Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 37 of 172
Found at i:11525348 original size:17 final size:18
Alignment explanation
Indices: 11525317--11525364 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
11525307 AATACTTATC
*
11525317 TTTTTAATTTCTTAT-ATTT
1 TTTTT-ATTT-TTATAATTA
*
11525336 TTTTTCTTTTTATAATTA
1 TTTTTATTTTTATAATTA
11525354 TTTTTATTTTT
1 TTTTTATTTTT
11525365 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 16 0.64
19 5 0.20
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTTATAATTA
Found at i:11525357 original size:20 final size:20
Alignment explanation
Indices: 11525331--11525372 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11525321 TAATTTCTTA
* *
11525331 TATTTTTTTTCTTTTTATAAT
1 TATTTTTATT-TTTTTAAAAT
11525352 TATTTTTATTTTTTTAAAAT
1 TATTTTTATTTTTTTAAAAT
11525372 T
1 T
11525373 TAAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTTTATTTTTTTAAAAT
Found at i:11537501 original size:22 final size:21
Alignment explanation
Indices: 11537476--11537517 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
11537466 CTTTCTCCTC
*
11537476 TTTTTTCTT-TTCCTTTTAAT
1 TTTTTTCTTCTTTCTTTTAAT
11537496 TTTTTTCCTTCTTTCTTTTAAT
1 TTTTTT-CTTCTTTCTTTTAAT
11537518 AACTGTCGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTTCTTCTTTCTTTTAAT
Found at i:11543793 original size:11 final size:11
Alignment explanation
Indices: 11543779--11543823 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
11543769 AGATAAATAT
11543779 TATTTTATTAA
1 TATTTTATTAA
*
11543790 TATTTTAATAATA
1 TATTTT-ATTA-A
*
11543803 TATTTTATTAT
1 TATTTTATTAA
11543814 TATTTTATTA
1 TATTTTATTA
11543824 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:11543806 original size:24 final size:24
Alignment explanation
Indices: 11543774--11543829 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
11543764 TAATTAGATA
11543774 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
11543799 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
11543823 AGTATAT
1 AATATAT
11543830 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:11547634 original size:16 final size:16
Alignment explanation
Indices: 11547613--11547643 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11547603 TCCTACTATG
11547613 TTTAGCTTCATTACAA
1 TTTAGCTTCATTACAA
*
11547629 TTTAGCTTCTTTACA
1 TTTAGCTTCATTACA
11547644 GTTAATCTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTAGCTTCATTACAA
Found at i:11550049 original size:30 final size:30
Alignment explanation
Indices: 11550013--11550097 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
11550003 GGATGGAAAG
*
11550013 GGAGTAAAAGTTTTGGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTGAGGGGAAAGTGGGAA
11550043 GGAGTAAAAGTTTTGAGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTGAGGGGAAAGTGGGAA
*
11550073 GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGAGTAAAAGTTTTGAGGGGAAAGT
11550098 AAAAAGGTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.36, C:0.00, G:0.42, T:0.21
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGGAAAGTGGGAA
Found at i:11550178 original size:9 final size:9
Alignment explanation
Indices: 11550146--11550179 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
11550136 TATAGTTTGA
*
11550146 TATTCGAAT
1 TATTCGAGT
*
11550155 TATTCAAGT
1 TATTCGAGT
11550164 TATTCGAGT
1 TATTCGAGT
11550173 TATTCGA
1 TATTCGA
11550180 ATTCGAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (9 bp):
TATTCGAGT
Found at i:11550546 original size:15 final size:16
Alignment explanation
Indices: 11550519--11550548 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11550509 ATTTTGTTTT
11550519 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
11550535 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
11550549 ATTAAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:11561595 original size:45 final size:46
Alignment explanation
Indices: 11561509--11561597 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 46
11561499 ATAATGAATA
* * *
11561509 GAAATGGAGAAATGGAAAACATTTAGAATTGATTATGGTTTTCTAT
1 GAAATAGAGAAATGGAAAACATTTAGAAATGAATATGGTTTTCTAT
* * *
11561555 GAAATAGAGAAAT-GAAATCATTTGGAAATGAATGTGGTTTTCT
1 GAAATAGAGAAATGGAAAACATTTAGAAATGAATATGGTTTTCT
11561598 CAAAATAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 25 0.68
46 12 0.32
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.34
Consensus pattern (46 bp):
GAAATAGAGAAATGGAAAACATTTAGAAATGAATATGGTTTTCTAT
Found at i:11564829 original size:25 final size:25
Alignment explanation
Indices: 11564799--11564911 Score: 86
Period size: 25 Copynumber: 4.5 Consensus size: 25
11564789 CAAACAAAGT
11564799 AAAGCCTTTGTGGCGAGTTACTTGA
1 AAAGCCTTTGTGGCGAGTTACTTGA
* * * * * *
11564824 AAAGCCTATATGGTGTA-TGATTTGG
1 AAAGCCTTTGTGGCG-AGTTACTTGA
* *
11564849 AAAGCCTTAGTGGCGAGTTTATCTGGA
1 AAAGCCTTTGTGGCGAG-TTA-CTTGA
* *
11564876 AAA-CCTTTGTGGTGAGTTACCTGA
1 AAAGCCTTTGTGGCGAGTTACTTGA
*
11564900 AAAGCCTATGTG
1 AAAGCCTTTGTG
11564912 ACGTATTATT
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
24 7 0.11
25 38 0.59
26 14 0.22
27 5 0.08
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (25 bp):
AAAGCCTTTGTGGCGAGTTACTTGA
Found at i:11564875 original size:26 final size:25
Alignment explanation
Indices: 11564846--11564906 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
11564836 GTGTATGATT
*
11564846 TGGAAAGCCTTAGTGGCGAGTTTATC
1 TGGAAAGCCTTAGTGGCGAG-TTACC
* * *
11564872 TGGAAAACCTTTGTGGTGAGTTACC
1 TGGAAAGCCTTAGTGGCGAGTTACC
*
11564897 TGAAAAGCCT
1 TGGAAAGCCT
11564907 ATGTGACGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (25 bp):
TGGAAAGCCTTAGTGGCGAGTTACC
Found at i:11564930 original size:76 final size:76
Alignment explanation
Indices: 11564803--11565014 Score: 244
Period size: 76 Copynumber: 2.8 Consensus size: 76
11564793 CAAAGTAAAG
* * ** * * *
11564803 CCTTTGTGGCGAGTTACTTGAAAAGCCTATATGGTGTATGATTTGGAAAGCCTTAGTGGCGAGTT
1 CCTTTGTGGCGAGTTACCTGAAAAGCCTATGTGACGTATTATTTGGGAAGCCTTAGTGGCGAATT
11564868 TATCTGGAAAA
66 TATCTGGAAAA
* * **
11564879 CCTTTGTGGTGAGTTACCTGAAAAGCCTATGTGACGTATTATTTGGGAAGCCTTAGTAGATAATT
1 CCTTTGTGGCGAGTTACCTGAAAAGCCTATGTGACGTATTATTTGGGAAGCCTTAGTGGCGAATT
***
11564944 TATCTGGATTG
66 TATCTGGAAAA
* * * * * *
11564955 CCTTTGTGGCAAGTCACCTAAAAAGCCTATGTAACATATTATTTGGGAAGTCTTAGTGGC
1 CCTTTGTGGCGAGTTACCTGAAAAGCCTATGTGACGTATTATTTGGGAAGCCTTAGTGGC
11565015 AAGATTTGAG
Statistics
Matches: 113, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 113 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (76 bp):
CCTTTGTGGCGAGTTACCTGAAAAGCCTATGTGACGTATTATTTGGGAAGCCTTAGTGGCGAATT
TATCTGGAAAA
Found at i:11566766 original size:12 final size:12
Alignment explanation
Indices: 11566749--11566774 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11566739 ATAATGAGTT
11566749 ATAAAATAATAA
1 ATAAAATAATAA
11566761 ATAAAATAATAA
1 ATAAAATAATAA
11566773 AT
1 AT
11566775 GGAATCTAAT
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAAAATAATAA
Found at i:11569070 original size:23 final size:23
Alignment explanation
Indices: 11569044--11569119 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
11569034 CTCTGGAAAA
* *
11569044 CCTTTGTGGCTTATTCTATGATG
1 CCTTTGTGGCATATTCTATAATG
* * * *
11569067 CCTTTATGGCATATTTTGTAATA
1 CCTTTGTGGCATATTCTATAATG
*
11569090 CCTTTGTGGCGTATTCTATAATG
1 CCTTTGTGGCATATTCTATAATG
*
11569113 CCCTTGT
1 CCTTTGT
11569120 TGCGAAGTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.46
Consensus pattern (23 bp):
CCTTTGTGGCATATTCTATAATG
Found at i:11570350 original size:102 final size:102
Alignment explanation
Indices: 11570174--11570377 Score: 381
Period size: 102 Copynumber: 2.0 Consensus size: 102
11570164 CCATTGGAGT
*
11570174 ATGGCGCTTAGTACACTACACTATGTATAGTTTGTCTTTAATAAAGTTTAAAGTTTTAACGTCAT
1 ATGGCGCTTAGTACACTACACTATGTAGAGTTTGTCTTTAATAAAGTTTAAAGTTTTAACGTCAT
*
11570239 TTGTTGTTTTGAAACTTTGATGTAATTAATAAATATC
66 ATGTTGTTTTGAAACTTTGATGTAATTAATAAATATC
*
11570276 ATGGCGCTTAGTACACTACACTATGTAGAGTTTGTCTTTAATAAAGTTTAAAGTTTTAATGTCAT
1 ATGGCGCTTAGTACACTACACTATGTAGAGTTTGTCTTTAATAAAGTTTAAAGTTTTAACGTCAT
11570341 ATGTTGTTTTGAAACTTTGATGTAATTAATAAATATC
66 ATGTTGTTTTGAAACTTTGATGTAATTAATAAATATC
11570378 TTATTTTTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (102 bp):
ATGGCGCTTAGTACACTACACTATGTAGAGTTTGTCTTTAATAAAGTTTAAAGTTTTAACGTCAT
ATGTTGTTTTGAAACTTTGATGTAATTAATAAATATC
Found at i:11576995 original size:33 final size:33
Alignment explanation
Indices: 11576958--11577105 Score: 190
Period size: 33 Copynumber: 4.5 Consensus size: 33
