT
38894083 AAAAATGGGC
Statistics
Matches: 91, Mismatches: 13, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
8 15 0.16
9 24 0.26
10 16 0.18
11 19 0.21
12 15 0.16
13 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:38894007 original size:28 final size:28
Alignment explanation
Indices: 38893977--38894080 Score: 131
Period size: 28 Copynumber: 3.6 Consensus size: 28
38893967 TTTACATACT
*
38893977 TTTTTAAA-ATTTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAAATTTTTTTTAA
*
38894004 TTTTAAAATATTTTTTAATTTTTTTTAA
1 TTTTAAAATATTTTTAAATTTTTTTTAA
38894032 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTT-AAAT--TTTTTTTAA
*
38894063 TTTTTTAAA-ATTTTTAAA
1 -TTTTAAAATATTTTTAAA
38894081 ATAAAAATGG
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
27 7 0.10
28 33 0.49
29 3 0.04
30 3 0.04
31 15 0.22
32 7 0.10
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTAAAATATTTTTAAATTTTTTTTAA
Found at i:38900474 original size:16 final size:18
Alignment explanation
Indices: 38900440--38900475 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38900430 CTACATGTAC
*
38900440 AAAAAAAGAGAGAGAAAA
1 AAAAAAAGAGACAGAAAA
38900458 AAAAAAAGA-ACAGAAAA
1 AAAAAAAGAGACAGAAAA
38900475 A
1 A
38900476 GTGCTAGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.81, C:0.03, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAGACAGAAAA
Found at i:38903018 original size:125 final size:126
Alignment explanation
Indices: 38902772--38903121 Score: 632
Period size: 126 Copynumber: 2.8 Consensus size: 126
38902762 TTTCGAGTTG
* * *
38902772 ACGTTTCTGATCAAATAGTATAAAA-TCGTTTTTAGCAGGATGCTATTTGAGAAGAATTTGTG-A
1 ACGTTTCTGAGCAAATAGTATAAAACT-GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAA
*
38902835 AATCGCGCCCTAGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATTTTTTTTT
65 AATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATTTTTTTTT
38902897 ACGTTTCTGAGCAAATAGTATAAAACTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAACTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
38902962 ATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATTTTTTTTT
66 ATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATTTTTTTTT
38903023 ACGTTTCTGAGCAAATAGTATAAAACTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTGAGCAAATAGTATAAAACTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
*
38903088 ATCGCACCCTCGTGGACGCGCTTTTGCTACAGTA
66 ATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
38903122 TCATGTTTGG
Statistics
Matches: 218, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
125 57 0.26
126 161 0.74
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
ACGTTTCTGAGCAAATAGTATAAAACTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
ATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAAATTTTTTTTT
Found at i:38905534 original size:23 final size:23
Alignment explanation
Indices: 38905508--38905733 Score: 306
Period size: 23 Copynumber: 10.2 Consensus size: 23
38905498 TTATTCGAGN
38905508 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
38905531 TTAA--GGGTTATGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
38905552 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
*
38905575 TTAA--GGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* * *
38905596 TTAA--GGGTTAGGATTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAG
*
38905617 TTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAG
*
38905640 TTAATTAGGTTAGGGTTTTTATG
1 TTAATTAGGTTAGGGTTTTTAAG
38905663 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* *
38905686 TTAA--GGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAG
38905707 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
38905730 TTAA
1 TTAA
38905734 GGGTATTAAT
Statistics
Matches: 181, Mismatches: 16, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
21 77 0.43
23 104 0.57
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (23 bp):
TTAATTAGGTTAGGGTTTTTAAG
Found at i:38905557 original size:44 final size:45
Alignment explanation
Indices: 38905508--38905733 Score: 293
