Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 225 of 253
Found at i:73712630 original size:6 final size:6
Alignment explanation
Indices: 73712619--73712646 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
73712609 TTTTACATAG
73712619 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
73712647 GCATTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:73720902 original size:22 final size:22
Alignment explanation
Indices: 73720874--73720918 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
73720864 TTGGTGAAGG
73720874 GTCCAGAAGCTGACGTCAGCAT
1 GTCCAGAAGCTGACGTCAGCAT
73720896 GTCCAGAAGCTGACGTCAGCAT
1 GTCCAGAAGCTGACGTCAGCAT
73720918 G
1 G
73720919 CCTCTCAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.18
Consensus pattern (22 bp):
GTCCAGAAGCTGACGTCAGCAT
Found at i:73724331 original size:20 final size:20
Alignment explanation
Indices: 73724306--73724345 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
73724296 ATTAGAAGAT
73724306 CCAAGTTGATTTGGCGATTG
1 CCAAGTTGATTTGGCGATTG
73724326 CCAAGTTGATTTGGCGATTG
1 CCAAGTTGATTTGGCGATTG
73724346 ACATTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (20 bp):
CCAAGTTGATTTGGCGATTG
Found at i:73727286 original size:20 final size:20
Alignment explanation
Indices: 73727261--73727300 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
73727251 TTCTTGAAGG
73727261 GTGGATCTTTTCTTCATCGC
1 GTGGATCTTTTCTTCATCGC
73727281 GTGGATCTTTTCTTCATCGC
1 GTGGATCTTTTCTTCATCGC
73727301 TCTTGGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.25, G:0.20, T:0.45
Consensus pattern (20 bp):
GTGGATCTTTTCTTCATCGC
Found at i:73729691 original size:28 final size:28
Alignment explanation
Indices: 73729651--73729729 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
73729641 GCAATCAAAT
* * *
73729651 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
**
73729679 ATGGCACTTAGTGTGCGAGGTATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
73729707 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
73729730 CGAATGATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:73734738 original size:28 final size:28
Alignment explanation
Indices: 73734698--73734776 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
73734688 GCAATCAAAT
* * *
73734698 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
73734726 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
73734754 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
73734777 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:73739773 original size:28 final size:27
Alignment explanation
Indices: 73739742--73739810 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
73739732 GCAATCAAAT
*
73739742 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTCAGTGTACG-AATATTGAGA
* * *
73739770 ATGGCACTTAGTGTGCGAGTATTGAGA
1 ATGGCACTCAGTGTACGAATATTGAGA
* *
73739797 ATGACACTTAGTGT
1 ATGGCACTCAGTGT
73739811 GCAAAATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (27 bp):
ATGGCACTCAGTGTACGAATATTGAGA
Found at i:73744031 original size:50 final size:49
Alignment explanation
Indices: 73743908--73744040 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
73743898 GGTGTAATGC
*
73743908 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGA
** * * * * * *
73743957 CGACACCATGTCTTAGGCATGGTCTTACACTGGCTCTC-ACATCTACGTGA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGA-G-GA
*
73744007 CGATGCCATGTCCCAGACATGGTCTTACACTGAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGAC
73744041 ACATCTCGTA
Statistics
Matches: 67, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
48 5 0.07
49 33 0.49
50 29 0.43
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGA
Found at i:73744074 original size:11 final size:11
Alignment explanation
Indices: 73744058--73744085 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
73744048 GTAGCTGATG
73744058 CATGTCCCATA
1 CATGTCCCATA
73744069 CATGTCCCATA
1 CATGTCCCATA
73744080 CATGTC
1 CATGTC
73744086 TTACACTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.29
Consensus pattern (11 bp):
CATGTCCCATA
Found at i:73744119 original size:57 final size:56
Alignment explanation
Indices: 73744013--73744131 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 56
73744003 GTGACGATGC
* * *
73744013 CATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATGCATGTCCCATA
1 CATGTCCCAGACATGGTCTTACACTGACACATCGCGTAGCAGATGCATGTCCCAAA
* *
73744069 CATGTCCCATACAT-GTCTTACACTGGCTTACATCGCG-AGGCAGATGCATGTCCCAAA
1 CATGTCCCAGACATGGTCTTACACTGAC--ACATCGCGTA-GCAGATGCATGTCCCAAA
73744126 CATGTC
1 CATGTC
73744132 TTACACTACC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
55 12 0.22
56 14 0.25
57 29 0.53
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (56 bp):
CATGTCCCAGACATGGTCTTACACTGACACATCGCGTAGCAGATGCATGTCCCAAA
Found at i:73744176 original size:47 final size:45
Alignment explanation
Indices: 73744112--73744233 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 45
73744102 CGCGAGGCAG
* *
73744112 ATGCATGTCCCAAACATGTCTTACACTACCTCTCGTCTCAA-T-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTACCTCTC--AT-AAGTGGCCA
* **
73744158 ATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATGTGGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTACCTCTCATAA-GTGGCCA
73744206 ATGCATGTCCCAGACATGTCTTACACTA
1 ATGCATGTCCCAGACATGTCTTACACTA
73744234 ACGCACAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
45 2 0.03
46 13 0.20
47 28 0.44
48 21 0.33
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTACCTCTCATAAGTGGCCA
Found at i:73747892 original size:9 final size:9
Alignment explanation
Indices: 73747875--73747911 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
73747865 TTGAGTTTCG
73747875 AATTCGAAT
1 AATTCGAAT
*
73747884 AACTCGAAT
1 AATTCGAAT
*
73747893 AATTTGAAT
1 AATTCGAAT
73747902 AATTCGAAT
1 AATTCGAAT
73747911 A
1 A
73747912 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:73748307 original size:18 final size:19
Alignment explanation
Indices: 73748286--73748325 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
73748276 TTCCCTCAAA
73748286 TTTT-TATTCCCCAAAACT
1 TTTTATATTCCCCAAAACT
* *
73748304 TTTTATTTTCCCCTAAACT
1 TTTTATATTCCCCAAAACT
73748323 TTT
1 TTT
73748326 ACTTCTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTATATTCCCCAAAACT
Found at i:73755446 original size:15 final size:15
Alignment explanation
Indices: 73755426--73755457 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
73755416 GCGTAGCTGG
73755426 AAGGTGAAAGATGTT
1 AAGGTGAAAGATGTT
73755441 AAGGTGAAAGATGTT
1 AAGGTGAAAGATGTT
73755456 AA
1 AA
73755458 CTAAGTGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (15 bp):
AAGGTGAAAGATGTT
Found at i:73759793 original size:19 final size:18
Alignment explanation
Indices: 73759771--73759824 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
73759761 AATACAGAAT
*
73759771 AATTCAAAATAATTTTTAA
1 AATTCAAAAT-ATTTATAA
*
73759790 AATTCAACATATTTATAAA
1 AATTCAAAATATTTAT-AA
*
73759809 AATTCCAAAT-TTTATA
1 AATTCAAAATATTTATA
73759825 TATTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 10 0.33
19 19 0.63
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:73759808 original size:18 final size:19
Alignment explanation
Indices: 73759771--73759809 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
73759761 AATACAGAAT
*
73759771 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
*
73759790 AATTCAACAT-ATTTATAA
1 AATTCAAAATAATTTATAA
73759808 AA
1 AA
73759810 ATTCCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:73759819 original size:26 final size:26
Alignment explanation
Indices: 73759789--73759838 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
73759779 ATAATTTTTA
73759789 AAATTCAACATATTTATAAAAATTCC
1 AAATTCAACATATTTATAAAAATTCC
** * *
73759815 AAATTTTATATATTTTTAAAAATT
1 AAATTCAACATATTTATAAAAATT
