Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 170 of 190
Found at i:49638552 original size:19 final size:19
Alignment explanation
Indices: 49638528--49638575 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
49638518 GTAATTTGTA
*
49638528 TGAAATTAAACTTTCAAAT
1 TGAAATTAAACTTACAAAT
49638547 TGAAATTAAACTTACAAAT
1 TGAAATTAAACTTACAAAT
*
49638566 TAAAATTAAA
1 TGAAATTAAA
49638576 AGAGAAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (19 bp):
TGAAATTAAACTTACAAAT
Found at i:49641210 original size:42 final size:42
Alignment explanation
Indices: 49641153--49641310 Score: 151
Period size: 42 Copynumber: 3.8 Consensus size: 42
49641143 TCAACTCATA
* * *
49641153 TGAGTTTTAGATTAACCCTTCTGGGTTTCAGTTCAGCTCTTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * * *
49641195 TGAGCTTTAGTTTAACTCTAATGGGTTTCCGTTTAGCT-TTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * * *
49641236 ATGAGCTTCAGATTAACCCTTATGAGTTTCCGTTCAACTCCTAT
1 -TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTCAGCT-CTTT
* * *
49641280 T-AGC-TTCGTTTAACCCTTACGGGTTTCCGTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTT
49641311 TAGCACTTAT
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 25 0.27
42 65 0.70
43 1 0.01
44 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (42 bp):
TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTCAGCTCTTT
Found at i:49645755 original size:25 final size:25
Alignment explanation
Indices: 49645724--49645835 Score: 93
Period size: 25 Copynumber: 4.6 Consensus size: 25
49645714 GCCCTCTCTT
*
49645724 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGC
* * * * *
49645749 GAGCCATGTAGCGGGAATCTTATCC
1 GAGCCATATAACGGGAAGCTCATGC
* * * **
49645774 GGGCTATATAACGGGAAGCTTATAA
1 GAGCCATATAACGGGAAGCTCATGC
* *
49645799 GAGCCATA-ATCAGGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATGC
49645823 GAGCCA-ATAACGG
1 GAGCCATATAACGG
49645836 ATAGCTTCGA
Statistics
Matches: 64, Mismatches: 22, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
23 1 0.02
24 20 0.31
25 43 0.67
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGC
Found at i:49645815 original size:24 final size:24
Alignment explanation
Indices: 49645787--49645866 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
49645777 CTATATAACG
49645787 GGAAGCTTATAAGAGCCATAATCA
1 GGAAGCTTATAAGAGCCATAATCA
* **
49645811 GGAAGCTCATGCGAGCCAATAA-C-
1 GGAAGCTTATAAGAGCC-ATAATCA
**
49645834 GGATAGCTTCGAAGAGCCATTAATCA
1 GGA-AGCTTATAAGAGCCA-TAATCA
*
49645860 AGAAGCT
1 GGAAGCT
49645867 CCGGATAGCC
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
23 4 0.10
24 27 0.64
25 9 0.21
26 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (24 bp):
GGAAGCTTATAAGAGCCATAATCA
Found at i:49648039 original size:16 final size:17
Alignment explanation
Indices: 49648018--49648050 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49648008 TCACTATCAG
49648018 TCTATTA-AATATTTTC
1 TCTATTATAATATTTTC
49648034 TCTATTATTAATATTTT
1 TCTATTA-TAATATTTT
49648051 TAAATACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (17 bp):
TCTATTATAATATTTTC
Found at i:49654825 original size:71 final size:71
Alignment explanation
Indices: 49654709--49654850 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
49654699 TTGTCTTGTC
* *
49654709 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTGTTCATTTTGATTTTATGACCTCTG
1 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
49654774 GACAAT
66 GACAAT
49654780 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
1 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
49654845 GACAAT
66 GACAAT
49654851 GCATCTGAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.49
Consensus pattern (71 bp):
TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
GACAAT
Found at i:49662993 original size:23 final size:23
Alignment explanation
Indices: 49662962--49663005 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
49662952 GGCTGGGGGT
49662962 GGGGCGGGAGAGGG-AGAGGGACG
1 GGGGCGGGA-AGGGCAGAGGGACG
*
49662985 GGGGTGGGAAGGGCAGAGGGA
1 GGGGCGGGAAGGGCAGAGGGA
49663006 GAGGGACGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.23, C:0.07, G:0.68, T:0.02
Consensus pattern (23 bp):
GGGGCGGGAAGGGCAGAGGGACG
Found at i:49663003 original size:29 final size:28
Alignment explanation
Indices: 49662956--49663013 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
49662946 ACCTATGGCT
**
49662956 GGGGGTGGGGCGGGAGAGGGAGAGGGAC
1 GGGGGTGGGAAGGGAGAGGGAGAGGGAC
49662984 GGGGGTGGGAAGGGCAGAGGGAGAGGGAC
1 GGGGGTGGGAAGGG-AGAGGGAGAGGGAC
49663013 G
1 G
49663014 AGGATGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.21, C:0.07, G:0.69, T:0.03
Consensus pattern (28 bp):
GGGGGTGGGAAGGGAGAGGGAGAGGGAC
Found at i:49666869 original size:55 final size:55
Alignment explanation
Indices: 49666803--49666906 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 55
49666793 TGAACATGTT
* * *** *
49666803 ACATAACAATCGATTTAAATATATAAACAATTGGTTCAAAAGAAGCAATATTTTA
1 ACATAACAATCGATTTAAACATAAAAACAATCAATCCAAAAGAAGCAATATTTTA
*
49666858 ACATGACAATCGATTTAAACATAAAAACAATCAATCCAAAAGAAGCAAT
1 ACATAACAATCGATTTAAACATAAAAACAATCAATCCAAAAGAAGCAAT
49666907 GCTTTTGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (55 bp):
ACATAACAATCGATTTAAACATAAAAACAATCAATCCAAAAGAAGCAATATTTTA
Found at i:49673020 original size:20 final size:20
Alignment explanation
Indices: 49672992--49673032 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
49672982 AAGGGTGTGG
49672992 ATTTAGGTGTAATTGCTTGT
1 ATTTAGGTGTAATTGCTTGT
* *
49673012 ATTTGGGTGTAATTGTTTGT
1 ATTTAGGTGTAATTGCTTGT
49673032 A
1 A
49673033 ATTACACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (20 bp):
ATTTAGGTGTAATTGCTTGT
Found at i:49674960 original size:22 final size:24
Alignment explanation
Indices: 49674906--49674960 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
49674896 TGATTTCGAG
*
49674906 TTTTATTCTCTTGCAATTTTTTTTC
1 TTTTATTCTCTTG-AATTTTGTTTC
**
49674931 TTCGATTCT-TTG-ATTTTGTTTC
1 TTTTATTCTCTTGAATTTTGTTTC
49674953 TTTTATTC
1 TTTTATTC
49674961 ACTGTTTGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 15 0.60
24 3 0.12
25 7 0.28
ACGTcount: A:0.11, C:0.15, G:0.07, T:0.67
Consensus pattern (24 bp):
TTTTATTCTCTTGAATTTTGTTTC
Found at i:49686700 original size:82 final size:80
Alignment explanation
Indices: 49686606--49686809 Score: 286
Period size: 82 Copynumber: 2.5 Consensus size: 80
49686596 ATCATATATG
* * * *
49686606 TTTTTTTATTACAATATAGAGAATATTAACGGATAAAATTTGTTAATTTCGTTAGTGACGTGTGA
1 TTTTTTTATTACAATAAAGAGAATATTAACGAATAAAATTCGTTAATTTCGTTAGTGACATGTGA
49686671 GCGATCATCAAATAAA
66 GCGATCATCAAA-AAA
* * *
49686687 TTTTTTTTATTACAATAAAGAGAGTATTAACTAATAAAATTCGTTAATTTCGTTAGTGGCATGTG
1 -TTTTTTTATTACAATAAAGAGAATATTAACGAATAAAATTCGTTAATTTCGTTAGTGACATGTG
*
49686752 AGCGATCATCAAAGAA
65 AGCGATCATCAAAAAA
* *
49686768 --TTTTTATTACAATAAAGAGAATATTAACTAATAAAACTCGTT
1 TTTTTTTATTACAATAAAGAGAATATTAACGAATAAAATTCGTT
49686810 GCGTGAGCGA
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 40 0.36
81 2 0.02
82 70 0.62
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (80 bp):
TTTTTTTATTACAATAAAGAGAATATTAACGAATAAAATTCGTTAATTTCGTTAGTGACATGTGA
GCGATCATCAAAAAA
Found at i:49686911 original size:141 final size:146
Alignment explanation
Indices: 49686692--49686953 Score: 349
Period size: 141 Copynumber: 1.8 Consensus size: 146
49686682 ATAAATTTTT
* * * * * * *
49686692 TTTATTACAATAAAGAGAGTATTAACTAATAAAATTCGTTAATTTCGTTAGTGGCATGTGAGCGA
1 TTTATTACAATAAAGAGAATATTAACCAATAAAATTCGCTAATTTCATTAATGACATGTGAGAGA
* *
49686757 TCATCAAAGAA-TTTTTA-T-T-ACAATAAAGAGAATATTAACTAATAAAACTCGTTGCGTGAGC
66 TCATCAAAGAATTTTTTATTATGACAAAAAAGA-AATACTAACTAATAAAACTCGTTGCGTGAGC
49686818 GATCATTAAAGATATCA
130 GATCATTAAAGATATCA
* *
49686835 TTTATTATAATAAA-A-AATATTAACCGATAAAATTCGCTAATTTCATTAATGACAT-TGAGAGA
1 TTTATTACAATAAAGAGAATATTAACCAATAAAATTCGCTAATTTCATTAATGACATGTGAGAGA
*
49686897 TCATCAAAGAAATTTTTTATTATGACAAAAAAGAAATACTAACTAATAAAATTCGTT
66 TCATCAAAG-AATTTTTTATTATGACAAAAAAGAAATACTAACTAATAAAACTCGTT
49686954 AATTGATTGG
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
140 15 0.15
141 35 0.34
142 7 0.07
143 14 0.14
144 22 0.22
145 9 0.09
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.34
Consensus pattern (146 bp):
TTTATTACAATAAAGAGAATATTAACCAATAAAATTCGCTAATTTCATTAATGACATGTGAGAGA
TCATCAAAGAATTTTTTATTATGACAAAAAAGAAATACTAACTAATAAAACTCGTTGCGTGAGCG
ATCATTAAAGATATCA
Found at i:49690675 original size:3 final size:3
Alignment explanation
Indices: 49690667--49690704 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
49690657 CCTTTAATTC
49690667 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
49690705 CTAGTAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:49691323 original size:162 final size:160
Alignment explanation
Indices: 49690909--49691555 Score: 848
Period size: 160 Copynumber: 4.1 Consensus size: 160
49690899 AATTTGTGAC
* * * * * * *
49690909 GATCATTCATACATCACTAACG-AATTAACAAATTTTATTAGTTAATATTTATTTTGTTGTAATA
1 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
* * ** *
49690973 AAAAAAAT-TTTAATGATCGCTCA-ACGTCACTAATGAAATTAAAAAATTTTATTAGTTAATATT
66 AAAAAATTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATT
* * *
49691036 -T-TTTATTGTAATAAAAGACATCTTTAAT
131 CTCTTTATTGTAATAAAAAAAATCTTTGAT
* * *
49691064 GATCATTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAAAT-TT--TTTTATTGTAAT
1 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTT-AATGTTCACTTTATTGTAAT
* * * * *
49691125 AAAAGACA-TCTTTAATGACCGCTCACACGTCACTACCGAAATTAACGAGTTTTATTAGTTAACA
65 AAAA-AAATTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACA
49691189 TTCTCTTTATTGTAATAAAAAAAAATTCTTTGAT
129 TTCTCTTTATTGTAAT-AAAAAAAA-TCTTTGAT
49691223 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
1 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
* * *
49691288 AAAAAATTATTTGATGATCGCTCACACGTCACTACCGAAATTAACGAGTTTTATTAGTTAACATT
66 AAAAAATTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATT
*
49691353 CTCTTTATTGTAAT-AAAAAATTCTTTGAT
131 CTCTTTATTGTAATAAAAAAAATCTTTGAT
*
49691382 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCTCTTTATTGTAATA
1 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
* * *
49691447 AAAAAATTTATTTGATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATCAGTTAATAT
66 AAAAAA-TTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACAT
* * *
49691512 TCTCCTTATTGTAAGAAAAAAACATATTTGAT
130 TCTCTTTATTGTAATAAAAAAA-ATCTTTGAT
*
49691544 GATCGCTCACAC
1 GATCACTCACAC
49691556 GTGTTGATGT
Statistics
Matches: 443, Mismatches: 32, Indels: 27
0.88 0.06 0.05
Matches are distributed among these distances:
153 16 0.04
154 27 0.06
155 65 0.15
156 4 0.01
157 11 0.02
158 6 0.01
159 96 0.22
160 108 0.24
161 8 0.02
162 102 0.23
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (160 bp):
GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
AAAAAATTATTTAATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATT
CTCTTTATTGTAATAAAAAAAATCTTTGAT
