Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 146 of 425
Found at i:44449371 original size:22 final size:22
Alignment explanation
Indices: 44449330--44449371 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44449320 AACAACATAG
*
44449330 AGGCCCAAAATTATTTCATTGA
1 AGGCCCAAAATTATTCCATTGA
*
44449352 AGGCCCAAAATTGTTCCATT
1 AGGCCCAAAATTATTCCATT
44449372 TACCGACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (22 bp):
AGGCCCAAAATTATTCCATTGA
Found at i:44457378 original size:68 final size:67
Alignment explanation
Indices: 44457306--44457457 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 67
44457296 CATCATGTGT
* * *
44457306 ACAAGAGAGCTATGAGACATTATGATATAGCTAGGTCGCATGAGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTATGAGA-A-TAT-ATATAGCTAGGTCGCATGAGTGATACCAGTGAAGGACACCA
44457369 TGTAG
63 TGTAG
* * * *
44457374 ACAAGAGAGCTATG-GAATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTATGAGAATATATATAGCTAGGTCGCATGAGTGATACCA-GTGAAGGACACCATG
44457438 TAG
65 TAG
*
44457441 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTATGAGA
44457458 TAAACTGGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 3 0.04
67 27 0.38
68 16 0.22
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTATGAGAATATATATAGCTAGGTCGCATGAGTGATACCAGTGAAGGACACCATGT
AG
Found at i:44464184 original size:18 final size:18
Alignment explanation
Indices: 44464145--44464184 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44464135 AGACTGATGT
*
44464145 GGGCTGTGTGGGCCACAT
1 GGGCTGTGTGGGCCACAA
44464163 GGGC-GTGTGGGCCTACAA
1 GGGCTGTGTGGGCC-ACAA
44464181 GGGC
1 GGGC
44464185 AGGCCACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.17
Consensus pattern (18 bp):
GGGCTGTGTGGGCCACAA
Found at i:44472912 original size:48 final size:47
Alignment explanation
Indices: 44472860--44473137 Score: 241
Period size: 48 Copynumber: 5.9 Consensus size: 47
44472850 GCCATATTAT
44472860 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA
* *
44472907 CGAGAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGAC-TATGAGA
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-TGAGA
* * * * * *
44472953 -TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGTATA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTG-AGA
* * * * *
44472999 GATGTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAAAT-ATGT
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-ATTGA-GA
*
44473050 GAGAGCCAGTGTAAGACGATGTCTGGGACATGGCATCGAC-TTGATG-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-GA
*** * *
44473096 TCCA-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
44473138 ACACCTTATG
Statistics
Matches: 189, Mismatches: 27, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.06
45 47 0.25
46 26 0.14
47 16 0.08
48 51 0.27
49 2 0.01
50 33 0.17
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA
Found at i:44473011 original size:92 final size:91
Alignment explanation
Indices: 44472821--44473132 Score: 300
Period size: 92 Copynumber: 3.3 Consensus size: 91
44472811 TTTGTGTGCT
* *
44472821 AGTGTAAGACGC--GTCTAGGACAT-GCATCGGC-CATATTATGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGAC-CATGTCTGGGACATGGCATC-GCACATATGA-GAGAGCCAGTGTAAGACCATGT
* * *
44472882 CTGGGACATGGCATCGACATTGAGACGAGAGC
63 CTGGGACATGGCATCGAC-TT-AGATGTG-TC
* * *
44472914 TAGTGTAAGA-CATGTTTGGGACAT-GCATCG-AC-TATGAGATGTGTCAGTGTAAGACCATGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGCACATATGAGA-GAGCCAGTGTAAGACCATGTC
44472975 TGGGACATGGCATCGGCACGTATAGATGTGTC
64 TGGGACATGGCATC-G-AC-T-TAGATGTGTC
* * *
44473007 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACAAATATGTGAGAGCCAGTGTAAGACGATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCAC--ATATGAGAGAGCCAGTGTAAGACCATGT
*
44473072 CTGGGACATGGCATCGACTT-GATGTCCATC
63 CTGGGACATGGCATCGACTTAGATGT--GTC
44473102 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
44473133 GCATTACACC
Statistics
Matches: 185, Mismatches: 17, Indels: 32
0.79 0.07 0.14
Matches are distributed among these distances:
91 2 0.01
92 47 0.25
93 21 0.11
94 38 0.21
95 34 0.18
96 4 0.02
97 1 0.01
98 32 0.17
99 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (91 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCACATATGAGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGACTTAGATGTGTC
Found at i:44473129 original size:143 final size:139
Alignment explanation
Indices: 44472866--44473135 Score: 377
Period size: 143 Copynumber: 1.9 Consensus size: 139
44472856 TTATGAGAGC
* * * *
44472866 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTTT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACAATGAGACGAGAGCCAGTGTAAGACATGTCT
*
44472931 GGGACATGCATCGACTATGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT
66 GGGACATGCATCGACTAT-AGATGTATCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT
44472996 ATAGATGTGT
130 ATAGATGTGT
*
44473006 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAAAT-ATG-TGAGAGCCAGTGTAAGACGA
1 CAGTGTAAGACCATGTCTAGGACATGGCATC-G-AC-AATGA-GACGAGAGCCAGTGTAAGAC-A
44473069 TGTCTGGGACATGGCATCGACT-T-GATGTCCATCAGTGTAAGACCATGTCTGGGACATGGCATC
61 TGTCTGGGACAT-GCATCGACTATAGATGT--ATCAGTGTAAGACCATGTCTGGGACATGGCATC
44473132 GGCA
123 GGCA
44473136 TTACACCTTA
Statistics
Matches: 116, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
140 30 0.26
141 6 0.05
142 19 0.16
143 52 0.45
144 9 0.08
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (139 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGACAATGAGACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCGACTATAGATGTATCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTA
TAGATGTGT
Found at i:44479419 original size:12 final size:12
Alignment explanation
Indices: 44479402--44479429 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44479392 AGCAAAACAG
44479402 GTTTTTAGTGGC
1 GTTTTTAGTGGC
44479414 GTTTTTAGTGGC
1 GTTTTTAGTGGC
44479426 GTTT
1 GTTT
44479430 GGATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.32, T:0.54
Consensus pattern (12 bp):
GTTTTTAGTGGC
Found at i:44479478 original size:40 final size:40
Alignment explanation
Indices: 44479434--44479558 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 40
44479424 GCGTTTGGAT
* *
44479434 AAAAAAGCCGCTATTGATCGAGCATTAGTAGCGCTTTTTG
1 AAAAAAGCCGCTATAGATCGAACATTAGTAGCGCTTTTTG
* * * **
44479474 AAAAACGCCACTGTAGATCGAACATTAGCGGCGCTTTTT-
1 AAAAAAGCCGCTATAGATCGAACATTAGTAGCGCTTTTTG
* * *
44479513 AAAAAACGCCGCTATAGGTTGATCATTAGCTA-CGCTTTTTG
1 AAAAAA-GCCGCTATAGATCGAACATTAG-TAGCGCTTTTTG
44479554 AAAAA
1 AAAAA
44479559 TGCGGAAAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
39 5 0.07
40 57 0.85
41 5 0.07
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (40 bp):
AAAAAAGCCGCTATAGATCGAACATTAGTAGCGCTTTTTG
Found at i:44479664 original size:40 final size:40
Alignment explanation
Indices: 44479609--44479737 Score: 188
Period size: 40 Copynumber: 3.2 Consensus size: 40
44479599 AGCTTTAGTG
*
44479609 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATTGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGA
*
44479649 GCATTAGCAGCGCTTTTTG-AAAACGCCACTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGA
* ** *
44479688 GCATTAGCGGCGCTTTTTAAAAAAAACCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGA
*
44479728 GCTTTAGCGG
1 GCATTAGCGG
44479738 TTATCAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.45
40 44 0.55
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCGA
Found at i:44480075 original size:7 final size:7
Alignment explanation
Indices: 44480059--44480237 Score: 63
Period size: 7 Copynumber: 25.1 Consensus size: 7
44480049 TATCATTTTA
*
44480059 GTTTAGG
1 GTTTATG
44480066 GTTTATG
1 GTTTATG
44480073 GTTTA-G
1 GTTTATG
*
44480079 AGTATATG
1 -GTTTATG
*
44480087 GTTTAAG
1 GTTTATG
**
44480094 GTTTAAA
1 GTTTATG
*
44480101 GTTTAGG
1 GTTTATG
* *
44480108 AGTTAATA
1 -GTTTATG
* *
44480116 TTTTAAG
1 GTTTATG
*
44480123 GTTTAGG
1 GTTTATG
*
44480130 GATTATGG
1 GTTTAT-G
*
44480138 GTTTAGG
1 GTTTATG
*
44480145 GATTATG
1 GTTTATG
44480152 GTTTATG
1 GTTTATG
* *
44480159 TTTTACG
1 GTTTATG
* **
44480166 GGTTGGG
1 GTTTATG
*
44480173 GTTTAAG
1 GTTTATG
*
44480180 GTTTAGG
1 GTTTATG
* *
44480187 GGTTAGGG
1 GTTTA-TG
*
44480195 GTTTAGG
1 GTTTATG
44480202 GTTTATG
1 GTTTATG
*
44480209 TTTTATG
1 GTTTATG
*
44480216 TTTTATG
1 GTTTATG
* *
44480223 ATTTACG
1 GTTTATG
44480230 GTTTATG
1 GTTTATG
44480237 G
1 G
44480238 GGATAAGGGT
Statistics
Matches: 126, Mismatches: 41, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
6 1 0.01
7 109 0.87
8 16 0.13
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (7 bp):
GTTTATG
Found at i:44480078 original size:14 final size:14
Alignment explanation
Indices: 44480059--44480237 Score: 88