73759839 ATACAAGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (26 bp):
AAATTCAACATATTTATAAAAATTCC
Found at i:73762570 original size:2 final size:2
Alignment explanation
Indices: 73762558--73762601 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
73762548 ATTAATTGCT
* *
73762558 TC TC TC AC TC TC TC TC TC TC TC TC AC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
73762600 TC
1 TC
73762602 CGTACTCGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.05, C:0.50, G:0.00, T:0.45
Consensus pattern (2 bp):
TC
Found at i:73803864 original size:15 final size:17
Alignment explanation
Indices: 73803844--73803875 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
73803834 TTAGGAAACG
73803844 TACATAA-A-AAATATA
1 TACATAATATAAATATA
73803859 TACATAATATAAATATA
1 TACATAATATAAATATA
73803876 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:73804419 original size:11 final size:11
Alignment explanation
Indices: 73804386--73804426 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
73804376 AAATCATTTT
73804386 GAAGAGAGAAA
1 GAAGAGAGAAA
*
73804397 GAA-A-AAAAA
1 GAAGAGAGAAA
*
73804406 GAAGGGAGAAA
1 GAAGAGAGAAA
73804417 GAAGAGAGAA
1 GAAGAGAGAA
73804427 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.29
10 1 0.04
11 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:73804479 original size:19 final size:20
Alignment explanation
Indices: 73804446--73804492 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
73804436 GAAAGGAAAT
73804446 CCGGCCAAGGGGGCCGGTCA
1 CCGGCCAAGGGGGCCGGTCA
73804466 CCGGCCAA-GGGGCCGGTCA
1 CCGGCCAAGGGGGCCGGTCA
73804485 CCGGCCAA
1 CCGGCCAA
73804493 TCGTCGGCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.17, C:0.38, G:0.40, T:0.04
Consensus pattern (20 bp):
CCGGCCAAGGGGGCCGGTCA
Found at i:73804933 original size:20 final size:20
Alignment explanation
Indices: 73804908--73804960 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
73804898 GGTTTCTTGG
73804908 TTTTTTTGGGGGGGTTAGGT
1 TTTTTTTGGGGGGGTTAGGT
*
73804928 TTTTTTT-TGGGGGTTAGGT
1 TTTTTTTGGGGGGGTTAGGT
73804947 TTTTTTTGGGGGGG
1 TTTTTTTGGGGGGG
73804961 GCTTAATGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.04, C:0.00, G:0.43, T:0.53
Consensus pattern (20 bp):
TTTTTTTGGGGGGGTTAGGT
Found at i:73804952 original size:18 final size:18
Alignment explanation
Indices: 73804906--73804958 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 18
73804896 AGGGTTTCTT
*
73804906 GGTTTTTTTGGGGGGGTTA
1 GGTTTTTTT-TGGGGGTTA
73804925 GGTTTTTTTTTGGGGGTTA
1 GG-TTTTTTTTGGGGGTTA
73804944 GGTTTTTTTTGGGGG
1 GGTTTTTTTTGGGGG
73804959 GGGCTTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 13 0.41
19 12 0.38
20 7 0.22
ACGTcount: A:0.04, C:0.00, G:0.43, T:0.53
Consensus pattern (18 bp):
GGTTTTTTTTGGGGGTTA
Found at i:73806452 original size:27 final size:27
Alignment explanation
Indices: 73806400--73806457 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
73806390 AAAACCTAAT
*
73806400 TAAAAACCAACAGTCCAAAGAGTCCAC
1 TAAAAACCAACAGTCCAAAGAATCCAC
* **
73806427 TAAAAACCAACAGTTCGGAGAATCCAC
1 TAAAAACCAACAGTCCAAAGAATCCAC
73806454 TAAA
1 TAAA
73806458 TATAAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.12, T:0.14
Consensus pattern (27 bp):
TAAAAACCAACAGTCCAAAGAATCCAC
Found at i:73810966 original size:20 final size:20
Alignment explanation
Indices: 73810943--73810980 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73810933 CAAAAAAATG
*
73810943 AAAAGTATTAAAAAAATTAT
1 AAAAATATTAAAAAAATTAT
*
73810963 AAAAATATTAAAAGAATT
1 AAAAATATTAAAAAAATT
73810981 CAAATCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAATATTAAAAAAATTAT
Found at i:73811275 original size:19 final size:20
Alignment explanation
Indices: 73811251--73811289 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
73811241 TAATCTAAAG
* *
73811251 CAACATTATTTAAAT-TATT
1 CAACATAATTAAAATATATT
73811270 CAACATAATTAAAATATATT
1 CAACATAATTAAAATATATT
73811290 ATCTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
CAACATAATTAAAATATATT
Found at i:73813684 original size:17 final size:17
Alignment explanation
Indices: 73813664--73813709 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
73813654 TAATCTATCA
73813664 ATTTTTATTTGAGATTT
1 ATTTTTATTTGAGATTT
* *
73813681 ATTTTCATTTGAGTTTT
1 ATTTTTATTTGAGATTT
* *
73813698 TTTTTTTTTTGA
1 ATTTTTATTTGA
73813710 TTTATTTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (17 bp):
ATTTTTATTTGAGATTT
Found at i:73817489 original size:9 final size:9
Alignment explanation
Indices: 73817477--73817512 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
73817467 AGTATTTAAT
73817477 TAATTTTTA
1 TAATTTTTA
73817486 TAATTTTTAA
1 TAATTTTT-A
73817496 TAATTTTTA
1 TAATTTTTA
73817505 TAATTTTT
1 TAATTTTT
73817513 TAAGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TAATTTTTA
Found at i:73817513 original size:20 final size:20
Alignment explanation
Indices: 73817471--73817532 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
73817461 CATGTTAGTA
73817471 TTTAATTAATTTTTATAA-TT
1 TTTAA-TAATTTTTATAATTT
73817491 TTTAATAATTTTTATAATTT
1 TTTAATAATTTTTATAATTT
* * *
73817511 TTTAAGAATTTTAAGAATTT
1 TTTAATAATTTTTATAATTT
73817531 TT
1 TT
73817533 ATTTTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 12 0.32
20 26 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTAATAATTTTTATAATTT
Found at i:73818366 original size:23 final size:24
Alignment explanation
Indices: 73818317--73818367 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
73818307 ACTATAATAC
*
73818317 CAAAAAATAATATCAACATTGCTA
1 CAAAAAATAATATCAAAATTGCTA
*
73818341 CAAAAAGTAATATCAAAATTGC-A
1 CAAAAAATAATATCAAAATTGCTA
73818364 CAAA
1 CAAA
73818368 CAAACAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.57, C:0.16, G:0.06, T:0.22
Consensus pattern (24 bp):
CAAAAAATAATATCAAAATTGCTA
Found at i:73819173 original size:15 final size:17
Alignment explanation
Indices: 73819131--73819177 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
73819121 GTTGAATAAG
73819131 TTTGAATTTATAATACTT
1 TTTGAATTT-TAATACTT
*
73819149 TTTTATATTTTAA-AC-T
1 TTTGA-ATTTTAATACTT
73819165 TTTGAATTTTAAT
1 TTTGAATTTTAAT
73819178 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 7 0.28
16 5 0.20
17 2 0.08
18 7 0.28
19 4 0.16
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (17 bp):
TTTGAATTTTAATACTT
Found at i:73822998 original size:16 final size:16
Alignment explanation
Indices: 73822974--73823006 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
73822964 TTGTATATAT
*
73822974 TAAATTATTATATTAA
1 TAAAATATTATATTAA
73822990 TAAAATATTATATTAA
1 TAAAATATTATATTAA
73823006 T
1 T
73823007 TAGATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTATATTAA
Found at i:73823037 original size:5 final size:5
Alignment explanation
Indices: 73823018--73823077 Score: 102
Period size: 5 Copynumber: 11.6 Consensus size: 5
73823008 AGATAAAAAG
73823018 TATAT TATAAGT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TAT-A-T TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
73823070 TATAT TAT
1 TATAT TAT
73823078 TATAAAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
5 47 0.89
6 2 0.04
7 4 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:73824436 original size:18 final size:18
Alignment explanation
Indices: 73824415--73824450 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
73824405 ATTAATTGAT
73824415 TGATTGATACTGAATAAC
1 TGATTGATACTGAATAAC
* *
73824433 TGATTGTTATTGAATAAC
1 TGATTGATACTGAATAAC
73824451 AATAAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (18 bp):
TGATTGATACTGAATAAC
Found at i:73842419 original size:45 final size:45
Alignment explanation
Indices: 73842351--73842442 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
73842341 TGTGAGCAAT
*
73842351 AAGTTAGTCCAAAGATTAGTTCATTGTTTGACATAGTTTATTGTC