11576948 CACTTGAGCC
* *
11576958 AATCCATCCATCACACTAATGCTCATAAAAGCT
1 AATCCAACCATCACACCAATGCTCATAAAAGCT
* *
11576991 AATCCAACCATCACACCAATTCTCATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAAAGCT
* * * *
11577024 AAACCAACCATCACACCAACGCTTATAAGAGCT
1 AATCCAACCATCACACCAATGCTCATAAAAGCT
*
11577057 AAACCAACCATCACACCAATGCTCATAAGAA-CT
1 AATCCAACCATCACACCAATGCTCATAA-AAGCT
*
11577090 AATCCAACCAGCACAC
1 AATCCAACCATCACAC
11577106 TAAATAGAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
33 100 0.99
34 1 0.01
ACGTcount: A:0.42, C:0.34, G:0.07, T:0.18
Consensus pattern (33 bp):
AATCCAACCATCACACCAATGCTCATAAAAGCT
Found at i:11581216 original size:76 final size:76
Alignment explanation
Indices: 11581128--11581420 Score: 347
Period size: 76 Copynumber: 3.9 Consensus size: 76
11581118 CAAACCACAC
*
11581128 AAAGCCTTTGTGACGAGTTACCTAAAAAGCCTATGTAGCGTATTATTTGGGAAGCCTTAGTGGCA
1 AAAGCCTTTGTGACGAGTTACCTGAAAAGCCTATGTAGCGTATTATTTGGGAAGCCTTAGTGGCA
*
11581193 AAATTATCTGG
66 AATTTATCTGG
* * ***
11581204 AAAGCCTTTGTGACGAGTTACCTGAAAAGCCTATGTGGCGTA-TATTTGGGAAGCCTTAATGATG
1 AAAGCCTTTGTGACGAGTTACCTGAAAAGCCTATGTAGCGTATTATTTGGGAAGCCTTAGTGGCA
11581268 AATTTATCTGG
66 AATTTATCTGG
* * * * * * *
11581279 AAAGCCTTTAT-AGCCAGTTGCTTGAAAAGCCTATGTAGTGTTTTATTTGGGAAGCCTTAGTGGT
1 AAAGCCTTTGTGA-CGAGTTACCTGAAAAGCCTATGTAGCGTATTATTTGGGAAGCCTTAGTGGC
* *
11581343 GAATTTATTTGG
65 AAATTTATCTGG
* * * * * ** *
11581355 AAAGCCTTTGCGATGAGTTACCTGACAAGCCTATGTGGCATATTATTTGAAAAGACTTAGTGGCA
1 AAAGCCTTTGTGACGAGTTACCTGAAAAGCCTATGTAGCGTATTATTTGGGAAGCCTTAGTGGCA
11581420 A
66 A
11581421 GATCTGAGTA
Statistics
Matches: 181, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
74 1 0.01
75 61 0.34
76 118 0.65
77 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (76 bp):
AAAGCCTTTGTGACGAGTTACCTGAAAAGCCTATGTAGCGTATTATTTGGGAAGCCTTAGTGGCA
AATTTATCTGG
Found at i:11581235 original size:25 final size:25
Alignment explanation
Indices: 11581128--11581240 Score: 68
Period size: 25 Copynumber: 4.5 Consensus size: 25
11581118 CAAACCACAC
*
11581128 AAAGCCTTTGTGACGAGTTACCTAA
1 AAAGCCTTTGTGACGAGTTACCTGA
* ** *
11581153 AAAGCCTATGT-AGCGTA-TTATTTGG
1 AAAGCCTTTGTGA-CG-AGTTACCTGA
* * * * * * *
11581178 GAAGCCTTAGTGGCAAAATTATCTGG
1 AAAGCCTTTGTGAC-GAGTTACCTGA
11581204 AAAGCCTTTGTGACGAGTTACCTGA
1 AAAGCCTTTGTGACGAGTTACCTGA
*
11581229 AAAGCCTATGTG
1 AAAGCCTTTGTG
11581241 GCGTATATTT
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
24 1 0.02
25 44 0.69
26 19 0.30
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (25 bp):
AAAGCCTTTGTGACGAGTTACCTGA
Found at i:11581333 original size:25 final size:26
Alignment explanation
Indices: 11581304--11581362 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
11581294 AGTTGCTTGA
*
11581304 AAAGCC-TATGTAGTG-TTTTATTTGG
1 AAAGCCTTA-GTAGTGAATTTATTTGG
* *
11581329 GAAGCCTTAGTGGTGAATTTATTTGG
1 AAAGCCTTAGTAGTGAATTTATTTGG
11581355 AAAGCCTT
1 AAAGCCTT
11581363 TGCGATGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (26 bp):
AAAGCCTTAGTAGTGAATTTATTTGG
Found at i:11582428 original size:12 final size:13
Alignment explanation
Indices: 11582408--11582440 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11582398 AATTACGTGC
*
11582408 TGACATGGC-AGT
1 TGACGTGGCAAGT
11582420 TGACGTGGCAAGT
1 TGACGTGGCAAGT
11582433 TGACGTGG
1 TGACGTGG
11582441 GGAAATGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (13 bp):
TGACGTGGCAAGT
Found at i:11582974 original size:14 final size:14
Alignment explanation
Indices: 11582955--11582992 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11582945 TTTTGCCAGT
11582955 AAAATG-TTTTCCGG
1 AAAATGATTTT-CGG
*
11582969 AAAATGATTTTTGG
1 AAAATGATTTTCGG
11582983 AAAATGATTT
1 AAAATGATTT
11582993 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTTCGG
Found at i:11583006 original size:19 final size:19
Alignment explanation
Indices: 11582984--11583021 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11582974 GATTTTTGGA
11582984 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
11583003 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
11583022 TGTTTAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:11583125 original size:18 final size:18
Alignment explanation
Indices: 11583104--11583138 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11583094 GTTTTTACAT
11583104 ATATTAATAAATTTATAC
1 ATATTAATAAATTTATAC
11583122 ATATTAATAAATTTATA
1 ATATTAATAAATTTATA
11583139 TTTTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTAATAAATTTATAC
Found at i:11583139 original size:14 final size:16
Alignment explanation
Indices: 11583102--11583144 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
11583092 TTGTTTTTAC
11583102 ATATATTAATAAATTT
1 ATATATTAATAAATTT
11583118 ATACATATTAATAAATTT
1 AT--ATATTAATAAATTT
*
11583136 ATATTTTAA
1 ATATATTAA
11583145 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
18 16 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATTAATAAATTT
Found at i:11583201 original size:18 final size:18
Alignment explanation
Indices: 11583178--11583213 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11583168 GATTTATTTA
11583178 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
11583196 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
11583214 GGTTTAATTG
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:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:11589673 original size:11 final size:11
Alignment explanation
Indices: 11589649--11589721 Score: 71
Period size: 11 Copynumber: 6.8 Consensus size: 11
11589639 TCCTTTCTAA
*
11589649 ATTTTTATAAT
1 ATTTTAATAAT
*
11589660 ATTTTAATATT
1 ATTTTAATAAT
*
11589671 ATTTTCATAAT
1 ATTTTAATAAT
*
11589682 A-TTTAATAAC
1 ATTTTAATAAT
11589692 A-TTT-ATAAT
1 ATTTTAATAAT
*
11589701 ATTTTAATATT
1 ATTTTAATAAT
11589712 ATGTTTAATA
1 AT-TTTAATA
11589722 TGTGTTAGGA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
9 5 0.10
10 14 0.27
11 25 0.49
12 7 0.14
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:11598905 original size:3 final size:3
Alignment explanation
Indices: 11598897--11598931 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11598887 CTTAACCAAC
11598897 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11598932 GAGGATTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11602803 original size:20 final size:20
Alignment explanation
Indices: 11602778--11602820 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11602768 CATGAATGTC
11602778 ACAAGTGAATTAACTCACAA
1 ACAAGTGAATTAACTCACAA
11602798 ACAAGTGAATTAACTCACAA
1 ACAAGTGAATTAACTCACAA
11602818 ACA
1 ACA
11602821 GATTCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.21, G:0.09, T:0.19
Consensus pattern (20 bp):
ACAAGTGAATTAACTCACAA
Found at i:11605305 original size:40 final size:40
Alignment explanation
Indices: 11605257--11605504 Score: 241
Period size: 40 Copynumber: 6.2 Consensus size: 40
11605247 TGAGTGTTAG
* *
11605257 CTACTGAAACT-TATACGTTATTGAGCCATACCTACTGAAT
1 CTACTGAAA-TGTATGCGCTATTGAGCCATACCTACTGAAT
* * * *
11605297 CTATTGAAATGTATGTGCTGTTGAGCAATACCTACTGAAT
1 CTACTGAAATGTATGCGCTATTGAGCCATACCTACTGAAT
* *
11605337 ATACTGAAATGTATGCGCTATTGAGCCATACCTACTAAAT
1 CTACTGAAATGTATGCGCTATTGAGCCATACCTACTGAAT
* * * * *
11605377 TTACTGAAATGTATGCGTTATTGAACCATACCTACAGATT
1 CTACTGAAATGTATGCGCTATTGAGCCATACCTACTGAAT
** *
11605417 CTACTGAAA-GTATGATCTA-TCACGCCATACCTACTGAAT
1 CTACTGAAATGTATGCGCTATTGA-GCCATACCTACTGAAT
* * * * * * *
11605456 TTACTAAAAAGAATGCTCTATAGAGCCATACCTACTGATT
1 CTACTGAAATGTATGCGCTATTGAGCCATACCTACTGAAT
*
11605496 TTACTGAAA
1 CTACTGAAA
11605505 GTAGTGTCAA
Statistics
Matches: 170, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
38 2 0.01
39 28 0.16
40 139 0.82
41 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (40 bp):
CTACTGAAATGTATGCGCTATTGAGCCATACCTACTGAAT
Found at i:11605485 original size:79 final size:79
Alignment explanation
Indices: 11605361--11605507 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 79
11605351 GCGCTATTGA
* * * *
11605361 GCCATACCTACTAAATTTACTGAAATGTATGCGTTATTGAACCATACCTACAGATTCTACTGAAA
1 GCCATACCTACTAAATTTACTAAAAAGAATGCGTTATAGAACCATACCTACAGATTCTACTGAAA
11605426 GTATGATCTATCAC
66 GTATGATCTATCAC
* * * *
11605440 GCCATACCTACTGAATTTACTAAAAAGAATGC-TCTATAGAGCCATACCTACTGATTTTACTGAA
1 GCCATACCTACTAAATTTACTAAAAAGAATGCGT-TATAGAACCATACCTACAGATTCTACTGAA
11605504 AGTA
65 AGTA
11605508 GTGTCAATGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 1 0.02
79 58 0.98
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (79 bp):
