Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 386 of 410
Found at i:117143946 original size:15 final size:15
Alignment explanation
Indices: 117143926--117143956 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
117143916 AATATATCGT
117143926 AAACCATTCAATCAC
1 AAACCATTCAATCAC
117143941 AAACCATTCAATCAC
1 AAACCATTCAATCAC
117143956 A
1 A
117143957 TACATTTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.19
Consensus pattern (15 bp):
AAACCATTCAATCAC
Found at i:117147041 original size:70 final size:70
Alignment explanation
Indices: 117146964--117147103 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
117146954 AAACAAATTA
117146964 TTTTATTAATAAAATAGGTCAACAAGTATACGGTTAAAATAATCTTATAATTGGTATTTGGACAT
1 TTTTATTAATAAAATAGGTCAACAAGTATACGGTTAAAATAATCTTATAATTGGTATTTGGACAT
117147029 ACTCC
66 ACTCC
*
117147034 TTTTATTAATAAAATAGGTCAACAGGTATACGGTTAAAATAATCTTATAATTGGTATTTGGACAT
1 TTTTATTAATAAAATAGGTCAACAAGTATACGGTTAAAATAATCTTATAATTGGTATTTGGACAT
117147099 ACTCC
66 ACTCC
117147104 AACAGTCAGG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (70 bp):
TTTTATTAATAAAATAGGTCAACAAGTATACGGTTAAAATAATCTTATAATTGGTATTTGGACAT
ACTCC
Found at i:117148968 original size:18 final size:18
Alignment explanation
Indices: 117148947--117148989 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
117148937 TTTATCATTA
**
117148947 TTCTTCTTTTCTTTTCTT
1 TTCTTCTTTTCGATTCTT
*
117148965 TTCTTTTTTTCGATTCTT
1 TTCTTCTTTTCGATTCTT
117148983 TT-TTCTT
1 TTCTTCTT
117148990 CATTTTGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (18 bp):
TTCTTCTTTTCGATTCTT
Found at i:117152377 original size:43 final size:43
Alignment explanation
Indices: 117152242--117152392 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 43
117152232 ATAGGATTCT
* *
117152242 GATATTTGATTTTGTGTAAGACCAC-GTCTGGGACGTTGGCATC
1 GATATTTGATTTCGTGTAAGACC-CTGTCTGGGACATTGGCATC
* *
117152285 GAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATT-TGATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATC
* * *
117152329 -ATATTTGATTTCGTGTAAGACCCTGTTTGGGACAATAGCATC
1 GATATTTGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATC
* *
117152371 GATATTTGATTACATGTAAGAC
1 GATATTTGATTTCGTGTAAGAC
117152393 AGCTTTCCGA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
42 29 0.32
43 34 0.37
44 29 0.32
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
GATATTTGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATC
Found at i:117152867 original size:32 final size:32
Alignment explanation
Indices: 117152831--117152927 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
117152821 TGTATGCATT
117152831 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
117152863 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
117152895 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
117152927 T
1 T
117152928 GATAAGCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:117154442 original size:26 final size:26
Alignment explanation
Indices: 117154413--117154465 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