Period size: 14 Copynumber: 12.1 Consensus size: 14
44480049 TATCATTTTA
44480059 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
* *
44480073 GTTTAGAGTATATG
1 GTTTAGGGTTTATG
* **
44480087 GTTTAAGGTTTAAA
1 GTTTAGGGTTTATG
44480101 GTTTAGGAGTTAATATTTTAAG
1 GTTTAGG-GTT--TA---T--G
*
44480123 GTTTAGGGATTATGG
1 GTTTAGGGTTTAT-G
*
44480138 GTTTAGGGATTATG
1 GTTTAGGGTTTATG
* * *
44480152 GTTTATGTTTTACG
1 GTTTAGGGTTTATG
* * *
44480166 GGTTGGGGTTTAAG
1 GTTTAGGGTTTATG
* *
44480180 GTTTAGGGGTTAGGG
1 GTTTAGGGTTTA-TG
44480195 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
* * *
44480209 TTTTATGTTTTATG
1 GTTTAGGGTTTATG
* *
44480223 ATTTACGGTTTATG
1 GTTTAGGGTTTATG
44480237 G
1 G
44480238 GGATAAGGGT
Statistics
Matches: 122, Mismatches: 34, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
14 79 0.65
15 29 0.24
16 1 0.01
17 2 0.02
19 2 0.02
21 2 0.02
22 7 0.06
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:44480142 original size:15 final size:14
Alignment explanation
Indices: 44480122--44480156 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
44480112 AATATTTTAA
44480122 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
44480136 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
44480151 GGTTTA
1 GGTTTA
44480157 TGTTTTACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:44480233 original size:57 final size:57
Alignment explanation
Indices: 44480117--44480234 Score: 155
Period size: 57 Copynumber: 2.1 Consensus size: 57
44480107 GAGTTAATAT
* * **
44480117 TTTAAGGTTTAGGGATTATGGGTTTAGGGATTATGGTTTATGTTTTACGGGTTGGGG
1 TTTAAGGTTTAGGGATTAGGGGTTTAGGGATTATGGTTTATGTTTTACGAGTTACGG
* * * * *
44480174 TTTAAGGTTTAGGGGTTAGGGGTTTAGGGTTTATGTTTTATGTTTTATGATTTACGG
1 TTTAAGGTTTAGGGATTAGGGGTTTAGGGATTATGGTTTATGTTTTACGAGTTACGG
44480231 TTTA
1 TTTA
44480235 TGGGGATAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (57 bp):
TTTAAGGTTTAGGGATTAGGGGTTTAGGGATTATGGTTTATGTTTTACGAGTTACGG
Found at i:44480670 original size:21 final size:21
Alignment explanation
Indices: 44480624--44480670 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
44480614 TTAAGGTGTA
44480624 GTTTATGGTCTAGGATTTCAG
1 GTTTATGGTCTAGGATTTCAG
*
44480645 ATTTATGGTCTAGGATTT-AGG
1 GTTTATGGTCTAGGATTTCA-G
44480666 GTTTA
1 GTTTA
44480671 GTGTTTGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.21, C:0.06, G:0.28, T:0.45
Consensus pattern (21 bp):
GTTTATGGTCTAGGATTTCAG
Found at i:44480691 original size:28 final size:28
Alignment explanation
Indices: 44480655--44480708 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
44480645 ATTTATGGTC
*
44480655 TAGGATTTAGGGTTTAGTGTTTGGGGTT
1 TAGGATTTAAGGTTTAGTGTTTGGGGTT
* **
44480683 TAGGGTTTAATTTTTAGTGTTTGGGG
1 TAGGATTTAAGGTTTAGTGTTTGGGG
44480709 GTAAATACGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (28 bp):
TAGGATTTAAGGTTTAGTGTTTGGGGTT
Found at i:44480704 original size:21 final size:21
Alignment explanation
Indices: 44480655--44480704 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
44480645 ATTTATGGTC
* *
44480655 TAGGATTTAGGGTTTAGTGTT
1 TAGGGTTTAGGGTTTAATGTT
* *
44480676 TGGGGTTTAGGGTTTAATTTT
1 TAGGGTTTAGGGTTTAATGTT
*
44480697 TAGTGTTT
1 TAGGGTTT
44480705 GGGGGTAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (21 bp):
TAGGGTTTAGGGTTTAATGTT
Found at i:44480951 original size:25 final size:23
Alignment explanation
Indices: 44480923--44480978 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
44480913 ACATCATTTT
44480923 ATATATATATATATTACATACATAA
1 ATATATATATATATT-CA-ACATAA
* * *
44480948 ATATTTATATTTATTCAATATAA
1 ATATATATATATATTCAACATAA
*
44480971 AAATATAT
1 ATATATAT
44480979 TGATGTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATATATATATATTCAACATAA
Found at i:44482095 original size:18 final size:19
Alignment explanation
Indices: 44482074--44482121 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
44482064 GGAAGAAGAA
* *
44482074 AAGAAGAA-AATGTGGAGG
1 AAGAAGAAGAAGGGGGAGG
*
44482092 AAG-AGAAGAGGGGGGAGG
1 AAGAAGAAGAAGGGGGAGG
44482110 AAGAAGAAGAAG
1 AAGAAGAAGAAG
44482122 AGAGGATGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.46, T:0.04
Consensus pattern (19 bp):
AAGAAGAAGAAGGGGGAGG
Found at i:44486840 original size:43 final size:42
Alignment explanation
Indices: 44486759--44486903 Score: 175
Period size: 43 Copynumber: 3.4 Consensus size: 42
44486749 TTAATTTTTT
* *
44486759 TAAAGGTCATATTCTTTAGCGGCATTTGAGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCATTTG-GAGAAAAGCGCCGC
* * * *
44486802 TAAAGGTCATGTTCTTTAACGACGTTTGTGAGAGAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCATTTG-GAGAAAAGCGCCGC
* *
44486845 TAAAGGTCATGGTT-TTTAGTGGCATTTGCAGGAAAAGCGCCGC
1 TAAAGGTCAT-GTTCTTTAGCGGCATTTGGA-GAAAAGCGCCGC
44486888 TAAAGGTCATGTTCTT
1 TAAAGGTCATGTTCTT
44486904 GCGGGAAAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 4 0.05
43 79 0.92
44 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCATTTGGAGAAAAGCGCCGC
Found at i:44486924 original size:32 final size:32
Alignment explanation
Indices: 44486870--44486935 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
44486860 TTAGTGGCAT
44486870 TTGCAGGAAAAGCGCCGCTAAAGGTCATGTTC
1 TTGCAGGAAAAGCGCCGCTAAAGGTCATGTTC
* * *
44486902 TTGCGGGAAAAGCGTCGTTAAAGGTCATGTTC
1 TTGCAGGAAAAGCGCCGCTAAAGGTCATGTTC
44486934 TT
1 TT
44486936 TAGCAGCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (32 bp):
TTGCAGGAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:44488309 original size:46 final size:47
Alignment explanation
Indices: 44488163--44488376 Score: 203
Period size: 46 Copynumber: 4.6 Consensus size: 47
44488153 TTTGTGCGCT
* *
44488163 AGTGTAAGACATGTCTGGGACATGCATCGGC--C-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGACTAT-A-AGCC
* * * * *
44488209 AATGTAAGACCATGTCTGGGACATGGCATCGACATT-GAGACGA-GAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TTCGAGACTATAAGCC
44488257 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGA-TATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGACTATAAGCC
* * * *
44488303 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGA-TGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGACTATAAGCC
44488347 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
44488377 TGTAATAGTT
Statistics
Matches: 141, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 65 0.46
47 28 0.20
48 18 0.13
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGACTATAAGCC
Found at i:44494418 original size:27 final size:28
Alignment explanation
Indices: 44494365--44494431 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
44494355 TTTGTACAGA
44494365 ACTAAGTGTGCGAGTTTGATCATATAGC
1 ACTAAGTGTGCGAGTTTGATCATATAGC
* *
44494393 AGTAAGTGTGCGAG-TTGATTATATAGC
1 ACTAAGTGTGCGAGTTTGATCATATAGC
44494420 ACTAAGTGTGCG
1 ACTAAGTGTGCG
44494432 GACTCACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 23 0.64
28 13 0.36
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTGATCATATAGC
Found at i:44494442 original size:27 final size:27
Alignment explanation
Indices: 44494386--44494443 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
44494376 GAGTTTGATC
* * * *
44494386 ATATAGCAGTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
44494413 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
44494440 ATAT
1 ATAT
44494444 GCTTTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:44499812 original size:28 final size:28
Alignment explanation
Indices: 44499772--44499869 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
44499762 AAACGAAATC
*
44499772 CGCACACACAGTGCCTACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* *** * **
44499800 CGCACACATAGTGCTCGGTTAAAGGAT-T
1 CGCACACACAGTGC-CCACTGACCGATCT
44499828 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* *
44499856 TGCACACATAGTGC
1 CGCACACACAGTGC
44499870 TCGATTAAAG
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
27 6 0.12
28 40 0.77
29 6 0.12
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.19
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:44499833 original size:56 final size:56
Alignment explanation
Indices: 44499772--44499899 Score: 211
Period size: 56 Copynumber: 2.3 Consensus size: 56
44499762 AAACGAAATC
* *
44499772 CGCACACACAGTGCCTACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGGATT
1 CGCACACACAGTGCCTACTGACCGATCTCGCACACATAGTGCTCGATTAAAGAATT
* *
44499828 CGCACACACAGTGCCCACTGACCGATCTTGCACACATAGTGCTCGATTAAAGAATT
1 CGCACACACAGTGCCTACTGACCGATCTCGCACACATAGTGCTCGATTAAAGAATT
*
44499884 CGCACACATAGTGCCT
1 CGCACACACAGTGCCT
44499900 CAATTCATTC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (56 bp):
CGCACACACAGTGCCTACTGACCGATCTCGCACACATAGTGCTCGATTAAAGAATT