Found at i:49691492 original size:81 final size:80
Alignment explanation
Indices: 49690922--49691557 Score: 801
Period size: 81 Copynumber: 8.0 Consensus size: 80
49690912 CATTCATACA
* * * *
49690922 TCACTAACG-AATTAACAAATTTTATTAGTTAATATT-TATTTTGTTGTAATAAAAAAAAT-TTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCT-CTTTATTGTAATAAAAAAATTCTTT
*
49690984 AATGATCGCTCA-ACG
65 GATGATCGCTCACACG
* ** *
49690999 TCACTAATGAAATTAAAAAATTTTATTAGTTAATATT-T-TTTATTGTAATAAAAGACA-TCTTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAA-AAATTCTTT
* **
49691061 AATGATCATTCA-ACG
65 GATGATCGCTCACACG
* *
49691076 TCACTAACGAAATTAACGAATTTTATTAGTTAA-ATT-TTTTTATTGTAATAAAAGACA-TCTTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAA-AAATTCTTT
* *
49691138 AATGACCGCTCACACG
65 GATGATCGCTCACACG
* * *
49691154 TCACTACCGAAATTAACGAGTTTTATTAGTTAACATTCTCTTTATTGTAATAAAAAAAAATTCTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAAT--AAAAAAATTCTT
* *
49691219 TGATGATCACTCACACA
64 TGATGATCGCTCACACG
* * *
49691236 TCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATAAAAAAATTATTTG
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAATTCTTTG
49691301 ATGATCGCTCACACG
66 ATGATCGCTCACACG
* * *
49691316 TCACTACCGAAATTAACGAGTTTTATTAGTTAACATTCTCTTTATTGTAAT-AAAAAATTCTTTG
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAATTCTTTG
* *
49691380 ATGATCACTCACACA
66 ATGATCGCTCACACG
* *
49691395 TCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCTCTTTATTGTAATAAAAAAATTTATTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAA-TTCTTT
49691460 GATGATCGCTCACACG
65 GATGATCGCTCACACG
* * * * *
49691476 TCACTAACGAAATTAACGAATTTTATCAGTTAATATTCTCCTTATTGTAAGAAAAAAACATATTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAA-TTCTTT
49691541 GATGATCGCTCACACG
65 GATGATCGCTCACACG
49691557 T
1 T
49691558 GTTGATGTTT
Statistics
Matches: 498, Mismatches: 49, Indels: 20
0.88 0.09 0.04
Matches are distributed among these distances:
76 19 0.04
77 89 0.18
78 61 0.12
79 75 0.15
80 90 0.18
81 97 0.19
82 67 0.13
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (80 bp):
TCACTAACGAAATTAACGAATTTTATTAGTTAATATTCTCTTTATTGTAATAAAAAAATTCTTTG
ATGATCGCTCACACG
Found at i:49691717 original size:19 final size:18
Alignment explanation
Indices: 49691693--49691736 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
49691683 ATATTTTTAA
49691693 ATTTTTAATGAAACAT-TTT
1 ATTTTTAAT-AAA-ATGTTT
*
49691712 ATTTTTTATAAAATGTTT
1 ATTTTTAATAAAATGTTT
49691730 ATTTTTA
1 ATTTTTA
49691737 TCTATAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 12 0.55
19 8 0.36
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTTAATAAAATGTTT
Found at i:49694644 original size:21 final size:22
Alignment explanation
Indices: 49694620--49694666 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
49694610 TGCTTAGAAC
*
49694620 AATAATA-TGTTAT-AATATTAA
1 AATAATATTGTAATAAAT-TTAA
49694641 AATAATATTGTAATAAATTTAA
1 AATAATATTGTAATAAATTTAA
49694663 AATA
1 AATA
49694667 TACTAACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATAATATTGTAATAAATTTAA
Found at i:49696090 original size:27 final size:27
Alignment explanation
Indices: 49696060--49696112 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
49696050 GACTAAAACT
*
49696060 ATAGCATATTTTGTGCTTTCTATTCAA
1 ATAGCATATTCTGTGCTTTCTATTCAA
*
49696087 ATAGGATATTCTGTGCTTTCTATTCA
1 ATAGCATATTCTGTGCTTTCTATTCA
49696113 CTTCTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (27 bp):
ATAGCATATTCTGTGCTTTCTATTCAA
Found at i:49698080 original size:7 final size:7
Alignment explanation
Indices: 49698068--49698094 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
49698058 AATCTTAGTA
49698068 TAACATT
1 TAACATT
49698075 TAACATT
1 TAACATT
49698082 TAACATT
1 TAACATT
49698089 TAACAT
1 TAACAT
49698095 GTTATGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:49700874 original size:21 final size:21
Alignment explanation
Indices: 49700836--49700888 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
49700826 CATTGTTTCT
** *
49700836 AATCTCACTACTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
49700857 AATCTCACCGCTATAATAACT
1 AATCTCACCGCTACAATAACC
*
49700878 AACCTCACCGC
1 AATCTCACCGC
49700889 CACCGCTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.36, G:0.04, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:49701709 original size:20 final size:21
Alignment explanation
Indices: 49701675--49701716 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
49701665 CCCGCTATCC
49701675 AATAAAAACCTAAAATT-CCT
1 AATAAAAACCTAAAATTGCCT
49701695 AATAATAAACC-AAAATTGCCT
1 AATAA-AAACCTAAAATTGCCT
49701716 A
1 A
49701717 TCCGATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (21 bp):
AATAAAAACCTAAAATTGCCT
Found at i:49701845 original size:32 final size:32
Alignment explanation
Indices: 49701804--49701869 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
49701794 GAACACAAAA
*
49701804 TATAAATTTATATCAAATTTGATTATTTAGCT
1 TATAAATTTATATCAAATTCGATTATTTAGCT
*
49701836 TATAAATTTATATCAAATTCGGTTATTTAGCT
1 TATAAATTTATATCAAATTCGATTATTTAGCT
49701868 TA
1 TA
49701870 GGTAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (32 bp):
TATAAATTTATATCAAATTCGATTATTTAGCT
Found at i:49710967 original size:10 final size:9
Alignment explanation
Indices: 49710899--49710972 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
49710889 ATTATTATGA
49710899 TTTTTATAG
1 TTTTTATAG
* *
49710908 TTTTGATAA
1 TTTTTATAG
*
49710917 TTTTATATAA
1 TTTT-TATAG
* *
49710927 TTTTAATAC
1 TTTTTATAG
* *
49710936 TTGTAATAG
1 TTTTTATAG
*
49710945 TTTTTATAA
1 TTTTTATAG
49710954 TTTTTATGAG
1 TTTTTAT-AG
49710964 TTTTTATAG
1 TTTTTATAG
49710973 AATTTTTTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
9 36 0.69
10 16 0.31
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.59
Consensus pattern (9 bp):
TTTTTATAG
Found at i:49710968 original size:19 final size:18
Alignment explanation
Indices: 49710893--49710971 Score: 77
Period size: 19 Copynumber: 4.3 Consensus size: 18
49710883 TTTTTTATTA
*
49710893 TTATGATTTTTATAGTTT
1 TTATAATTTTTATAGTTT
* *
49710911 TGATAATTTTATATAATTT
1 TTATAATTTT-TATAGTTT
* * * *
49710930 TAATACTTGTAATAGTTT
1 TTATAATTTTTATAGTTT
49710948 TTATAATTTTTATGAGTTT
1 TTATAATTTTTAT-AGTTT
49710967 TTATA
1 TTATA
49710972 GAATTTTTTA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
18 23 0.49
19 24 0.51
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.59
Consensus pattern (18 bp):
TTATAATTTTTATAGTTT
Found at i:49720285 original size:6 final size:6
Alignment explanation
Indices: 49720274--49720300 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49720264 ATAAATAATA
49720274 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
49720301 ATACATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:49721728 original size:5 final size:5
Alignment explanation
Indices: 49721718--49721742 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49721708 TTGGGAGGTT
49721718 GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG
49721743 TAAAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:49721855 original size:9 final size:9
Alignment explanation
Indices: 49721841--49721877 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
49721831 TTATGTTTGA
49721841 TATTCGAAT
1 TATTCGAAT
49721850 TATTCGAAT
1 TATTCGAAT
*
49721859 TATTCGAGT
1 TATTCGAAT
*
49721868 TATTCAAAT
1 TATTCGAAT
49721877 T
1 T
49721878 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:49723219 original size:40 final size:40
Alignment explanation
Indices: 49723172--49723301 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
49723162 ATACACAAGT
*
49723172 TTGACACCCAGTGCCTCATCAGATAATTCGAAGTAATAAA
1 TTGACACCCAGTGCCTCATCAGATAATCCGAAGTAATAAA
* * * *
49723212 TTAACACCCAGTGTCTCATCAGTTAAACCGAAG---TAAA
1 TTGACACCCAGTGCCTCATCAGATAATCCGAAGTAATAAA
* * * *
49723249 TTGGCACCCAGTACCTCATCAAACAAATCCGAAGTAATAAA
1 TTGACACCCAGTGCCTCATCAGA-TAATCCGAAGTAATAAA
*
49723290 TTGGCACCCAGT
1 TTGACACCCAGT
49723302 CATCAACTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
37 21 0.29
38 8 0.11
40 28 0.38
41 16 0.22
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (40 bp):
TTGACACCCAGTGCCTCATCAGATAATCCGAAGTAATAAA
Found at i:49728772 original size:29 final size:29
Alignment explanation
Indices: 49728691--49728773 Score: 130
Period size: 29 Copynumber: 2.9 Consensus size: 29
49728681 GAAGAAGTGG
* *
49728691 AGAACTTGTTCATTGAGAGTTCGCGATGA
1 AGAACTTGTTCGTTGAGAGTTCGTGATGA
49728720 AGAACTTGTTCGTTGAGAGTTCGTGATGA
1 AGAACTTGTTCGTTGAGAGTTCGTGATGA
* *
49728749 AGAACTTGTTCGTTTAGAATTCGTG
1 AGAACTTGTTCGTTGAGAGTTCGTG
49728774 TCAAGGTGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (29 bp):
AGAACTTGTTCGTTGAGAGTTCGTGATGA
Found at i:49729254 original size:19 final size:19
Alignment explanation
Indices: 49729203--49729260 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
49729193 ATATACTTAA
*
49729203 ATATTAAATAAACATAT-T
1 ATATTAAATATACATATGT
*
49729221 TTATTAATATATACATATGT
1 ATATTAA-ATATACATATGT
* *
49729241 ATATTAAATTTACACATGT
1 ATATTAAATATACATATGT
49729260 A
1 A
49729261 ATCACTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 6 0.18
19 20 0.61
20 7 0.21
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (19 bp):
ATATTAAATATACATATGT
Found at i:49735156 original size:105 final size:105
Alignment explanation
Indices: 49735034--49735222 Score: 342
Period size: 105 Copynumber: 1.8 Consensus size: 105
49735024 AAATTATTAT
* *
49735034 GGAAATAATTTTGGTCAAAATTGTTTTGGGGTTGGTCAAAATAATGGTGTTTCTGGTCAAAATGT
1 GGAAATAATTTTGGTCAAAATTGTTTTGGGGGTGGACAAAATAATGGTGTTTCTGGTCAAAATGT
49735099 GTGTGCTGATGGCTATAATGGTTTTCTGGAACAACGTGCA
66 GTGTGCTGATGGCTATAATGGTTTTCTGGAACAACGTGCA
* *
49735139 GGAAATAATTTTGGTCAAAATTGTTTTGGGGGTGGACAAACTAATTGTGTTTCTGGTCAAAATGT
1 GGAAATAATTTTGGTCAAAATTGTTTTGGGGGTGGACAAAATAATGGTGTTTCTGGTCAAAATGT
49735204 GTGTGCTGATGGCTATAAT
66 GTGTGCTGATGGCTATAAT
49735223 TGTGCAGGAC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 80 1.00
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.37
Consensus pattern (105 bp):
GGAAATAATTTTGGTCAAAATTGTTTTGGGGGTGGACAAAATAATGGTGTTTCTGGTCAAAATGT
GTGTGCTGATGGCTATAATGGTTTTCTGGAACAACGTGCA
Found at i:49738194 original size:12 final size:12
Alignment explanation
Indices: 49738177--49738202 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49738167 AGCTCGTCAC
49738177 ATATTTCTAAGA
1 ATATTTCTAAGA
49738189 ATATTTCTAAGA
1 ATATTTCTAAGA
49738201 AT
1 AT
49738203 GACGGGGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATATTTCTAAGA
Found at i:49742916 original size:27 final size:27
Alignment explanation
Indices: 49742886--49742947 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
49742876 CCTATCAGGT
49742886 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
49742913 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
49742940 AGGCGCCA
1 AGGCGCCA
49742948 TTATTAGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:49743133 original size:22 final size:22