117154403 TTTACAGTTT
117154413 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
117154439 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
117154465 T
1 T
117154466 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:117159368 original size:76 final size:76
Alignment explanation
Indices: 117159286--117159438 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
117159276 AGATGAACCC
117159286 TATAATGAATTTTATCTTTTGATTTCTGTTTTACACAATAAATACTTAGATCTTGTTCTCAATTT
1 TATAATGAATTTTATCTTTTGATTTCTGTTTTACACAATAAATACTTAGATCTTGTTCTCAATTT
117159351 TGTGTGCTTAG
66 TGTGTGCTTAG
117159362 TATAATGAATTTTATCTTTTGATTTCTGTTTTACACAATAAATACTTAGATCTTGTTCTCAATTT
1 TATAATGAATTTTATCTTTTGATTTCTGTTTTACACAATAAATACTTAGATCTTGTTCTCAATTT
117159427 TGTGTGCTTAG
66 TGTGTGCTTAG
117159438 T
1 T
117159439 TATTGGTTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (76 bp):
TATAATGAATTTTATCTTTTGATTTCTGTTTTACACAATAAATACTTAGATCTTGTTCTCAATTT
TGTGTGCTTAG
Found at i:117159415 original size:36 final size:36
Alignment explanation
Indices: 117159299--117159415 Score: 89
Period size: 36 Copynumber: 3.1 Consensus size: 36
117159289 AATGAATTTT
117159299 ATCTTTTGATTTCTGTTTTACACAATAAATACTTAG
1 ATCTTTTGATTTCTGTTTTACACAATAAATACTTAG
* * * * *
117159335 ATCTTGTTCTCAATTT-TGTGTGCTTAGTATAATGAAT--TT-T
1 ATC-T-TT-T-GATTTCTGT-T--TTA-CACAATAAATACTTAG
117159375 ATCTTTTGATTTCTGTTTTACACAATAAATACTTAG
1 ATCTTTTGATTTCTGTTTTACACAATAAATACTTAG
117159411 ATCTT
1 ATCTT
117159416 GTTCTCAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 24
0.63 0.11 0.26
Matches are distributed among these distances:
33 7 0.12
34 3 0.05
35 2 0.03
36 13 0.22
37 5 0.08
38 4 0.07
39 5 0.08
40 8 0.14
41 2 0.03
42 3 0.05
43 7 0.12
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (36 bp):
ATCTTTTGATTTCTGTTTTACACAATAAATACTTAG
Found at i:117159876 original size:12 final size:13
Alignment explanation
Indices: 117159859--117159887 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
117159849 ATATATATTT
117159859 ATACGGGTT-AAA
1 ATACGGGTTGAAA
117159871 ATACGGGTTGAAA
1 ATACGGGTTGAAA
117159884 ATAC
1 ATAC
117159888 CCGTGATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (13 bp):
ATACGGGTTGAAA
Found at i:117160440 original size:80 final size:75
Alignment explanation
Indices: 117160348--117160586 Score: 238
Period size: 80 Copynumber: 3.2 Consensus size: 75
117160338 ATAATTGTTT
* * * *
117160348 TAAAATTGTTTTGTTAGTAATTTAGGATTATATTATAAATTGTT-GTGTTTAGTTTAGTATGTTG
1 TAAAATTATTTTGTTAGTAATTTAGGATTAGATTATAAATTGTTAGTATTT--TGT-GT-T-TTG
117160412 TGATTTTTTATTAATG
61 TGA-TTTTTATTAATG
* *
117160428 TAAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTATTTTGTGTTTTGTGATT
1 TAAAATTATTTTGTTAGTAATTTAGGATTAGATTATAAATTGTTAGTATTTTGTGTTTTGTGATT
117160493 TTTATTAATG
66 TTTATTAATG
* * * * ** *
117160503 TAAAATTATTTTGTTAATTATTT-TG-TTAG-TAATTTA-TGTTAGTGTTTTGTGTTTTGTGATT
1 TAAAATTATTTTGTTAGTAATTTAGGATTAGATTATAAATTGTTAGTATTTTGTGTTTTGTGA--
*
117160564 TTTTTAGTAATG
64 TTTTTATTAATG