GCCATACCTACTAAATTTACTAAAAAGAATGCGTTATAGAACCATACCTACAGATTCTACTGAAA
GTATGATCTATCAC
Found at i:11605491 original size:119 final size:120
Alignment explanation
Indices: 11605258--11605504 Score: 295
Period size: 119 Copynumber: 2.1 Consensus size: 120
11605248 GAGTGTTAGC
* * * * *
11605258 TACTGAAACTTATACGTTATTGAGCCATACCTACTGAATCTATTGAAATGTATGTGCTGTTGAGC
1 TACTGAAACTTATACGTTATTGAACCATACCTACAGAATCTACTGAAATGTATGTGCTGATCAGC
* * * *
11605323 AATACCTACTGAATATACTGAAATGTATGCGCTATTGAGCCATACCTACTAAATT
66 AATACCTACTGAATATACTAAAAAGAATGCGCTATAGAGCCATACCTACTAAATT
* *
11605378 TACTGAAA-TGTATGCGTTATTGAACCATACCTACAGATTCTACTGAAA-GTATGAT-CT-ATCA
1 TACTGAAACT-TATACGTTATTGAACCATACCTACAGAATCTACTGAAATGTATG-TGCTGATCA
* * * * *
11605439 CGCCATACCTACTGAATTTACTAAAAAGAATGCTCTATAGAGCCATACCTACTGATTT
64 -GCAATACCTACTGAATATACTAAAAAGAATGCGCTATAGAGCCATACCTACTAAATT
11605497 TACTGAAA
1 TACTGAAA
11605505 GTAGTGTCAA
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
118 2 0.02
119 64 0.59
120 42 0.39
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (120 bp):
TACTGAAACTTATACGTTATTGAACCATACCTACAGAATCTACTGAAATGTATGTGCTGATCAGC
AATACCTACTGAATATACTAAAAAGAATGCGCTATAGAGCCATACCTACTAAATT
Found at i:11609156 original size:24 final size:24
Alignment explanation
Indices: 11609128--11609178 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11609118 CACACGGGCA
*
11609128 TGTGGCTGCCCATGTGGCTGGCCG
1 TGTGGCCGCCCATGTGGCTGGCCG
* *
11609152 TGTGGCCGCCCGTGTGGCTGTCCG
1 TGTGGCCGCCCATGTGGCTGGCCG
11609176 TGT
1 TGT
11609179 AGTAAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.02, C:0.29, G:0.41, T:0.27
Consensus pattern (24 bp):
TGTGGCCGCCCATGTGGCTGGCCG
Found at i:11609176 original size:12 final size:12
Alignment explanation
Indices: 11609128--11609178 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
11609118 CACACGGGCA
*
11609128 TGTGGCTGCCCA
1 TGTGGCTGCCCG
*
11609140 TGTGGCTGGCCG
1 TGTGGCTGCCCG
*
11609152 TGTGGCCGCCCG
1 TGTGGCTGCCCG
*
11609164 TGTGGCTGTCCG
1 TGTGGCTGCCCG
11609176 TGT
1 TGT
11609179 AGTAAAACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.02, C:0.29, G:0.41, T:0.27
Consensus pattern (12 bp):
TGTGGCTGCCCG
Found at i:11624957 original size:2 final size:2
Alignment explanation
Indices: 11624950--11624978 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11624940 ACTCAACTTA
11624950 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
11624979 TATCATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11627592 original size:13 final size:13
Alignment explanation
Indices: 11627574--11627598 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11627564 AATCCCAATT
11627574 CATTTTAATTTAA
1 CATTTTAATTTAA
11627587 CATTTTAATTTA
1 CATTTTAATTTA
11627599 TACAAACTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
CATTTTAATTTAA
Found at i:11628994 original size:13 final size:13
Alignment explanation
Indices: 11628973--11629002 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11628963 TAAATGAATC
*
11628973 CATTTCTCATTTT
1 CATTCCTCATTTT
11628986 CATTCCTCATTTT
1 CATTCCTCATTTT
11628999 CATT
1 CATT
11629003 TTCGTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.57
Consensus pattern (13 bp):
CATTCCTCATTTT
Found at i:11634861 original size:171 final size:171
Alignment explanation
Indices: 11634576--11634914 Score: 678
Period size: 171 Copynumber: 2.0 Consensus size: 171
11634566 GGAAACTAAT
11634576 ATACGAGTGGATGCAAAGCTGGCTTTCAATAGAGAGAACCATGAGGAGAGTAAAGGTATCTTTCT
1 ATACGAGTGGATGCAAAGCTGGCTTTCAATAGAGAGAACCATGAGGAGAGTAAAGGTATCTTTCT
11634641 TGGCTGATCCCTTTCGTTCTATGGCGTGCTCGTTTGGGTTGGGTGTTGACTAAGAGTGCTCGGAG
66 TGGCTGATCCCTTTCGTTCTATGGCGTGCTCGTTTGGGTTGGGTGTTGACTAAGAGTGCTCGGAG
11634706 TGCGGATTAACTCCAGTCTCCTATCAGGTGTGTATTTTAAC
131 TGCGGATTAACTCCAGTCTCCTATCAGGTGTGTATTTTAAC
11634747 ATACGAGTGGATGCAAAGCTGGCTTTCAATAGAGAGAACCATGAGGAGAGTAAAGGTATCTTTCT
1 ATACGAGTGGATGCAAAGCTGGCTTTCAATAGAGAGAACCATGAGGAGAGTAAAGGTATCTTTCT
11634812 TGGCTGATCCCTTTCGTTCTATGGCGTGCTCGTTTGGGTTGGGTGTTGACTAAGAGTGCTCGGAG
66 TGGCTGATCCCTTTCGTTCTATGGCGTGCTCGTTTGGGTTGGGTGTTGACTAAGAGTGCTCGGAG
11634877 TGCGGATTAACTCCAGTCTCCTATCAGGTGTGTATTTT
131 TGCGGATTAACTCCAGTCTCCTATCAGGTGTGTATTTT
11634915 CTCGCTACTC
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 168 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (171 bp):
ATACGAGTGGATGCAAAGCTGGCTTTCAATAGAGAGAACCATGAGGAGAGTAAAGGTATCTTTCT
TGGCTGATCCCTTTCGTTCTATGGCGTGCTCGTTTGGGTTGGGTGTTGACTAAGAGTGCTCGGAG
TGCGGATTAACTCCAGTCTCCTATCAGGTGTGTATTTTAAC
Found at i:11635257 original size:27 final size:28
Alignment explanation
Indices: 11635235--11635298 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
11635225 AGAATTATCG
11635235 TTTTACCCTCGA-TTTACAAAATTACCA
1 TTTTACCCTCGAGTTTACAAAATTACCA
*
11635262 TTTTACCCT-TAGTTTACAAAATTACCA
1 TTTTACCCTCGAGTTTACAAAATTACCA
11635289 TTTTACCCTC
1 TTTTACCCTC
11635299 AATTATGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.41
Consensus pattern (28 bp):
TTTTACCCTCGAGTTTACAAAATTACCA
Found at i:11635416 original size:27 final size:27
Alignment explanation
Indices: 11635386--11635437 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
11635376 CTCAATTTTT
11635386 AAAATTACCA-AAATACCCTTGACTTAC
1 AAAATTA-CATAAATACCCTTGACTTAC
11635413 AAAATTACATAAATACCCTTGACTT
1 AAAATTACATAAATACCCTTGACTT
11635438 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (27 bp):
AAAATTACATAAATACCCTTGACTTAC
Found at i:11635477 original size:27 final size:27
Alignment explanation
Indices: 11635444--11635495 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11635434 ACTTTTTTTT
*
11635444 AAAATTATAGGAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
11635471 AAAATTATTGAAATACCCTTGGTTT
1 AAAATTATAGAAATACCATTGGTTT
11635496 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:11636447 original size:25 final size:24
Alignment explanation
Indices: 11636413--11636482 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
11636403 AGGAAGTGCT
*
11636413 AAAAGGGCTCTACCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGTTTACC
*
11636437 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTCTGCCCCAGTTTACC
*
11636462 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTCTGCCCCAGTT
11636483 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGTTTACC
Found at i:11636689 original size:42 final size:42
Alignment explanation
Indices: 11636630--11636723 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
11636620 TAGTCTCCCC
* **
11636630 AAATGGGCTTGCATACATTCATTGGTATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
11636672 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
11636714 AAATGGGCTT
1 AAATGGGCTT
11636724 AAAGGCCATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:11638633 original size:27 final size:27
Alignment explanation
Indices: 11638603--11638715 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
11638593 AAAATTATCN
11638603 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
11638630 AATTACCAAAATACCCTTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
11638657 AATTACCGAAATAGCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
11638684 AATTACCAAAATACCCCT-GATTTGCAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
11638711 AATTA
1 AATTA
11638716 TAGAAATACC
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:11638669 original size:54 final size:54
Alignment explanation
Indices: 11638603--11638726 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
11638593 AAAATTATCN
* * * * **
11638603 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGA
1 AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGCAA
* *
11638657 AATTACCGAAATAGCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTGCAA
1 AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGCAA
**
11638711 AATTATAGAAATACCC
1 AATTACCGAAATACCC
11638727 TTGACTTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGCAA
Found at i:11638699 original size:116 final size:115
Alignment explanation
Indices: 11638508--11638716 Score: 233
Period size: 116 Copynumber: 1.8 Consensus size: 115
11638498 TACCCTCGAC
* * ** * *
11638508 TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTATCGTTATATCCTTGATTTACAAAATTA
1 TTGTAAAATTACCAAAATACCCTCGATTTATAGAATTACCGAAATAGCCTTAATTTACAAAATTA
***
11638573 CCATTTTACCCTCAG-TTTACAAAATTATCNAATTACCAAAATACCCCTAGT
66 CCAAAATACCC-CAGATTTACAAAATTATC-AATTACCAAAATACCCCTAGT
* * * **
11638624 TTGTAAAATTACCAAAATACCCTTGGTTTGT-GAAATTACCGAAATAGCCTTAATTTGTAAAATT
1 TTGTAAAATTACCAAAATACCCTCGATTTATAG-AATTACCGAAATAGCCTTAATTTACAAAATT