Found at i:44499888 original size:28 final size:27
Alignment explanation
Indices: 44499799--44499921 Score: 92
Period size: 28 Copynumber: 4.5 Consensus size: 27
44499789 CTGACCGATC
*
44499799 TCGCACACATAGTGCTCGGTTAAAGGAT
1 TCGCACACATAGTGCTCGATTAAA-GAT
* * * **
44499827 TCGCACACACAGTGC-CCACTGACCGAT
1 TCGCACACATAGTGCTCGA-TTAAAGAT
*
44499854 CTTGCACACATAGTGCTCGATTAAAGAAT
1 -TCGCACACATAGTGCTCGATTAAAG-AT
* *
44499883 TCGCACACATAGTGCCTCAATT---CAT
1 TCGCACACATAGTG-CTCGATTAAAGAT
44499908 TCGCACACATAGTG
1 TCGCACACATAGTG
44499922 TCTATATTCA
Statistics
Matches: 75, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
25 16 0.21
27 4 0.05
28 45 0.60
29 10 0.13
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (27 bp):
TCGCACACATAGTGCTCGATTAAAGAT
Found at i:44499915 original size:25 final size:25
Alignment explanation
Indices: 44499881--44499935 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
44499871 CGATTAAAGA
44499881 ATTCGCACACATAGTGCCTCA-ATTC
1 ATTCGCACACATAGTGCCT-ATATTC
*
44499906 ATTCGCACACATAGTGTCTATATTC
1 ATTCGCACACATAGTGCCTATATTC
44499931 ATTCG
1 ATTCG
44499936 TTATTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (25 bp):
ATTCGCACACATAGTGCCTATATTC
Found at i:44500164 original size:40 final size:40
Alignment explanation
Indices: 44500099--44500335 Score: 393
Period size: 40 Copynumber: 5.9 Consensus size: 40
44500089 GACTACACAT
* * *
44500099 CACCGGCACGAATGCCCTTCAGGACTTAGCCCGGATACAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
44500139 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
**
44500179 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
* **
44500219 CACCAGCACGAATGCTCTTCGGGATTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
44500259 CACCAGCACGAATGCTCTTCGGGATTTAGCCCGGATACAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
44500299 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
44500336 TAAATCTCAA
Statistics
Matches: 188, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 188 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
Found at i:44508203 original size:343 final size:343
Alignment explanation
Indices: 44507577--44508561 Score: 1853
Period size: 343 Copynumber: 2.9 Consensus size: 343
44507567 CCAAGAGAGC
44507577 TTAGTGATTCAGATTTTCATGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTA
1 TTAGTGATTCAGATTTTCATGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTA
*
44507642 CCGAAAAATGATGAACTCATTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTATACA
66 CCAAAAAATGATGAACTCATTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTATACA
* *
44507707 TCCGGGTAGTACAAAAATGTATAATGACTTGAAGAAAATGTATTGGTAGTTGGGCATGAAAAGAG
131 TCCGGGTAGTACAAAAATGTATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAG
44507772 ATATCTCCGAGTTTGTTTCGAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTAACT
196 ATATCTCCGAGTTTGTTTCGAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTAACT
* *
44507837 TTGGGTTTACTTCAGCCAGTGATGGTACCCGAGTGGAAAATTTGACAATGATTTGCAAGCCAAGA
261 TCGGGTTTACTTCAGCCAGTGATGGTACCCGAGTGGAAAATGTGACAATGATTTGCAAGCCAAGA
44507902 GAGCTTATTGTGAATCGG
326 GAGCTTATTGTGAATCGG
*
44507920 TTAGTGATTCAGATTTTCATGTCGGATCCGATGATTGTTTGATGTTTTAAGGTAGAATTTGTGTA
1 TTAGTGATTCAGATTTTCATGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTA
*
44507985 CCAAAAAATGATGAACTCATTCAAAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTATACA
66 CCAAAAAATGATGAACTCATTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTATACA
44508050 TCCGGGTAGTACAAAAATGTATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAG
131 TCCGGGTAGTACAAAAATGTATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAG
*
44508115 ATATCTCCGAGTTTGTTTCGAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCGAGTAACT
196 ATATCTCCGAGTTTGTTTCGAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTAACT
* *
44508180 TCGGGTTTACTTCAGCTAGTGATGGTACCCGAGTAGAAAATGTGACAATGATTTGCAAGCCAAGA
261 TCGGGTTTACTTCAGCCAGTGATGGTACCCGAGTGGAAAATGTGACAATGATTTGCAAGCCAAGA
44508245 GAGCTTATTGTGAATCGG
326 GAGCTTATTGTGAATCGG
44508263 TTAGTGATTCAGATTTTCATGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTA
1 TTAGTGATTCAGATTTTCATGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTA
*
44508328 CCAAAAAATGATGAACTCATTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTGTACA
66 CCAAAAAATGATGAACTCATTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTATACA
*
44508393 TCCGGGTAGTACAAAAATGTATAATGACTTGAAGAAAATGTATTGGTGGTCAGGCATGAAAAGAG
131 TCCGGGTAGTACAAAAATGTATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAG
*
44508458 ATATCTCCGAGTTTGTTTCGAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTACCT
196 ATATCTCCGAGTTTGTTTCGAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTAACT
44508523 TCGGGTTTACTTCAGCCAGTGATGGTACCCGAGTGGAAA
261 TCGGGTTTACTTCAGCCAGTGATGGTACCCGAGTGGAAA
44508562 TGGGATAGGA
Statistics
Matches: 624, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
343 624 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (343 bp):
TTAGTGATTCAGATTTTCATGTCGGATCCGATGATTGTTTGATGTTTTGAGGTAGAATTTGTGTA
CCAAAAAATGATGAACTCATTCAGAAAATTCTTCATGAAGCACATAATGGTTGTTTATCTATACA
TCCGGGTAGTACAAAAATGTATAATGACTTGAAGAAAATGTATTGGTGGTCGGGCATGAAAAGAG
ATATCTCCGAGTTTGTTTCGAGATGTCTAATTTGTCAATAAGTGAAAGCTGAACACCAAGTAACT
TCGGGTTTACTTCAGCCAGTGATGGTACCCGAGTGGAAAATGTGACAATGATTTGCAAGCCAAGA
GAGCTTATTGTGAATCGG
Found at i:44514090 original size:43 final size:42
Alignment explanation
Indices: 44514003--44514114 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 42
44513993 TGAGATTACC
* *
44514003 TGTAACACCATATCTGGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTCCG
* * *
44514045 TGTAAGACCATAGCTGGGCTATTTGCATCGATATGAGA-TCCCG
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACT-CCG
44514088 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
44514115 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTCCG
Found at i:44514225 original size:20 final size:20
Alignment explanation
Indices: 44514197--44514243 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
44514187 TGGCAATGTT
44514197 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
44514217 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
44514237 TAAGTTG
1 TAAGTTG
44514244 CAAGTTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:44519619 original size:24 final size:24
Alignment explanation
Indices: 44519571--44519662 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 24
44519561 GCTATATAAT
* *
44519571 GGGAAGCTCA-TAAGAGCCATAATC
1 GGGAAGCTCACAAAGAACCAT-ATC
*
44519595 GGGAAGTTCACAAAGAACCATATC
1 GGGAAGCTCACAAAGAACCATATC
*
44519619 GGGAAGGTCACAAA-AAGCC-TATC
1 GGGAAGCTCACAAAGAA-CCATATC
* *
44519642 AGGAAGCTCACAAAGAGCCAT
1 GGGAAGCTCACAAAGAACCAT
44519663 GTAAGGGGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 20 0.35
24 29 0.51
25 8 0.14
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.14
Consensus pattern (24 bp):
GGGAAGCTCACAAAGAACCATATC
Found at i:44520442 original size:20 final size:20
Alignment explanation
Indices: 44520417--44520461 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44520407 AGGGACTAAA
* *
44520417 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
44520437 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
44520457 ATGAA
1 ATGAA
44520462 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:44523796 original size:25 final size:25
Alignment explanation
Indices: 44523768--44523817 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
44523758 ATAAACAAGA
44523768 TTGGTAAGTTTAGTTTCTATTATAC
1 TTGGTAAGTTTAGTTTCTATTATAC
* *
44523793 TTGGTAAGTTTAGTTTTTGTTATAC
1 TTGGTAAGTTTAGTTTCTATTATAC
44523818 GAACTTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.06, G:0.18, T:0.54
Consensus pattern (25 bp):
TTGGTAAGTTTAGTTTCTATTATAC
Found at i:44527643 original size:12 final size:12
Alignment explanation
Indices: 44527626--44527654 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44527616 TTGGACTTGG
44527626 AAATTTAAGAGC
1 AAATTTAAGAGC
44527638 AAATTTAAGAGC
1 AAATTTAAGAGC
44527650 AAATT
1 AAATT
44527655 GTAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (12 bp):
AAATTTAAGAGC
Found at i:44528370 original size:48 final size:48
Alignment explanation
Indices: 44528299--44528504 Score: 304
Period size: 48 Copynumber: 4.2 Consensus size: 48
44528289 CAAGATAAAT
* * *
44528299 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
44528347 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44528395 ATATATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ----ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44528447 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44528495 ATGTGTATAT
1 ATATGTATAT
44528505 ATTGTGGCCG
Statistics