117160576 T-AAATTATTTT
1 TAAAATTATTTT
117160587 TAAAAAATAT
Statistics
Matches: 143, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
71 22 0.15
72 14 0.10
73 16 0.11
74 2 0.01
75 33 0.23
76 6 0.04
77 1 0.01
78 2 0.01
79 2 0.01
80 40 0.28
81 5 0.03
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (75 bp):
TAAAATTATTTTGTTAGTAATTTAGGATTAGATTATAAATTGTTAGTATTTTGTGTTTTGTGATT
TTTATTAATG
Found at i:117160445 original size:40 final size:39
Alignment explanation
Indices: 117160401--117160518 Score: 104
Period size: 40 Copynumber: 3.1 Consensus size: 39
117160391 TGTGTTTAGT
117160401 TTAGTATGTTGTGATTTTTTATTAATGTAAAATTATTTTG
1 TTAGTAT-TTGTGATTTTTTATTAATGTAAAATTATTTTG
* ** * * *
117160441 TTAGTAATTTATGATTAGGTTATAAATTGT--TAGTATTTTG
1 TTAGT-ATTTGTGATT-TTTTATTAA-TGTAAAATTATTTTG
117160481 -T-GT-TTTGTGA-TTTTTATTAATGTAAAATTATTTTG
1 TTAGTATTTGTGATTTTTTATTAATGTAAAATTATTTTG
117160516 TTA
1 TTA
117160519 ATTATTTTGT
Statistics
Matches: 59, Mismatches: 12, Indels: 17
0.67 0.14 0.19
Matches are distributed among these distances:
33 3 0.05
34 6 0.10
35 9 0.15
36 7 0.12
38 2 0.03
39 1 0.02
40 20 0.34
41 8 0.14
42 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (39 bp):
TTAGTATTTGTGATTTTTTATTAATGTAAAATTATTTTG
Found at i:117160523 original size:12 final size:12
Alignment explanation
Indices: 117160506--117160530 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
117160496 ATTAATGTAA
117160506 AATTATTTTGTT
1 AATTATTTTGTT
117160518 AATTATTTTGTT
1 AATTATTTTGTT
117160530 A
1 A
117160531 GTAATTTATG
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:117160527 original size:87 final size:88
Alignment explanation
Indices: 117160431--117160788 Score: 259
Period size: 87 Copynumber: 3.9 Consensus size: 88
117160421 ATTAATGTAA
117160431 AATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTA-TTTTGTGTTTTGTGA-TTT
1 AATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTATTTTTGTGTTTTGTGATTTT
117160494 TTATTAATGTAAAATTATTTTGTT
66 TTATTAATGTAAAATTATTTT-TT
* *** * ** *
117160518 AATTATTTTGTTAGTAATTTATG-TTAGTGTTTTGTGTT-TT-GTGATTTTTTTAGTAATGTAAA
1 AATTATTTTGTTAGTAATTTATGATTAG-GTTATAAATTGTTAGT-ATTTTTGT-GTTTTGT-GA
*
117160580 TTATTT-TTAA---AAAA-TATTTTTT
62 TTTTTTATTAATGTAAAATTATTTTTT
* * *
117160602 ATAGTTTTTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTATTTAGTTTAGGGTTTTGT
1 A-A-TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTA-TT--TTT-GTGTTTTGT
* *
117160667 GATTTTTTAGTAATGTAATTTAAAAATAATAATTTTAT
60 GA-TTTTT--T-AT-TAATGT-AAAAT--T-ATTTTTT
* * *
117160705 AGTTATTTTGTTAGTAATTTATAATTAGGTTATCTAAATTGTTAGTGTTTAGTTTTGTGTTTTGT
1 AATTATTTTGTTAGTAATTTATGATTAGGTTA--TAAATTGTTA--G--TATTTTTGTGTTTTGT
117160770 GATTTTTTATTAATGTAAA
60 GATTTTTTATTAATGTAAA
117160789 TTTTTTATAA
Statistics
Matches: 207, Mismatches: 29, Indels: 60
0.70 0.10 0.20
Matches are distributed among these distances:
84 3 0.01
85 9 0.04
86 36 0.17
87 41 0.20
88 9 0.04
89 6 0.03
90 16 0.08
92 1 0.00
94 1 0.00
95 3 0.01
97 3 0.01
98 5 0.02
99 6 0.03
100 1 0.00
101 27 0.13