Period size: 44 Copynumber: 5.1 Consensus size: 45
38905498 TTATTCGAGN
* *
38905508 TTAATTAGGTTAGGGTTTTTAAGTTAA-GGGTTATGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAG
*
38905552 TTAATTAGGTTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAG
* * * *
38905596 TTAA--GGGTTAGGATTTTTAATTTAATTAGGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAG
*
38905640 TTAATTAGGTTAGGGTTTTTATGTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAG
* *
38905686 TTAA--GGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAGTTAA-TAGGTTAGGGTTTTTAAG
38905730 TTAA
1 TTAA
38905734 GGGTATTAAT
Statistics
Matches: 164, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
42 18 0.11
44 107 0.65
46 39 0.24
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (45 bp):
TTAATTAGGTTAGGGTTTTTAAGTTAATAGGTTAGGGTTTTTAAG
Found at i:38905782 original size:9 final size:9
Alignment explanation
Indices: 38905764--38905800 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
38905754 ATTCTCAAAT
38905764 AATA-TCAA
1 AATATTCAA
38905772 AATATTCAA
1 AATATTCAA
38905781 AATATTCAA
1 AATATTCAA
38905790 AATATTCAA
1 AATATTCAA
38905799 AA
1 AA
38905801 ATTTCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (9 bp):
AATATTCAA
Found at i:38905832 original size:25 final size:25
Alignment explanation
Indices: 38905803--38905850 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
38905793 ATTCAAAAAT
*
38905803 TTCTACTTTCTTACATCAAATAAAC
1 TTCTACTTTATTACATCAAATAAAC
*
38905828 TTCTATTTTATTACATCAAATAA
1 TTCTACTTTATTACATCAAATAA
38905851 TATCAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (25 bp):
TTCTACTTTATTACATCAAATAAAC
Found at i:38908998 original size:20 final size:20
Alignment explanation
Indices: 38908961--38908998 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38908951 ATTATTTTTA
*
38908961 AAAATCTACATAATAATTAT
1 AAAATCTACATAAAAATTAT
38908981 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
38908999 TACCTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTAT
Found at i:38909999 original size:51 final size:51
Alignment explanation
Indices: 38909938--38910037 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
38909928 TATTATTTAA
*
38909938 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAACTGAGATT
* * * *
38909989 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAACTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAACTGAGA
38910038 GGAAATTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.27, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAACTGAGATT
Found at i:38910022 original size:22 final size:23
Alignment explanation
Indices: 38909997--38910065 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
38909987 TTAAATATGG
38909997 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGGAGAGGA
*
38910019 ATTTGAGAGCAAA-CT-GAGAGGA
1 ATTTGAGAG-AAATTTGGAGAGGA
*
38910041 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTG-GAGAGGA
38910066 TTAGTTTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.05
22 24 0.63
23 5 0.13
25 7 0.18
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.22
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGGAGAGGA
Found at i:38910065 original size:14 final size:11
Alignment explanation
Indices: 38909962--38910061 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
38909952 GAGAAATTTA
38909962 AGAGGAAATTG
1 AGAGGAAATTG
*
38909973 AGAGCAAATTG
1 AGAGGAAATTG
**
38909984 AGATTAAA-T-
1 AGAGGAAATTG
* *
38909993 A-TGG-ATTTG
1 AGAGGAAATTG
38910002 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
38910013 -GAAGGAATTTG
1 AG-AGGAAATTG
* *
38910024 AGAGCAAACTG
1 AGAGGAAATTG
38910035 AGAGGAAATTG
1 AGAGGAAATTG
38910046 AGAGGAAATTTG
1 AGAGGAAA-TTG
38910058 AGAG
1 AGAG
38910062 AGGATTAGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 46 0.71
12 11 0.17
ACGTcount: A:0.43, C:0.03, G:0.31, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:38912366 original size:20 final size:20
Alignment explanation
Indices: 38912329--38912366 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38912319 ATTATTTTTA