Matches: 142, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
48 98 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:44528453 original size:100 final size:99
Alignment explanation
Indices: 44528297--44528511 Score: 358
Period size: 100 Copynumber: 2.2 Consensus size: 99
44528287 TACAAGATAA
*
44528297 ATATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 ATATATATAT-TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
44528362 AAAGCCGAATGGCTAACATGAAATATGTATGAGAT
65 AAAGCCGAATGGCTAACATGAAATATGTATGAGAT
*
44528397 ATATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 ATATATATAT-TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
**
44528462 AAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
65 AAAGCCGAATGGCTAACATGAAATATGTATGAGAT
* *
44528497 GTGTATATATTGTGG
1 ATATATATATTGTGG
44528512 CCGAATGACC
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 5 0.05
100 103 0.95
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (99 bp):
ATATATATATTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
AAGCCGAATGGCTAACATGAAATATGTATGAGAT
Found at i:44528691 original size:37 final size:37
Alignment explanation
Indices: 44528641--44528745 Score: 183
Period size: 37 Copynumber: 2.8 Consensus size: 37
44528631 ATATATTCGG
44528641 GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGA
1 GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGA
* *
44528678 GTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGG
1 GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGA
*
44528715 GTAAGACCCGATGACTACGTGTGGGGATTAT
1 GTAAGACCCGATGACTACGTGTGGAGATTAT
44528746 TCGAGCTAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
GTAAGACCCGATGACTACGTGTGGAGATTATGTCCGA
Found at i:44536401 original size:64 final size:64
Alignment explanation
Indices: 44536328--44536538 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
44536318 CTGGGCCAGA
*
44536328 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
44536392 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
44536454 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
44536465 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
44536529 GCCCATTTCA
1 GCCCATTTCA
44536539 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:44536502 original size:137 final size:137
Alignment explanation
Indices: 44536294--44536580 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
44536284 CTATTGGGCT
** *
44536294 AAGCCCATTCAGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
44536359 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
44536424 CATATGC
131 CATATGC
44536431 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
44536496 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
44536561 CATATGC
131 CATATGC
44536568 AAGCCCATTTGGG
1 AAGCCCATTTGGG
44536581 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:44538387 original size:25 final size:25
Alignment explanation
Indices: 44538353--44538486 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 25
44538343 CATGAAATTC
*
44538353 TTATCATGAAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCA
*
44538378 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCA
44538404 TTATCATGGAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCA
44538429 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACC-A
44538455 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACC-A
44538481 TTATCA
1 TTATCA
44538487 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
25 49 0.46
26 57 0.54
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (25 bp):
TTATCATGGAACATTTACCTAACCA
Found at i:44538429 original size:51 final size:51
Alignment explanation
Indices: 44538353--44538486 Score: 232
Period size: 51 Copynumber: 2.6 Consensus size: 51
44538343 CATGAAATTC
*
44538353 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
* *
44538404 TTATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
44538455 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACC-ATTATCA
44538487 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 72 0.91
52 7 0.09
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:44538834 original size:17 final size:17
Alignment explanation
Indices: 44538812--44538845 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44538802 AAATTGGGGC
44538812 GTTACAATATTGATTTT
1 GTTACAATATTGATTTT
* *
44538829 GTTACATTATTTATTTT
1 GTTACAATATTGATTTT
44538846 CTTTTTGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (17 bp):
GTTACAATATTGATTTT
Found at i:44538884 original size:15 final size:15
Alignment explanation
Indices: 44538864--44538893 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44538854 ATTTATTTGC
44538864 ATTATTATTACTATT
1 ATTATTATTACTATT
*
44538879 ATTATTATTTCTATT
1 ATTATTATTACTATT
44538894 TTTTTAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTACTATT
Found at i:44539519 original size:27 final size:26
Alignment explanation
Indices: 44539489--44539550 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
44539479 TTTATTTAAC
**
44539489 ATATTATTTATTTGAAATTTGCTTTAT
1 ATATTATTTATTCCAAA-TTGCTTTAT
*
44539516 ATATTATGTTATTCCAAATTGTTTTAT
1 ATATTAT-TTATTCCAAATTGCTTTAT
*
44539543 ATTTTATT
1 ATATTATT
44539551 CATGTTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 21 0.70
28 8 0.27
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (26 bp):
ATATTATTTATTCCAAATTGCTTTAT
Found at i:44540918 original size:20 final size:20
Alignment explanation
Indices: 44540893--44540937 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44540883 AGGGACTAAA
* *
44540893 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
44540913 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
44540933 ATGAA
1 ATGAA
44540938 TACAAGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:44542258 original size:2 final size:2
Alignment explanation
Indices: 44542251--44542295 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
44542241 AGTAAGCTAT
*
44542251 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44542293 TA T
1 TA T
44542296 GTGTGTTATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:44547885 original size:29 final size:29
Alignment explanation
Indices: 44547853--44547952 Score: 191
Period size: 29 Copynumber: 3.4 Consensus size: 29
44547843 AGTGAATCCA
*
44547853 CACACTTAGTGCTATATATTTTCAGCTCG
1 CACACTTAGTGCTATATATTTTCAGTTCG
44547882 CACACTTAGTGCTATATATTTTCAGTTCG
1 CACACTTAGTGCTATATATTTTCAGTTCG
44547911 CACACTTAGTGCTATATATTTTCAGTTCG
1 CACACTTAGTGCTATATATTTTCAGTTCG
44547940 CACACTTAGTGCT
1 CACACTTAGTGCT
44547953 GTACAATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (29 bp):
CACACTTAGTGCTATATATTTTCAGTTCG
Found at i:44549322 original size:19 final size:18
Alignment explanation
Indices: 44549298--44549333 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44549288 CCCCCTTTTT
*
44549298 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
44549317 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
44549334 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:44551720 original size:23 final size:23
Alignment explanation
Indices: 44551693--44551802 Score: 158
Period size: 23 Copynumber: 4.9 Consensus size: 23
44551683 ATACGTATAC
44551693 ATTATATTATTATTATTATTATT
1 ATTATATTATTATTATTATTATT
44551716 ATTATATTATTATTATTATTATT
1 ATTATATTATTATTATTATTATT
44551739 ATTATATTATTATTATTATTATT
1 ATTATATTATTATTATTATTATT
44551762 A-T-TATTATTATTA-TATTAGTT
1 ATTATATTATTATTATTATTA-TT
*
44551783 -TTGATATTATTGTT-TTATTA
1 ATT-ATATTATTATTATTATTA
44551803 AATACATTCG
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
20 5 0.06
21 14 0.17
22 1 0.01
23 61 0.75
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (23 bp):
ATTATATTATTATTATTATTATT
Found at i:44551793 original size:3 final size:3
Alignment explanation
Indices: 44551693--44551779 Score: 146
Period size: 3 Copynumber: 30.3 Consensus size: 3
44551683 ATACGTATAC
44551693 ATT A-T ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44551739 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
44551780 GTTTTGATAT
Statistics
Matches: 80, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
2 8 0.10
3 72 0.90
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:44552347 original size:2 final size:2
Alignment explanation
Indices: 44552340--44552364 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44552330 ATTATTATTA
44552340 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
44552365 CTATGTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44555231 original size:28 final size:28
Alignment explanation
Indices: 44555162--44555262 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44555152 GACAAGATTG
* * * *