102 6 0.03
103 27 0.13
104 3 0.01
105 1 0.00
106 1 0.00
107 2 0.01
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (88 bp):
AATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTATTTTTGTGTTTTGTGATTTT
TTATTAATGTAAAATTATTTTTT
Found at i:117160769 original size:103 final size:102
Alignment explanation
Indices: 117160546--117160792 Score: 318
Period size: 103 Copynumber: 2.4 Consensus size: 102
117160536 TTATGTTAGT
* * *
117160546 GTTTTGTGTTTTGTGATTTTTTTAGTAATGTAAATTATTTTTAAAAAATATTTTTTATAGTTTTT
1 GTTTTGTGTTTTGTGA-TTTTTTAGTAATGT--A--ATTTTAAAAAAATATATTTTATAGTTATT
*
117160611 TTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTATTTA
61 TTGTTAGTAATTTATAATTAGTTTATAAATTGTTAGTATTTA
* *
117160653 GTTTAGGGTTTTGTGATTTTTTAGTAATGTAA-TTTAAAAATAATA-ATTTTATAGTTATTTTGT
1 GTTTTGTGTTTTGTGATTTTTTAGTAATGTAATTTTAAAAA-AATATATTTTATAGTTATTTTGT
* *
117160716 TAGTAATTTATAATTAGGTTATCTAAATTGTTAGTGTTTA
65 TAGTAATTTATAATTA-GTT-TATAAATTGTTAGTATTTA
*
117160756 GTTTTGTGTTTTGTGATTTTTTATTAATGTAAATTTT
1 GTTTTGTGTTTTGTGATTTTTTAGTAATGT-AATTTT
117160793 TTATAATCTA
Statistics
Matches: 124, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
101 38 0.31
102 8 0.06
103 44 0.35
104 3 0.02
105 3 0.02
106 14 0.11
107 14 0.11
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (102 bp):
GTTTTGTGTTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAATATATTTTATAGTTATTTTGTT
AGTAATTTATAATTAGTTTATAAATTGTTAGTATTTA
Found at i:117163182 original size:78 final size:77
Alignment explanation
Indices: 117162928--117163251 Score: 425
Period size: 78 Copynumber: 4.1 Consensus size: 77
117162918 TAATTTAAAT
* * ** * *
117162928 AACTTTATATTTATATAATGACTTTTTTTTCATTTTAGTTATTAATTTTAGGG-GTTTTTTTGCA
1 AACTTTGTATTTATGTAATGACTTTTTCGTCATTTCAGTTATTAATTTTAGGGTTTTTTTTTGCA
117162992 ATTTAAATAGTC
66 ATTTAAATAGTC
* * *
117163004 AACTTTGTATTTATGTAATGACTTTTTCGCCATTTCAATTATTAATTTTAAGGTTTTTTTTTTTT
1 AACTTTGTATTTATGTAATGACTTTTTCGTCATTTCAGTTATTAATTTT-AGG----GTTTTTTT
*
117163069 TTGCAATTTACATAGTC
61 TTGCAATTTAAATAGTC
* * *
117163086 AACTTTGTATTTAGGTAATGACTTTTTTGTCATTTCAGTTATTAACTTTAGGGTCTTTTTTTTGC
1 AACTTTGTATTTATGTAATGACTTTTTCGTCATTTCAGTTATTAATTTTAGGGT-TTTTTTTTGC
117163151 AATTTAAATAGTC
65 AATTTAAATAGTC
* * *
117163164 AATTTTGTATTTATGTAATGACTTTTTCGTCATTTCAGTTATTAATTTTTGGGTTTTTTTTTGTA
1 AACTTTGTATTTATGTAATGACTTTTTCGTCATTTCAGTTATTAATTTTAGGGTTTTTTTTTGCA
* *
117163229 ATTTAAATAATA
66 ATTTAAATAGTC
117163241 AACTTTGTATT
1 AACTTTGTATT
117163252 ATTTACGTAA
Statistics
Matches: 215, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
76 42 0.20
77 34 0.16
78 71 0.33
81 3 0.01
82 65 0.30
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (77 bp):
AACTTTGTATTTATGTAATGACTTTTTCGTCATTTCAGTTATTAATTTTAGGGTTTTTTTTTGCA
ATTTAAATAGTC
Found at i:117163200 original size:160 final size:158
Alignment explanation
Indices: 117162928--117163225 Score: 470
Period size: 160 Copynumber: 1.9 Consensus size: 158
117162918 TAATTTAAAT
* * * *
117162928 AACTTTATATTTATATAATGACTTTTTTTTCATTTTAGTTATTAATTTTAGGGGTTTTTTTGCAA