1 AAGTTAGTCCAAAGATTAATTCATTGTTTGACATAGTTTATTGTC
73842396 AAGTTAGTCCAAAGATTAATTCATTGTTTGACATAGTTTATTGTC
1 AAGTTAGTCCAAAGATTAATTCATTGTTTGACATAGTTTATTGTC
73842441 AA
1 AA
73842443 TGTTTGATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (45 bp):
AAGTTAGTCCAAAGATTAATTCATTGTTTGACATAGTTTATTGTC
Found at i:73843773 original size:19 final size:18
Alignment explanation
Indices: 73843749--73843787 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
73843739 TACACCATTC
*
73843749 ACTTAACTATGGGAAAGTT
1 ACTTAACTAT-GAAAAGTT
*
73843768 ACTTAATTATGAAAAGTT
1 ACTTAACTATGAAAAGTT
73843786 AC
1 AC
73843788 AGTTTGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (18 bp):
ACTTAACTATGAAAAGTT
Found at i:73843961 original size:21 final size:21
Alignment explanation
Indices: 73843937--73844004 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
73843927 CCTCTAGTCA
*
73843937 TAAACCCTAAACTATAAACCT
1 TAAACCCTAAACAATAAACCT
73843958 TAAACCCTAAA-AATTAAACCT
1 TAAACCCTAAACAA-TAAACCT
* * *
73843979 TAAATCCTAAGCCATAAAACCT
1 TAAACCCTAAACAAT-AAACCT
73844001 TAAA
1 TAAA
73844005 TTATAGACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.70
22 11 0.28
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.24
Consensus pattern (21 bp):
TAAACCCTAAACAATAAACCT
Found at i:73843968 original size:14 final size:14
Alignment explanation
Indices: 73843935--73844004 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
73843925 AACCTCTAGT
*
73843935 CATAAACCCTAAAC
1 CATAAACCTTAAAC
*
73843949 TATAAACCTTAAAC
1 CATAAACCTTAAAC
* **
73843963 CCTAAAAATTAAAC
1 CATAAACCTTAAAC
* *
73843977 CTTAAATCC-TAAGC
1 CATAAA-CCTTAAAC
73843991 CATAAAACCTTAAA
1 CAT-AAACCTTAAA
73844005 TTATAGACAC
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
14 35 0.85
15 6 0.15
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.23
Consensus pattern (14 bp):
CATAAACCTTAAAC
Found at i:73844114 original size:21 final size:21
Alignment explanation
Indices: 73844090--73844136 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
73844080 AGCTTAAGTT
**
73844090 ATAAACCCTAAATCTTAAACC
1 ATAAACCCTAAATCCAAAACC
73844111 ATAAACCCTAAATCCAAAACC
1 ATAAACCCTAAATCCAAAACC
73844132 ATAAA
1 ATAAA
73844137 ACCTTAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAAACCCTAAATCCAAAACC
Found at i:73844716 original size:12 final size:12
Alignment explanation
Indices: 73844699--73844723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73844689 TATGTATGTT
73844699 TGAAAATTTTTA
1 TGAAAATTTTTA
73844711 TGAAAATTTTTA
1 TGAAAATTTTTA
73844723 T
1 T
73844724 TATTTGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:73847993 original size:16 final size:17
Alignment explanation
Indices: 73847961--73847993 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
73847951 CATCAAGAAG
73847961 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
73847979 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
73847994 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:73848090 original size:3 final size:3
Alignment explanation
Indices: 73848082--73848107 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
73848072 ATTAATAGTA
73848082 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
73848108 AAGAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:73848536 original size:188 final size:190
Alignment explanation
Indices: 73848213--73848626 Score: 506
Period size: 188 Copynumber: 2.2 Consensus size: 190
73848203 TTTTAAAGCT
* *
73848213 TTGTTATTAGTGGCGCTTTTAAAAAAACGCCACAAAAACATCCATTAAGAGAATGTAAAACAGCG
1 TTGTTATTAGTGGCGCTTTTTAAAAAACGCCAC-AAAACATCCATAAAGAGAATGTAAAACAGCG
* * * * *
73848278 TCGTTTACATCCTTGTTATTAGTGGCGTTTATATAAACGCCGCAACAGGTGTGAATTACCGGTGT
65 TCGTTTACAGCCTTGTTATTAGTGGCGTTTATATAAACGCCACAAAAGGTGTGAAATACCGGTAT
** *
73848343 TTTCACTAGAAAACGCCACAAACGTATATTAATAGATTGC-AAAAC-GACGTCGTTAT-TA-CC
130 TTTCACTAG-AAACGCCACAAAAATATATTAACAGATTGCAAAAACTG-CGTCGTT-TGTAGCC
* *
73848403 TTGTTATTAGTGGCGCTTTTTCAAAAAACGCCACAAAACAT-C-TAAAGAGATTTTAAAAC-GTC
1 TTGTTATTAGTGGCGCTTTTT-AAAAAACGCCACAAAACATCCATAAAGAGAATGTAAAACAG-C
* * *
73848465 GTCGTTTTATAGCCTT-TTTTTAGTGGCGCTTT-TATAAACGCCACAAAAGGTGTGAAATATCGG
64 GTCG-TTTACAGCCTTGTTATTAGTGGCG-TTTATATAAACGCCACAAAAGGTGTGAAATACCGG
*
73848528 TATTTTCACTAGAAACGCCACAAAAATCTATTAACAGATTGCAAAAACTGCGTCGTTTGTAGCC
127 TATTTTCACTAGAAACGCCACAAAAATATATTAACAGATTGCAAAAACTGCGTCGTTTGTAGCC
* * * *
73848592 TTCTAATTAGTGGCACTTTAT-AAAAACGCCACAAA
1 TTGTTATTAGTGGCGCTTTTTAAAAAACGCCACAAA
73848627 TATTTATTAA
Statistics
Matches: 196, Mismatches: 20, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
187 42 0.21
188 82 0.42
189 33 0.17
190 27 0.14
191 12 0.06
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (190 bp):
TTGTTATTAGTGGCGCTTTTTAAAAAACGCCACAAAACATCCATAAAGAGAATGTAAAACAGCGT
CGTTTACAGCCTTGTTATTAGTGGCGTTTATATAAACGCCACAAAAGGTGTGAAATACCGGTATT
TTCACTAGAAACGCCACAAAAATATATTAACAGATTGCAAAAACTGCGTCGTTTGTAGCC
Found at i:73849793 original size:39 final size:38
Alignment explanation
Indices: 73849742--73849819 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 38
73849732 AATAACTTAA
* * *
73849742 ATGTTATAATACATGATTTATCTCAATTACATCTATAT
1 ATGTTATAATACATAATATATCTCAATTACATCCATAT
73849780 ATGTTATATATACATAATATATCTCAATTACATCCATAT
1 ATGTTATA-ATACATAATATATCTCAATTACATCCATAT
73849819 A
1 A
73849820 AATATATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 8 0.22
39 28 0.78
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (38 bp):
ATGTTATAATACATAATATATCTCAATTACATCCATAT
Found at i:73852369 original size:38 final size:39
Alignment explanation
Indices: 73852321--73852414 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
73852311 TCAATCTTAT
73852321 TTTAATTAATATAATTTGGA-TAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
73852359 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
73852398 TTAAATTAATATAATTT
1 TTTAATTAATATAATTT
73852415 TTATAAATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 20 0.37
39 34 0.63
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:73852422 original size:29 final size:28
Alignment explanation
Indices: 73852380--73852446 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
73852370 TAATTTGGAT
*
73852380 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTT-TTTAAATATTATTAAATTAAAA
*
73852409 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTT-TAAATATTATTAAATTAAAA
*
73852438 TATTTTTTT
1 TAATTTTTT
73852447 TCCATGTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATTTTTTAAATATTATTAAATTAAAA
Found at i:73852746 original size:22 final size:22
Alignment explanation
Indices: 73852719--73852800 Score: 72
Period size: 18 Copynumber: 4.1 Consensus size: 22
73852709 ATATACTTGA
*
73852719 ACTTACATAACTAATATAACTT
1 ACTTACATAACTAACATAACTT
*
73852741 ACTTACATAACTTACATAAC-T
1 ACTTACATAACTAACATAACTT
*
73852762 -C--ACATAACTCACATAACTT
1 ACTTACATAACTAACATAACTT
*
73852781 A-TT---TAACTTACATAACTT
1 ACTTACATAACTAACATAACTT
73852799 AC
1 AC
73852801 ATAACTCACA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
18 30 0.59
19 1 0.02
20 1 0.02
21 1 0.02
22 18 0.35
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (22 bp):
ACTTACATAACTAACATAACTT
Found at i:73852753 original size:9 final size:9
Alignment explanation
Indices: 73852741--73852887 Score: 165
Period size: 9 Copynumber: 16.6 Consensus size: 9
73852731 AATATAACTT
73852741 ACTTACATA
1 ACTTACATA
73852750 ACTTACATA
1 ACTTACATA
*
73852759 ACTCACATA
1 ACTTACATA
*
73852768 ACTCACATA
1 ACTTACATA
**
73852777 ACTTATTTA
1 ACTTACATA
73852786 ACTTACATA
1 ACTTACATA
73852795 ACTTACATA
1 ACTTACATA
*
73852804 ACTCACATA
1 ACTTACATA
*
73852813 ACTTACAGA
1 ACTTACATA
73852822 ACTTACATA
1 ACTTACATA
*
73852831 ATTTACATA
1 ACTTACATA
73852840 ACTTACATA
1 ACTTACATA
73852849 A--TACATA
1 ACTTACATA
* *
73852856 A-ATATATA
1 ACTTACATA
* *
73852864 TCATATCATA