*
38912329 AAAATCTACATAATAATTAT
1 AAAATCTACATAAAAATTAT
38912349 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
38912367 TACCTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTAT
Found at i:38913368 original size:51 final size:51
Alignment explanation
Indices: 38913307--38913406 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
38913297 TATTATTTAA
*
38913307 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAACTGAGATT
* * * *
38913358 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAACTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAACTGAGA
38913407 GGAAATTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.27, T:0.25
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAACTGAGATT
Found at i:38913391 original size:22 final size:23
Alignment explanation
Indices: 38913366--38913434 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
38913356 TTAAATATGG
38913366 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGGAGAGGA
*
38913388 ATTTGAGAGCAAA-CT-GAGAGGA
1 ATTTGAGAG-AAATTTGGAGAGGA
*
38913410 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTG-GAGAGGA
38913435 TTAGTTTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.05
22 24 0.63
23 5 0.13
25 7 0.18
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.22
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGGAGAGGA
Found at i:38913434 original size:14 final size:11
Alignment explanation
Indices: 38913331--38913430 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
38913321 GAGAAATTTA
38913331 AGAGGAAATTG
1 AGAGGAAATTG
*
38913342 AGAGCAAATTG
1 AGAGGAAATTG
**
38913353 AGATTAAA-T-
1 AGAGGAAATTG
* *
38913362 A-TGG-ATTTG
1 AGAGGAAATTG
38913371 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
38913382 -GAAGGAATTTG
1 AG-AGGAAATTG
* *
38913393 AGAGCAAACTG
1 AGAGGAAATTG
38913404 AGAGGAAATTG
1 AGAGGAAATTG
38913415 AGAGGAAATTTG
1 AGAGGAAA-TTG
38913427 AGAG
1 AGAG
38913431 AGGATTAGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 46 0.71
12 11 0.17
ACGTcount: A:0.43, C:0.03, G:0.31, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:38915555 original size:63 final size:63
Alignment explanation
Indices: 38915432--38915556 Score: 144
Period size: 63 Copynumber: 2.0 Consensus size: 63
38915422 TGTCAGGCCA
* * * * *
38915432 TGTAACTCAGTCTTTATGAATTAGAGTAACACGAGCCAAGGATACGGGCGTGTATGCAAGCCG
1 TGTAACTCACTCTTTATGAATTAGAGCAACACGAGCCAAGGACACGAGCGTGTATCCAAGCCG
* * ** *
38915495 TGTAACTCACTGTTTATGAATTAGAGCCACACGAGTTATA-GACACGAGCGTTTATCCAAGCC
1 TGTAACTCACTCTTTATGAATTAGAGCAACACGAGCCA-AGGACACGAGCGTGTATCCAAGCC
38915557 ATGTGAGATA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 50 0.98
64 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (63 bp):
TGTAACTCACTCTTTATGAATTAGAGCAACACGAGCCAAGGACACGAGCGTGTATCCAAGCCG
Found at i:38924993 original size:62 final size:63
Alignment explanation
Indices: 38924869--38924993 Score: 182
Period size: 62 Copynumber: 2.0 Consensus size: 63
38924859 TCACACAGCT
* *
38924869 GTGTAACTCACTGTTTGTGAATTAGAGTCACACGGACTAGGGACACTGGCGTGTGTCCAGGCC
1 GTGTAACTCACTGTTTGTGAATTAGAGTCACACGGACGAGAGACACTGGCGTGTGTCCAGGCC
* * *
38924932 GTGTAACTCACTGTTTGTGAATTAGA-TCACACGGGCGAGAGACAC-GAGTGTGTGTCTAGGCC
1 GTGTAACTCACTGTTTGTGAATTAGAGTCACACGGACGAGAGACACTG-GCGTGTGTCCAGGCC
38924994 ATGTGAGAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
61 1 0.02
62 29 0.52
63 26 0.46
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (63 bp):
GTGTAACTCACTGTTTGTGAATTAGAGTCACACGGACGAGAGACACTGGCGTGTGTCCAGGCC
Found at i:38929677 original size:15 final size:14
Alignment explanation
Indices: 38929656--38929691 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
38929646 ATCATCCTTA
*
38929656 ATAATTATCTTAAT
1 ATAATTATCCTAAT
38929670 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
38929685 ATAATTA
1 ATAATTA
38929692 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:38932343 original size:13 final size:13
Alignment explanation
Indices: 38932325--38932350 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38932315 AAGGTACAAC