1 AACTTTATATTTAGATAATGACTTTTTTGTCATTTCAGTTATTAACTTTAGGGGTTTTTTTGCAA
117162993 TTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCCATTTCAATTATTAATTTTAAGGT
66 TTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCCATTTCAATTATTAATTTTAAGGT
117163058 TTTTTTTTTTTTTGCAATTTACATAGTC
131 TTTTTTTTTTTTTGCAATTTACATAGTC
* * *
117163086 AACTTTGTATTTAGGTAATGACTTTTTTGTCATTTCAGTTATTAACTTTAGGGTCTTTTTTTTGC
1 AACTTTATATTTAGATAATGACTTTTTTGTCATTTCAGTTATTAACTTTAGGG--GTTTTTTTGC
* * * **
117163151 AATTTAAATAGTCAATTTTGTATTTATGTAATGACTTTTTCGTCATTTCAGTTATTAATTTTTGG
64 AATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCCATTTCAATTATTAATTTTAAG
117163216 GTTTTTTTTT
129 GTTTTTTTTT
117163226 GTAATTTAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
158 47 0.37
160 79 0.63
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (158 bp):
AACTTTATATTTAGATAATGACTTTTTTGTCATTTCAGTTATTAACTTTAGGGGTTTTTTTGCAA
TTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCCATTTCAATTATTAATTTTAAGGT
TTTTTTTTTTTTTGCAATTTACATAGTC
Found at i:117171571 original size:21 final size:21
Alignment explanation
Indices: 117171545--117171585 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
117171535 AATTTTTTAT
*
117171545 CTGAACCTCGAACCTTGAACC
1 CTGAACCTCAAACCTTGAACC
*
117171566 CTGAACCTTAAACCTTGAAC
1 CTGAACCTCAAACCTTGAAC
117171586 TTCGATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.34, G:0.12, T:0.22
Consensus pattern (21 bp):
CTGAACCTCAAACCTTGAACC
Found at i:117171579 original size:7 final size:7
Alignment explanation
Indices: 117171546--117171585 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
117171536 ATTTTTTATC
117171546 TGAACCT
1 TGAACCT
*
117171553 CGAACCT
1 TGAACCT
*
117171560 TGAACCC
1 TGAACCT
117171567 TGAACCT
1 TGAACCT
*
117171574 TAAACCT
1 TGAACCT
117171581 TGAAC
1 TGAAC
117171586 TTCGATGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.12, T:0.23
Consensus pattern (7 bp):
TGAACCT
Found at i:117171705 original size:21 final size:20
Alignment explanation
Indices: 117171655--117171716 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
117171645 TAGGTTACGT
* *
117171655 GTTTGGAGTTCAAGGTTTGT
1 GTTTAGAGTTCAAGGTTTGG
*
117171675 GTTTAAAGTTCAAAGGTTTGAG
1 GTTTAGAGTTC-AAGGTTTG-G
* *
117171697 GTTT-GAGTTTAGGGTTTGG
1 GTTTAGAGTTCAAGGTTTGG
117171716 G
1 G
117171717 GCACGGGCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.06
20 16 0.47
21 12 0.35
22 4 0.12
ACGTcount: A:0.19, C:0.03, G:0.35, T:0.42
Consensus pattern (20 bp):
GTTTAGAGTTCAAGGTTTGG
Found at i:117174671 original size:28 final size:31
Alignment explanation
Indices: 117174630--117174690 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
117174620 AATAATTTTA
*
117174630 TTAATTATTGAAAAT-TT-TAAATATATATT
1 TTAATTATTAAAAATATTATAAATATATATT
*
117174659 TTAATT-TTAAAAATATTATATATATATATT
1 TTAATTATTAAAAATATTATAAATATATATT
117174689 TT
1 TT
117174691 TTCATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 8 0.29
30 13 0.46
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (31 bp):