1 ACTTA-CATA
73852874 ACTTACATA
1 ACTTACATA
73852883 ACTTA
1 ACTTA
73852888 ATTAGAGTTA
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
7 7 0.06
8 5 0.04
9 100 0.85
10 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:73852787 original size:27 final size:27
Alignment explanation
Indices: 73852718--73852856 Score: 120
Period size: 27 Copynumber: 5.1 Consensus size: 27
73852708 TATATACTTG
* *
73852718 AACTTACATAACTAATATAACTTACTTACAT
1 AACTTACATAACTCACATAAC-T-C--ACAT
73852749 AACTTACATAACTCACATAACTCACAT
1 AACTTACATAACTCACATAACTCACAT
** * *
73852776 AACTTATTTAACTTACATAACTTACAT
1 AACTTACATAACTCACATAACTCACAT
* * * *
73852803 AACTCACATAACTTACAGAACTTACAT
1 AACTTACATAACTCACATAACTCACAT
* *
73852830 AATTTACATAACTTACATAA-T-ACAT
1 AACTTACATAACTCACATAACTCACAT
73852855 AA
1 AA
73852857 ATATATATCA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
25 6 0.06
26 1 0.01
27 67 0.71
29 1 0.01
30 1 0.01
31 19 0.20
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (27 bp):
AACTTACATAACTCACATAACTCACAT
Found at i:73857962 original size:13 final size:14
Alignment explanation
Indices: 73857946--73857974 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
73857936 TTACAAATAT
73857946 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
73857959 TTATAATGGTTTAA
1 TTATAATGGTTTAA
73857973 TT
1 TT
73857975 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:73864748 original size:31 final size:30
Alignment explanation
Indices: 73864713--73864791 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
73864703 TCAAAAGTAA
*
73864713 AAAAGTATAGGGACTAAAATTAACCAAATT
1 AAAAGTATAAGGACTAAAATTAACCAAATT
* * * *
73864743 GAAAAGTACAAAGACTAAAATTTATCAAATT
1 -AAAAGTATAAGGACTAAAATTAACCAAATT
*
73864774 AAAAGTATAAGGATTAAA
1 AAAAGTATAAGGACTAAA
73864792 TCCATAACTT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.24
Consensus pattern (30 bp):
AAAAGTATAAGGACTAAAATTAACCAAATT
Found at i:73870043 original size:94 final size:94
Alignment explanation
Indices: 73869882--73870065 Score: 368
Period size: 94 Copynumber: 2.0 Consensus size: 94
73869872 ATGCACCATA
73869882 TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
1 TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
73869947 TAAAATGATATTCCTAAACATCATATATG
66 TAAAATGATATTCCTAAACATCATATATG
73869976 TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
1 TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
73870041 TAAAATGATATTCCTAAACATCATA
66 TAAAATGATATTCCTAAACATCATA
73870066 AAAAAGTCTA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (94 bp):
TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
TAAAATGATATTCCTAAACATCATATATG
Found at i:73872035 original size:15 final size:15
Alignment explanation
Indices: 73871993--73872112 Score: 63
Period size: 15 Copynumber: 8.0 Consensus size: 15
73871983 TGAATTTATC
73871993 AAATTTATATTGATT
1 AAATTTATATTGATT
* *
73872008 GAAA-TCATTTTGATT
1 -AAATTTATATTGATT
73872023 AAATTTATATTGATT
1 AAATTTATATTGATT
*
73872038 AAA-ATATA-T-ATT
1 AAATTTATATTGATT
* * *
73872050 ATATATATGATTTATGT
1 AAATTTAT-ATTGAT-T
*
73872067 AAATTTGAATATTGAAT
1 AAATTT--ATATTGATT
*
73872084 GAATGTTATATTGA--
1 AAAT-TTATATTGATT
*
73872098 AAAATTATATTGATT
1 AAATTTATATTGATT
73872113 GGAATATGAG
Statistics
Matches: 80, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
12 5 0.06
13 14 0.17
14 10 0.12
15 22 0.28
16 12 0.15
17 9 0.11
18 6 0.08
19 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (15 bp):
AAATTTATATTGATT
Found at i:73872660 original size:19 final size:18
Alignment explanation
Indices: 73872622--73872661 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
73872612 ATGAAATGAT
73872622 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
73872640 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
73872659 AAA
1 AAA
73872662 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:73873604 original size:21 final size:23
Alignment explanation
Indices: 73873555--73873597 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
73873545 TTATTGCAAT
*
73873555 AAAATATTTAATTTTTATTTTAA
1 AAAATATTTAATTTATATTTTAA
73873578 AAAATA-TTAA-TTATATTTTA
1 AAAATATTTAATTTATATTTTA
73873598 TTAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAAATATTTAATTTATATTTTAA
Found at i:73873640 original size:21 final size:20
Alignment explanation
Indices: 73873599--73873640 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
73873589 TATATTTTAT
*
73873599 TAAATAAAAATAAATTTTAA
1 TAAATAAAAATAAATTGTAA
*
73873619 TAAATAAAATTACAATTGTAA
1 TAAATAAAAATA-AATTGTAA
73873640 T
1 T
73873641 TTTATCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAATAAAAATAAATTGTAA
Found at i:73875704 original size:40 final size:44
Alignment explanation
Indices: 73875606--73875705 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 44
73875596 AAAATGATTC
**
73875606 CGCACACTTAGTGCCATCTCAACTAGCCGAAACTAAGTTGGTAT
1 CGCACACTTAGTGCCATCTCAACTAGCCGAAACTAAGTTGAAAT
* * * *
73875650 TGCACACTTAGTGCC-T-TTAA-TAGCCGAAGCT-AGTTTAAAT
1 CGCACACTTAGTGCCATCTCAACTAGCCGAAACTAAGTTGAAAT
73875690 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
73875706 ATGCTTTCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 20 0.42
41 10 0.21
42 3 0.06
43 1 0.02
44 14 0.29
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
CGCACACTTAGTGCCATCTCAACTAGCCGAAACTAAGTTGAAAT
Found at i:73881646 original size:39 final size:39
Alignment explanation
Indices: 73881587--73881765 Score: 268
Period size: 39 Copynumber: 4.6 Consensus size: 39
73881577 ATCGTGATCT
* * * *
73881587 GAAGCCTGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* **
73881626 GAAGCCCAAAGGCTAACTGAAGCACACAAGTTTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
73881665 GAAGCCCGAAGGCTGACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
73881704 GAATCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
73881743 GAAGCCTGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
73881766 TCATCAGAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 125 1.00
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:73884112 original size:43 final size:43
Alignment explanation
Indices: 73883976--73884132 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
73883966 ATATAGCTCG
* * ** *
73883976 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACATAATCACAA
* * * *
73884017 TATCGATGCCACTGTCCCAGACA-GCGTCTTACACAAAATCA-AT
1 TA-CAATGCCAATGTCCCAGACATG-GTCTTACACATAATCACAA
*
73884060 TA-ATGATGCCAATGTCCCAGACATGGCCTTACACATAATCACAA
1 TACA--ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAA
*
73884104 TACAATGCCAATGTCCCAAACATGGTCTT
1 TACAATGCCAATGTCCCAGACATGGTCTT
73884133 TCATGTAATC
Statistics
Matches: 91, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 7 0.08
43 77 0.85
44 4 0.04
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.26
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACATAATCACAA
Found at i:73884142 original size:43 final size:44
Alignment explanation
Indices: 73884065--73884190 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 44
73884055 TCAATTAATG
* * * **
73884065 ATGCCAATGTCCCAGACATGGCCTTACACATAATCACAAT-ACA
1 ATGCCAATGTCCCAAACATGGTCTTTCATGTAATCACAATCACA
* *
73884108 ATGCCAATGTCCCAAACATGGTCTTTCATGTAATCAC-ATCTCG
1 ATGCCAATGTCCCAAACATGGTCTTTCATGTAATCACAATCACA
* *
73884151 GTAACCTAATGTCCCAAACATGGTCTTTCATGTAATCACA
1 AT-GCC-AATGTCCCAAACATGGTCTTTCATGTAATCACA
73884191 TCTCGGTAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.03
43 34 0.49
44 2 0.03
45 32 0.46
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (44 bp):
ATGCCAATGTCCCAAACATGGTCTTTCATGTAATCACAATCACA
Found at i:73884171 original size:45 final size:45
Alignment explanation
Indices: 73884113--73884208 Score: 192
Period size: 45 Copynumber: 2.1 Consensus size: 45
73884103 ATACAATGCC
73884113 AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