Alignment explanation
Indices: 49743108--49743166 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
49743098 AATAAACACC
49743108 AAAAAAT-TTTTAAAAATAAAA
1 AAAAAATATTTTAAAAATAAAA
*
49743129 AAAAAGTATTTTAAAAATAAAAA
1 AAAAAATATTTTAAAAAT-AAAA
49743152 ATAAAAATATATTTA
1 A-AAAAATAT-TTTA
49743167 TTGTATTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 6 0.19
22 10 0.31
23 5 0.16
24 7 0.22
25 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATATTTTAAAAATAAAA
Found at i:49743691 original size:22 final size:24
Alignment explanation
Indices: 49743658--49743829 Score: 162
Period size: 22 Copynumber: 7.1 Consensus size: 24
49743648 ATAAATTATC
*
49743658 TATATTTAGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
49743682 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
49743706 TATAATTTTGTATGAATATTGTAAT
1 TAT-ATTTTGTATGAATATTGTAAT
49743731 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
49743755 TATAATTTTGTATGAATATTGTAA-
1 TAT-ATTTTGTATGAATATTGTAAT
** * *
49743779 TATCGGTATATATTGTAATATTGTAA-
1 TAT-ATTTTGTA-TG-AATATTGTAAT
49743805 T-T-TTTTGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
49743827 TAT
1 TAT
49743830 TTTATAATTA
Statistics
Matches: 125, Mismatches: 9, Indels: 29
0.77 0.06 0.18
Matches are distributed among these distances:
21 10 0.08
22 36 0.29
23 8 0.06
24 15 0.12
25 9 0.07
26 13 0.10
27 34 0.27
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (24 bp):
TATATTTTGTATGAATATTGTAAT
Found at i:49743706 original size:8 final size:8
Alignment explanation
Indices: 49743693--49743805 Score: 59
Period size: 8 Copynumber: 13.4 Consensus size: 8
49743683 TTTTTGTATG
49743693 AATATTGT
1 AATATTGT
*
49743701 AATATTAT
1 AATATTGT
*
49743709 AATTTTGTAT
1 AATATTG--T
49743719 GAATATTGT
1 -AATATTGT
* *
49743728 AATTTTTT
1 AATATTGT
**
49743736 TGTA-TG-
1 AATATTGT
49743742 AATATTGT
1 AATATTGT
*
49743750 AATATTAT
1 AATATTGT
*
49743758 AATTTTGTAT
1 AATATTG--T
49743768 GAATATTGT
1 -AATATTGT
*
49743777 AATATCGGT
1 AATAT-TGT
49743786 ATATATTGT
1 A-ATATTGT
49743795 AATATTGT
1 AATATTGT
49743803 AAT
1 AAT
49743806 TTTTTGTATG
Statistics
Matches: 77, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 46 0.60
9 8 0.10
10 6 0.08
11 12 0.16
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (8 bp):
AATATTGT
Found at i:49743720 original size:49 final size:49
Alignment explanation
Indices: 49743661--49743832 Score: 244
Period size: 49 Copynumber: 3.6 Consensus size: 49
49743651 AATTATCTAT
*
49743661 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
49743710 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
* ** *
49743759 ATTTTGTATGAATATTGTAA--TATCGGTAT--ATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
*
49743804 ATTTTTTGTATGAATATTGTAATTATTTT
1 A--TTTTGTATGAATATTGTAATTTTTTT
49743833 ATAATTAATT
Statistics
Matches: 110, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
45 16 0.15
47 25 0.23
49 69 0.63
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:49743722 original size:27 final size:25
Alignment explanation
Indices: 49743660--49743781 Score: 157
Period size: 27 Copynumber: 5.0 Consensus size: 25
49743650 AAATTATCTA
*
49743660 TATTTAGTATGAATATTGT-A-ATT
1 TATTTTGTATGAATATTGTAATATT
49743683 T-TTTTGTATGAATATTGTAATATT
1 TATTTTGTATGAATATTGTAATATT
49743707 ATAATTTTGTATGAATATTGT-A-ATT
1 -T-ATTTTGTATGAATATTGTAATATT
49743732 T-TTTTGTATGAATATTGTAATATT
1 TATTTTGTATGAATATTGTAATATT
49743756 ATAATTTTGTATGAATATTGTAATAT
1 -T-ATTTTGTATGAATATTGTAATAT
49743782 CGGTATATAT
Statistics
Matches: 88, Mismatches: 1, Indels: 16
0.84 0.01 0.15
Matches are distributed among these distances:
22 33 0.38
23 3 0.03
24 7 0.08
25 5 0.06
26 1 0.01
27 39 0.44
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (25 bp):
TATTTTGTATGAATATTGTAATATT
Found at i:49743897 original size:19 final size:19
Alignment explanation
Indices: 49743875--49743912 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49743865 TATAAATTTA
*
49743875 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
49743894 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
49743913 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:49746309 original size:34 final size:34
Alignment explanation
Indices: 49746266--49746334 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
49746256 TGTATTATAA
49746266 TTTAGTATATATACACACGCATATTCATGCATGC
1 TTTAGTATATATACACACGCATATTCATGCATGC
49746300 TTTAGTATATATACACACGCATATTCATGCATGC
1 TTTAGTATATATACACACGCATATTCATGCATGC
49746334 T
1 T
49746335 ATCTGATGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (34 bp):
TTTAGTATATATACACACGCATATTCATGCATGC
Found at i:49748355 original size:108 final size:108
Alignment explanation
Indices: 49748215--49748512 Score: 488
Period size: 108 Copynumber: 2.8 Consensus size: 108
49748205 AATTTGGCTA
* *
49748215 AACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTACC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
49748280 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTCG
* * * *
49748323 AATGAGAAATCGAAACCCAATACCGTATGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
49748388 TTATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTCG
* *
49748431 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAATGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
49748496 TTATTTAGAAATATTTT
66 TTATTTTGAAA-ATTTT
49748513 CTTTTTTTGA
Statistics
Matches: 174, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
108 169 0.97
109 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGAATATTAAGTCATTTGGTCG
Found at i:49749109 original size:3 final size:3
Alignment explanation
Indices: 49749050--49749098 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
49749040 AATTATTAAT
*
49749050 TAA TAG TAA -AA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49749095 TAA T
1 TAA T
49749099 GCACATAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:49750904 original size:129 final size:129
Alignment explanation
Indices: 49750674--49751120 Score: 664
Period size: 129 Copynumber: 3.5 Consensus size: 129
49750664 CACAACATCG
* * * * * * * *
49750674 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA-C-CACAGAGAGGTAAAACCTGATGC
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA-AG-GAGATAAGACCTGATAC
* * *
49750737 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCTACTGTAATCTC
64 GATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
49750802 A
129 A
49750803 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATACGA
* *
49750868 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACTGTAATATCA
66 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
*
49750932 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATACGA
* **
49750997 TCTTCTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCAACTCCACTGTAATCTCA
66 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
* * * * *
49751061 GGGAGATTGGATTACTAACTTCAATCTGCTCCGCTTTAATCTCAGGGAGATAAGATCTGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGA
49751121 AATTCTTCGG
Statistics
Matches: 293, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
129 288 0.98
130 3 0.01
131 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATACGA
TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
Found at i:49751164 original size:175 final size:175
Alignment explanation
Indices: 49750956--49751295 Score: 527
Period size: 175 Copynumber: 1.9 Consensus size: 175
49750946 CTAGCTTCAA
* * * * *
49750956 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTATTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGAGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
* * *
49751021 GATAAGATCCTTTATTTTAATCAACTCCACTGTAATCTCAGGGAGATTGGATTACTAACTTCAAT
66 GATAAGATCATTGATTTTAATCAACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
* *
49751086 CTGCTCCGCTTTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGAAATTCTTCGG
* * *
49751131 TCTGTTCCACTGTAATCTCAGAGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGAGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
* ** *
49751196 GATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
66 GATAAGATCATTGATTTTAATCAACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
49751261 CTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGA
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGA
49751296 TACGATCTTC
Statistics
Matches: 148, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
175 148 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (175 bp):
TCTGCTCCACTGTAATCTCAGAGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCATTGATTTTAATCAACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
CTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGAAATTCTTCGG
Found at i:49751224 original size:304 final size:304
Alignment explanation
Indices: 49750827--49751592 Score: 1273
Period size: 304 Copynumber: 2.5 Consensus size: 304
49750817 CTAGCTTCAA
* * * * * *
49750827 TCTGCTCCGCTGTAATCTCA-AGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAG
1 TCTGTTCCACTGTAATCTCAGA-GAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAG
* ** * * *
49750891 AGATAAGATCCTTTATTTTAATTCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAA
65 AGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAA
*
49750956 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTATTGTAACTTCAGAGA
130 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGA
* * *
49751021 GATAAGATCCTTTATTTTAATCAACTCCACTGTAATCTCAGGGAGATTGGATTACTAACTTCAAT
195 GATAAGATCATTGATTTTAATCAACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
*
49751086 CTGCTCCGCTTTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
260 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
49751131 TCTGTTCCACTGTAATCTCAGAGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGAGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
49751196 GATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
66 GATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
49751261 CTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAG
* * *
49751326 ATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATC
196 ATAAGATCATTGATTTTAATCAACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATC
49751391 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
261 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
* * * * *
49751435 TCTGTTCCACTATAATCTCAGGGAAATAAGACTTGGTGCGATCTACTCTACTATAACTTTAGAGA
1 TCTGTTCCACTGTAATCTCAGAGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
* *
49751500 GATAAGATCATTGGTTTTTATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
66 GATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
49751565 CTGCTCCGCTGTAATCTCAGGGAGATAA
131 CTGCTCCGCTGTAATCTCAGGGAGATAA
49751593 TATCTGAAAT
Statistics
Matches: 434, Mismatches: 27, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
304 433 1.00
305 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (304 bp):
TCTGTTCCACTGTAATCTCAGAGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
CTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAG
ATAAGATCATTGATTTTAATCAACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATC
TGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
Found at i:49751303 original size:129 final size:129
Alignment explanation
Indices: 49751131--49751424 Score: 507
Period size: 129 Copynumber: 2.3 Consensus size: 129
49751121 AATTCTTCGG
* * * * * *
49751131 TCTGTTCCACTGTAATCTCAGAGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
*
49751196 GATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAA
66 GATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAA
*
49751260 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
49751325 GATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAA
66 GATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAA
*
49751389 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGA
49751425 AATTCTTCGG
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 156 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAA
Found at i:49751358 original size:85 final size:85
Alignment explanation
Indices: 49751264--49751547 Score: 243
Period size: 85 Copynumber: 3.3 Consensus size: 85
49751254 CTTCAATCTG
* *
49751264 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
49751329 AGATCATTGGTTTTAATCCA
66 AGATCATTGGTTTTAATCCA
* * * * * ** *
49751349 CTCCACTGTAATCTCAGGGAGATAGGATTACT-ATCTTCAATCTGCTCCGCTGTAA-TCTCAGGG
1 CTCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TACGATCTACTCTACTGTAACT-TCAGAG
* ** **
49751412 AGATAAGATC--TGAAATTCTTCGGTCTG
61 AGATAAGATCATTG--GTT-TT-AATCCA
* * * * * * * *
49751439 TTCCACTATAATCTCAGGGAAATAAGACTTGGTGCGATCTACTCTACTATAACTTTAGAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
*
49751504 AGATCATTGGTTTTTATCCA
66 AGATCATTGGTTTTAATCCA
49751524 CTCCACTGTAATCTCAGGGAGATA
1 CTCCACTGTAATCTCAGGGAGATA
49751548 GGATTACTAT
Statistics
Matches: 149, Mismatches: 37, Indels: 26
0.70 0.17 0.12
Matches are distributed among these distances:
85 48 0.32
86 5 0.03
87 33 0.22
88 34 0.23
89 4 0.03
90 25 0.17
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (85 bp):
CTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCATTGGTTTTAATCCA
Found at i:49751453 original size:175 final size:175
Alignment explanation
Indices: 49751214--49751683 Score: 703
Period size: 175 Copynumber: 2.7 Consensus size: 175
49751204 CATTGGTTTT
* * * * ** * *
49751214 AATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-T--ACTATCTTCAATCTGCTCCGCTGTAAT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTGTTCCACTGTAAT
* *
49751276 CTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCATTGGTT
65 CTCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTT
49751341 TTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
130 TTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
*
49751387 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTATAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATC
* * * * *
49751452 TCAGGGAAATAAGACTTGGTGCGATCTACTCTACTATAACTTTAGAGAGATAAGATCATTGGTTT
66 TCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTT
*
49751517 TTATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
131 TAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
* * *
49751562 AATCTGCTCCGCTGTAATCTCAGGGAGATAATATCTGAAATTCTTTGGTCTGTTCTACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATC
* * *
49751627 TCAGGGAAATAAGACCTGACACGATCTACTCTGCTGTAACTTCAGAAAGATAAGATC
66 TCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
49751684 CTTTATTTTA
Statistics
Matches: 265, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
173 31 0.12
174 1 0.00
175 231 0.87
176 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (175 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATC
TCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTT
TAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
Found at i:49751454 original size:46 final size:44
Alignment explanation
Indices: 49750781--49751592 Score: 304
Period size: 44 Copynumber: 18.7 Consensus size: 44
49750771 CCTTTGTTTT
* * * * *
49750781 AATCCGCTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
* * * *
49750825 AATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATA----C
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTAATATCTTC
* * * * * *
49750866 GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TAATATCTTC
* * * *
49750910 AAT-TCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTC
1 AATCT-GCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
* * *
49750954 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATA----C
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTAATATCTTC
* * * * * * *
49750995 GATCTTCTCTATTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TAATATCTTC
** ** * *
49751039 AATCAACTCCACTGTAATCTCAGGGAGATTGGATTACTAACTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
* *
49751083 AATCTGCTCCGCTTTAATCTCAGGGAGATAAGATCTGAA-ATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-AATA-TCTTC
** * * * ** ** *
49751129 GGTCTGTTCCACTGTAATCTCAGAGAAATAAGA--CCT-GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
* * * * * * * *
49751170 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTGGT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAAT-ATCTTC
* * *
49751214 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
* * *
49751258 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATA----C
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTAATATCTTC
* * * * * * * *
49751299 GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCATTGGT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAAT-ATCTTC
** * *
49751343 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
*
49751387 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA-ATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-AATA-TCTTC
** * * * * ** *
49751433 GGTCTGTTCCACTATAATCTCAGGGAAATAAGACT--T-GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
* * * * * * * * * *
49751474 GATCTACTCTACTATAA-CTTTAGAGAGATAAGATCATTGGT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAAT-ATCTTC
* ** * *
49751518 TATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
*
49751562 AATCTGCTCCGCTGTAATCTCAGGGAGATAA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAA
49751593 TATCTGAAAT
Statistics
Matches: 554, Mismatches: 162, Indels: 104
0.68 0.20 0.13
Matches are distributed among these distances:
40 6 0.01
41 137 0.25
42 4 0.01
43 10 0.02
44 314 0.57
45 19 0.03
46 64 0.12
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATCTTC
Found at i:49751579 original size:433 final size:429
Alignment explanation
Indices: 49750674--49751584 Score: 1132
Period size: 433 Copynumber: 2.1 Consensus size: 429
49750664 CACAACATCG
* ** * * * * **
49750674 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAACCTGATGCGA
1 GGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGAGAAATAAAACCTGATGCGA
* * *
49750739 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCTACTGTAATCTCAG
66 TCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAG
49750804 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATACGAT
131 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATACGAT
* * * *
49750869 CTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACTGTAATATCAGG
196 CTTCTCTACTGTAACTTCAGAGAGATAAGATCATTGATTTTAATCCACTCCACTGTAATATCAGG
49750934 GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATC
261 GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC-ATC
* * * * ** * *
49750999 TTCTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCAACTCCACTGTAATCTCAGGG
325 TTCTCTATTCTAAATTCAGAGAAATAAGA-CCTTTAGTGCAATCAACTCCACTATAATCTCAGAG
** * ** * *
49751064 AGATTGGATTACTAACTTCAATCTGCTCCGCTTTAATCTCA
389 AGATAAGATCACTAACTTCAATCCACTCCACTGTAATCTCA
* * ** * * *
49751105 GGGAGATAAGATCTGA-AATTCTTCGGTCTGTTCCACTGTAATCTCAGAGAAATAAGACCTGGTG
1 GGGAGATAGGAT-T-ACTA-TCTTCAATCTGCTCCACTGTAATCTCAGAGAAATAAAACCTGATG
49751169 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
63 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCT
* *
49751234 CAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
128 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATAC
* *
49751299 GATCTTCTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTC
193 GATCTTCTCTACTGTAACTTCAGAGAGATAAGATCATTGATTTTAATCCACTCCACTGTAATATC
* *
49751364 AGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-A-A
258 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACA
* * * * * *
49751427 TTCTTCGGTCTGTTCCACTATAATCTCAGGGAAATAAGA-C-TTGGTGCGATCTACTCTACTATA
323 -TCTTC--TCTATT---CTA-AAT-TCAGAGAAATAAGACCTTTAGTGCAATCAACTCCACTATA
* * *** **
49751490 A-CTTTAGAGAGATAAGATCATTGGTTTTTATCCACTCCACTGTAATCTCA
380 ATC-TCAGAGAGATAAGATCACTAACTTCAATCCACTCCACTGTAATCTCA
*
49751540 GGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAG
1 GGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAG
49751585 GGAGATAATA
Statistics
Matches: 404, Mismatches: 63, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
430 1 0.00
431 15 0.04
432 2 0.00
433 307 0.76
434 3 0.01
435 59 0.15
436 3 0.01
437 2 0.00
438 12 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (429 bp):
GGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGAGAAATAAAACCTGATGCGA
TCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAG
GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGATACGAT
CTTCTCTACTGTAACTTCAGAGAGATAAGATCATTGATTTTAATCCACTCCACTGTAATATCAGG
GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATACATCT
TCTCTATTCTAAATTCAGAGAAATAAGACCTTTAGTGCAATCAACTCCACTATAATCTCAGAGAG
ATAAGATCACTAACTTCAATCCACTCCACTGTAATCTCA
Found at i:49751896 original size:44 final size:44
Alignment explanation
Indices: 49751759--49751896 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 44
49751749 TAATGCAGGA
* *
49751759 AGGCAAGATCTACTATCTTCAATCAGCTCCACTATAACCGATG-G
1 AGGCAAGATCTGCTATCTTCAATCAGCTCCACAATAACCGA-GAG
* * * * * ** *
49751803 AGACAAGGCTTTG-T-T-TTCAATCTGCTTCGTAATTAACGCAAGA-
1 AGGCAA-GATCTGCTATCTTCAATCAGCTCCACAA-TAAC-CGAGAG
*
49751846 AGGCAAGATCTGCTATCTTCAATCAGCTCCACCATAACCGAGAG
1 AGGCAAGATCTGCTATCTTCAATCAGCTCCACAATAACCGAGAG
49751890 AGGCAAG
1 AGGCAAG
49751897 GTTTGTGTCT
Statistics
Matches: 67, Mismatches: 19, Indels: 16
0.66 0.19 0.16
Matches are distributed among these distances:
42 16 0.24
43 16 0.24
44 20 0.30
45 15 0.22
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTCAATCAGCTCCACAATAACCGAGAG
Found at i:49751964 original size:88 final size:88
Alignment explanation
Indices: 49751706--49752216 Score: 626
Period size: 88 Copynumber: 5.8 Consensus size: 88
49751696 CAGCTTCACG
* * * * *
49751706 CAACCGATG-GAGGCAAGGCTTTGT-T-TTCGATCTACTCCGTTGTTAATGCAGGAAGGCAAGAT
1 CAACCGA-GAGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT
** *
49751768 CTACTATCTTCAATCAGCTCCA-CTA
64 CTGTTATCTTCAACCAGCTCCATC-A
* * * * * * * *