* *
11638688 ACCAAAATACCCCTGATTTGCAAAATTAT
65 ACCAAAATACCCCAGATTTACAAAATTAT
11638717 AGAAATACCC
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
115 3 0.04
116 72 0.96
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (115 bp):
TTGTAAAATTACCAAAATACCCTCGATTTATAGAATTACCGAAATAGCCTTAATTTACAAAATTA
CCAAAATACCCCAGATTTACAAAATTATCAATTACCAAAATACCCCTAGT
Found at i:11638765 original size:27 final size:27
Alignment explanation
Indices: 11638735--11638791 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11638725 CCTTGACTTT
*
11638735 TTTAAAAAATTA-TAGGAATACCATTGG
1 TTTAAAAAATTACT-GAAATACCATTGG
* *
11638762 TTTACAAAATTACTGAAATACCCTTGG
1 TTTAAAAAATTACTGAAATACCATTGG
11638789 TTT
1 TTT
11638792 GTAGATTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
TTTAAAAAATTACTGAAATACCATTGG
Found at i:11639785 original size:26 final size:25
Alignment explanation
Indices: 11639720--11639789 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
11639710 AGGAAGTGCT
* *
11639720 AAAAGGGTTCTGCCCCAGTTTACCG
1 AAAAGGGCTCTGCCCCAGTTTACAG
11639745 AAAAGGGCTCTGCCCCAGTTTATCAG
1 AAAAGGGCTCTGCCCCAGTTTA-CAG
* *
11639771 -AAAGGGCTTTGGCCCAGTT
1 AAAAGGGCTCTGCCCCAGTT
11639790 ATTAAATGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTCTGCCCCAGTTTACAG
Found at i:11639996 original size:42 final size:42
Alignment explanation
Indices: 11639937--11640028 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
11639927 TAGTCTCCCC
* ** *
11639937 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
11639979 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
11640021 AAATGGGC
1 AAATGGGC
11640029 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:11641889 original size:22 final size:22
Alignment explanation
Indices: 11641864--11641907 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11641854 TCACATACTT
11641864 TCAGTAAATGGAAACAGTGTTC
1 TCAGTAAATGGAAACAGTGTTC
11641886 TCAGTAAATGGAAACAGTGTTC
1 TCAGTAAATGGAAACAGTGTTC
11641908 CAATCTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (22 bp):
TCAGTAAATGGAAACAGTGTTC
Found at i:11673286 original size:26 final size:26
Alignment explanation
Indices: 11673257--11673364 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
11673247 TGGTAAAAAT
11673257 TGATAATGAG-TTAGGTAAATGTTCCA
1 TGATAATG-GTTTAGGTAAATGTTCCA
11673283 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
*
11673309 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
11673335 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
11673361 TGAT
1 TGAT
11673365 GGGCATTTCA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 1 0.01
26 78 0.99
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGTTTAGGTAAATGTTCCA
Found at i:11675022 original size:27 final size:27
Alignment explanation
Indices: 11674981--11675093 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
11674971 GAGGAAGCGT
*
11674981 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
11675008 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
11675035 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
11675063 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
11675089 TCTGG
1 TCTGG
11675094 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:11675086 original size:54 final size:54
Alignment explanation
Indices: 11674979--11675093 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
11674969 TGGAGGAAGC
*
11674979 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
11675033 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
11675087 GTTCTGG
1 GTTCTGG
11675094 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:11680370 original size:26 final size:26
Alignment explanation
Indices: 11680341--11680448 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11680331 TGGTACAAAT
11680341 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11680367 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11680393 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11680419 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11680445 TGAT
1 TGAT
11680449 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11681964 original size:26 final size:26
Alignment explanation
Indices: 11681935--11681987 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11681925 TTTACAGTTT
11681935 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
11681961 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
11681987 T
1 T
11681988 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:11685167 original size:25 final size:25
Alignment explanation
Indices: 11685139--11685189 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11685129 ATCATGGCCT
11685139 CGTCCTTGACCTTAAGAAAGTACAA
1 CGTCCTTGACCTTAAGAAAGTACAA
11685164 CGTCCTTGACCTTAAGAAAGTACAA
1 CGTCCTTGACCTTAAGAAAGTACAA
11685189 C
1 C
11685190 ATTCACATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (25 bp):
CGTCCTTGACCTTAAGAAAGTACAA
Found at i:11690903 original size:14 final size:14
Alignment explanation
Indices: 11690880--11690909 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11690870 TTGAAAATAT
11690880 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
11690894 GTTGATTTGGATTG
1 GTTGAATTGGATTG
11690908 GT
1 GT
11690910 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:11691945 original size:18 final size:18
Alignment explanation
Indices: 11691922--11691956 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11691912 TGTTGCTTTT
11691922 TTAACTAATAATTATAAA
1 TTAACTAATAATTATAAA
*
11691940 TTAACTTATAATTATAA
1 TTAACTAATAATTATAA
11691957 TTATCACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAACTAATAATTATAAA
Found at i:11697611 original size:26 final size:26
Alignment explanation
Indices: 11697577--11697637 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
11697567 ATAAGAGCCA
* *
11697577 TAATTAGGAAG-TTCACAAAGAACTTT
1 TAATCAGGAAGCTT-ACAAAGAACCTT
*
11697603 TAATCAGGAAGCTTACAAAGAGCCTT
1 TAATCAGGAAGCTTACAAAGAACCTT
11697629 TAATCAGGA
1 TAATCAGGA
11697638 GCTCCGGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (26 bp):
TAATCAGGAAGCTTACAAAGAACCTT
Found at i:11703944 original size:37 final size:37
Alignment explanation
Indices: 11703897--11703967 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
11703887 AAAAATATTA
*
11703897 TTATTTTAATAGTTTAATATTAAATTTAAT-TTAATAT
1 TTATCTTAATAGTTTAATATT-AATTTAATATTAATAT
**
11703934 TTATCTTAATAGTTTTTTATTAATTTAATATTAA
1 TTATCTTAATAGTTTAATATTAATTTAATATTAA
11703968 AGTGATTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 8 0.27
37 22 0.73
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (37 bp):
TTATCTTAATAGTTTAATATTAATTTAATATTAATAT
Found at i:11710854 original size:11 final size:11
Alignment explanation
Indices: 11710832--11710864 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
11710822 CGACCCGCCC
11710832 ATATTAATTTTT
1 ATATT-ATTTTT
11710844 ATATTATTTTT
1 ATATTATTTTT
11710855 ATATTATTTT
1 ATATTATTTT
11710865 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:11711091 original size:11 final size:11
Alignment explanation
Indices: 11711077--11711124 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
11711067 ATATCTAAAC
*
11711077 AATAATAACAA
1 AATAATAGCAA
*
11711088 AATAGTAGCAA
1 AATAATAGCAA
* *
11711099 CATAATAGTAA
1 AATAATAGCAA
*
11711110 AATAGTAGCAA
1 AATAATAGCAA
11711121 AATA
1 AATA
11711125 GGGAGAAAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.21
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:11711103 original size:22 final size:22
Alignment explanation
Indices: 11711078--11711120 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11711068 TATCTAAACA
11711078 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
**
11711100 ATAATAGTAAAATAGTAGCAA
1 ATAATAACAAAATAGTAGCAA
11711121 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:11711125 original size:11 final size:11
Alignment explanation
Indices: 11711085--11711125 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11711075 ACAATAATAA
11711085 CAAAATAGTAG
1 CAAAATAGTAG
* *
11711096 CAACATAATAG
1 CAAAATAGTAG
*
11711107 TAAAATAGTAG
1 CAAAATAGTAG
11711118 CAAAATAG
1 CAAAATAG
11711126 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:11714687 original size:40 final size:40
Alignment explanation
Indices: 11714632--11714709 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
11714622 TGCAGTACCT
*
11714632 TATGGTATGTAGGGATGGATGGGTCGATTTTATCCCCATA
1 TATGGTATGCAGGGATGGATGGGTCGATTTTATCCCCATA
* * *