1 AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
73884158 AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
1 AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
73884203 AATGTC
1 AATGTC
73884209 ATGACATTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (45 bp):
AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
Found at i:73885075 original size:17 final size:17
Alignment explanation
Indices: 73885035--73885081 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
73885025 TTTGGCTTTG
*
73885035 TTTTAATTATTATTACA
1 TTTTAATCATTATTACA
73885052 TTATTAATCATT-TTACCA
1 TT-TTAATCATTATTA-CA
*
73885070 TTTTAACCATTA
1 TTTTAATCATTA
73885082 ATAACATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAATCATTATTACA
Found at i:73886130 original size:32 final size:33
Alignment explanation
Indices: 73886089--73886159 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
73886079 ATATTATACT
73886089 AGCCCAAACCCTTTTACCCT-ATTTCCCCT-CAA
1 AGCCCAAACCCTTTT-CCCTCATTTCCCCTCCAA
* * *
73886121 AGCCTAAACCCTTTTGCCTCATTTTCCCTCCAA
1 AGCCCAAACCCTTTTCCCTCATTTCCCCTCCAA
73886154 AGCCCA
1 AGCCCA
73886160 TCTACCCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.09
32 22 0.67
33 8 0.24
ACGTcount: A:0.24, C:0.42, G:0.06, T:0.28
Consensus pattern (33 bp):
AGCCCAAACCCTTTTCCCTCATTTCCCCTCCAA
Found at i:73886963 original size:13 final size:13
Alignment explanation
Indices: 73886945--73886990 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
73886935 AGTTTGGCAA
73886945 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
73886958 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
73886971 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
73886984 TGCTTTT
1 TGCTTTT
73886991 CAGAAGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:73887963 original size:26 final size:26
Alignment explanation
Indices: 73887934--73888015 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
73887924 TGATACAAAT
73887934 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73887960 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73887986 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
73888012 TGAT
1 TGAT
73888016 TGAAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:73893366 original size:22 final size:22
Alignment explanation
Indices: 73893327--73893368 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
73893317 TTTGAACTAA
*
73893327 TGTGTTATTATTATTAGTTTGT
1 TGTGTTATTATTACTAGTTTGT
* *
73893349 TGTGTTATTGTTGCTAGTTT
1 TGTGTTATTATTACTAGTTT
73893369 ATTGGACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.02, G:0.21, T:0.62
Consensus pattern (22 bp):
TGTGTTATTATTACTAGTTTGT
Found at i:73893507 original size:19 final size:19
Alignment explanation
Indices: 73893483--73893526 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
73893473 TATTGTTTAT
73893483 TGTTGTTTACTTGGACTCA
1 TGTTGTTTACTTGGACTCA
* *
73893502 TGTTGTTTACTTGGATTGA
1 TGTTGTTTACTTGGACTCA
73893521 TGTTGT
1 TGTTGT
73893527 GTTGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.25, T:0.52
Consensus pattern (19 bp):
TGTTGTTTACTTGGACTCA
Found at i:73895590 original size:21 final size:21
Alignment explanation
Indices: 73895564--73895616 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
73895554 CGTTCTGTAC
73895564 TCTTTCTTCTT-CTTTTCCTTT
1 TCTTTCTTCTTACTTTTCC-TT
* *
73895585 TCTTTCTTTTTATTTTTCCTT
1 TCTTTCTTCTTACTTTTCCTT
73895606 TCTTTCTTCTT
1 TCTTTCTTCTT
73895617 TTTACTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTTTCTTCTTACTTTTCCTT
Found at i:73895627 original size:21 final size:20
Alignment explanation
Indices: 73895564--73895627 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
73895554 CGTTCTGTAC
*
73895564 TCTTTC-TTCTTC-TTTTCC
1 TCTTTCTTTCTTCTTTTTCT
*
73895582 T-TTTCTTTCTT-TTTATTTT
1 TCTTTCTTTCTTCTTT-TTCT
73895601 TCCTTTCTTTCTTCTTTTTACT
1 T-CTTTCTTTCTTCTTTTT-CT
73895623 TCTTT
1 TCTTT
73895628 GATTTCTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
17 4 0.11
18 8 0.22
19 3 0.08
21 16 0.44
22 5 0.14
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (20 bp):
TCTTTCTTTCTTCTTTTTCT
Found at i:73896459 original size:23 final size:23
Alignment explanation
Indices: 73896433--73896498 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 23
73896423 GTACCCAAGT
73896433 CATGTGAGCCATACGGGCAAGGC
1 CATGTGAGCCATACGGGCAAGGC
** * *
73896456 CATG-G-GCC-TGTGTGCCTAGGC
1 CATGTGAGCCATACG-GGCAAGGC
*
73896477 CATGTGAGCCATACGGGTAAGG
1 CATGTGAGCCATACGGGCAAGG
73896499 ACACGGCCTT
Statistics
Matches: 30, Mismatches: 9, Indels: 8
0.64 0.19 0.17
Matches are distributed among these distances:
20 2 0.07
21 13 0.43
22 2 0.07
23 11 0.37
24 2 0.07
ACGTcount: A:0.21, C:0.24, G:0.36, T:0.18
Consensus pattern (23 bp):
CATGTGAGCCATACGGGCAAGGC
Found at i:73896588 original size:149 final size:148
Alignment explanation
Indices: 73896308--73896629 Score: 551
Period size: 149 Copynumber: 2.2 Consensus size: 148
73896298 ACGAGCTAGC
*
73896308 ACATGGG-C-GTGTGCCCAGGCCATGTGAGCCATATGGGTAAGGACACGGCCTTCTATCCAGGCC
1 ACATGGGCCTGTGTG-CCAGGCCATGTGAGCCATACGGGTAAGGACACGGCCTTCTATCCAGGCC
*
73896371 ATGTGACTCTCTGATTTATGCTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCAT
65 ATGTGACTCTCTGATTTATACTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCAT
*
73896436 GTGAGCCATACGGGCAAGG
130 GTGAGCCACACGGGCAAGG
*
73896455 CCATGGGCCTGTGTGCCTAGGCCATGTGAGCCATACGGGTAAGGACACGGCCTTCTATCCAGGCC
1 ACATGGGCCTGTGTGCC-AGGCCATGTGAGCCATACGGGTAAGGACACGGCCTTCTATCCAGGCC
*
73896520 ATGTGACTCTCTGATTTATACTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCGT
65 ATGTGACTCTCTGATTTATACTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCAT
73896585 GTGAGCCACACGGGCAAGG
130 GTGAGCCACACGGGCAAGG
*
73896604 AAATGGGCCTGTGT-CCAGGCCATGTG
1 ACATGGGCCTGTGTGCCAGGCCATGTG
73896630 GCGTATATAA
Statistics
Matches: 165, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
147 16 0.10
148 5 0.03
149 144 0.87
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (148 bp):
ACATGGGCCTGTGTGCCAGGCCATGTGAGCCATACGGGTAAGGACACGGCCTTCTATCCAGGCCA
TGTGACTCTCTGATTTATACTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCATG
TGAGCCACACGGGCAAGG
Found at i:73899522 original size:21 final size:20
Alignment explanation
Indices: 73899498--73899536 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
73899488 TGAATTGATT
73899498 AAATGTGTGATTAAATTAGTG
1 AAATGTGT-ATTAAATTAGTG
* *
73899519 AAATTTGTATTAATTTAG
1 AAATGTGTATTAAATTAG
73899537 ATTAAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AAATGTGTATTAAATTAGTG
Found at i:73899905 original size:43 final size:41
Alignment explanation
Indices: 73899807--73899909 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 41
73899797 TATCGAGATG
* * *
73899807 TGATTACATGTAAGACAATGTCTGGGACATTGGAATTGTAT
1 TGATTACATGTAAGACCATGTCTAGGACATTGGAATTGAAT
*
73899848 TGAGATTACGTGTAAGACCATGTCTAGGACATTGGCATCATT-AAT
1 T--GATTACATGTAAGACCATGTCTAGGACATTGG-A--ATTGAAT
*
73899893 TGATTTCATGTAAGACC
1 TGATTACATGTAAGACC
73899910 TTATCTGGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
43 43 0.84
44 1 0.02
45 3 0.06
46 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (41 bp):
TGATTACATGTAAGACCATGTCTAGGACATTGGAATTGAAT
Found at i:73903781 original size:43 final size:44
Alignment explanation
Indices: 73903732--73903851 Score: 143
Period size: 51 Copynumber: 2.6 Consensus size: 44
73903722 CCTGAGCATA
*
73903732 TTGAGTGGTCCGAGTTCATTATGGATACA-AGCATCCGAGCTCG
1 TTGAGTGGTCCGAGTTCATTATGGATACACAACATCCGAGCTCG
73903775 TTGAGTGGTCCGAGTTCATAATGGATGTGATACACGTAACATCCGAGCTCG
1 TTGAGTGGTCCGAGTTCAT--T--ATG-GATACAC--AACATCCGAGCTCG
* *
73903826 TTGAGAGGTCCGAATTCATTATGGAT
1 TTGAGTGGTCCGAGTTCATTATGGAT
73903852 GTGTTACATG
Statistics
Matches: 66, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
43 19 0.29
45 1 0.02