49751793 TAACCGATG-GAGACAAGGCTTTGT-T-TTCAATCTGCTTCG-TAATTAACGCAAGAAGGCAAGA
1 CAACCGA-GAGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCGCT-GTCAATGCAGGAAGGCAAGA
* * *
49751854 TCTGCTATCTTCAATCAGCTCCACCA
63 TCTGTTATCTTCAACCAGCTCCATCA
* * *
49751880 TAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGTTGTCAATGCAGGAAGGTAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
* *
49751945 GTTGTCTTTAACCAGCTCCATCA
66 GTTATCTTCAACCAGCTCCATCA
*
49751968 CAACTGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
*
49752033 TTTATCTTCAACCAGCTCCATCA
66 GTTATCTTCAACCAGCTCCATCA
* *
49752056 CAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
*
49752121 TTTATCTTCAACCAGCTCCATCA
66 GTTATCTTCAACCAGCTCCATCA
*
49752144 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
*
49752209 -TTAACTTC
66 GTTATCTTC
49752217 GTTGATCTGT
Statistics
Matches: 382, Mismatches: 36, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
86 7 0.02
87 97 0.25
88 277 0.73
89 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (88 bp):
CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
GTTATCTTCAACCAGCTCCATCA
Found at i:49752027 original size:44 final size:44
Alignment explanation
Indices: 49751890--49752204 Score: 186
Period size: 44 Copynumber: 7.2 Consensus size: 44
49751880 TAACCGAGAG
*
49751890 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGTTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
* * * ** * **
49751934 AGGTAAGATCTGTTGTCTTTAACCAGC-TC-CATCACAACTG-A-GA
1 AGGCAAGGTTTG-TGTCTTCGACCTGCTTCGC-TGTCAA-TGCAGGA
49751977 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
49752022 AGGCAAGATCTTTTATCTTCAACCAGC-TC-C-ATCACA-ACCGAGA
1 AGGCAAGGT-TTGTGTCTTCGACCTGCTTCGCTGTCA-ATGCAG-GA
* *
49752065 GAGGTAAGGTTTGTGTCTTCGACCTACTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
49752110 AGGCAAGATCTTTTATCTTCAACCAGC-TC-C-ATCACA-ACCGAGA
1 AGGCAAGGT-TTGTGTCTTCGACCTGCTTCGCTGTCA-ATGCAG-GA
*
49752153 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGTAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
49752198 AGGCAAG
1 AGGCAAG
49752205 ATCTTTAACT
Statistics
Matches: 193, Mismatches: 54, Indels: 48
0.65 0.18 0.16
Matches are distributed among these distances:
42 10 0.05
43 48 0.25
44 77 0.40
45 49 0.25
46 9 0.05
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
Found at i:49753322 original size:21 final size:21
Alignment explanation
Indices: 49753296--49753342 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
49753286 GGTATAGCAG
49753296 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
49753317 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
49753338 GATCA
1 GATCA
49753343 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:49754304 original size:11 final size:11
Alignment explanation
Indices: 49754288--49754354 Score: 68
Period size: 11 Copynumber: 6.0 Consensus size: 11
49754278 TTGACCTCTC
49754288 CTTTTTCTTTTT
1 CTTTTTC-TTTT
49754300 CTTTTTCTTCTT
1 CTTTTTCTT-TT
*
49754312 -TTCTTCTTTT
1 CTTTTTCTTTT
49754322 -TTTCTTCTTTT
1 CTTT-TTCTTTT
49754333 CTTTTT-TTTT
1 CTTTTTCTTTT
49754343 CCTTTTTCTTTT
1 -CTTTTTCTTTT
49754355 TTCTTATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 8 0.17
11 24 0.50
12 16 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:49754315 original size:8 final size:8
Alignment explanation
Indices: 49754302--49754359 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
49754292 TTCTTTTTCT
49754302 TTTTCTTC
1 TTTTCTTC
49754310 TTTTCTTC
1 TTTTCTTC
49754318 TTTTTTTCTTC
1 ---TTTTCTTC
49754329 TTTTCTT-
1 TTTTCTTC
*
49754336 TTTTTTTC
1 TTTTCTTC
*
49754344 CTTT-TTC
1 TTTTCTTC
49754351 TTTT-TTC
1 TTTTCTTC
49754358 TT
1 TT
49754360 ATTTTGACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
7 17 0.40
8 18 0.42
11 8 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTCTTC
Found at i:49754325 original size:19 final size:18
Alignment explanation
Indices: 49754290--49754356 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 18
49754280 GACCTCTCCT
49754290 TTTTCTTTTTCTTTTTCTTC
1 TTTTC-TTTT-TTTTTCTTC
49754310 TTTTCTTCTTTTTTTCTTC
1 TTTTCTT-TTTTTTTCTTC
*
49754329 TTTTCTTTTTTTTTCCT-
1 TTTTCTTTTTTTTTCTTC
49754346 TTTTCTTTTTT
1 TTTTCTTTTTT
49754357 CTTATTTTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
17 11 0.24
18 9 0.20
19 18 0.40
20 7 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTTTTTCTTC
Found at i:49754364 original size:8 final size:7
Alignment explanation
Indices: 49754289--49754364 Score: 68
Period size: 7 Copynumber: 10.7 Consensus size: 7
49754279 TGACCTCTCC
49754289 TTTTTC-
1 TTTTTCT
49754295 TTTTTC-
1 TTTTTCT
49754301 TTTTTCT
1 TTTTTCT
49754308 TCTTTTCT
1 T-TTTTCT
49754316 TCTTTT-T
1 T-TTTTCT
*
49754323 TTCTTCT
1 TTTTTCT
*
49754330 TTTCTTTT
1 TTT-TTCT
*
49754338 TTTTTCC
1 TTTTTCT
49754345 TTTTTCT
1 TTTTTCT
49754352 TTTTTCT
1 TTTTTCT
49754359 TATTTT
1 T-TTTT
49754365 GACTTTGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
6 15 0.25
7 22 0.37
8 22 0.37
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:49758047 original size:108 final size:108
Alignment explanation
Indices: 49757880--49758177 Score: 533
Period size: 108 Copynumber: 2.8 Consensus size: 108
49757870 AATTTGGCTA
*
49757880 AACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
49757945 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
* *
49757988 AATGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
49758053 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
*
49758096 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
49758161 TTATTTAGAAATATTTT
66 TTATTTTGAAA-ATTTT
49758178 CCTTTTTTTG
Statistics
Matches: 181, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 176 0.97
109 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
Found at i:49759951 original size:17 final size:17
Alignment explanation
Indices: 49759929--49759987 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
49759919 TTTTTATGTT
49759929 TTATATATATTATTTTA
1 TTATATATATTATTTTA
49759946 TTATATA-ATATATTTTA
1 TTATATATAT-TATTTTA
*
49759963 TTATAT-TCATTATATTA
1 TTATATAT-ATTATTTTA
49759980 TTATATAT
1 TTATATAT
49759988 TAAATAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 2 0.05
17 32 0.86
18 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATATATTATTTTA
Found at i:49759976 original size:9 final size:8
Alignment explanation
Indices: 49759929--49759989 Score: 61
Period size: 8 Copynumber: 7.4 Consensus size: 8
49759919 TTTTTATGTT
49759929 TTATATATA
1 TTATAT-TA
*
49759938 TTATTTTA
1 TTATATTA
*
49759946 TTATATAA
1 TTATATTA
*
49759954 TATATTTTA
1 T-TATATTA
49759963 TTATATTCA
1 TTATATT-A
49759972 TTATATTA
1 TTATATTA
49759980 TTATA-TA
1 TTATATTA
49759987 TTA
1 TTA
49759990 AATAAACTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
7 5 0.11
8 20 0.45
9 19 0.43
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:49760867 original size:24 final size:23
Alignment explanation
Indices: 49760840--49760886 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
49760830 TAACCATGGG
49760840 ACATTT-AAAGTAAGGTAAGTAATA
1 ACATTTGAAAGTAA-GTAAG-AATA
*
49760864 ACATTTGAAATTAAGTAAGAATA
1 ACATTTGAAAGTAAGTAAGAATA
49760887 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTGAAAGTAAGTAAGAATA
Found at i:49763142 original size:22 final size:22
Alignment explanation
Indices: 49763109--49763197 Score: 115
Period size: 22 Copynumber: 4.0 Consensus size: 22
49763099 TGCACTAATG
*
49763109 AACAGAGAGCACTAAGGTGCTA
1 AACAGAGAGCACTAATGTGCTA
* * *
49763131 TACAAAGAGCACAAATGTGCTA
1 AACAGAGAGCACTAATGTGCTA
* *
49763153 AACGGAGAGCATTAATGTGCTA
1 AACAGAGAGCACTAATGTGCTA
*
49763175 AACTGAGAGCACTAATGTGCTA
1 AACAGAGAGCACTAATGTGCTA
49763197 A
1 A
49763198 TAATCGGAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (22 bp):
AACAGAGAGCACTAATGTGCTA
Found at i:49763184 original size:44 final size:44
Alignment explanation
Indices: 49763113--49763211 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
49763103 CTAATGAACA
*
49763113 GAGAGCACTAAGGTGCTATACAAAGAGCACAAATGTGCTAAACG
1 GAGAGCACTAAGGTGCTAAACAAAGAGCACAAATGTGCTAAACG
* * ** *
49763157 GAGAGCATTAATGTGCTAAACTGAGAGCACTAATGTGCTAATAATCG
1 GAGAGCACTAAGGTGCTAAACAAAGAGCACAAATGTGCT-A-AA-CG
49763204 GAGAGCAC
1 GAGAGCAC
49763212 GCTAAGGTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 33 0.73
45 1 0.02
46 2 0.04
47 9 0.20
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (44 bp):
GAGAGCACTAAGGTGCTAAACAAAGAGCACAAATGTGCTAAACG
Found at i:49764450 original size:70 final size:72
Alignment explanation
Indices: 49764335--49764475 Score: 223
Period size: 70 Copynumber: 2.0 Consensus size: 72
49764325 TCTCAGATAT
* * *
49764335 AAAAAAGAGATCATTACCCAGTAAGTTAGGACACGATCTTTTCTTACTTCCCGAGATCTTTTAAA
1 AAAAAAGAGATCATTACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
49764400 ACTTGAG
66 ACTTGAG
* *
49764407 AAAAAA-AGATCA-TGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATCGTTTAAA
1 AAAAAAGAGATCATTACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
49764470 ACTTGA
66 ACTTGA
49764476 TTTTGAAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 52 0.81
71 6 0.09
72 6 0.09
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (72 bp):
AAAAAAGAGATCATTACCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
ACTTGAG
Found at i:49765128 original size:26 final size:27
Alignment explanation
Indices: 49765091--49765142 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
49765081 ATATATACAC
*
49765091 AAATTTACAATAAATAATATATAAAAG
1 AAATTTACAATAAATAATACATAAAAG
*
49765118 AAATTTA-AATAAATTATACATAAAA
1 AAATTTACAATAAATAATACATAAAA
49765143 CAGTTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
AAATTTACAATAAATAATACATAAAAG
Found at i:49766081 original size:19 final size:17
Alignment explanation
Indices: 49766038--49766073 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49766028 TACAAAAACG
49766038 AAAAT-AAAAGAGATAA
1 AAAATAAAAAGAGATAA
*
49766054 AAAATAAAAAGTGATAA
1 AAAATAAAAAGAGATAA
49766071 AAA
1 AAA
49766074 CAATAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (17 bp):
AAAATAAAAAGAGATAA
Found at i:49768015 original size:38 final size:39
Alignment explanation
Indices: 49767917--49768020 Score: 174
Period size: 39 Copynumber: 2.7 Consensus size: 39
49767907 AAATTATTCA
49767917 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
*
49767956 ACCCAACCAAATAAAACTAAAACTAAAGTCTACCCAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
* *
49767995 A-TCAACCCAATAAAAATAAAACTAAA
1 ACCCAACCCAATAAAACTAAAACTAAA
49768021 ACTAAAGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 22 0.36
39 39 0.64
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (39 bp):
ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAATT
Found at i:49770495 original size:26 final size:28
Alignment explanation
Indices: 49770459--49770518 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
49770449 GGCCCGGCCC
* * *
49770459 ATTTTTAAAAT-AAACATTAAAAAA-TT
1 ATTTTAAAAATAAAAAATAAAAAAATTT