38932325 TCCAAATAGTAAA
1 TCCAAATAGTAAA
38932338 TCCAAATAGTAAA
1 TCCAAATAGTAAA
38932351 GTGTAAGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
TCCAAATAGTAAA
Found at i:38934047 original size:39 final size:39
Alignment explanation
Indices: 38933993--38934071 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
38933983 TTACTCTACC
38933993 ATCAATAGACAATTTTACTTGTAGGAGAGAGGTAAGTTG
1 ATCAATAGACAATTTTACTTGTAGGAGAGAGGTAAGTTG
38934032 ATCAATAGACAATTTTACTTGTAGGAGAGAGGTAAGTTG
1 ATCAATAGACAATTTTACTTGTAGGAGAGAGGTAAGTTG
38934071 A
1 A
38934072 ACATTGATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (39 bp):
ATCAATAGACAATTTTACTTGTAGGAGAGAGGTAAGTTG
Found at i:38935700 original size:24 final size:25
Alignment explanation
Indices: 38935673--38935729 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
38935663 CCAAGGAGGC
*
38935673 TTGAGAAATACT-A-GATTTGGAAAT
1 TTGAGAAAT-CTGAGGATGTGGAAAT
38935697 TTGAG-AATCTGAGGATGTGGAAAT
1 TTGAGAAATCTGAGGATGTGGAAAT
38935721 TTGA-AAATC
1 TTGAGAAATC
38935730 AAATTTAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 2 0.07
23 4 0.14
24 23 0.79
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.32
Consensus pattern (25 bp):
TTGAGAAATCTGAGGATGTGGAAAT
Found at i:38942052 original size:21 final size:21
Alignment explanation
Indices: 38942026--38942130 Score: 74
Period size: 21 Copynumber: 5.1 Consensus size: 21
38942016 GAAGTACAAA
*
38942026 CAGGGGCACGTATGTGTAATT
1 CAGGGGCACGTATGTGCAATT
** * * *
38942047 CAGGGGTGC-TGAAGTACAA-A
1 CAGGGGCACGT-ATGTGCAATT
38942067 CAGGGGCACGTATGTGCAATT
1 CAGGGGCACGTATGTGCAATT
* * *
38942088 CAGGGGCAC-TGAAGTACAAAT
1 CAGGGGCACGT-ATGTGCAATT
*
38942109 -AGGGGAACGTATGTGCAATT
1 CAGGGGCACGTATGTGCAATT
38942129 CA
1 CA
38942131 ACAATAATCT
Statistics
Matches: 60, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
20 29 0.48
21 31 0.52
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.21
Consensus pattern (21 bp):
CAGGGGCACGTATGTGCAATT
Found at i:38942061 original size:41 final size:41
Alignment explanation
Indices: 38942016--38942130 Score: 185
Period size: 41 Copynumber: 2.8 Consensus size: 41
38942006 CATGGTTACC
* **
38942016 GAAGTACAAACAGGGGCACGTATGTGTAATTCAGGGGTGCT
1 GAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGCACT
38942057 GAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGCACT
1 GAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGCACT
* *
38942098 GAAGTACAAATAGGGGAACGTATGTGCAATTCA
1 GAAGTACAAACAGGGGCACGTATGTGCAATTCA
38942131 ACAATAATCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (41 bp):
GAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGCACT
Found at i:38944371 original size:21 final size:21
Alignment explanation
Indices: 38944345--38944386 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
38944335 ACTGGGGAGA
38944345 TGCTTTGTCTTGGTATCGAGG
1 TGCTTTGTCTTGGTATCGAGG
38944366 TGCTTTGTCTTGGTATCGAGG
1 TGCTTTGTCTTGGTATCGAGG
38944387 CGAATGAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.14, G:0.33, T:0.43
Consensus pattern (21 bp):
TGCTTTGTCTTGGTATCGAGG
Found at i:38945209 original size:6 final size:6
Alignment explanation
Indices: 38945198--38945238 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
38945188 AATTTTCTCC
38945198 AAAATG AAAATG AAAATG AAAATG AAAATGG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
38945239 TCATTTGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 25 0.76
7 4 0.12
8 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:38952722 original size:26 final size:26
Alignment explanation
Indices: 38952672--38952722 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
38952662 TATTATTACT
*
38952672 ATTATTATTATTATTTTATAGTTTTC
1 ATTATTATTATTATTTCATAGTTTTC
38952698 ATTATT-TTATTTATTTACATA-TTTT
1 ATTATTATTA-TTATTT-CATAGTTTT
38952723 ACGCCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.14
26 16 0.73
27 3 0.14
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (26 bp):
ATTATTATTATTATTTCATAGTTTTC
Found at i:38952840 original size:17 final size:16