11714672 TATGGTGTGCAGGGATGGGTGGGTCGATTTTGTCCCCA
1 TATGGTATGCAGGGATGGATGGGTCGATTTTATCCCCA
11714710 CATGGTGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.14, G:0.35, T:0.33
Consensus pattern (40 bp):
TATGGTATGCAGGGATGGATGGGTCGATTTTATCCCCATA
Found at i:11717499 original size:20 final size:22
Alignment explanation
Indices: 11717462--11717502 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
11717452 TTATATTTTT
*
11717462 ATACTTCTTATAACATTTTATA
1 ATACTTCTTATAAAATTTTATA
11717484 ATACTT-TT-TAAAATTTTAT
1 ATACTTCTTATAAAATTTTAT
11717503 TGGTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (22 bp):
ATACTTCTTATAAAATTTTATA
Found at i:11717599 original size:16 final size:16
Alignment explanation
Indices: 11717573--11717622 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
11717563 ATTTTTTTCA
11717573 TAATTTATAATATTTTT
1 TAATTT-TAATATTTTT
11717590 TAATTTTAATTATTTTT
1 TAATTTTAA-TATTTTT
* *
11717607 AAAATTTAATATTTTT
1 TAATTTTAATATTTTT
11717623 ATCATTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TAATTTTAATATTTTT
Found at i:11717613 original size:35 final size:33
Alignment explanation
Indices: 11717552--11717622 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
11717542 AAGACCATAA
* * *
11717552 TTTTATTTTTTATTTTTTTCATAATTTATAATATT
1 TTTTAATTTTAATTTTTTTCA-AAATT-TAATATT
11717587 TTTTAATTTTAATTATTTTT-AAAATTTAATATT
1 TTTTAATTTTAATT-TTTTTCAAAATTTAATATT
11717620 TTT
1 TTT
11717623 ATCATTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 10 0.31
34 4 0.12
35 13 0.41
36 5 0.16
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTTAATTTTAATTTTTTTCAAAATTTAATATT
Found at i:11717629 original size:16 final size:16
Alignment explanation
Indices: 11717566--11717629 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
11717556 ATTTTTTATT
11717566 TTTTTCATAATTTATAATA
1 TTTTT-ATAA-TT-TAATA
11717585 TTTTT-TAATTTTAATTA
1 TTTTTATAA-TTTAA-TA
*
11717602 TTTTTAAAATTTAATA
1 TTTTTATAATTTAATA
*
11717618 TTTTTATCATTT
1 TTTTTATAATTT
11717630 TTCAATTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 15 0.38
17 18 0.45
18 2 0.05
19 5 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTATAATTTAATA
Found at i:11717629 original size:25 final size:25
Alignment explanation
Indices: 11717592--11717659 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 25
11717582 ATATTTTTTA
* *
11717592 ATTTTAATTATTTTTAAAATTTAAT
1 ATTTTTATAATTTTTAAAATTTAAT
* *
11717617 ATTTTTATCATTTTT-CAATTTAAT
1 ATTTTTATAATTTTTAAAATTTAAT
*
11717641 ATTTTTATAATGTTTAAAA
1 ATTTTTATAATTTTTAAAA
11717660 ATATTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 21 0.58
25 15 0.42
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (25 bp):
ATTTTTATAATTTTTAAAATTTAAT
Found at i:11717664 original size:21 final size:22
Alignment explanation
Indices: 11717638--11717678 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11717628 TTTTCAATTT
*
11717638 AATA-TTTTTATAATGTTTAAA
1 AATATTTTTTATAATATTTAAA
11717659 AATATTTTTTATAATATTTA
1 AATATTTTTTATAATATTTA
11717679 TATATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATATTTTTTATAATATTTAAA
Found at i:11717725 original size:19 final size:19
Alignment explanation
Indices: 11717677--11717725 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
11717667 TTATAATATT
11717677 TATATATTTTTATGACTTTC
1 TATA-ATTTTTATGACTTTC
*
11717697 TATAACTTTTATGACTTT-
1 TATAATTTTTATGACTTTC
11717715 TAGTAATTTTT
1 TA-TAATTTTT
11717726 TATCGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 20 0.77
20 4 0.15
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (19 bp):
TATAATTTTTATGACTTTC
Found at i:11720135 original size:14 final size:14
Alignment explanation
Indices: 11720116--11720142 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11720106 GCTCAATCCT
11720116 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
11720130 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
11720143 TTTCATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:11721807 original size:22 final size:22
Alignment explanation
Indices: 11721782--11721826 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11721772 GCATGCCATG
11721782 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
11721804 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
11721826 T
1 T
11721827 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:11732652 original size:12 final size:12
Alignment explanation
Indices: 11732630--11732662 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
11732620 AATCTGTGTG
11732630 TTTTTTATTTTTA
1 TTTTTT-TTTTTA
11732643 TTTTTTTTTTTA
1 TTTTTTTTTTTA
11732655 TTTTTTTT
1 TTTTTTTT
11732663 ACAAATTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:11737054 original size:6 final size:6
Alignment explanation
Indices: 11737043--11737072 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
11737033 ATTTGTGTGT
11737043 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
11737073 CATTGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:11739763 original size:28 final size:28
Alignment explanation
Indices: 11739718--11739787 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
11739708 ATATTGTTAC
11739718 TTTTCATATAT-TATTTTATGTATTATACA
1 TTTT-ATATATATATTTTAT-TATTATACA
* *
11739747 TTTTATATATAT-TTTTATTATTTTATA
1 TTTTATATATATATTTTATTATTATACA
*
11739774 TTATTATTTATATA
1 TT-TTATATATATA
11739788 CATATATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 9 0.26
28 21 0.60
29 5 0.14
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTTATATATATATTTTATTATTATACA
Found at i:11739771 original size:20 final size:20
Alignment explanation
Indices: 11739746--11739784 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11739736 TGTATTATAC
11739746 ATTTTATATATATT-TTTATT
1 ATTTTATAT-TATTATTTATT
11739766 ATTTTATATTATTATTTAT
1 ATTTTATATTATTATTTAT
11739785 ATACATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTATATTATTATTTATT
Found at i:11739777 original size:10 final size:10
Alignment explanation
Indices: 11739746--11739778 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11739736 TGTATTATAC
11739746 ATTTTATATAT
1 ATTTTATAT-T
11739757 ATTTT-TATT
1 ATTTTATATT
11739766 ATTTTATATT
1 ATTTTATATT
11739776 ATT
1 ATT
11739779 ATTTATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 10 0.48
11 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTATATT
Found at i:11746735 original size:65 final size:64
Alignment explanation
Indices: 11746608--11746735 Score: 211
Period size: 65 Copynumber: 2.0 Consensus size: 64
11746598 AAGTAGATTT
* * *
11746608 CTTGGTAATAGATATCAAGCCTTCCTACAATTGCTTATTAGGCAGGCCATTGATATATTCAGCA
1 CTTGGTAATAGATATCAAGCCTTCCTACAATTGCTTATTAGGCAGGCCATGGATACACTCAGCA
*
11746672 NCTTGGTAATGGATATCAAGCCTTCCTACAATTGCTTATTAGGCAGGCCATGGATACACTCAGC
1 -CTTGGTAATAGATATCAAGCCTTCCTACAATTGCTTATTAGGCAGGCCATGGATACACTCAGC
11746736 GGGAGCGGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (64 bp):
CTTGGTAATAGATATCAAGCCTTCCTACAATTGCTTATTAGGCAGGCCATGGATACACTCAGCA
Found at i:11752626 original size:14 final size:16
Alignment explanation
Indices: 11752593--11752676 Score: 70
Period size: 16 Copynumber: 5.4 Consensus size: 16
11752583 AAAAATTGTT
11752593 TTATTTTTCTATATTA
1 TTATTTTTCTATATTA
11752609 TTATTTTTC-ATA-TA
1 TTATTTTTCTATATTA
* *
11752623 TTA-TTTTATGTATTA
1 TTATTTTTCTATATTA
* *
11752638 TACATTTTATATATATTA
1 T-TATTTT-TCTATATTA
11752656 -TATTATTT-TATATTA
1 TTATT-TTTCTATATTA
11752671 TTATTT
1 TTATTT
11752677 ATATACATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
13 4 0.07
14 7 0.12
15 14 0.25
16 18 0.32
17 5 0.09
18 8 0.14
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (16 bp):
TTATTTTTCTATATTA
Found at i:11752627 original size:30 final size:30
Alignment explanation
Indices: 11752593--11752681 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 30
11752583 AAAAATTGTT
*
11752593 TTATTTTTCTATATTATTATTTT-TCATATA
1 TTATTTTTATATATTATTATTTTAT-ATATA
* *
11752623 TTA-TTTTATGTATTATACATTTTATATATA
1 TTATTTTTATATATTAT-TATTTTATATATA
*
11752653 TTATATTATTTTATATTATTA-TTTATATA
1 TTAT-TT-TTATATATTATTATTTTATATA
11752682 CATATATCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
29 11 0.23
30 16 0.33
31 9 0.19
32 3 0.06
33 9 0.19
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (30 bp):
TTATTTTTATATATTATTATTTTATATATA
Found at i:11752656 original size:18 final size:18
Alignment explanation
Indices: 11752619--11752674 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
11752609 TTATTTTTCA
* *
11752619 TATATTATTTTAT-GTAT
1 TATATCATTTTATATTAT