49770485 ATTTTAAAAATAAAAAATAAAAAAATTT
1 ATTTTAAAAATAAAAAATAAAAAAATTT
49770513 ATTTTA
1 ATTTTA
49770519 GAAGTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 10 0.34
27 11 0.38
28 8 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTTTAAAAATAAAAAATAAAAAAATTT
Found at i:49770506 original size:25 final size:26
Alignment explanation
Indices: 49770459--49770518 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
49770449 GGCCCGGCCC
* * *
49770459 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAATT
49770485 ATTTTAAAAATAAAAAATAAAAAAATTT
1 ATTTTAAAAATAAAAAAT-AAAAAA-TT
49770513 ATTTTA
1 ATTTTA
49770519 GAAGTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.52
27 6 0.21
28 8 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTTTAAAAATAAAAAATAAAAAATT
Found at i:49770884 original size:17 final size:17
Alignment explanation
Indices: 49770823--49770885 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
49770813 TAATTTCAAG
* *
49770823 AATTATATAATGTTTTT
1 AATTATGTAATATTTTT
**
49770840 AATTATGTAATGATTCAAAT
1 AATTATGTAAT-ATT--TTT
*
49770860 ACTTATGTAATATTTTT
1 AATTATGTAATATTTTT
49770877 AATTATGTA
1 AATTATGTA
49770886 GTGATTCAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 19 0.54
18 2 0.06
19 3 0.09
20 11 0.31
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (17 bp):
AATTATGTAATATTTTT
Found at i:49770907 original size:9 final size:9
Alignment explanation
Indices: 49770893--49770923 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49770883 GTAGTGATTC
*
49770893 AATTCGGGT
1 AATTCGGTT
49770902 AATTCGGTT
1 AATTCGGTT
49770911 AATTCGGTT
1 AATTCGGTT
49770920 AATT
1 AATT
49770924 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:49775868 original size:11 final size:10
Alignment explanation
Indices: 49775821--49775866 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
49775811 ACTAAATCCT
*
49775821 TTCTCTCAAC
1 TTCTCTCAAA
49775831 TTCTCTCTAATA
1 TTCTCTC-AA-A
49775843 TTCTCTCAAA
1 TTCTCTCAAA
49775853 TTCCTCTCAAA
1 TT-CTCTCAAA
49775864 TTC
1 TTC
49775867 CTATTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 11 0.34
11 14 0.44
12 7 0.22
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:49777688 original size:18 final size:18
Alignment explanation
Indices: 49777665--49777707 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
49777655 TGCTAGGTGC
*
49777665 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
49777683 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
49777701 GTTTCCT
1 GTATCCT
49777708 TTTCCTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:49780406 original size:124 final size:124
Alignment explanation
Indices: 49780160--49780444 Score: 455
Period size: 124 Copynumber: 2.3 Consensus size: 124
49780150 CCCAAACATG
* *
49780160 CTACTGTAGTAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
49780225 TTGAAGCATTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAAATATTTTTCAGGAC
*
49780284 CTACTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTCAGAAATTCTTCTGATAAA-CATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* **
49780348 TTGAAGCGTTTTTTATACTATTTGCTCAAAAATTTCAACTCGAAAATATTTTTGCAGGAC
66 TTGAAGCATTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAAATATTTTT-CAGGAC
* *
49780408 CTACTGTATCAAAAACGCGTCCACGTGGGAGCGATTT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTT
49780445 TCTTAATAAA
Statistics
Matches: 148, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
123 54 0.36
124 94 0.64
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAAATATTTTTCAGGAC
Found at i:49785652 original size:3 final size:3
Alignment explanation
Indices: 49785646--49785677 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49785636 GGTTGCAGTG
49785646 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
49785678 TCTCCACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:49803376 original size:18 final size:18
Alignment explanation
Indices: 49803353--49803395 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
49803343 ACCCAATCCA
49803353 AACCCAAGTA-TCCAACCC
1 AACCCAAGTACT-CAACCC
*
49803371 AACCCAATTACTCAACCC
1 AACCCAAGTACTCAACCC
49803389 AACCCAA
1 AACCCAA
49803396 TCATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACTCAACCC
Found at i:49806894 original size:17 final size:18
Alignment explanation
Indices: 49806865--49806901 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
49806855 TTTTTTTATT
49806865 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
49806883 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
49806900 TT
1 TT
49806902 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:49813676 original size:100 final size:100
Alignment explanation
Indices: 49813503--49814931 Score: 1844
Period size: 100 Copynumber: 14.3 Consensus size: 100
49813493 AAACCATATT
* * * * *
49813503 TTGCAATTAAAAAGATTGAAACTACAACGGCAAATCTTACTTTTCAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
49813568 TTGAAGCTACGACGGTGAATCTCACTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * ** *
49813603 TTGCAATTTAAAAGATTGAAGCCACAACGACAAATCTTACAATCCAGGCGGTGCAGCGGAATAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* *
49813668 TTGAAGCTACAACGGTGAATCTTACTTCCCCGACC
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* *
49813703 TTACAATTAAAAAGATTGAAGCTACAACGACGAATCTTA-TTTCCCAGGCGATGCAGCGGAACAG
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTT-CCAGGCGGTGCAGCGGAACAG
* * * *
49813767 ATTGAAGCTACGATGGCGAATCTCACTTCCTCGACA
65 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * * * *
49813803 ATGTAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
49813868 TTGAAACTACAACGGCGAATCTTGCTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
49813903 TTGTAATTAAAAAGATTGAAGCTACAA-TAGCGAATCTTACTTTCCAGGCGGTGCAGCGAAACAG
1 TTGCAATTAAAAAGATTGAAGCTACAACGA-CGAATCTTACTTTCCAGGCGGTGCAGCGGAACAG
* * *
49813967 ATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACA
65 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * ** *
49814003 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTTTAGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * *
49814068 TTGAAGCTACGAA-GGTGAATCTCACTTCCTCGACA
66 TTGAAGCTAC-AACGGCGAATCTTACTTCCCCGACA
* * * * * **
49814103 TTGCAATTTAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCAGGCAATGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
49814168 TTGAAGCTACAACGGCGAATCTTACTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
49814203 TTGCAATTAAAAAGATTGAAGCTACAATGACGAATCTTACTTTCTAGGCGGTGCAGCGAAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
*
49814268 TTGAAGCTACAACGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * *
49814303 TTACAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTTCAGGCGGTGCAGTGAAACTGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* **
49814368 TTGAAGTTACAACGGCGAATCTTGTTTCCCCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * *
49814403 TTGCAATTAAAAAGATTGAAGCTACAATGGCTAATCTTACTTTCCAGGCGGTGCATCGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
** *
49814468 TTGAAGCTACAACGGCGAATCTTGTTTCACCGACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * *
49814503 TTGCAATTGAAAAA-ATTGAAGCTACAATGGCGAATCTTACTTTCTAGGCGGTGCAGCGGAACAG
1 TTGCAATT-AAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAG
* * * *
49814567 ATTAAAGCTACAACAGTGAATCTTGCTTCCCCGACA
65 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * * *
49814603 TTGCAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACATTCTAGGCGGTGCAGAGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
* * * *
49814668 TTAAAACTACAACGGCGAATCTTGCTTCCCCAACA
66 TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* * * *
49814703 TTGCAATTAAAAAGATTGAAGCTACAAC-AGCGAATCTTACTTCCCAGGCGATGCAGCTGAATAG
1 TTGCAATTAAAAAGATTGAAGCTACAACGA-CGAATCTTACTTTCCAGGCGGTGCAGCGGAACAG
* * *
49814767 ATTGAAGCTACGACGGCGAATCTCACTTCCTCGACA
65 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
* *
49814803 TTGCAATTTAAAAGATTGAAGCCACAACGACGAATCTTACTTTCCCAGGGCGGTGCAGCGGAACA
1 TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTT-CCA-GGCGGTGCAGCGGAACA
*
49814868 GATTGAAGCTACAACGACGAATCTTACTTCCCCGACA
64 GATTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
*
49814905 TTACAATTAAAAAGATT-AATGCTACAA
1 TTGCAATTAAAAAGATTGAA-GCTACAA
49814932 GTCAAAACTC
Statistics
Matches: 1163, Mismatches: 153, Indels: 24
0.87 0.11 0.02
Matches are distributed among these distances:
99 8 0.01
100 1072 0.92
101 15 0.01
102 68 0.06
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCTACAACGACGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGA
TTGAAGCTACAACGGCGAATCTTACTTCCCCGACA
Found at i:49816624 original size:18 final size:18
Alignment explanation
Indices: 49816586--49816620 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49816576 TTTTTTTATT
49816586 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
49816604 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
49816621 CTTACACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:49819331 original size:26 final size:25
Alignment explanation
Indices: 49819302--49819702 Score: 251
Period size: 26 Copynumber: 15.2 Consensus size: 25
49819292 AAACGAAACA
* *
49819302 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATATA-AACAATTTAAAAT
* *
49819328 AAATAGTATA-AAACAATTTAAAGT
1 AAATAATATATAAACAATTTAAAAT
* *
49819352 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATAT-AAACAATTTAAAAT
*
49819378 AAATAATATACAAAGCAATTTAAAAT
1 AAATAATATATAAA-CAATTTAAAAT
*
49819404 AAATAACATATAAGACAATTTAAAAT
1 AAATAATATATAA-ACAATTTAAAAT
*
49819430 -AAT-ATATA-AAA-ATTTTAAAAT
1 AAATAATATATAAACAATTTAAAAT
* *
49819451 AAATAATATGTAAAAAGAAGTTTAAAAT
1 AAATAATA--TATAAACAA-TTTAAAAT
* * *
49819479 AAATAATGTACAAAACAGTTTAAAAAT
1 AAATAATATA-TAAACAATTT-AAAAT
*
49819506 AAATGATATATATAAAAAAACAATTCAAAAT
1 AAAT-A-ATATAT----AAACAATTTAAAAT
*
49819537 AAATAATATATATGACAATTTAAAAAT
1 AAATAATATATA-AACAATTT-AAAAT
*
49819564 AAATAATATATAAAAAATTTAAAAT
1 AAATAATATATAAACAATTTAAAAT
** * * *
49819589 GGATAATAGTTTGAAATAGTTTAAAA-
1 AAATAATA-TAT-AAACAATTTAAAAT
* * * *
49819615 AATACGTGATATGTGGAA-AACTTAAAAT
1 AA-A--TAATATAT-AAACAATTTAAAAT
49819643 AAATAATA-ATAAAACAATTTAAAAT
1 AAATAATATAT-AAACAATTTAAAAT
*
49819668 AAATAATATATGAGAAAAATGTTTAAAAT
1 AAATAATATAT-A-AACAA--TTTAAAAT
49819697 AAATAA
1 AAATAA
49819703 ATAACAAATT
Statistics
Matches: 299, Mismatches: 44, Indels: 61
0.74 0.11 0.15
Matches are distributed among these distances:
21 9 0.03
22 4 0.01
23 5 0.02
24 27 0.09
25 42 0.14
26 87 0.29
27 57 0.19
28 23 0.08
29 28 0.09
30 1 0.00
31 9 0.03
32 7 0.02
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (25 bp):
AAATAATATATAAACAATTTAAAAT
Found at i:49819443 original size:20 final size:23
Alignment explanation
Indices: 49819404--49819452 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
49819394 AATTTAAAAT
49819404 AAATAACATATAAGACAA-TTTA
1 AAATAACATATAAGACAATTTTA
*
49819426 AAATAATATATAA-A-AATTTTA