Alignment explanation
Indices: 38952817--38952854 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
38952807 TATTTATGAA
38952817 TTTTATTT-TATTTATT
1 TTTTATTTGT-TTTATT
38952833 TATTTATTTGTTTTATT
1 T-TTTATTTGTTTTATT
38952850 TTTTA
1 TTTTA
38952855 GCTGGTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 14 0.70
18 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTGTTTTATT
Found at i:38954198 original size:19 final size:19
Alignment explanation
Indices: 38954174--38954218 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
38954164 AGCAAGAGTA
*
38954174 AGAAAGAACCATTCAATGT
1 AGAAAGAACCATGCAATGT
38954193 AGAAAGAACCATGCAATGT
1 AGAAAGAACCATGCAATGT
38954212 AGAAAGA
1 AGAAAGA
38954219 GCTTTAACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.20, T:0.16
Consensus pattern (19 bp):
AGAAAGAACCATGCAATGT
Found at i:38968756 original size:20 final size:20
Alignment explanation
Indices: 38968699--38968798 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
38968689 ATAGATACGT
* *
38968699 AACAAAGGCAACGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
* * *
38968719 AGCAGTGGCACC-ATAGTGCG
1 AACAGAGGCACCGA-AGTGCA
* *
38968739 AACAGAGACACCGAAGTGTA
1 AACAGAGGCACCGAAGTGCA
*
38968759 AA-AAAGGCACCGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
*
38968778 AACAGAGGCACCTAAGTGCA
1 AACAGAGGCACCGAAGTGCA
38968798 A
1 A
38968799 TCCGTACAAG
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
19 17 0.27
20 44 0.71
21 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.27, T:0.09
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:38969491 original size:17 final size:17
Alignment explanation
Indices: 38969469--38969503 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
38969459 AAAATTCCCT
38969469 ATCAATTCTAAT-ATTTA
1 ATCAATTC-AATCATTTA
38969486 ATCAATTCAATCATTTA
1 ATCAATTCAATCATTTA
38969503 A
1 A
38969504 CAAAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (17 bp):
ATCAATTCAATCATTTA
Found at i:38971511 original size:42 final size:42
Alignment explanation
Indices: 38971465--38971564 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
38971455 AGCCAGTTAT
*
38971465 GGTCTTACACGAATTTCATATCGATGCCAATGTCCCAGACAA
1 GGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGACAA
* *
38971507 GGTCTTACATGAATCTCATATCGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGACAA
38971549 GGTCTTACACGTAATC
1 GGTCTTACACG-AATC
38971565 ACATCTCAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 49 0.92
43 4 0.08
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
GGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGACAA
Found at i:38975896 original size:23 final size:23
Alignment explanation
Indices: 38975869--38975941 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
38975859 AATATTCGCA
*
38975869 GACAAGCTACCATATAGGTTGTG
1 GACAAGCTACCATATAGTTTGTG
* * *
38975892 GACAAAGCCATCA-ATA-TTTGTA
1 GAC-AAGCTACCATATAGTTTGTG
* *
38975914 GACAAGCTGCCATGTAGTTTGTG
1 GACAAGCTACCATATAGTTTGTG
38975937 GACAA
1 GACAA
38975942 AGCCACCAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 6 0.16
22 9 0.24
23 16 0.42
24 7 0.18
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (23 bp):
GACAAGCTACCATATAGTTTGTG
Found at i:38975907 original size:45 final size:45
Alignment explanation
Indices: 38975851--38975996 Score: 211
Period size: 45 Copynumber: 3.2 Consensus size: 45
38975841 TATGTGGATG
* * *
38975851 AAGCCACCAATATTCGCAGACAAGCTACCATATAGGTTGTGGACA
1 AAGCCACCAATATTTGCAGACAAGCTGCCATGTAGGTTGTGGACA
* * *
38975896 AAGCCATCAATATTTGTAGACAAGCTGCCATGTAGTTTGTGGACA
1 AAGCCACCAATATTTGCAGACAAGCTGCCATGTAGGTTGTGGACA
* * *
38975941 AAGCCACCAATATTTGCAGATAAGCTGCCATGTAGGTTGTAGACG
1 AAGCCACCAATATTTGCAGACAAGCTGCCATGTAGGTTGTGGACA
38975986 AAGCCACCAAT
1 AAGCCACCAAT
38975997 TCTTCCTCCT
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 89 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (45 bp):
AAGCCACCAATATTTGCAGACAAGCTGCCATGTAGGTTGTGGACA
Found at i:38975920 original size:21 final size:21
Alignment explanation
Indices: 38975851--38975965 Score: 68