46 3 0.05
47 6 0.09
48 6 0.09
49 1 0.02
51 30 0.45
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (44 bp):
TTGAGTGGTCCGAGTTCATTATGGATACACAACATCCGAGCTCG
Found at i:73903828 original size:51 final size:51
Alignment explanation
Indices: 73903763--73903859 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
73903753 TGGATACAAG
* *
73903763 CATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGTGATACACGTAA
1 CATCCGAGCTCGTTGAGAGGTCCGAATTCATAATGGATGTGATACACGTAA
* *
73903814 CATCCGAGCTCGTTGAGAGGTCCGAATTCATTATGGATGTGTTACA
1 CATCCGAGCTCGTTGAGAGGTCCGAATTCATAATGGATGTGATACA
73903860 TGTTATAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCCGAATTCATAATGGATGTGATACACGTAA
Found at i:73904193 original size:22 final size:22
Alignment explanation
Indices: 73904168--73904220 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
73904158 TGGTGATTAT
*
73904168 GTTATTATGCCATCATATGATA
1 GTTATCATGCCATCATATGATA
73904190 GTTATCATGCCATCATATGATA
1 GTTATCATGCCATCATATGATA
73904212 GTTATCATG
1 GTTATCATG
73904221 ATATTGCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (22 bp):
GTTATCATGCCATCATATGATA
Found at i:73913238 original size:20 final size:21
Alignment explanation
Indices: 73913213--73913252 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
73913203 ATTTAATATT
*
73913213 AATAATATTTTTAAT-TTTTA
1 AATAATATTCTTAATATTTTA
73913233 AATAATATTCTTAATATTTT
1 AATAATATTCTTAATATTTT
73913253 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
AATAATATTCTTAATATTTTA
Found at i:73921483 original size:16 final size:16
Alignment explanation
Indices: 73921462--73921495 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73921452 TTCTTAAAAT
*
73921462 ATTAAAGAAATTTAAA
1 ATTAAAGAAATTCAAA
*
73921478 ATTAAAGTAATTCAAA
1 ATTAAAGAAATTCAAA
73921494 AT
1 AT
73921496 GCATCATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
ATTAAAGAAATTCAAA
Found at i:73926670 original size:3 final size:3
Alignment explanation
Indices: 73926662--73926723 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
73926652 AATAAATAGG
* * * *
73926662 TAA TAA TAA CAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
73926710 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
73926724 GGACTAATTC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:73927790 original size:15 final size:16
Alignment explanation
Indices: 73927764--73927793 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
73927754 TAGTGTTTAG
73927764 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
73927780 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
73927794 CTTTTGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:73931990 original size:3 final size:3
Alignment explanation
Indices: 73931982--73932006 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
73931972 ACATCTATCA
73931982 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
73932007 TTTTAATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:73934268 original size:37 final size:37
Alignment explanation
Indices: 73934195--73934268 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
73934185 TACTCCGATT
**
73934195 TGCTCAATCACCCCAACCTATTTGGTTGGCTCCCATC
1 TGCTCAATCACCCCAACCTATTTGGTTGGCGACCATC
73934232 TGCTCAATCACCCCAACCTATTTGGTTGGCGACCATC
1 TGCTCAATCACCCCAACCTATTTGGTTGGCGACCATC
73934269 AAGCTCTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.20, C:0.36, G:0.15, T:0.28
Consensus pattern (37 bp):
TGCTCAATCACCCCAACCTATTTGGTTGGCGACCATC
Found at i:73940903 original size:29 final size:28
Alignment explanation
Indices: 73940860--73940914 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
73940850 TTGAAATTTA
*
73940860 AAAAGTAAATAGACTAAGTTCCTAAAAAT
1 AAAAGTAAATAGACTAAATT-CTAAAAAT
* *
73940889 AAAAGTACATGGACTAAATTCTAAAA
1 AAAAGTAAATAGACTAAATTCTAAAA
73940915 TTTGTAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (28 bp):
AAAAGTAAATAGACTAAATTCTAAAAAT
Found at i:73947534 original size:25 final size:23
Alignment explanation
Indices: 73947506--73947569 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
73947496 TATTTTGAAG
*
73947506 TTTTTTATATTATATTATTTTAACA
1 TTTTTTATA-TATATTAGTTTAA-A
* *
73947531 TTTTGTATA-ATATTTCGTTTAAA
1 TTTTTTATATATA-TTAGTTTAAA
73947554 TGTTTTTATATATATT
1 T-TTTTTATATATATT
73947570 TGTACATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
23 5 0.16
24 16 0.50
25 11 0.34
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (23 bp):
TTTTTTATATATATTAGTTTAAA
Found at i:73947551 original size:24 final size:25
Alignment explanation
Indices: 73947524--73947570 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
73947514 ATTATATTAT
73947524 TTTAACAT-TTTGTATA-ATATTTCG
1 TTTAA-ATGTTTGTATATATATTTCG
*
73947548 TTTAAATGTTTTTATATATATTT
1 TTTAAATGTTTGTATATATATTT
73947571 GTACATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTAAATGTTTGTATATATATTTCG
Found at i:73947570 original size:25 final size:23
Alignment explanation
Indices: 73947506--73947570 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
73947496 TATTTTGAAG
73947506 TTTTTTATATTATATTATTTTAACA
1 TTTTTTATA-TATATT-TTTTAACA
*
73947531 TTTTGTATA-ATATTTCGTTTAA-A
1 TTTTTTATATATATTT--TTTAACA
73947554 TGTTTTTATATATATTT
1 T-TTTTTATATATATTT
73947571 GTACATATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 1 0.03
23 7 0.21
24 12 0.35
25 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (23 bp):
TTTTTTATATATATTTTTTAACA
Found at i:73950642 original size:44 final size:44
Alignment explanation
Indices: 73950601--73950758 Score: 173
Period size: 43 Copynumber: 3.6 Consensus size: 44
73950591 GCGTTTGTTT
* *
73950601 GGGAAAGCGCAGCTAAAGGTCATGTTCTTTAGTGGCT-TTTGTGG
1 GGGAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCTGTTTGT-G
* *
73950645 GGGAAAATGCCGCTAAAGGTCATGTTCTTTAGCGG-TGTTTGT-
1 GGGAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCTGTTTGTG
* * * *
73950687 GAGAAAAGCACCGCTAAAAGTCATGTTCTATAGT--CATGTTTGTG
1 GGGAAAA-CGCCGCTAAAGGTCATGTTCTTTAGTGGC-TGTTTGTG
*
73950731 GGGAAAACGCGGCTAAAGGTCATGTTCT
1 GGGAAAACGCCGCTAAAGGTCATGTTCT
73950759 ATAACGGTGT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 6 0.06
43 47 0.49
44 42 0.44
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (44 bp):
GGGAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCTGTTTGTG
Found at i:73950767 original size:86 final size:86
Alignment explanation
Indices: 73950612--73950770 Score: 223
Period size: 86 Copynumber: 1.8 Consensus size: 86
73950602 GGAAAGCGCA
* * * * *
73950612 GCTAAAGGTCATGTTCTTTAGTGGCTTTTGTGGGGGAAAATGCCGCTAAAGGTCATGTTCTTTAG
1 GCTAAAAGTCATGTTCTATAGT-GCTTTTGTGGGGGAAAACGCCGCTAAAGGTCATGTTCTATAA
73950677 CGGTGTTTGTGAGAAAAGCACC
65 CGGTGTTTGTGAGAAAAGCACC
*
73950699 GCTAAAAGTCATGTTCTATAGT-CATGTTTGT-GGGGAAAACGCGGCTAAAGGTCATGTTCTATA
1 GCTAAAAGTCATGTTCTATAGTGC-T-TTTGTGGGGGAAAACGCCGCTAAAGGTCATGTTCTATA
73950762 ACGGTGTTT
64 ACGGTGTTT
73950771 TTTAAGAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 1 0.02
86 38 0.59
87 25 0.39
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (86 bp):
GCTAAAAGTCATGTTCTATAGTGCTTTTGTGGGGGAAAACGCCGCTAAAGGTCATGTTCTATAAC
GGTGTTTGTGAGAAAAGCACC
Found at i:73955956 original size:27 final size:27
Alignment explanation
Indices: 73955919--73956031 Score: 124
Period size: 27 Copynumber: 4.2 Consensus size: 27
73955909 AGCATGGCTG
* *
73955919 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
73955945 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
* *
73955973 CCA-AAACAGATATATGTGGCAAAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
73956000 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
73956027 CCAGA
1 CCAGA
73956032 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.07
27 55 0.72
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:73956010 original size:54 final size:54
Alignment explanation