1 AAATAACATATAAGACAATTTTA
49819447 AAATAA
1 AAATAA
49819453 ATAATATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 12 0.48
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATAACATATAAGACAATTTTA
Found at i:49819501 original size:75 final size:74
Alignment explanation
Indices: 49819352--49819588 Score: 185
Period size: 75 Copynumber: 3.1 Consensus size: 74
49819342 AATTTAAAGT
* * *
49819352 AAATAATATGTAAAACAAATTAAAATAAATAATATACAAAGCAATTTAAAATAAATAACATATAA
1 AAATAATATATAAAACAAATTAAAATAAATAATATAAAAAGCAATTTAAAATAAATAACATACAA
*
49819417 GACAATTTA
66 AACAATTTA
** **
49819426 AAATAATATATAAAA-ATTTTAAAATAAATAATATGTAAAAAG-AAGTTTAAAATAAATAATGTA
1 AAATAATATATAAAACAAATTAAAATAAATAATA--TAAAAAGCAA-TTTAAAATAAATAACATA
*
49819489 CAAAACAGTTTAAAAA
63 CAAAACAATTT----A
* * *
49819505 TAAATGATATATATAAAAAAACAATTCAAAATAAATAATAT-ATATGACAATTTAAAAATAAATA
1 -AAAT-A-ATATAT-AAAACA-AATT-AAAATAAATAATATAAAAAG-CAATTT-AAAATAAATA
* *
49819569 ATATATAAAA-AATTTA
58 ACATACAAAACAATTTA
49819585 AAAT
1 AAAT
49819589 GGATAATAGT
Statistics
Matches: 130, Mismatches: 16, Indels: 29
0.74 0.09 0.17
Matches are distributed among these distances:
73 16 0.12
74 16 0.12
75 30 0.23
79 5 0.04
80 5 0.04
81 1 0.01
82 6 0.05
83 7 0.05
84 9 0.07
85 22 0.17
86 13 0.10
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (74 bp):
AAATAATATATAAAACAAATTAAAATAAATAATATAAAAAGCAATTTAAAATAAATAACATACAA
AACAATTTA
Found at i:49819671 original size:29 final size:29
Alignment explanation
Indices: 49819639--49819706 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
49819629 GGAAAACTTA
*
49819639 AAATAAATAATAATAAAACA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-ATATTTAAAAT
* *
49819668 AAAT-AATATATGAGAAAAATGTTTAAAAT
1 AAATAAATA-ATAAGAAAAATATTTAAAAT
49819697 AAATAAATAA
1 AAATAAATAA
49819707 CAAATTTGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 5 0.15
29 24 0.73
30 4 0.12
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAATATTTAAAAT
Found at i:49820527 original size:19 final size:18
Alignment explanation
Indices: 49820501--49820536 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
49820491 TAAAAATGAT
49820501 AAACAGAAAACAAAAAAA
1 AAACAGAAAACAAAAAAA
*
49820519 AAACGAGAAAAGAAAAAA
1 AAAC-AGAAAACAAAAAA
49820537 GAGCAAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (18 bp):
AAACAGAAAACAAAAAAA
Found at i:49826162 original size:125 final size:124
Alignment explanation
Indices: 49825896--49826182 Score: 448
Period size: 124 Copynumber: 2.3 Consensus size: 124
49825886 ATTTATTAAG
* * * *
49825896 GAAATCGCTTCCATGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
* * * *
49825961 GTTTCTGAGCAAATAGTATAAAAACGCTTTAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAAAAGTATAAAAACCCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
*
49826020 GAAATCGCTCCCACGTGGACGCATTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
1 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
* *
49826085 GTTTTTGAGCAAAAAGTATAAAAAACCCTTCAAGCAGGATGCTTTATCAAAAGAATTTTT
66 GTTTCTGAGCAAAAAGTAT-AAAAACCCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
* *
49826145 GAAATCGCTCCCACGTGGATGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAG
49826183 CATGTTTCGG
Statistics
Matches: 148, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
124 77 0.52
125 71 0.48
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
GTTTCTGAGCAAAAAGTATAAAAACCCTTCAAGCAGGATGCTTTATCAAAAGAATTTCT
Found at i:49829398 original size:49 final size:49
Alignment explanation
Indices: 49829280--49829400 Score: 215
Period size: 49 Copynumber: 2.5 Consensus size: 49
49829270 TAAGAATATT
* *
49829280 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAAAATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAAAATTCAAAATA
*
49829329 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAAAATTCAAAATA
49829378 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
49829401 TAATGTTACT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAAAATTCAAAATA
Found at i:49829563 original size:21 final size:21
Alignment explanation
Indices: 49829539--49829578 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49829529 TTGTGGTTGC
49829539 TCCGGT-GAGGATTCTGGTTCA
1 TCCGGTAGAGGA-TCTGGTTCA
*
49829560 TCCGGTAGGGGATCTGGTT
1 TCCGGTAGAGGATCTGGTT
49829579 GTCGGTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.17, G:0.38, T:0.33
Consensus pattern (21 bp):
TCCGGTAGAGGATCTGGTTCA
Found at i:49831363 original size:50 final size:50
Alignment explanation
Indices: 49831288--49831417 Score: 215
Period size: 50 Copynumber: 2.6 Consensus size: 50
49831278 TACACGGAAT
* *
49831288 CACTTATCATTTATCTCTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
*
49831338 CACTTAACACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
* *
49831388 CACTTATCACTTATCACTTATCACTTATCA
1 CACTTATCACTTATCACTTGTCACTGATCA
49831418 CTTATCACTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (50 bp):
CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:49831400 original size:7 final size:7
Alignment explanation
Indices: 49831388--49831434 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
49831378 GCTAAGCTAC
49831388 CACTTAT
1 CACTTAT
49831395 CACTTAT
1 CACTTAT
49831402 CACTTAT
1 CACTTAT
49831409 CACTTAT
1 CACTTAT
49831416 CACTTAT
1 CACTTAT
49831423 CACTTAT
1 CACTTAT
49831430 CACTT
1 CACTT
49831435 GTTACTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.43
Consensus pattern (7 bp):
CACTTAT
Found at i:49831503 original size:37 final size:37
Alignment explanation
Indices: 49831449--49831521 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
49831439 CTTGTTACTA
49831449 ATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTG
1 ATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTG
*
49831486 ATCAGATAAGTGCAGCTAAAGCTACCACTTATCACT
1 ATCAGATAAGTGAAGCTAAAGCTACCACTTATCACT
49831522 TGTCACTGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (37 bp):
ATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTG
Found at i:49840257 original size:28 final size:27
Alignment explanation
Indices: 49840212--49840277 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
49840202 AATTTAAATT
49840212 AAAAATTCTT-AAAAATAAAAACA-AAA
1 AAAAATT-TTAAAAAATAAAAACATAAA
*
49840238 AAAATATTTTAAAAATATAAAAATATAAA
1 AAAA-ATTTTAAAAA-ATAAAAACATAAA
*
49840267 ATAAATTTTAA
1 AAAAATTTTAA
49840278 TCTCTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 6 0.18
27 7 0.21
28 15 0.44
29 6 0.18
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAAATTTTAAAAAATAAAAACATAAA
Found at i:49840267 original size:26 final size:26
Alignment explanation
Indices: 49840207--49840269 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
49840197 ATTAAAATTT
49840207 AAAT-TAAAA-ATTCTTAAAAATAAA
1 AAATATAAAATATTCTTAAAAATAAA
* *
49840231 AACAAAAAAAATATT-TTAAAAATATAA
1 AA-ATATAAAATATTCTTAAAAATA-AA
49840258 AAATATAAAATA
1 AAATATAAAATA
49840270 AATTTTAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
24 2 0.06
25 1 0.03
26 21 0.68
27 7 0.23
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (26 bp):
AAATATAAAATATTCTTAAAAATAAA
Found at i:49840931 original size:19 final size:21
Alignment explanation
Indices: 49840898--49840939 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
49840888 TTTTTTAAAA
*
49840898 TTAAAAATTATTAAAA-TTAT
1 TTAAAAAGTATTAAAATTTAT
49840918 TTAAAAAGTA-TAAAATTTAT
1 TTAAAAAGTATTAAAATTTAT
49840938 TT
1 TT
49840940 TCTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAAAAGTATTAAAATTTAT
Found at i:49846888 original size:7 final size:7
Alignment explanation
Indices: 49846876--49846910 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
49846866 AAATGCGTAC
49846876 AAAAAGA
1 AAAAAGA
49846883 AAAAAGA
1 AAAAAGA
49846890 AAAAAGA
1 AAAAAGA
49846897 AAAAAGA
1 AAAAAGA
49846904 AAAAAGA
1 AAAAAGA
49846911 GAGAGCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:49859537 original size:21 final size:21
Alignment explanation
Indices: 49859513--49859557 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
49859503 AAAAAATTAT
* *
49859513 AAAATTTTATAAAATTGT-AAG
1 AAAATTATACAAAA-TGTAAAG
49859534 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
49859555 AAA
1 AAA
49859558 TATAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:49859772 original size:19 final size:19
Alignment explanation
Indices: 49859734--49859773 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49859724 TTTTAATGAT
**
49859734 TTTTTATAAAATTTTATAA
1 TTTTTATAAAAAATTATAA
*
49859753 TTTTTATAAAAAATTCTAA
1 TTTTTATAAAAAATTATAA
49859772 TT
1 TT
49859774 CTTAATAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTATAAAAAATTATAA
Found at i:49859983 original size:90 final size:91
Alignment explanation
Indices: 49859866--49860070 Score: 216
Period size: 90 Copynumber: 2.2 Consensus size: 91
49859856 GCTTAATTGC
* * * * * *
49859866 TTTTTTGAAAATTTTTGAGGGTATTTTTGATGTATTTTAAAAGTTCAAGTACTCAATTGAGTG-A
1 TTTTTTGAAAA-GTTTGAGGGCATTTTTGATATACTTTAAAAGCTCAAGTACTCAATTAAGTGCA
* *
49859930 ATAAAAAA-GGAGGGGATTAATTACTT
65 AAAAAAAAGGGAGGAGATTAATTACTT
* * *
49859956 TTTTTTGAAGAAGTTTGAGGGCCTTTTTGATATACTTTGAAAGCTCAAGTGCTCAATTAAGTGCC
1 TTTTTTGAA-AAGTTTGAGGGCATTTTTGATATACTTTAAAAGCTCAAGTACTCAATTAAGTG-C
*
49860021 AAAAAAAAAAGGGAGGAGCTTAATTACTTT
64 -AAAAAAAAAGGGAGGAGATTAATTAC-TT
* *
49860051 TATTTTTAAAAAGATTGAGG
1 T-TTTTTGAAAAGTTTGAGG
49860071 ACTTTTTACT
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
90 51 0.54
91 2 0.02
93 8 0.09
94 14 0.15
95 12 0.13
96 7 0.07
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (91 bp):
TTTTTTGAAAAGTTTGAGGGCATTTTTGATATACTTTAAAAGCTCAAGTACTCAATTAAGTGCAA
AAAAAAAGGGAGGAGATTAATTACTT
Found at i:49863456 original size:37 final size:37
Alignment explanation
Indices: 49863414--49863608 Score: 255
Period size: 37 Copynumber: 5.0 Consensus size: 37
49863404 GGTAGTTTTA
49863414 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
**
49863451 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
* *
49863488 GTTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
*
49863525 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAA---GT-G
*
49863566 CTTCAGCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTG
1 -----GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
49863608 G
1 G
49863609 TAGCCTAGCT
Statistics
Matches: 140, Mismatches: 9, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
37 102 0.73
40 2 0.01
41 1 0.01
42 1 0.01
43 2 0.01
46 32 0.23
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
Found at i:49863505 original size:74 final size:78
Alignment explanation
Indices: 49863378--49863608 Score: 272
Period size: 74 Copynumber: 2.9 Consensus size: 78
49863368 TTTGAGTACT
** *
49863378 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAAACAAAGTGATAAGTGG-AG--CT--CTACACTTATCTGATCAAGTGACAAAGT
49863443 GATAAGTGGCTACACTTA
61 GATAAGTGGCTACACTTA
*
49863461 TCTGATCAAGAAACAAAGTGATAAGT-G-G-T-TACACTTATCTGATCAAGAGACAAAGTGATAA