44555162 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44555192 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44555220 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44555249 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44555263 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44555256 original size:29 final size:28
Alignment explanation
Indices: 44555191--44555262 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
44555181 AAAATTGTAC
*
44555191 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
44555219 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
44555248 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44555263 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:44563299 original size:28 final size:28
Alignment explanation
Indices: 44563230--44563330 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44563220 TGACAAATTG
* * * *
44563230 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44563260 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44563288 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44563317 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44563331 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44563324 original size:29 final size:28
Alignment explanation
Indices: 44563259--44563330 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
44563249 AAAATTGTAC
*
44563259 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
44563287 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
44563316 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44563331 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:44574265 original size:41 final size:40
Alignment explanation
Indices: 44574138--44574282 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
44574128 CTCGCACAAG
* * * *
44574138 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
44574178 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
44574218 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
44574259 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
44574283 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:44578807 original size:65 final size:65
Alignment explanation
Indices: 44578732--44578881 Score: 291
Period size: 65 Copynumber: 2.3 Consensus size: 65
44578722 CCTGACCAGT
44578732 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
44578797 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
*
44578862 ATATGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
44578882 GATCGATAAA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 84 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.15
Consensus pattern (65 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
Found at i:44578859 original size:21 final size:21
Alignment explanation
Indices: 44578732--44578860 Score: 150
Period size: 21 Copynumber: 6.0 Consensus size: 21
44578722 CCTGACCAGT
** * *
44578732 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
44578753 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
44578774 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
** * *
44578795 AAATACGACACATAAAGTGCCTA
1 --ATACGACACACGAGGTGCCTG
*
44578818 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
44578839 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
44578860 A
1 A
44578861 AATATGACAC
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
21 73 0.81
23 17 0.19
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:44578870 original size:44 final size:44
Alignment explanation
Indices: 44578732--44578871 Score: 153
Period size: 44 Copynumber: 3.2 Consensus size: 44
44578722 CCTGACCAGT
** * * *
44578732 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
** *
44578774 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTG--ATACGACACACGAGGTGCCTGAA
44578819 A-ACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
*
44578862 ATATGACACA
1 ATACGACACA
44578872 TAAAGTGCCT
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
42 34 0.43
43 3 0.04
44 42 0.52
45 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (44 bp):
ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
Found at i:44579278 original size:15 final size:15
Alignment explanation
Indices: 44579253--44579309 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
44579243 TCATATATAT
*
44579253 TATATAATTCAATTAA
1 TATA-AATTCAATCAA
44579269 TATAAATTC-ATCAA
1 TATAAATTCAATCAA
* *
44579283 AATAATTTCAATCAA
1 TATAAATTCAATCAA
44579298 TATAAATTCAAT
1 TATAAATTCAAT
44579310 AAATTCATCG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 11 0.31
15 20 0.57
16 4 0.11
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:44580595 original size:5 final size:5
Alignment explanation
Indices: 44580585--44580640 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
44580575 TTACTTATTT
* *
44580585 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
44580633 ATATA ATA
1 ATATA ATA
44580641 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:44580601 original size:12 final size:12
Alignment explanation
Indices: 44580584--44580637 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
44580574 TTTACTTATT
44580584 TATATAATATAA
1 TATATAATATAA
44580596 TATATAATATAATA
1 TATATAATAT-A-A
44580610 TACTATAATATAA
1 TA-TATAATATAA
*
44580623 TA-ATAATATCA
1 TATATAATATAA
44580634 TATA
1 TATA
44580638 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:44580772 original size:21 final size:22
Alignment explanation
Indices: 44580733--44580783 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
44580723 CATACAATTG
*
44580733 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
44580755 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
44580775 ATAAAATAA
1 TTAAAATAA
44580784 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:44580972 original size:19 final size:22
Alignment explanation
Indices: 44580948--44580994 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
44580938 ATCATTTCCA
44580948 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
44580967 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
44580988 CTAATTA
1 CTAATTA
44580995 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:44583531 original size:2 final size:2
Alignment explanation
Indices: 44583524--44583551 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44583514 TCTCTGACTG
44583524 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44583552 TTCTTTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44585429 original size:23 final size:23
Alignment explanation
Indices: 44585347--44585433 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
44585337 CCTGATCAGT
*
44585347 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
44585369 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
44585389 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
44585412 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
44585434 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:44587117 original size:5 final size:5
Alignment explanation
Indices: 44587107--44587162 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
44587097 TTACTTATTT
* *
44587107 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
44587155 ATATA ATA
1 ATATA ATA
44587163 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:44587123 original size:12 final size:12
Alignment explanation
Indices: 44587106--44587159 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
44587096 TTTACTTATT
44587106 TATATAATATAA
1 TATATAATATAA
44587118 TATATAATATAATA
1 TATATAATAT-A-A
44587132 TACTATAATATAA
1 TA-TATAATATAA
*
44587145 TA-ATAATATCA
1 TATATAATATAA
44587156 TATA
1 TATA
44587160 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:44587294 original size:21 final size:22
Alignment explanation
Indices: 44587255--44587305 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
44587245 CATACAATTG
*
44587255 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
44587277 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
44587297 ATAAAATAA
1 TTAAAATAA
44587306 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:44590057 original size:2 final size:2
Alignment explanation
Indices: 44590050--44590077 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44590040 TCTCTGACTG
44590050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44590078 TTCTTTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44591962 original size:23 final size:23
Alignment explanation
Indices: 44591880--44591966 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
44591870 CCTGATCAGT
*
44591880 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
44591902 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