TTAATTATTAAAAATATTATAAATATATATT
Found at i:117175197 original size:36 final size:37
Alignment explanation
Indices: 117175145--117175215 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
117175135 TCCTATTTTT
*
117175145 ATATATAAAAATATTTACACATAATATAATTTAGTAC
1 ATATATAAAAATATTTACACATAACATAATTTAGTAC
* *
117175182 ATATAT-AAAATATTTACGCATAACATATTTTAGT
1 ATATATAAAAATATTTACACATAACATAATTTAGT
117175216 GTAGTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.39
Consensus pattern (37 bp):
ATATATAAAAATATTTACACATAACATAATTTAGTAC
Found at i:117175229 original size:36 final size:35
Alignment explanation
Indices: 117175147--117175229 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
117175137 CTATTTTTAT
* *
117175147 ATATAAAAATATTTACACATAATATAATTTAGTAC
1 ATATATAAATATTTACACATAACATAATTTAGTAC
* * **
117175182 ATATATAAAATATTTACGCATAACATATTTTAGTGT
1 ATATAT-AAATATTTACACATAACATAATTTAGTAC
117175218 AGTATATAAATA
1 A-TATATAAATA
117175230 AATTGTTCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 5 0.12
36 30 0.75
37 5 0.12
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (35 bp):
ATATATAAATATTTACACATAACATAATTTAGTAC
Found at i:117175924 original size:66 final size:67
Alignment explanation
Indices: 117175791--117175937 Score: 172
Period size: 66 Copynumber: 2.2 Consensus size: 67
117175781 AATCGTTATT
* *** * *
117175791 CATTTATAAAATCTTAGTATTGTATTAGAATTACCATAATAATTGTACTACAATCACCATTCATT
1 CATTTATAAAATCTTAATACAATATTAGAATCACCATAATAATTATACTACAATCACCATTCATT
117175856 TA
66 TA
* * *
117175858 CATTTATAAAATCTTAATACAATATTA-AATCACCATAATAATTATATTGA-AATCGCCTTTCAT
1 CATTTATAAAATCTTAATACAATATTAGAATCACCATAATAATTATACT-ACAATCACCATTCAT
117175921 TTA
65 TTA
**
117175924 CATTTGCAAAATCT
1 CATTTATAAAATCT
117175938 ATTTCCATTT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
66 44 0.65
67 24 0.35
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (67 bp):
CATTTATAAAATCTTAATACAATATTAGAATCACCATAATAATTATACTACAATCACCATTCATT
TA
Found at i:117176892 original size:9 final size:9
Alignment explanation
Indices: 117176878--117176964 Score: 58
Period size: 9 Copynumber: 10.0 Consensus size: 9
117176868 TTCGGGAACA
117176878 AAGAAGGAG
1 AAGAAGGAG
117176887 AAGAA-GA-
1 AAGAAGGAG
*
117176894 AA-AA-GAA
1 AAGAAGGAG
117176901 AAGAAGGAG
1 AAGAAGGAG
117176910 AAGAAGGA-
1 AAGAAGGAG
117176918 AAGAAGAGATG
1 AAGAAG-GA-G
**
117176929 AAGAATAAG
1 AAGAAGGAG
*
117176938 AAGGAGGAG
1 AAGAAGGAG
* *
117176947 GAGGAGGAG
1 AAGAAGGAG
*
117176956 GAGAAGGAG
1 AAGAAGGAG
117176965 GCCGGCACTT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
6 4 0.06
7 4 0.06
8 10 0.16
9 40 0.62
10 1 0.02
11 5 0.08
ACGTcount: A:0.56, C:0.00, G:0.41, T:0.02
Consensus pattern (9 bp):
AAGAAGGAG
Found at i:117176893 original size:3 final size:3
Alignment explanation
Indices: 117176878--117176940 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
117176868 TTCGGGAACA
* * * *
117176878 AAG AAG GAG AAG AAG AAA AAG AA- AAG AAG GAG AAG AAG GA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