Indices: 73955923--73956029 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
73955913 TGGCTGCCAG
* *
73955923 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAA
1 AACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAA
* * * *
73955977 AACAGATATATGTGGCAAAGCCACCAGAT-CAGATATTTGTGGCATAGCCACCA
1 AACAGATA-ATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCACCA
73956030 GAACGCTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.18
Consensus pattern (54 bp):
AACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAA
Found at i:73956198 original size:28 final size:26
Alignment explanation
Indices: 73956135--73956209 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
73956125 AAAATTAACC
** *
73956135 CTAGGGGTATAACGGTAATTTTGCAT
1 CTAGGGGTATAATAGTAATTTTCCAT
73956161 CTAGGGGTATAATAGTAATTTTCCAT
1 CTAGGGGTATAATAGTAATTTTCCAT
*
73956187 ACATAGGGGTATTATAGTAATTT
1 -C-TAGGGGTATAATAGTAATTT
73956210 AGATACTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.53
27 1 0.02
28 19 0.44
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (26 bp):
CTAGGGGTATAATAGTAATTTTCCAT
Found at i:73957679 original size:26 final size:26
Alignment explanation
Indices: 73957643--73957726 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
73957633 CATGAAATTC
*
73957643 TTATCACGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
73957669 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
73957695 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
73957721 TTATCA
1 TTATCA
73957727 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:73961401 original size:31 final size:32
Alignment explanation
Indices: 73961366--73961432 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
73961356 AATCTTAAAC
*
73961366 CTTAAACCAC-ATAAC-CTGTAAACCTCTAACT
1 CTTAAACCACTATAACTC-GTAAACCCCTAACT
*
73961397 CTT-AACCCCTATAACTCGTAAACCCCTAACT
1 CTTAAACCACTATAACTCGTAAACCCCTAACT
73961428 CTTAA
1 CTTAA
73961433 CCCCTAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 5 0.16
31 24 0.77
32 2 0.06
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.27
Consensus pattern (32 bp):
CTTAAACCACTATAACTCGTAAACCCCTAACT
Found at i:73961433 original size:31 final size:30
Alignment explanation
Indices: 73961383--73961442 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
73961373 CACATAACCT
*
73961383 GTAAACCTCTAACTCTTAACCCCTATAACTC
1 GTAAACCCCTAACTCTTAACCCCTA-AACTC
73961414 GTAAACCCCTAACTCTTAACCCCTAAACT
1 GTAAACCCCTAACTCTTAACCCCTAAACT
73961443 TTAAGCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.33, C:0.37, G:0.03, T:0.27
Consensus pattern (30 bp):
GTAAACCCCTAACTCTTAACCCCTAAACTC
Found at i:73961436 original size:14 final size:14
Alignment explanation
Indices: 73961386--73961439 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
73961376 ATAACCTGTA
*
73961386 AACCTCTAACTCTT
1 AACCCCTAACTCTT
*
73961400 AACCCCTATAACTCGTA
1 AACCCC--TAACTC-TT
73961417 AACCCCTAACTCTT
1 AACCCCTAACTCTT
73961431 AACCCCTAA
1 AACCCCTAA
73961440 ACTTTAAGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 15 0.44
15 6 0.18
16 6 0.18
17 7 0.21
ACGTcount: A:0.33, C:0.39, G:0.02, T:0.26
Consensus pattern (14 bp):
AACCCCTAACTCTT
Found at i:73961442 original size:15 final size:15
Alignment explanation
Indices: 73961393--73961446 Score: 67
Period size: 14 Copynumber: 3.6 Consensus size: 15
73961383 GTAAACCTCT
73961393 AACTCTTAACCCCTA
1 AACTCTTAACCCCTA
*
73961408 TAACTCGTAAACCCCT-
1 -AACTC-TTAACCCCTA
73961424 AACTCTTAACCCCTA
1 AACTCTTAACCCCTA
73961439 AACT-TTAA
1 AACTCTTAA
73961447 GCCATAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 12 0.35
15 9 0.26
16 5 0.15
17 8 0.24
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.28
Consensus pattern (15 bp):
AACTCTTAACCCCTA
Found at i:73961830 original size:14 final size:14
Alignment explanation
Indices: 73961779--73961835 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
73961769 TACCCATGGC
73961779 CATTAAACCTTAAA
1 CATTAAACCTTAAA
* *
73961793 CCATAAAACCCTAAA
1 -CATTAAACCTTAAA
*
73961808 CA-TAGACCTTAAA
1 CATTAAACCTTAAA
*
73961821 TATTAAACCTTAAA
1 CATTAAACCTTAAA
73961835 C
1 C
73961836 CCCAAAATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.27
14 12 0.36
15 12 0.36
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.25
Consensus pattern (14 bp):
CATTAAACCTTAAA
Found at i:73961989 original size:36 final size:36
Alignment explanation
Indices: 73961949--73962021 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
73961939 TGTTTTTTGG
* *
73961949 GGTTTAAGGTTTTAGGGGTTATAGTTTAGTGTTTAT
1 GGTTTAAGGGTTTAGGGGTTATAGATTAGTGTTTAT
*
73961985 GGTTTTAGGGTTTAGGGGTTATAGATTAGTGTTTAT
1 GGTTTAAGGGTTTAGGGGTTATAGATTAGTGTTTAT
73962021 G
1 G
73962022 ATTTTTTGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (36 bp):
GGTTTAAGGGTTTAGGGGTTATAGATTAGTGTTTAT
Found at i:73961997 original size:15 final size:15
Alignment explanation
Indices: 73961943--73961998 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
73961933 ATATGATGTT
* *
73961943 TTTTGGGGTTTAAGG
1 TTTTAGGGTTTATGG
* *
73961958 TTTTAGGGGTTATAG
1 TTTTAGGGTTTATGG
*
73961973 -TTTAGTGTTTATGG
1 TTTTAGGGTTTATGG
73961987 TTTTAGGGTTTA
1 TTTTAGGGTTTA
73961999 GGGGTTATAG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (15 bp):
TTTTAGGGTTTATGG
Found at i:73962153 original size:40 final size:40
Alignment explanation
Indices: 73962066--73962154 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
73962056 GACTTTTAGC
*
73962066 GGCGTTTTGACCATAAACGCCGCTATTGCTCTGGTTTTTA
1 GGCGTTTTGACCAAAAACGCCGCTATTGCTCTGGTTTTTA
* * *
73962106 GCCCGTTTT-CCCAAAAATGCCGCTATTGCTCT-GTTTTTA
1 G-GCGTTTTGACCAAAAACGCCGCTATTGCTCTGGTTTTTA
73962145 CTGGCGTTTT
1 --GGCGTTTT
73962155 TTCTAAAACG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
39 7 0.17
40 27 0.66
41 7 0.17
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (40 bp):
GGCGTTTTGACCAAAAACGCCGCTATTGCTCTGGTTTTTA
Found at i:73962639 original size:3 final size:3
Alignment explanation
Indices: 73962631--73962657 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
73962621 GTTGAAAATG
73962631 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
73962658 TTGAATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:73967131 original size:24 final size:23
Alignment explanation
Indices: 73967095--73967167 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
73967085 TTTGTATACA
* *
73967095 ATATTTATCTTAAACTTTTACCT-T
1 ATATATATTTTAAACTTTTA--TAT
73967119 ATATATATTTTAAA--TTTATAT
1 ATATATATTTTAAACTTTTATAT
*
73967140 ATATTATATTTTAAACTATTATAT
1 ATA-TATATTTTAAACTTTTATAT
73967164 ATAT
1 ATAT
73967168 GTTGTCTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 4 0.10
22 15 0.36
23 1 0.02
24 21 0.50
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATATTTTAAACTTTTATAT
Found at i:73967147 original size:22 final size:24
Alignment explanation
Indices: 73967118--73967167 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
73967108 ACTTTTACCT
73967118 TATA-TATATTTTAAA-T-TTATA
1 TATATTATATTTTAAACTATTATA
73967139 TATATTATATTTTAAACTATTATA
1 TATATTATATTTTAAACTATTATA
73967163 TATAT
1 TATAT
73967168 GTTGTCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.15
22 11 0.42
23 1 0.04
24 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TATATTATATTTTAAACTATTATA
Found at i:73967461 original size:26 final size:24
Alignment explanation
Indices: 73967378--73967487 Score: 70
Period size: 24 Copynumber: 4.6 Consensus size: 24
73967368 TTTCTATCTC
* *
73967378 ATTTTAAATTGCTTTATAAATTATTT
1 ATTTTAAATTG-TTT-TATACTATTT
* * *
73967404 ATTTT-AGTTGTTCTAT-GTA-TT
1 ATTTTAAATTGTTTTATACTATTT
73967425 ATTTT--ATTGTTTTATAC-ATTGAT
1 ATTTTAAATTGTTTTATACTATT--T
* *
73967448 GATTTTAAATTGTTCTCTACTATTT
1 -ATTTTAAATTGTTTTATACTATTT
73967473 ATTTTAAATTGTTTT
1 ATTTTAAATTGTTTT
73967488 TTGTAGTATC
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