44591922 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
44591945 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
44591967 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:44592361 original size:15 final size:15
Alignment explanation
Indices: 44592336--44592393 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
44592326 TCATATATAT
44592336 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
44592352 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
44592367 AATAATTTCAATCAA
1 TATAAATTCAATCAA
44592382 TATAAATTCAAT
1 TATAAATTCAAT
44592394 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:44593680 original size:5 final size:5
Alignment explanation
Indices: 44593670--44593725 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
44593660 TTACTTATTT
* *
44593670 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
44593718 ATATA ATA
1 ATATA ATA
44593726 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:44593686 original size:12 final size:12
Alignment explanation
Indices: 44593669--44593722 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
44593659 TTTACTTATT
44593669 TATATAATATAA
1 TATATAATATAA
44593681 TATATAATATAATA
1 TATATAATAT-A-A
44593695 TACTATAATATAA
1 TA-TATAATATAA
*
44593708 TA-ATAATATCA
1 TATATAATATAA
44593719 TATA
1 TATA
44593723 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:44593857 original size:21 final size:22
Alignment explanation
Indices: 44593818--44593868 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
44593808 CATACAATTG
*
44593818 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
44593840 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
44593860 ATAAAATAA
1 TTAAAATAA
44593869 ATATATAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:44594056 original size:19 final size:22
Alignment explanation
Indices: 44594032--44594078 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
44594022 AATCTTTCCA
44594032 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
44594051 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
44594072 CTAATTA
1 CTAATTA
44594079 ATCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:44599169 original size:51 final size:50
Alignment explanation
Indices: 44599096--44599194 Score: 189
Period size: 51 Copynumber: 2.0 Consensus size: 50
44599086 CCCATCATGG
44599096 AACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATTATCATA
1 AACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATTATCATA
44599146 AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTATCA
1 AACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATTATCA
44599195 ATTTGTATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 13 0.27
51 35 0.73
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.31
Consensus pattern (50 bp):
AACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATTATCATA
Found at i:44599182 original size:26 final size:26
Alignment explanation
Indices: 44599089--44599194 Score: 189
Period size: 25 Copynumber: 4.2 Consensus size: 26
44599079 TGAAATTCCC
44599089 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
44599114 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
44599140 ATCAT-AAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
44599165 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
44599191 ATCA
1 ATCA
44599195 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
25 44 0.57
26 33 0.43
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:44609269 original size:28 final size:28
Alignment explanation
Indices: 44609229--44609326 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
44609219 AAACGAAATC
*
44609229 CGCACATACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * ** * **
44609257 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACACAGTGCCCACTGACCG-ATCT
44609285 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* *
44609313 CGTACACATAGTGC
1 CGCACACACAGTGC
44609327 TCGGTTAAAG
Statistics
Matches: 51, Mismatches: 17, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
27 2 0.04
28 47 0.92
29 2 0.04
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:44609320 original size:56 final size:56
Alignment explanation
Indices: 44609229--44609348 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
44609219 AAACGAAATC
*
44609229 CGCACATACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
44609285 CGCACACACAGTGCCCACTGACCGATCTCGTACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
44609341 CGCACACA
1 CGCACACA
44609349 TAATGCCTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:44609347 original size:28 final size:28
Alignment explanation
Indices: 44609256--44609350 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
44609246 CTGACCGATC
44609256 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
* * ** * **
44609284 TCGCACACACAGTGCCCACTGACCG-AT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
*
44609311 CTCGTACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGAAT
44609340 TCGCACACATA
1 TCGCACACATA
44609351 ATGCCTATAT
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
27 2 0.04
28 45 0.92
29 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAAAGAAT
Found at i:44616306 original size:43 final size:43
Alignment explanation
Indices: 44616246--44616336 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
44616236 CTTTGAGTTC
* * *
44616246 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
44616288 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
44616331 ATTACC
1 ATTACC
44616337 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:44616855 original size:34 final size:35
Alignment explanation
Indices: 44616790--44616855 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
44616780 TAATTGTGTT
*
44616790 ATTAATTTATTATTTTAAATTTTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTTTAAAGTTAAATTC
*
44616825 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAA
1 ATTAATTTATTAT-TTTAAATTTTAAAGTTAAA
44616856 ATTTTCATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTTTAAAGTTAAATTC
Found at i:44616858 original size:35 final size:35
Alignment explanation
Indices: 44616790--44616858 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
44616780 TAATTGTGTT
*
44616790 ATTAATTTATTATTTTAAATTTTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTTTAAATTAAAATTC
*
44616825 ATTAATTT-TTATATTT-AGTTTTAAAGTTAAAATT
1 ATTAATTTATTAT-TTTAAATTTTAAA-TTAAAATT
44616859 TTCATAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTTTAAATTAAAATTC
Found at i:44617071 original size:43 final size:43
Alignment explanation
Indices: 44617010--44617150 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
44617000 AGTTATGTTT
** * *
44617010 TATAGCGGTGTTTATGGGAAAAACGCCACTAAAGGTCATATTC
1 TATAGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCATATTC
** *
44617053 TATAGCGGCATTTATGGG-AAAGCGTTGCTAGAGGTCATATTC
1 TATAGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCATATTC
* * * * *
44617095 TATAGCGGCGTTTGTAGGAAAAGTGCCGCTAAAGGTCATGTTC
1 TATAGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCATATTC
44617138 TATAGCGGCATTT
1 TATAGCGGCATTT
44617151 TTCCATATAA
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 34 0.42
43 47 0.58
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
TATAGCGGCATTTATGGGAAAAGCGCCGCTAAAGGTCATATTC
Found at i:44619090 original size:46 final size:46
Alignment explanation
Indices: 44619040--44619212 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
44619030 TGGTTGAGCA
44619040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
44619086 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44619131 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44619179 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44619213 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44619196 original size:93 final size:93
Alignment explanation
Indices: 44619037--44619207 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
44619027 GGATGGTTGA
* *
44619037 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44619102 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
44619130 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44619195 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44619208 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:44620650 original size:21 final size:21
Alignment explanation
Indices: 44620626--44620669 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44620616 ACTTGTTATT
44620626 ACCCTTTGAACCTTGAAACTA
1 ACCCTTTGAACCTTGAAACTA
*
44620647 ACCCTTTGAATCTTGAAACTA
1 ACCCTTTGAACCTTGAAACTA
44620668 AC
1 AC
44620670 TTTTGGCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (21 bp):