Period size: 21 Copynumber: 5.2 Consensus size: 21
38975841 TATGTGGATG
* *
38975851 AAGCCACCAATATTCGCAGAC
1 AAGCCACCAATATTTGTAGAC
* * *
38975872 AAGCTACCATATAGGTTGTGGAC
1 AAGCCACCA-ATA-TTTGTAGAC
*
38975895 AAAGCCATCAATATTTGTAGAC
1 -AAGCCACCAATATTTGTAGAC
** * *
38975917 AAGCTGCCATGTAGTTTGTGGAC
1 AAGCCACCA-ATA-TTTGTAGAC
* *
38975940 AAAGCCACCAATATTTGCAGAT
1 -AAGCCACCAATATTTGTAGAC
38975962 AAGC
1 AAGC
38975966 TGCCATGTAG
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
21 18 0.26
22 18 0.26
23 18 0.26
24 14 0.21
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (21 bp):
AAGCCACCAATATTTGTAGAC
Found at i:38977158 original size:18 final size:19
Alignment explanation
Indices: 38977135--38977171 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
38977125 GGTGAAATGG
38977135 AAGAAA-AAGGAAAA-AGGA
1 AAGAAAGAA-GAAAATAGGA
38977153 AAGAAAGAAGAAAATAGGA
1 AAGAAAGAAGAAAATAGGA
38977172 GCAAAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (19 bp):
AAGAAAGAAGAAAATAGGA
Found at i:38980754 original size:33 final size:35
Alignment explanation
Indices: 38980716--38980781 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
38980706 GAAACCGACA
*
38980716 AAACAAAG-GA-AC-AAAAGACTTGCTACTGTGAAC
1 AAACAAAGAGAGACGAAAA-ACGTGCTACTGTGAAC
38980749 AAACAAAGAGAGACGAAAAACGTGCTACTGTGA
1 AAACAAAGAGAGACGAAAAACGTGCTACTGTGA
38980782 GCCAACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 8 0.28
34 2 0.07
35 15 0.52
36 4 0.14
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (35 bp):
AAACAAAGAGAGACGAAAAACGTGCTACTGTGAAC
Found at i:38987908 original size:20 final size:21
Alignment explanation
Indices: 38987873--38987912 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
38987863 GAGTTTTATT
38987873 TAATTTATAAAAATAAAAATA
1 TAATTTATAAAAATAAAAATA
*
38987894 TAATTT-TATAAATAAAAAT
1 TAATTTATAAAAATAAAAAT
38987913 TCATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTTATAAAAATAAAAATA
Found at i:38991392 original size:34 final size:34
Alignment explanation
Indices: 38991349--38991448 Score: 173
Period size: 34 Copynumber: 2.9 Consensus size: 34
38991339 AATATTCACC
* *
38991349 AAAATGAAACAAAAATGATAAGGCTTAAAACTAA
1 AAAATGAAACAAAAATAATAAGACTTAAAACTAA
*
38991383 AAAATGAAACAAAAATAATAAGACTTAAAACTAC
1 AAAATGAAACAAAAATAATAAGACTTAAAACTAA
38991417 AAAATGAAACAAAAATAATAAGACTTAAAACT
1 AAAATGAAACAAAAATAATAAGACTTAAAACT
38991449 CTAATAGTAG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.64, C:0.10, G:0.08, T:0.18
Consensus pattern (34 bp):
AAAATGAAACAAAAATAATAAGACTTAAAACTAA
Found at i:38991554 original size:40 final size:40
Alignment explanation
Indices: 38991495--38991581 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
38991485 AAAAAATGGA
* *
38991495 AAAAATTATAAGACCTATAATTAATAATACAAAAGATTCAC
1 AAAAA-TATAAAACCTATAATTAACAATACAAAAGATTCAC
* * * *
38991536 AAAAATATAAAACTTATAATTAACACTACAAAATATTTAC
1 AAAAATATAAAACCTATAATTAACAATACAAAAGATTCAC
38991576 AAAAAT
1 AAAAAT
38991582 TCAGATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 35 0.88
41 5 0.12
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (40 bp):
AAAAATATAAAACCTATAATTAACAATACAAAAGATTCAC
Found at i:39002431 original size:23 final size:23
Alignment explanation
Indices: 39002411--39002455 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
39002401 TTAAATTTTG
39002411 AATTATTTAGTGATAATATTTAT
1 AATTATTTAGTGATAATATTTAT
39002434 AATTATTTAGTGATAATATTTA
1 AATTATTTAGTGATAATATTTA
39002456 GGAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAT
Found at i:39002432 original size:13 final size:13
Alignment explanation
Indices: 39002414--39002456 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
39002404 AATTTTGAAT
39002414 TATTTAGTGATAA
1 TATTTAGTGATAA
*
39002427 TATTTA-T-A-AT
1 TATTTAGTGATAA
39002437 TATTTAGTGATAA
1 TATTTAGTGATAA
39002450 TATTTAG
1 TATTTAG
39002457 GAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:39010529 original size:13 final size:13
Alignment explanation
Indices: 39010511--39010543 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
39010501 AATTTTGAAT