11752636 TATA-CATTTTATATATAT
1 TATATCATTTTATAT-TAT
*
11752654 TATATTATTTTATATTAT
1 TATATCATTTTATATTAT
11752672 TAT
1 TAT
11752675 TTATATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 7 0.21
17 4 0.12
18 13 0.39
19 9 0.27
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TATATCATTTTATATTAT
Found at i:11752923 original size:81 final size:83
Alignment explanation
Indices: 11752765--11752926 Score: 183
Period size: 81 Copynumber: 2.0 Consensus size: 83
11752755 TATACTTTTA
* * *
11752765 TATTATATATTATATAATTATTTTATTTACTATGTATATTATTTTATATACATTTTTTAAAATAT
1 TATTATATATTATATAATTATTTTATTTACTATG-ATATTATTTTATATAAATTTTTTAAAAAAA
*
11752830 TATATTTGTATTATATGTT
65 TATACTTGTATTATATGTT
* *
11752849 TATTATATTATTA-ATTACTTATTTT-TTTA-TATG-TATTATTTTATTCTAAATTTTTTTAAAA
1 TATTATA-TATTATA-TAATTATTTTATTTACTATGATATTATTTTA-TATAAA-TTTTTTAAAA
11752910 AAAT-TACTT-TATTATAT
62 AAATATACTTGTATTATAT
11752927 ATTAATTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
81 18 0.26
82 8 0.12
83 16 0.24
84 12 0.18
85 14 0.21
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (83 bp):
TATTATATATTATATAATTATTTTATTTACTATGATATTATTTTATATAAATTTTTTAAAAAAAT
ATACTTGTATTATATGTT
Found at i:11759191 original size:52 final size:52
Alignment explanation
Indices: 11759112--11759215 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
11759102 GGTAATGGAT
* *
11759112 ATCAAGCCTTCATATAATTGCTAATTAGGCAGGCCATGGATACATTCAGCAG
1 ATCAAGCCTTCATACAATTGCTAATTAGGCAGGCCATGGATACACTCAGCAG
* * *
11759164 ATCAAGCCTTCTTACAATTGCTTATTAGGCAGGCTATGGATACACTCAGCAG
1 ATCAAGCCTTCATACAATTGCTAATTAGGCAGGCCATGGATACACTCAGCAG
11759216 GAGCGGTGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (52 bp):
ATCAAGCCTTCATACAATTGCTAATTAGGCAGGCCATGGATACACTCAGCAG
Found at i:11763678 original size:64 final size:64
Alignment explanation
Indices: 11763607--11763760 Score: 308
Period size: 64 Copynumber: 2.4 Consensus size: 64
11763597 AAGAATTCAG
11763607 GGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTTGAAAAAAAATAATAATAAAATGAGAGGCCAA
1 GGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTTGAAAAAAAATAATAATAAAATGAGAGGCCAA
11763671 GGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTTGAAAAAAAATAATAATAAAATGAGAGGCCAA
1 GGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTTGAAAAAAAATAATAATAAAATGAGAGGCCAA
11763735 GGTGAAAACCCGCAAAGGGCGCCTTG
1 GGTGAAAACCCGCAAAGGGCGCCTTG
11763761 TGACCAAAGG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 90 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (64 bp):
GGTGAAAACCCGCAAAGGGCGCCTTGAGTTTTTGAAAAAAAATAATAATAAAATGAGAGGCCAA
Found at i:11764929 original size:175 final size:175
Alignment explanation
Indices: 11764638--11764967 Score: 597
Period size: 175 Copynumber: 1.9 Consensus size: 175
11764628 CTGAAGCAGC
*
11764638 AGATCCAAGATAACAGATCTGACATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACC
1 AGATCCAAGATAACAGATCTGACATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
11764703 TTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
66 TTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
* *
11764768 CGAAGACATAGTAGATTTGACTTTCGGATGTTCCCACACCAAAGA
131 CGAAGACACAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGA
* * *
11764813 AGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAGCT
1 AGATCCAAGATAACAGATCTGACATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
*
11764878 TTCAGATGATTTTACTGAAGTAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
66 TTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
11764943 CGAAGACACAGCAGATTTGACTTTC
131 CGAAGACACAGCAGATTTGACTTTC
11764968 ACGTGTTTAC
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 148 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (175 bp):
AGATCCAAGATAACAGATCTGACATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
TTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAAT
CGAAGACACAGCAGATTTGACTTTCGGATGTTCCCACACCAAAGA
Found at i:11768389 original size:35 final size:35
Alignment explanation
Indices: 11768342--11768432 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
11768332 TAACATAGTG
*
11768342 GCATGCTTAACATGGGATTCAGAATCA-AAATAATA
1 GCATGCTTAACATGGGAATCAGAATCAGAAA-AATA
* * * *
11768377 GTATGCTCAACATGTGAATCATAATCAGAAAAATA
1 GCATGCTTAACATGGGAATCAGAATCAGAAAAATA
*
11768412 GCATGCTTAACATGTGAATCA
1 GCATGCTTAACATGGGAATCA
11768433 AAGTATTAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 45 0.94
36 3 0.06
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (35 bp):
GCATGCTTAACATGGGAATCAGAATCAGAAAAATA
Found at i:11772213 original size:39 final size:40
Alignment explanation
Indices: 11772146--11772230 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
11772136 TTAACCCAAA
* * *
11772146 AAAAATCATCAATTTAATAATTTATATGCAATGAATTAGT
1 AAAAATCAACAATTCAATAATTTATATGCAATAAATTAGT
* *
11772186 AAAAATCAACAGTTCAA-AATTTTTATGCAATAAATTAGT
1 AAAAATCAACAATTCAATAATTTATATGCAATAAATTAGT
11772225 AAAAAT
1 AAAAAT
11772231 GAGTAATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 26 0.65
40 14 0.35
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (40 bp):
AAAAATCAACAATTCAATAATTTATATGCAATAAATTAGT
Found at i:11773098 original size:20 final size:19
Alignment explanation
Indices: 11773052--11773097 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
11773042 AATGAAATTT
11773052 TTAAAAATTATAAAAAAATA
1 TTAAAAATTAT-AAAAAATA
*
11773072 TTTAAAATTAT-AAAAATCA
1 TTAAAAATTATAAAAAAT-A
11773091 TTAAAAA
1 TTAAAAA
11773098 AAACACTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 7 0.30
20 10 0.43
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAATTATAAAAAATA
Found at i:11775685 original size:22 final size:22
Alignment explanation
Indices: 11775659--11775718 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
11775649 ATTGCCTCCG
*
11775659 GTACTAACATTCTCTATCCCTA
1 GTACTAACATTCTCTATACCTA
* *
11775681 GTACTAACATTCTATATATCTA
1 GTACTAACATTCTCTATACCTA
**
11775703 GTACTGGCATTCTCTA
1 GTACTAACATTCTCTA
11775719 CGAATGACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (22 bp):
GTACTAACATTCTCTATACCTA
Found at i:11779020 original size:69 final size:69
Alignment explanation
Indices: 11778947--11779441 Score: 206
Period size: 69 Copynumber: 7.2 Consensus size: 69
11778937 CTCGCGAGAT
* * * * * *
11778947 TTAATATAACAATTGGGAGCTTCG-TTTTCACTAATTGTGCTGGCGGCTGCGACTCTTCACCTGC
1 TTAATATGACAATTGGGAGCTTCGCTCTT-ACTAACTATGCTGGAGGCTGCGACTCCTCACCTGC
11779011 GAGCC
65 GAGCC
** * * * * *
11779016 TTAATATGACAGCTAGGAGCTTTGCTCTTACTAACTATGTTGGAGGCTGCGGCTCCTCGCCTGCG
1 TTAATATGACAATTGGGAGCTTCGCTCTTACTAACTATGCTGGAGGCTGCGACTCCTCACCTGCG
11779081 AGCC
66 AGCC
* * ** * * ** * ** * *
11779085 TTAATATGACACTTGAGAGCTTTACTCTTGCTAACTATGCTTGG-GGTTATGGCTTTTTACCTAC
1 TTAATATGACAATTGGGAGCTTCGCTCTTACTAACTATGC-TGGAGGCTGCGACTCCTCACCTGC
* **
11779149 AAGTT
65 GAGCC
* ** * ** * * * * * * ** *
11779154 TTAATATGATAGCTAGGAGCTTTTCT-TTCGCTAACTGTGTTGGAGGCTACGGCTCTTTGCTTGC
1 TTAATATGACAATTGGGAGCTTCGCTCTT-ACTAACTATGCTGGAGGCTGCGACTCCTCACCTGC
11779218 GAGCC
65 GAGCC
* * * * * * **
11779223 TTAATATAACACA-TGGGAGCTTTGCTATTACTAACTATGCTGGGGGGCTGTGACTCTTTGCCTG
1 TTAATATGACA-ATTGGGAGCTTCGCTCTTACTAACTATGCT-GGAGGCTGCGACTCCTCACCTG
*
11779287 CGAGCT
64 CGAGCC
** * * * * * * * * * * *
11779293 TTAATATGACAGCTGGGAGCTTTGGTATCACTAACTGTGTTGGAGGTTGTGACTCTTCGCCTGTG
1 TTAATATGACAATTGGGAGCTTCGCTCTTACTAACTATGCTGGAGGCTGCGACTCCTCACCTGCG
*
11779358 AACC
66 AGCC
* * * * * * * * * * * *
11779362 TTAATATGACAACTAGGAGCTTTGCTCTAACTAACTGTGTTAGAGGCTGAGGCTCTTCGCTTGCG
1 TTAATATGACAATTGGGAGCTTCGCTCTTACTAACTATGCTGGAGGCTGCGACTCCTCACCTGCG
11779427 AGCC
66 AGCC
11779431 TTAATATGACA
1 TTAATATGACA
11779442 CGAATGTTGT
Statistics
Matches: 332, Mismatches: 86, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
68 5 0.02
69 263 0.79
70 64 0.19
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (69 bp):
TTAATATGACAATTGGGAGCTTCGCTCTTACTAACTATGCTGGAGGCTGCGACTCCTCACCTGCG
AGCC
Found at i:11779171 original size:138 final size:137
Alignment explanation
Indices: 11778907--11779397 Score: 423
Period size: 138 Copynumber: 3.5 Consensus size: 137
11778897 TTCAATTCTC
* ** ** * * *
11778907 ACTAACTGTGTTGGGGGCTGTAGCTCTTCG-CTCGCGAGATTTAATATAACAATTGGGAGCTTCG
1 ACTAACTGTGTTGGAGGCTGCGGCTCTTCGCCT-GCGAGCCTTAATATGACACTT-GGAGCTTTG
* * * * ** * * * *
11778971 -TTTTCACTAATTGTGCT-GGCGGCTGCGACTCTTCACCTGCGAGCCTTAATATGACAGCTAGGA
64 CTCTT-ACTAACTATGCTGGGGGGCTATGACTCTTTACCTACAAGCTTTAATATGACAGCTAGGA
11779034 GCTTTGCTCTT
128 GCTTTGCT-TT
* * *