ACCCTTTGAACCTTGAAACTA
Found at i:44626668 original size:33 final size:33
Alignment explanation
Indices: 44626631--44626705 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
44626621 TTATCTAATT
*
44626631 AAATATTTATTTTTAACATAAAATTAAATTA-AA
1 AAATATTTATTGTTAACATAAAATTAAA-TACAA
* * *
44626664 AAATAATTATTGTTAATATATAATTAAATACAA
1 AAATATTTATTGTTAACATAAAATTAAATACAA
*
44626697 AATTATTTA
1 AAATATTTA
44626706 AGTTAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 2 0.06
33 33 0.94
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (33 bp):
AAATATTTATTGTTAACATAAAATTAAATACAA
Found at i:44628602 original size:40 final size:40
Alignment explanation
Indices: 44628545--44628748 Score: 205
Period size: 40 Copynumber: 5.1 Consensus size: 40
44628535 TGAATGATAC
* * * * *
44628545 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
**
44628585 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATTATAT
* ** *
44628625 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* ** *
44628665 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
* ** *
44628705 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
44628745 CCGG
1 CCGG
44628749 TTGAATCCCG
Statistics
Matches: 140, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 132 0.94
41 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTATAT
Found at i:44628747 original size:80 final size:80
Alignment explanation
Indices: 44628545--44628748 Score: 230
Period size: 80 Copynumber: 2.5 Consensus size: 80
44628535 TGAATGATAC
* * * *
44628545 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
** *** *
44628610 TGCGGGTTGTTATAT
66 TGCAAGTTACCAAAT
* * ** *
44628625 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
44628689 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* * *
44628705 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGG
44628749 TTGAATCCCG
Statistics
Matches: 100, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 97 0.97
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:44631105 original size:20 final size:20
Alignment explanation
Indices: 44631082--44631162 Score: 58
Period size: 21 Copynumber: 4.0 Consensus size: 20
44631072 AGGGAGCAAG
*
44631082 TTTTTCACTTGAGTTAAAAA
1 TTTTTCACTCGAGTTAAAAA
* *
44631102 -TTTTCAATCGA-TTCAAAAC
1 TTTTTCACTCGAGTT-AAAAA
* * *
44631121 TGTTTCACTCGATTTTAAAA
1 TTTTTCACTCGAGTTAAAAA
* *
44631141 TTGTTTCACTTGAGATAAAAA
1 TT-TTTCACTCGAGTTAAAAA
44631162 T
1 T
44631163 ACTTGAAGTG
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
18 2 0.04
19 13 0.29
20 13 0.29
21 17 0.38
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTTTCACTCGAGTTAAAAA
Found at i:44631145 original size:21 final size:20
Alignment explanation
Indices: 44631084--44631150 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 20
44631074 GGAGCAAGTT
* *
44631084 TTTCACTTGAGTTAAAAAT-
1 TTTCACTCGATTTAAAAATG
* * *
44631103 TTTCAATCGATTCAAAACTG
1 TTTCACTCGATTTAAAAATG
*
44631123 TTTCACTCGATTTTAAAATTG
1 TTTCACTCGA-TTTAAAAATG
44631144 TTTCACT
1 TTTCACT
44631151 TGAGATAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 14 0.37
20 9 0.24
21 15 0.39
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.43
Consensus pattern (20 bp):
TTTCACTCGATTTAAAAATG
Found at i:44631271 original size:14 final size:15
Alignment explanation
Indices: 44631236--44631265 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44631226 GAGACTTTAA
44631236 AAAACTTTTTACTTT
1 AAAACTTTTTACTTT
44631251 AAAACTTTTTACTTT
1 AAAACTTTTTACTTT
44631266 GAACTTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAACTTTTTACTTT
Found at i:44631309 original size:18 final size:18
Alignment explanation
Indices: 44631275--44631311 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
44631265 TGAACTTCAT
44631275 CAATCCTTAGTTCAAAAA
1 CAATCCTTAGTTCAAAAA
*
44631293 CAATCTTTA-TTCAAAAA
1 CAATCCTTAGTTCAAAAA
44631310 CA
1 CA
44631312 TTTTTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.30
Consensus pattern (18 bp):
CAATCCTTAGTTCAAAAA
Found at i:44633396 original size:20 final size:20
Alignment explanation
Indices: 44633351--44633401 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
44633341 CACTTATGGA
**
44633351 TAAGTATCGATATTTTTTCT
1 TAAGTATCGATAAATTTTCT
* *
44633371 TTAGTATCGATAAATTTTGT
1 TAAGTATCGATAAATTTTCT
*
44633391 TAAGTACCGAT
1 TAAGTATCGAT
44633402 TTGAAAGTGC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TAAGTATCGATAAATTTTCT
Found at i:44633680 original size:15 final size:16
Alignment explanation
Indices: 44633660--44633692 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
44633650 ATATATTTTT
44633660 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
44633675 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
44633692 T
1 T
44633693 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:44633777 original size:22 final size:22
Alignment explanation
Indices: 44633738--44633796 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
44633728 GTTTTAAGAA
*
44633738 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
44633759 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
44633781 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
44633797 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:44633824 original size:23 final size:26
Alignment explanation
Indices: 44633770--44633825 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
44633760 TGTTTTAATA
*
44633770 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATGATTTTAAATATAT
*
44633795 TTGATTTATTAT-ATTTTAAAT-T-T
1 TTTATTTATTATGATTTTAAATATAT
44633818 TTTATTTA
1 TTTATTTA
44633826 ATGAAATAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.30
24 1 0.04
25 14 0.52
26 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTATTTATTATGATTTTAAATATAT
Found at i:44638494 original size:37 final size:36
Alignment explanation
Indices: 44638444--44638530 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
44638434 TACGAAGTCT
44638444 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
44638480 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
44638517 TCACCCGGAGCATA
1 T-ACCCGGA-CATA
44638531 TTTCCAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:44638677 original size:49 final size:49
Alignment explanation
Indices: 44638605--44638852 Score: 433
Period size: 49 Copynumber: 5.0 Consensus size: 49
44638595 ACATATATAG
* *
44638605 ATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
44638654 ATATACATTTTCACATTCATCACATCGGCCTTTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
44638703 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
44638752 ATATACATTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
44638801 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATATACATAT
1 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATAT
44638851 AT
1 AT
44638853 TATTATGTAC
Statistics
Matches: 190, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 182 0.96
50 8 0.04
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.35
Consensus pattern (49 bp):
ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:44646253 original size:40 final size:40
Alignment explanation
Indices: 44646125--44646255 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
44646115 TATGCTGGAA
* * * *
44646125 ATTATATCCGGGTTAAGACCTGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
44646165 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
44646205 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
44646245 ATTATATCCGG
1 ATTATATCCGG
44646256 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 71 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:44648598 original size:28 final size:28
Alignment explanation
Indices: 44648529--44648629 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44648519 GACAAGATTG
* * * *
44648529 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44648559 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44648587 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44648616 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44648630 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44656545 original size:28 final size:29
Alignment explanation
Indices: 44656477--44656551 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
44656467 AAGATTGGCA
* *
44656477 CACTAAGTGTGCGGGTTTAAAATTGTACAG
1 CACTAAGTGTGCGAGTTT-AAATTATACAG
* *
44656507 CACTAAGTGTGCGAGTTT-GATTATATAG
1 CACTAAGTGTGCGAGTTTAAATTATACAG
44656535 CACTAAGTGTGCGAGTT
1 CACTAAGTGTGCGAGTT
44656552 GAATACATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 24 0.59
30 17 0.41
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (29 bp):
CACTAAGTGTGCGAGTTTAAATTATACAG