*
39010511 TATTTAGTGATAA
1 TATTTAGTAATAA
39010524 TATTTAGTAATAA
1 TATTTAGTAATAA
39010537 TATTTAG
1 TATTTAG
39010544 GAAAAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:39020335 original size:16 final size:16
Alignment explanation
Indices: 39020314--39020346 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
39020304 TTCGCTGTAT
39020314 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
39020330 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
39020346 T
1 T
39020347 AGCAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:39020390 original size:45 final size:44
Alignment explanation
Indices: 39020326--39020422 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
39020316 GAATAGAGGC
39020326 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
39020371 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
39020415 GGAATGGA
1 GTAATGGA
39020423 GATGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:39020600 original size:18 final size:17
Alignment explanation
Indices: 39020579--39020613 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39020569 TTATTATTAA
*
39020579 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
39020597 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
39020614 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:39020690 original size:15 final size:15
Alignment explanation
Indices: 39020672--39020713 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
39020662 AATACTATAA
39020672 AATATAATTTAAAAT
1 AATATAATTTAAAAT
* *
39020687 AATAATTATTAAAAAT
1 AAT-ATAATTTAAAAT
39020703 -ATATAATTTAA
1 AATATAATTTAA
39020714 TAAAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATAATTTAAAAT
Found at i:39020705 original size:106 final size:106
Alignment explanation
Indices: 39020592--39020789 Score: 369
Period size: 106 Copynumber: 1.9 Consensus size: 106
39020582 TATTTTAATT
*
39020592 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAACTTACTAAAACCCTAA
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAACTTACTAAAACCATAA
39020657 TATATAATACTATAAAATATAATTTAAAATAATAATTATTA
66 TATATAATACTATAAAATATAATTTAAAATAATAATTATTA
* *
39020698 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAA
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAACTTACTAAAACCATAA
39020763 TATATAATACTATAAAATATAATTTAA
66 TATATAATACTATAAAATATAATTTAA
39020790 TGCATTCTCC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (106 bp):
AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAACTTACTAAAACCATAA
TATATAATACTATAAAATATAATTTAAAATAATAATTATTA
Found at i:39020710 original size:17 final size:16
Alignment explanation
Indices: 39020655--39020713 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
39020645 CTAAAACCCT
* *
39020655 AATATATAATACTATA
1 AATATATAATATTAAA
39020671 AA-ATATAAT-TT-AA
1 AATATATAATATTAAA
39020684 AATA-ATAATTATTAAA
1 AATATATAA-TATTAAA
39020700 AATATATAAT-TTAA
1 AATATATAATATTAA
39020714 TAAAATTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
13 7 0.19
14 3 0.08
15 13 0.36
16 9 0.25
17 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATATAATATTAAA
Found at i:39020743 original size:37 final size:34
Alignment explanation
Indices: 39020596--39020773 Score: 105
Period size: 37 Copynumber: 5.0 Consensus size: 34
39020586 TTAATTAAAA
*
39020596 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAA-TCATAATATTAAATA--CT
* * * *
39020633 TATATGAACTTACTAAAACCCTAATA-TATAATAC-
1 TATAT-AATTTAATAAAATCATAATATTA-AATACT
* * * *
39020667 TATAAAATATAATTTAAAATAATAATTATTAAA-A-A
1 TATATAATTTAA--TAAAATCATAA-TATTAAATACT
*
39020702 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAA-TCATAATATTAAATA--CT
*
39020739 TATATGAATTTACTAAAATCATAATA-TATAATACT
1 TATAT-AATTTAATAAAATCATAATATTA-AATACT
39020774 ATAAAATATA
Statistics
Matches: 109, Mismatches: 18, Indels: 30
0.69 0.11 0.19
Matches are distributed among these distances:
33 16 0.15
34 9 0.08
35 22 0.20
36 8 0.07
37 33 0.30
38 21 0.19
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (34 bp):
TATATAATTTAATAAAATCATAATATTAAATACT
Done.