11779045 ACTAACTATGTTGGAGGCTGCGGCTCCTCGCCTGCGAGCCTTAATATGACACTTGAGAGCTTTAC
1 ACTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACACTTG-GAGCTTTGC
* * * * * * *
11779110 TCTTGCTAACTATGCT-TGGGGTTATGGCTTTTTACCTACAAGTTTTAATATGATAGCTAGGAGC
65 TCTTACTAACTATGCTGGGGGGCTATGACTCTTTACCTACAAGCTTTAATATGACAGCTAGGAGC
*
11779174 TTTTCTTT
130 TTTGCTTT
* * * * * *
11779182 CGCTAACTGTGTTGGAGGCTACGGCTCTTTGCTTGCGAGCCTTAATATAACACATGGGAGCTTTG
1 -ACTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAC-TTGGAGCTTTG
* * * * * *
11779247 CTATTACTAACTATGCTGGGGGGCTGTGACTCTTTGCCTGCGAGCTTTAATATGACAGCTGGGAG
64 CTCTTACTAACTATGCTGGGGGGCTATGACTCTTTACCTACAAGCTTTAATATGACAGCTAGGAG
* *
11779312 CTTTGGTATC
129 CTTTGCT-TT
* * * * * *
11779322 ACTAACTGTGTTGGAGGTTGTGACTCTTCGCCTGTGAACCTTAATATGACAACTAGGAGCTTTGC
1 ACTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGAC-ACTTGGAGCTTTGC
*
11779387 TCTAACTAACT
65 TCTTACTAACT
11779398 GTGTTAGAGG
Statistics
Matches: 278, Mismatches: 67, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
137 3 0.01
138 164 0.59
139 108 0.39
140 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (137 bp):
ACTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACACTTGGAGCTTTGCT
CTTACTAACTATGCTGGGGGGCTATGACTCTTTACCTACAAGCTTTAATATGACAGCTAGGAGCT
TTGCTTT
Found at i:11784958 original size:23 final size:23
Alignment explanation
Indices: 11784908--11784958 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
11784898 ATACATTTTT
* * *
11784908 CTATTTTTGAGTACCTTAGTTTA
1 CTATTTTGGAGTACCTTAGCTAA
11784931 CTATTTTGGAGTACCTT-GCTAA
1 CTATTTTGGAGTACCTTAGCTAA
11784953 CATATT
1 C-TATT
11784959 ATATCGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.47
Consensus pattern (23 bp):
CTATTTTGGAGTACCTTAGCTAA
Found at i:11790866 original size:20 final size:19
Alignment explanation
Indices: 11790843--11790907 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
11790833 ATAAAAAAAA
11790843 TAAAAGTTACAAAAAATTAT
1 TAAAAGTTA-AAAAAATTAT
**
11790863 TAAATTTTAATAAAAA-TATT
1 TAAAAGTTAA-AAAAATTA-T
11790883 TAAAAGTTATTAAAAAATTA-
1 TAAAAGTTA--AAAAAATTAT
11790903 TAAAA
1 TAAAA
11790908 ATTTGTAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
19 3 0.08
20 25 0.69
21 5 0.14
22 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (19 bp):
TAAAAGTTAAAAAAATTAT
Found at i:11790986 original size:39 final size:39
Alignment explanation
Indices: 11790893--11790986 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
11790883 TAAAAGTTAT
* * *
11790893 TAAAAAATTATAAAAATTTGTAACATTTTATAATAATTA
1 TAAAAAATTATAAAAAATTGTAAAATTTTATAATAATCA
* * * * *
11790932 TAAAATATAACAAAAAATTGTAAAATTTTATAA-AGTCG
1 TAAAAAATTATAAAAAATTGTAAAATTTTATAATAATCA
11790970 TAAGAAAATTATAAAAA
1 TAA-AAAATTATAAAAA
11790987 TTAAGAAATA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
38 5 0.12
39 38 0.88
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (39 bp):
TAAAAAATTATAAAAAATTGTAAAATTTTATAATAATCA
Found at i:11792971 original size:32 final size:32
Alignment explanation
Indices: 11792928--11792996 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
11792918 AGTTACAAAA
11792928 TGGTCA-TCAACTA-TTAGTAAATT-TCTTTTTT
1 TGGTCACTCAACTATTTA--AAATTGTCTTTTTT
11792959 TGGTCACTCAACTATTTAAAATTGTCTTTTTT
1 TGGTCACTCAACTATTTAAAATTGTCTTTTTT
11792991 T-GTCAC
1 TGGTCAC
11792997 CTAATTATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
31 16 0.46
32 16 0.46
33 3 0.09
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.49
Consensus pattern (32 bp):
TGGTCACTCAACTATTTAAAATTGTCTTTTTT
Found at i:11807447 original size:22 final size:22
Alignment explanation
Indices: 11807422--11807464 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11807412 CCGATTTCAA
*
11807422 AACAATCT-ATTTTTATTTGTTT
1 AACAATCTCA-TTATATTTGTTT
11807444 AACAATCTCATTATATTTGTT
1 AACAATCTCATTATATTTGTT
11807465 CTTTTTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (22 bp):
AACAATCTCATTATATTTGTTT
Found at i:11810388 original size:79 final size:81
Alignment explanation
Indices: 11810279--11810461 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
11810269 TACTCGTTCA
* *
11810279 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
11810342 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
11810359 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
11810422 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
11810438 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
11810462 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:11810461 original size:40 final size:40
Alignment explanation
Indices: 11810258--11810461 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
11810248 CGGAATTTAA
** *
11810258 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11810298 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
11810338 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
11810377 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
11810417 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
11810457 CCGGA
1 CCGGA
11810462 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:11819091 original size:49 final size:47
Alignment explanation
Indices: 11818823--11819175 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
11818813 CCCTTCGGGA
* * * *
11818823 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11818870 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11818917 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11818964 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11819011 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11819058 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
11819107 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
11819156 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
11819176 GTACATCAAT
Statistics
Matches: 295, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 203 0.69
49 92 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:11826157 original size:25 final size:25
Alignment explanation
Indices: 11826123--11826230 Score: 114
Period size: 25 Copynumber: 4.3 Consensus size: 25
11826113 AAATCAATCC
*
11826123 AAGCCTTTGTGGC-AAGTTATCTGTA
1 AAGCCTTTGTGGCGAA-TTATCTGAA
11826148 AAGCCTTTGTGGCGAATTATCAT-AA
1 AAGCCTTTGTGGCGAATTATC-TGAA
* *
11826173 AAGCCTTTGTGGC-AAGTTATTTGTA
1 AAGCCTTTGTGGCGAA-TTATCTGAA
* * *
11826198 AAGCTTTTGTGACGAATTATCAGAA
1 AAGCCTTTGTGGCGAATTATCTGAA
11826223 AAGCCTTT
1 AAGCCTTT
11826231 TTGGTGATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
24 3 0.04
25 61 0.88
26 5 0.07
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGCGAATTATCTGAA
Found at i:11826181 original size:50 final size:50
Alignment explanation
Indices: 11826123--11826230 Score: 180
Period size: 50 Copynumber: 2.2 Consensus size: 50
11826113 AAATCAATCC
* *
11826123 AAGCCTTTGTGGCAAGTTATCTGTAAAGCCTTTGTGGCGAATTATCATAA
1 AAGCCTTTGTGGCAAGTTATCTGTAAAGCCTTTGTGACGAATTATCAGAA
* *
11826173 AAGCCTTTGTGGCAAGTTATTTGTAAAGCTTTTGTGACGAATTATCAGAA
1 AAGCCTTTGTGGCAAGTTATCTGTAAAGCCTTTGTGACGAATTATCAGAA
11826223 AAGCCTTT
1 AAGCCTTT
11826231 TTGGTGATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (50 bp):
AAGCCTTTGTGGCAAGTTATCTGTAAAGCCTTTGTGACGAATTATCAGAA
Found at i:11826248 original size:50 final size:50
Alignment explanation
Indices: 11826123--11826248 Score: 171
Period size: 50 Copynumber: 2.5 Consensus size: 50
11826113 AAATCAATCC
* * *
11826123 AAGCCTTTGTGGCAAGTTATCTGTAAAGCCTTTGTGGCGAATTATCATAA
1 AAGCCTTTGTGGCAAGTTATATGTAAAGCCTTTGTGACGAATTATCAGAA
* *
11826173 AAGCCTTTGTGGCAAGTTATTTGTAAAGCTTTTGTGACGAATTATCAGAA
1 AAGCCTTTGTGGCAAGTTATATGTAAAGCCTTTGTGACGAATTATCAGAA
* ** *
11826223 AAGCCTTTTTGGTGATTTATATGTAA
1 AAGCCTTTGTGGCAAGTTATATGTAA
11826249 CGTCATTAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (50 bp):
AAGCCTTTGTGGCAAGTTATATGTAAAGCCTTTGTGACGAATTATCAGAA
Found at i:11831729 original size:43 final size:42
Alignment explanation
Indices: 11831659--11831814 Score: 111
Period size: 43 Copynumber: 3.7 Consensus size: 42
11831649 AACAAGTACA
* ** *
11831659 ATGCCGATGTCCTGGACATGGTTTTACATGTAATTCAATATCG
1 ATGCCTATGTCCCAGACATGGTCTTACA-GTAATTCAATATCG
* * ** *
11831702 ATGCCTCTGTCCCAGACAGGGTCTTACACAAAATCAGATA-CG
1 ATGCCTATGTCCCAGACATGGTCTTACAGTAATTCA-ATATCG
* *
11831744 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTC-A-ATCG
1 ATGCCTATGTCCCAGACATGGTCTTACA-GT-AAT-TCAATATCG
* * * *
11831787 AGGCCTGTGTCCGAGACACGGTCTTACA
1 ATGCCTATGTCCCAGACATGGTCTTACA
11831815 CAATGTCTCA
Statistics
Matches: 86, Mismatches: 22, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 32 0.37