Found at i:44659552 original size:40 final size:40
Alignment explanation
Indices: 44659520--44659750 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
44659510 CCAGCATGAT
* * * *
44659520 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
44659560 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
44659600 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
44659640 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
44659680 TGCTCTTC-GGACTTAGCCCGGATACATTACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
44659719 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
44659751 CTCAATTCTC
Statistics
Matches: 172, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 37 0.22
40 135 0.78
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:44662040 original size:49 final size:48
Alignment explanation
Indices: 44661810--44662202 Score: 627
Period size: 49 Copynumber: 8.2 Consensus size: 48
44661800 CCTTCGAGGA
* * * * *
44661810 CTTATCACATT-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44661857 CCTATCACA--ATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
44661903 CTTATCACA-TATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
44661949 CTTATCACATATATATACA-TTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
44661997 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
44662046 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
44662095 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
44662144 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
44662193 CTTATCACAT
1 CTTATCACAT
44662203 ATACTATCAT
Statistics
Matches: 330, Mismatches: 10, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
46 59 0.18
47 51 0.15
48 36 0.11
49 184 0.56
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44665191 original size:34 final size:34
Alignment explanation
Indices: 44665143--44665209 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
44665133 AGGTAGAGCA
**
44665143 ATCAAGAAGGTTAATGCAACCTCTGGAACTAACC
1 ATCAAGAAGGTTAATGCAACCTCTAAAACTAACC
*
44665177 ATCAGGAAGGTTAATGCAACCTCTAAAACTAAC
1 ATCAAGAAGGTTAATGCAACCTCTAAAACTAAC
44665210 ACTTATCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (34 bp):
ATCAAGAAGGTTAATGCAACCTCTAAAACTAACC
Found at i:44671315 original size:8 final size:8
Alignment explanation
Indices: 44671302--44671372 Score: 63
Period size: 8 Copynumber: 8.4 Consensus size: 8
44671292 CAAAATATGA
44671302 TTTTATAT
1 TTTTATAT
44671310 TTTTATAAT
1 TTTTAT-AT
* *
44671319 TTATATTGT
1 TTTTA-TAT
44671328 TTTTATACT
1 TTTTATA-T
*
44671337 TTTTGTAAT
1 TTTTAT-AT
44671346 TGTTT-TAT
1 T-TTTATAT
44671354 TTTTATAT
1 TTTTATAT
44671362 TTTTATAT
1 TTTTATAT
44671370 TTT
1 TTT
44671373 CACTGAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
7 3 0.06
8 24 0.46
9 20 0.38
10 5 0.10
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.72
Consensus pattern (8 bp):
TTTTATAT
Found at i:44671356 original size:26 final size:26
Alignment explanation
Indices: 44671302--44671368 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
44671292 CAAAATATGA
*
44671302 TTTTATATTTTTATAATTTATATTGT
1 TTTTATATTTTTATAATTTATATTAT
*
44671328 TTTTATACTTTTTGTAATTGT-T-TTAT
1 TTTTATA-TTTTTATAATT-TATATTAT
44671354 TTTTATATTTTTATA
1 TTTTATATTTTTATA
44671369 TTTTCACTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 7 0.19
26 17 0.47
27 11 0.31
28 1 0.03
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTTATATTTTTATAATTTATATTAT
Found at i:44674222 original size:12 final size:12
Alignment explanation
Indices: 44674200--44674258 Score: 75
Period size: 12 Copynumber: 4.9 Consensus size: 12
44674190 ACAAAAAAAT
44674200 TGAAGTAAATAAG
1 TGAA-TAAATAAG
44674213 TGAATAAATAAG
1 TGAATAAATAAG
44674225 TGAATAAATAAG
1 TGAATAAATAAG
* *
44674237 TGAGTGAATAAG
1 TGAATAAATAAG
*
44674249 T-AAAAAATAA
1 TGAATAAATAA
44674259 TTAAGAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
11 6 0.15
12 31 0.76
13 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.24
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:44674631 original size:9 final size:9
Alignment explanation
Indices: 44674617--44674649 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
44674607 TCGAGTTGAT
44674617 TCGATTAAC
1 TCGATTAAC
*
44674626 TCGATTAAT
1 TCGATTAAC
44674635 TCGATTAAC
1 TCGATTAAC
44674644 TCGATT
1 TCGATT
44674650 CGAATAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (9 bp):
TCGATTAAC
Found at i:44674638 original size:18 final size:18
Alignment explanation
Indices: 44674615--44674649 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44674605 ATTCGAGTTG
44674615 ATTCGATTAACTCGATTA
1 ATTCGATTAACTCGATTA
44674633 ATTCGATTAACTCGATT
1 ATTCGATTAACTCGATT
44674650 CGAATAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTCGATTAACTCGATTA
Found at i:44681972 original size:38 final size:38
Alignment explanation
Indices: 44681922--44682017 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 38
44681912 CTAGCTCCGT
* * * *
44681922 CCAACCCAACACACCATGTGGGGATAAAATTGACCCAC
1 CCAACCCTACACACCATATGAGGATAAAATCGACCCAC
* * *
44681960 CCATCCCTACACACCAAATATGAGGATAAAATCGATCCAT
1 CCAACCCTACACACC--ATATGAGGATAAAATCGACCCAC
44682000 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
44682018 AAGTACTGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 16 0.33
40 32 0.67
ACGTcount: A:0.39, C:0.35, G:0.10, T:0.16
Consensus pattern (38 bp):
CCAACCCTACACACCATATGAGGATAAAATCGACCCAC
Found at i:44693282 original size:40 final size:40
Alignment explanation
Indices: 44693237--44693404 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
44693227 CGGAATATAA
44693237 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44693277 CCGGATAGACT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44693317 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
44693357 CCGGATAAAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
44693397 CCGGATAT
1 CCGGATAT
44693405 CATTCAATTT
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 2 0.02
40 98 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44693387 original size:80 final size:80
Alignment explanation
Indices: 44693253--44693402 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
44693243 ATAATCACGT
* * *
44693253 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGACTATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
44693317 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
44693333 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
44693396 CCCGGAT
64 CCCGGAT
44693403 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:44696679 original size:68 final size:67
Alignment explanation
Indices: 44696633--44696790 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 67
44696623 ATACTATATA
44696633 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
44696698 AAT
65 AAT
44696701 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
44696766 AAT
65 AAT
* *
44696769 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
44696791 TCCAAGTGAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:44696864 original size:66 final size:67
Alignment explanation
Indices: 44696667--44696864 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 67
44696657 GGGATGTATC
* * *
44696667 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
44696729 TGTATC-
62 AGGA-CA
*
44696735 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
44696800 AGGACA
62 AGGACA
* *
44696806 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
44696865 TTCACCATGT
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.47
69 1 0.01
70 1 0.01
71 26 0.22
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:44697350 original size:21 final size:20
Alignment explanation
Indices: 44697313--44697357 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
44697303 CCCCTGTTTC
*
44697313 AAATTTTAAAAATAATTAA-
1 AAATTTTAAAAAAAATTAAG
44697332 AAATTTTACAAAAAAAATTAAG
1 AAATTTT--AAAAAAAATTAAG
44697354 AAAT
1 AAAT
44697358 ATAGTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
21 11 0.50
22 4 0.18
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATTTTAAAAAAAATTAAG
Found at i:44700292 original size:42 final size:43
Alignment explanation
Indices: 44700233--44700313 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
44700223 TGAGTTTACA
*
44700233 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTTG
1 TGTAAGACCATAGCTGGGATATTGGCATCGATATGAGATTTTG
* *
44700275 TGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGAT
1 TGTAAGACCATAGCTGGGATATTGGCATCGATATGAGAT
44700314 CCCATATAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 19 0.54
43 16 0.46
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGATATTGGCATCGATATGAGATTTTG
Done.