20 9 0.14
21 8 0.12
22 2 0.03
23 3 0.05
24 21 0.32
25 5 0.08
26 15 0.23
27 3 0.05
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.60
Consensus pattern (24 bp):
ATTTTAAATTGTTTTATACTATTT
Found at i:73967633 original size:26 final size:26
Alignment explanation
Indices: 73967578--73967654 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
73967568 ACTATCTTAT
* * * * *
73967578 ATTATTGATTTAAATTTGCTTTGTAT
1 ATTATTCATTTTAATTTGTTTTATAC
**
73967604 ATTATTTGTTTTAGA-TTGTTTTATAC
1 ATTATTCATTTTA-ATTTGTTTTATAC
73967630 ATTATTCATTTTAATTTGTTTTATA
1 ATTATTCATTTTAATTTGTTTTATA
73967655 TTAGTTACTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 39 0.95
27 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (26 bp):
ATTATTCATTTTAATTTGTTTTATAC
Found at i:73975297 original size:21 final size:21
Alignment explanation
Indices: 73975242--73975298 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
73975232 TTTAGGGATT
* *
73975242 CCACATGGGCGTGTGTTTTGG
1 CCACACGGGCGTGTGTTGTGG
*
73975263 ACACAC-GGC-TGTGTTTGGTGG
1 CCACACGGGCGTGTG-TT-GTGG
73975284 CCACACGGGCGTGTG
1 CCACACGGGCGTGTG
73975299 AGACTTTCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 4 0.14
20 5 0.18
21 12 0.43
22 3 0.11
23 4 0.14
ACGTcount: A:0.12, C:0.23, G:0.39, T:0.26
Consensus pattern (21 bp):
CCACACGGGCGTGTGTTGTGG
Found at i:73990052 original size:3 final size:3
Alignment explanation
Indices: 73990044--73990068 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
73990034 TAACTGCTAT
73990044 CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC C
73990069 GCAACCGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:73993629 original size:3 final size:3
Alignment explanation
Indices: 73993621--73993681 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
73993611 TAACAGTGTA
* * * * * * *
73993621 AAT AAT AAT AAT AAT AAC AAT GAT GAC GAT ATT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
73993669 -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
73993682 ACTAGGGTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:73994998 original size:13 final size:14
Alignment explanation
Indices: 73994975--73995010 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
73994965 TTAATTTGGG
73994975 TTTGATTTTATTA-T
1 TTTG-TTTTATTATT
73994989 TTTGTTTTATTATT
1 TTTGTTTTATTATT
73995003 TTTGTTTT
1 TTTGTTTT
73995011 GGTATGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (14 bp):
TTTGTTTTATTATT
Found at i:74001285 original size:15 final size:16
Alignment explanation
Indices: 74001260--74001292 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
74001250 ATTTAAGTTT
74001260 AAATAAAATTCGAGTC
1 AAATAAAATTCGAGTC
74001276 AAAT-AAATTCGAGTC
1 AAATAAAATTCGAGTC
74001291 AA
1 AA
74001293 GTCGAATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (16 bp):
AAATAAAATTCGAGTC
Found at i:74002562 original size:4 final size:4
Alignment explanation
Indices: 74002553--74002587 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
74002543 GAGCAAACGT
74002553 GAAA GAAA G-AA GAAA GAAA GAAA GAAA GAAA -AAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
74002588 GGAAATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:74003811 original size:12 final size:12
Alignment explanation
Indices: 74003794--74003827 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
74003784 GGCCCAGCCG
74003794 TATTATTTTTTA
1 TATTATTTTTTA
74003806 TATTATTTTTTA
1 TATTATTTTTTA
*
74003818 TATAATTTTT
1 TATTATTTTT
74003828 AAAAAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:74004068 original size:22 final size:22
Alignment explanation
Indices: 74004011--74004070 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
74004001 ATATACAAAT
* *
74004011 AATAACAACAAAATAGTAGCAA
1 AATAGCAAAAAAATAGTAGCAA
* ** *
74004033 CATAGCAATGAAATGGTAGCAA
1 AATAGCAAAAAAATAGTAGCAA
*
74004055 AATAGTAAAAAAATAG
1 AATAGCAAAAAAATAG
74004071 CAAAAAACGT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (22 bp):
AATAGCAAAAAAATAGTAGCAA
Found at i:74016089 original size:21 final size:21
Alignment explanation
Indices: 74016065--74016110 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
74016055 AAAATATGTA
74016065 TATTTG-TAATTATATTATAAT
1 TATTTGAT-ATTATATTATAAT
* *
74016086 TATTTGATTTTATTTTATAAT
1 TATTTGATATTATATTATAAT
74016107 TATT
1 TATT
74016111 CAAAAACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TATTTGATATTATATTATAAT
Found at i:74016144 original size:58 final size:58
Alignment explanation
Indices: 74016021--74016146 Score: 225
Period size: 58 Copynumber: 2.2 Consensus size: 58
74016011 TAATTGTGTG
* *
74016021 TTATAATAATTTGATTTTATTTTATAATTATTCAAAAATATGTATATTTGTAATTATA
1 TTATAATTATTTGATTTTATTTTATAATTATTCAAAAACATGTATATTTGTAATTATA
*
74016079 TTATAATTATTTGATTTTATTTTATAATTATTCAAAAACATGTATATTTGTAATTGTA
1 TTATAATTATTTGATTTTATTTTATAATTATTCAAAAACATGTATATTTGTAATTATA
74016137 TTATAATTAT
1 TTATAATTAT
74016147 ATTAAAAACG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 65 1.00
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (58 bp):
TTATAATTATTTGATTTTATTTTATAATTATTCAAAAACATGTATATTTGTAATTATA
Found at i:74026225 original size:18 final size:19
Alignment explanation
Indices: 74026182--74026245 Score: 76
Period size: 18 Copynumber: 3.3 Consensus size: 19
74026172 TTTTTTTATG
74026182 TATATTATGTCTATATTTTAA
1 TATATTATG--TATATTTTAA
74026203 TATATTATGTATATTTT-A
1 TATATTATGTATATTTTAA
* *
74026221 TATATTGTGTATATATTACA
1 TATATTATGTATATTTTA-A
74026241 TATAT
1 TATAT
74026246 ACTTTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 16 0.41
19 8 0.21
20 6 0.15
21 9 0.23
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (19 bp):
TATATTATGTATATTTTAA
Found at i:74026274 original size:23 final size:23
Alignment explanation
Indices: 74026233--74026295 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
74026223 TATTGTGTAT
*
74026233 ATATTA-CATATA--TACTTTTA
1 ATATTATCATATATTTATTTTTA
74026253 ATATTATCATATATTTATTTTTA
1 ATATTATCATATATTTATTTTTA
*
74026276 ATATATATGTATATATTTAT
1 ATAT-TAT-CATATATTTAT
74026296 GAAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 6 0.17
21 6 0.17
23 11 0.31
24 3 0.08
25 10 0.28
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATTATCATATATTTATTTTTA
Found at i:74026390 original size:44 final size:45
Alignment explanation
Indices: 74026342--74026427 Score: 147
Period size: 44 Copynumber: 1.9 Consensus size: 45
74026332 TCATTATTAT
*
74026342 TGTATTATTACTATTATTATTA-TACCTTTTATTATTATTACTAC
1 TGTATTATTACTATTATTATTATTACATTTTATTATTATTACTAC
*
74026386 TGTATTATTACTATTATTATTATTACATTTTCTTATTATTAC
1 TGTATTATTACTATTATTATTATTACATTTTATTATTATTAC
74026428 ATTTTCTTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 22 0.56
45 17 0.44
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.58
Consensus pattern (45 bp):
TGTATTATTACTATTATTATTATTACATTTTATTATTATTACTAC
Found at i:74026423 original size:16 final size:16
Alignment explanation
Indices: 74026388--74026435 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
74026378 ATTACTACTG
* *
74026388 TATTATTAC-TATTAT
1 TATTATTACATTTTCT
74026403 TATTATTACATTTTCT
1 TATTATTACATTTTCT
74026419 TATTATTACATTTTCT
1 TATTATTACATTTTCT
74026435 T
1 T
74026436 CCTTTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTACATTTTCT
Found at i:74026426 original size:3 final size:3
Alignment explanation
Indices: 74026329--74026410 Score: 62
Period size: 3 Copynumber: 27.0 Consensus size: 3
74026319 TTTTACAATG
* * *
74026329 TTA TCA TTA TTA TT- GTA TTA TTA CTA TTA TTA TTA -TA CCTT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA
* *
74026373 TTA TTA TTA CTA CTGTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA
74026411 CATTTTCTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
2 5 0.08
3 53 0.85
4 1 0.02
5 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Done.