1 TCTGATCAAGAAACAAAGTGATAAGTGGAGCTCTACACTTATCTGATCAAGTGACAAAGTGATAA
49863522 GTGGCTACACTTA
66 GTGGCTACACTTA
** * *
49863535 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGGCAAAGT
1 TCTGATCAAGAAACAAAGTGATAAGTGG-AGC-T---CTACACTTATCTGATCAAGTGACAAAGT
49863600 GATAAGTGG
61 GATAAGTGG
49863609 TAGCCTAGCT
Statistics
Matches: 131, Mismatches: 8, Indels: 18
0.83 0.05 0.11
Matches are distributed among these distances:
74 67 0.51
75 1 0.01
77 2 0.02
79 1 0.01
80 1 0.01
82 1 0.01
83 58 0.44
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (78 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGAGCTCTACACTTATCTGATCAAGTGACAAAGTGATAA
GTGGCTACACTTA
Found at i:49863634 original size:45 final size:46
Alignment explanation
Indices: 49863525--49863648 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
49863515 GTGATAAGTG
* *
49863525 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
49863571 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
49863616 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
49863649 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:49868962 original size:19 final size:20
Alignment explanation
Indices: 49868935--49868972 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
49868925 TTGTAAAGGT
*
49868935 TATATTTTA-ATATCTAAAA
1 TATAATTTATATATCTAAAA
*
49868954 TATAATTTATATATTTAAA
1 TATAATTTATATATCTAAA
49868973 TTAAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAATTTATATATCTAAAA
Found at i:49877420 original size:21 final size:21
Alignment explanation
Indices: 49877394--49877435 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
49877384 TTTTTAAGAC
49877394 CGAAACAATAAATGAGTGGCA
1 CGAAACAATAAATGAGTGGCA
*
49877415 CGAAACCATAAATGAGTGGCA
1 CGAAACAATAAATGAGTGGCA
49877436 ATGCGAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (21 bp):
CGAAACAATAAATGAGTGGCA
Found at i:49878870 original size:10 final size:10
Alignment explanation
Indices: 49878849--49878912 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
49878839 AATTTATTTT
49878849 AAAAATTT-A
1 AAAAATTTAA
49878858 AAAAATTTAA
1 AAAAATTTAA
49878868 AAAAGTATTTAA
1 AAAA--ATTTAA
49878880 AAAATATTT--
1 AAAA-ATTTAA
* *
49878889 TAAAATTAAA
1 AAAAATTTAA
49878899 AAAAATTTAA
1 AAAAATTTAA
49878909 AAAA
1 AAAA
49878913 GTATTTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 3 0.07
9 11 0.24
10 17 0.37
11 5 0.11
12 10 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:49878877 original size:30 final size:31
Alignment explanation
Indices: 49878843--49878917 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
49878833 ACCAAAAATT
* *
49878843 TATTTTAAAAAT-TTAAAAAATTTAAAAAAG
1 TATTTAAAAAATATTAAAAAATTAAAAAAAG
**
49878873 TATTTAAAAAATATTTTAAAATTAAAAAAA-
1 TATTTAAAAAATATTAAAAAATTAAAAAAAG
49878903 -ATTTAAAAAAGTATT
1 TATTTAAAAAA-TATT
49878918 TTTAAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.26
30 15 0.38
31 14 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (31 bp):
TATTTAAAAAATATTAAAAAATTAAAAAAAG
Found at i:49878879 original size:12 final size:11
Alignment explanation
Indices: 49878849--49878965 Score: 70
Period size: 11 Copynumber: 11.2 Consensus size: 11
49878839 AATTTATTTT
49878849 AAAA-ATTT-A
1 AAAATATTTAA
49878858 AAAA-ATTTAA
1 AAAATATTTAA
49878868 AAAAGTATTTAA
1 AAAA-TATTTAA
49878880 AAAATATTT--
1 AAAATATTTAA
*
49878889 TAAA-A-TTAA
1 AAAATATTTAA
*
49878898 AAAAAATTTAA
1 AAAATATTTAA
**
49878909 AAAAGTATTTTT
1 AAAA-TATTTAA
**
49878921 AAAATATTTTT
1 AAAATATTTAA
*
49878932 AAAATATTTTA
1 AAAATATTTAA
*
49878943 AAATTA-TTAA
1 AAAATATTTAA
* *
49878953 AATATTTTTAA
1 AAAATATTTAA
49878964 AA
1 AA
49878966 TAAAAAAATT
Statistics
Matches: 88, Mismatches: 11, Indels: 16
0.77 0.10 0.14
Matches are distributed among these distances:
7 2 0.02
8 1 0.01
9 14 0.16
10 12 0.14
11 41 0.47
12 18 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:49878881 original size:11 final size:10
Alignment explanation
Indices: 49878843--49878984 Score: 59
Period size: 9 Copynumber: 14.2 Consensus size: 10
49878833 ACCAAAAATT
*
49878843 TATTTTAAAA
1 TATTTAAAAA
49878853 -ATTTAAAAA
1 TATTTAAAAA
49878862 -ATTTAAAAAA
1 TATTT-AAAAA
49878872 GTATTTAAAAAA
1 -TATTT-AAAAA
*
49878884 TATTT-TAAA
1 TATTTAAAAA
*
49878893 -ATTAAAAAA
1 TATTTAAAAA
*
49878902 AATTTAAAAAA
1 TATTT-AAAAA
*
49878913 GTATTTTTAAAA
1 -TA-TTTAAAAA
*
49878925 TATTTTTAAAA
1 TA-TTTAAAAA
*
49878936 TATTTTAAAA
1 TATTTAAAAA
49878946 T-TATT-AAAA
1 TAT-TTAAAAA
*
49878955 TATTTTTAAAA
1 TA-TTTAAAAA
*
49878966 TA--AAAAAA
1 TATTTAAAAA
49878974 T-TTTAAAAA
1 TATTTAAAAA
49878983 TA
1 TA
49878985 AATATATTTA
Statistics
Matches: 107, Mismatches: 10, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
8 8 0.07
9 30 0.28
10 21 0.20
11 30 0.28
12 15 0.14
13 3 0.03
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (10 bp):
TATTTAAAAA
Found at i:49878888 original size:41 final size:41
Alignment explanation
Indices: 49878843--49878954 Score: 136
Period size: 41 Copynumber: 2.7 Consensus size: 41
49878833 ACCAAAAATT
49878843 TATTTTAAAAATTTAAAAAATTTAAAAAAGTATTTAAAAAA
1 TATTTTAAAAATTTAAAAAATTTAAAAAAGTATTTAAAAAA
* **
49878884 TATTTT-AAAATTAAAAAAAATTTAAAAAAGTATTTTTAAAA
1 TATTTTAAAAATT-TAAAAAATTTAAAAAAGTATTTAAAAAA
* *
49878925 TATTTTTAAAATATTTTAAAATTATTAAAA
1 TA-TTTTAAAA-ATTTAAAAAAT-TTAAAA
49878955 TATTTTTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.10
41 33 0.55
42 4 0.07
43 8 0.13
44 9 0.15
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (41 bp):
TATTTTAAAAATTTAAAAAATTTAAAAAAGTATTTAAAAAA
Found at i:49878993 original size:17 final size:16
Alignment explanation
Indices: 49878931--49878993 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 16
49878921 AAAATATTTT
49878931 TAAAATATTTTAAAATTA
1 TAAAATATTTTAAAA--A
*
49878949 TTAAAATATTTTTAAAA
1 -TAAAATATTTTAAAAA
*
49878966 TAAAAAAATTTTAAAAA
1 T-AAAATATTTTAAAAA
49878983 TAAATATATTT
1 TAAA-ATATTT
49878994 ATTATATTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 4 0.11
17 20 0.53
19 14 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAATATTTTAAAAA
Found at i:49879423 original size:18 final size:18
Alignment explanation
Indices: 49879403--49879438 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
49879393 AAAGAAATCT
*
49879403 AAAATAATTTTTAAAATTA
1 AAAAT-ATTTATAAAATTA
49879422 AAAATATTTATAAAATT
1 AAAATATTTATAAAATT
49879439 CAAACTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATATTTATAAAATTA
Found at i:49879580 original size:17 final size:17
Alignment explanation
Indices: 49879554--49879587 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49879544 TCTTATCATA
49879554 TTAAAGTATTTTATTTT
1 TTAAAGTATTTTATTTT
* *
49879571 TTAAATTATTTTGTTTT
1 TTAAAGTATTTTATTTT
49879588 GAACTTTTTT
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:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
TTAAAGTATTTTATTTT
Found at i:49879940 original size:7 final size:7
Alignment explanation
Indices: 49879917--49879975 Score: 75
Period size: 7 Copynumber: 8.6 Consensus size: 7
49879907 CCGTAACAGG
49879917 ATTTT-A
1 ATTTTAA
* *
49879923 ATTTGAC
1 ATTTTAA
49879930 ATTTTAA
1 ATTTTAA
49879937 ATTTTAA
1 ATTTTAA
49879944 ATTTTAA
1 ATTTTAA
*
49879951 ATTTCAA
1 ATTTTAA
*
49879958 ATTTCAA
1 ATTTTAA
49879965 ATTTTAA
1 ATTTTAA
49879972 ATTT
1 ATTT
49879976 AACTTAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
6 4 0.09
7 42 0.91
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (7 bp):
ATTTTAA
Found at i:49882119 original size:28 final size:28
Alignment explanation
Indices: 49882079--49882135 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
49882069 AAGTAAAAAA
49882079 ATTAAAAATTTATGAAAATGACCTTAAT
1 ATTAAAAATTTATGAAAATGACCTTAAT
49882107 ATTAAAAATTTATGAAAATGACCTTAAT
1 ATTAAAAATTTATGAAAATGACCTTAAT
49882135 A
1 A
49882136 CTAGATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (28 bp):
ATTAAAAATTTATGAAAATGACCTTAAT
Found at i:49884013 original size:24 final size:24
Alignment explanation
Indices: 49883963--49884063 Score: 93
Period size: 22 Copynumber: 4.3 Consensus size: 24
49883953 ACTTTAGCGC
**
49883963 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATT-TTAGCACGTCAGT
*
49883988 GCTATCTGATTTTAGCACGTCAGT
1 GCTCTCTGATTTTAGCACGTCAGT
* *
49884012 GCTCTCTG--TTTAGCACATCTGT
1 GCTCTCTGATTTTAGCACGTCAGT
* * *
49884034 GCTCTCTG--TATAGCACTTTAGT
1 GCTCTCTGATTTTAGCACGTCAGT
49884056 GCTCTCTG
1 GCTCTCTG
49884064 TTCATTAGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
22 38 0.58
24 18 0.27
25 10 0.15
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTCTGATTTTAGCACGTCAGT
Found at i:49885845 original size:52 final size:51
Alignment explanation
Indices: 49885742--49885863 Score: 163
Period size: 52 Copynumber: 2.4 Consensus size: 51
49885732 TAAGTGATTA
* **
49885742 AAATAATATGGCGGCACCAAAAGATAATTTTTATTCAATTTAGGTGCCTCC
1 AAATAATATGGCGGCACCAAAAAATAATTTTTATTCAATTTAGGCACCTCC
* ** *
49885793 AAATAATGTGGCGGCACCAAAAAATAAATTTTTATTTTATTTTGGCACCTCC
1 AAATAATATGGCGGCACCAAAAAAT-AATTTTTATTCAATTTAGGCACCTCC
*
49885845 AAATAACATGGCGGCACCA
1 AAATAATATGGCGGCACCA
49885864 CAAATATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 23 0.38
52 38 0.62
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (51 bp):
AAATAATATGGCGGCACCAAAAAATAATTTTTATTCAATTTAGGCACCTCC
Found at i:49886155 original size:17 final size:17
Alignment explanation
Indices: 49886130--49886162 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49886120 CAAATACTCT
*
49886130 AAACCTTGAAAGATGAC
1 AAACATTGAAAGATGAC
49886147 AAACATTGAAAGATGA
1 AAACATTGAAAGATGA
49886163 AAATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
AAACATTGAAAGATGAC
Found at i:49892445 original size:15 final size:15
Alignment explanation
Indices: 49892425--49892476 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
49892415 ACTAGAAAAC
49892425 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
49892440 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
49892459 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
49892474 ATT
1 ATT
49892477 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:49892595 original size:22 final size:24
Alignment explanation
Indices: 49892568--49892616 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
49892558 ATATTAAATA
49892568 ATTTATTA-A-AATAATATATTAT
1 ATTTATTATATAATAATATATTAT
*
49892590 ATTTATTATATTAATAATTTATTAT
1 ATTTATTATA-TAATAATATATTAT
49892615 AT
1 AT
49892617 GAGTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
25 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTATTATATAATAATATATTAT
Found at i:49892600 original size:16 final size:16
Alignment explanation
Indices: 49892582--49892616 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
49892572 ATTAAAATAA
49892582 TATATT-AT-ATTTAT
1 TATATTAATAATTTAT
49892596 TATATTAATAATTTAT
1 TATATTAATAATTTAT
49892612 TATAT
1 TATAT
49892617 GAGTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 2 0.11
16 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTAATAATTTAT
Done.