43 50 0.58
44 2 0.02
45 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (42 bp):
ATGCCTATGTCCCAGACATGGTCTTACAGTAATTCAATATCG
Found at i:11831804 original size:85 final size:85
Alignment explanation
Indices: 11831659--11831817 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
11831649 AACAAGTACA
** * * * *
11831659 ATGCCGATGTCCTGGACATGGTTTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAGGGT
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACACGGT
11831724 CTTACACAAAATCAGATACG
66 CTTACACAAAATCAGATACG
* * *
11831744 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCGAGACACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTCTGTCCCAGACACG
11831807 GTCTTACACAA
64 GTCTTACACAA
11831818 TGTCTCAGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 57 0.90
86 4 0.06
87 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (85 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACACGGT
CTTACACAAAATCAGATACG
Found at i:11837778 original size:5 final size:5
Alignment explanation
Indices: 11837768--11837793 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11837758 TCATTTATTC
11837768 TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT T
11837794 TTTGATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:11841371 original size:30 final size:30
Alignment explanation
Indices: 11841335--11841396 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
11841325 AATCGGGAGT
11841335 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
11841365 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
11841395 TT
1 TT
11841397 CAGCTACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:11848329 original size:18 final size:18
Alignment explanation
Indices: 11848306--11848366 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
11848296 ATTGTTCGAT
*
11848306 ATTCAGCAACAATCAGTC
1 ATTCAGTAACAATCAGTC
* *
11848324 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAGTC
*
11848342 ATTCAGTAACAATTAGTC
1 ATTCAGTAACAATCAGTC
11848360 ATTCAGT
1 ATTCAGT
11848367 GCATTTATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (18 bp):
ATTCAGTAACAATCAGTC
Found at i:11849484 original size:36 final size:36
Alignment explanation
Indices: 11849441--11849564 Score: 117
Period size: 36 Copynumber: 3.3 Consensus size: 36
11849431 CCTAACTAAA
11849441 ATCTAATTAACCACTCAATTAACTTTGAGTCCTTAT
1 ATCTAATTAACCACTCAATTAACTTTGAGTCCTTAT
* * * * * * *
11849477 ATCTAATTAA-C-CTTATTTTAAGCTAATTTACCTAACTAAA
1 ATCTAATTAACCACTCA-ATTAA-CT--TTGA-GT-CCTTAT
11849517 ATCTAATTAACCACTCAATTAACTTTGAGTCCTTAT
1 ATCTAATTAACCACTCAATTAACTTTGAGTCCTTAT
11849553 ATCTAATTAACC
1 ATCTAATTAACC
11849565 TTATTTTAAG
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
34 3 0.05
35 5 0.08
36 27 0.41
37 1 0.02
38 6 0.09
39 1 0.02
40 15 0.23
41 5 0.08
42 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (36 bp):
ATCTAATTAACCACTCAATTAACTTTGAGTCCTTAT
Found at i:11849493 original size:76 final size:76
Alignment explanation
Indices: 11849392--11849617 Score: 416
Period size: 76 Copynumber: 3.0 Consensus size: 76
11849382 TATTCAATCT
* *
11849392 AGTCTTTATATCAAATTAACCTTATTTTAAGCTAATTTACCTAACTAAAATCTAATTAACCACTC
1 AGTCCTTATATCTAATTAACCTTATTTTAAGCTAATTTACCTAACTAAAATCTAATTAACCACTC
11849457 AATTAACTTTG
66 AATTAACTTTG
11849468 AGTCCTTATATCTAATTAACCTTATTTTAAGCTAATTTACCTAACTAAAATCTAATTAACCACTC
1 AGTCCTTATATCTAATTAACCTTATTTTAAGCTAATTTACCTAACTAAAATCTAATTAACCACTC
11849533 AATTAACTTTG
66 AATTAACTTTG
* *
11849544 AGTCCTTATATCTAATTAACCTTATTTTAAGCTAATTTACCTAACTAAAATCAAATAAACCACTC
1 AGTCCTTATATCTAATTAACCTTATTTTAAGCTAATTTACCTAACTAAAATCTAATTAACCACTC
11849609 AATTAACTT
66 AATTAACTT
11849618 CGTAAATATT
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 146 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.38
Consensus pattern (76 bp):
AGTCCTTATATCTAATTAACCTTATTTTAAGCTAATTTACCTAACTAAAATCTAATTAACCACTC
AATTAACTTTG
Found at i:11855133 original size:41 final size:41
Alignment explanation
Indices: 11855088--11855170 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
11855078 ACCAAAAGTT
11855088 CATCACATACCGAGGTCATTTAGATGAGCTTTTCGTACATA
1 CATCACATACCGAGGTCATTTAGATGAGCTTTTCGTACATA
* *
11855129 CATCACATACCGAGGTCATTTAGATGAGTTTTTCTTACATA
1 CATCACATACCGAGGTCATTTAGATGAGCTTTTCGTACATA
11855170 C
1 C
11855171 TTTTACCAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (41 bp):
CATCACATACCGAGGTCATTTAGATGAGCTTTTCGTACATA
Found at i:11857481 original size:18 final size:18
Alignment explanation
Indices: 11857458--11857514 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
11857448 ATTGTTATTT
*
11857458 AGTAACAATCAGTCATTC
1 AGTAACAATCAATCATTC
* *
11857476 AGTAACAATTAATTATTC
1 AGTAACAATCAATCATTC
* * *
11857494 AGTAATAACCGATCATTC
1 AGTAACAATCAATCATTC
11857512 AGT
1 AGT
11857515 GCATTTATCT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (18 bp):
AGTAACAATCAATCATTC
Found at i:11858580 original size:16 final size:17
Alignment explanation
Indices: 11858551--11858592 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11858541 TTGTTCTTTA
*
11858551 ATTCTATTTCTTTC-TC
1 ATTCTTTTTCTTTCTTC
* *
11858567 ATTCTTTTTGTTTCTTT
1 ATTCTTTTTCTTTCTTC
11858584 ATTCTTTTT
1 ATTCTTTTT
11858593 TTATTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (17 bp):
ATTCTTTTTCTTTCTTC
Found at i:11858605 original size:19 final size:17
Alignment explanation
Indices: 11858539--11858592 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
11858529 CTTTCCCTTG
11858539 TTTTG-TTCTTTAATTCT
1 TTTTGTTTCTTT-ATTCT
* * *
11858556 ATTTCTTTC-TCATTCT
1 TTTTGTTTCTTTATTCT
11858572 TTTTGTTTCTTTATTCT
1 TTTTGTTTCTTTATTCT
11858589 TTTT
1 TTTT
11858593 TTATTCTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 12 0.41
17 14 0.48
18 3 0.10
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTGTTTCTTTATTCT
Found at i:11862422 original size:30 final size:30
Alignment explanation
Indices: 11862378--11862439 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
11862368 TTTAACAAGA
11862378 AAATATCTCTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
* *
11862408 AAATCTCTTTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
11862438 AA
1 AA
11862440 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAC
Found at i:11862489 original size:14 final size:14
Alignment explanation
Indices: 11862470--11862500 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11862460 ATCCAAACAA
11862470 TAACAACAAAATAG
1 TAACAACAAAATAG
*
11862484 TAACAACATAATAG
1 TAACAACAAAATAG
11862498 TAA
1 TAA
11862501 AATAGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:11862524 original size:22 final size:22
Alignment explanation
Indices: 11862477--11862524 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
11862467 CAATAACAAC
* *
11862477 AAAATAGTAACAACATAATAGT
1 AAAATAGTAACAAAATAAGAGT
*
11862499 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAACAAAATA-AGAGT
11862521 AAAA
1 AAAA
11862525 CAACAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (22 bp):
AAAATAGTAACAAAATAAGAGT
Found at i:11864359 original size:18 final size:18
Alignment explanation
Indices: 11864336--11864453 Score: 60
Period size: 18 Copynumber: 6.6 Consensus size: 18
11864326 TTTATCAGTT
11864336 TCATTCAGTAACATTCAA
1 TCATTCAGTAACATTCAA
* *
11864354 TCATTCAATAACAATT-AG
1 TCATTCAGTAAC-ATTCAA
* * * *
11864372 TCGTTCAATAATACTCAA
1 TCATTCAGTAACATTCAA
* ** * *
11864390 TCACTCTTTAACAGTCAG
1 TCATTCAGTAACATTCAA
* *
11864408 TTATTCAGTAACGA-TAAA
1 TCATTCAGTAAC-ATTCAA
* *
11864426 TTATTCAGTAACAATCAA
1 TCATTCAGTAACATTCAA
*
11864444 TTATTCAGTA
1 TCATTCAGTA
11864454 GCAGTCAGTT
Statistics
Matches: 76, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
17 3 0.04
18 69 0.91
19 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.35
Consensus pattern (18 bp):
TCATTCAGTAACATTCAA
Found at i:11864465 original size:18 final size:18
Alignment explanation
Indices: 11864398--11864507 Score: 123
Period size: 18 Copynumber: 6.1 Consensus size: 18
11864388 AATCACTCTT
11864398 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
11864416 TAAC-GATAAATTATTCAG
1 TAACAG-TCAGTTATTCAG
* *
11864434 TAACAATCAATTATTCAG
1 TAACAGTCAGTTATTCAG
* *
11864452 TAGCAGTCAGTTATCCAG
1 TAACAGTCAGTTATTCAG
11864470 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* **
11864488 CAGTAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
11864506 TA
1 TA
11864508 TCTTTATTTA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
17 1 0.01
18 75 0.99
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Done.