117176924 -AG ATG AAG AAT AAG AAG
1 AAG AAG AAG AAG AAG AAG
117176941 GAGGAGGAGG
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
2 5 0.11
3 40 0.89
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:117176903 original size:23 final size:25
Alignment explanation
Indices: 117176892--117176942 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
117176882 AGGAGAAGAA
117176892 GAAA-AAGAAAAGAAGGAGAAGAAG
1 GAAAGAAGAAAAGAAGGAGAAGAAG
* * * *
117176916 GAAAGAAGAGATGAAGAATAAGAAG
1 GAAAGAAGAAAAGAAGGAGAAGAAG
117176941 GA
1 GA
117176943 GGAGGAGGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (25 bp):
GAAAGAAGAAAAGAAGGAGAAGAAG
Found at i:117176911 original size:17 final size:17
Alignment explanation
Indices: 117176885--117176943 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
117176875 ACAAAGAAGG
* *
117176885 AGAAGAAGAAAAAGAAA
1 AGAAGGAGAAGAAGAAA
*
117176902 AGAAGGAGAAGAAGGAA
1 AGAAGGAGAAGAAGAAA
*
117176919 AGAA-GAGATGAAGAATA
1 AGAAGGAGAAGAAGAA-A
117176936 AGAAGGAG
1 AGAAGGAG
117176944 GAGGAGGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 9 0.26
17 23 0.66
18 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (17 bp):
AGAAGGAGAAGAAGAAA
Found at i:117176931 original size:16 final size:17
Alignment explanation
Indices: 117176878--117176943 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
117176868 TTCGGGAACA
117176878 AAGAAGGAGAAGAA-GA-
1 AAGAAGGA-AAGAAGGAG
*
117176894 AA-AAGAAAAGAAGGAG
1 AAGAAGGAAAGAAGGAG
117176910 AAGAAGGAAAGAA-GAG
1 AAGAAGGAAAGAAGGAG
* *
117176926 ATGAAGAATAAGAAGGAG
1 AAGAAGGA-AAGAAGGAG
117176944 GAGGAGGAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.12
15 6 0.15
16 13 0.32
17 14 0.34
18 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (17 bp):
AAGAAGGAAAGAAGGAG
Found at i:117177455 original size:15 final size:15
Alignment explanation
Indices: 117177435--117177496 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
117177425 AAAAATAGTA
117177435 TAAAAAATAAAATAC
1 TAAAAAATAAAATAC
*** *
117177450 TAAAAAATATGTTAA
1 TAAAAAATAAAATAC
117177465 TAAAAAATAAAATAC
1 TAAAAAATAAAATAC
*
117177480 GAGAAGAAATAAAATAC
1 TA-AA-AAATAAAATAC
117177497 GAAATTTTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 23 0.64
16 2 0.06
17 11 0.31
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (15 bp):
TAAAAAATAAAATAC
Found at i:117177618 original size:15 final size:16
Alignment explanation
Indices: 117177599--117177661 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 16
117177589 TAAATAATAT
*
117177599 AAAAAAATAAAATACG
1 AAAATAATAAAATACG
* ***
117177615 AAAATAAT-ATATTTT
1 AAAATAATAAAATACG
*
117177630 AAAA-AATAATATACG
1 AAAATAATAAAATACG
117177645 AAAATAA-AAAATACG
1 AAAATAATAAAATACG
117177660 AA
1 AA
117177662 TAAAGTGCTA
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
14 3 0.08
15 24 0.67
16 9 0.25
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (16 bp):
AAAATAATAAAATACG
Found at i:117177685 original size:149 final size:149
Alignment explanation
Indices: 117177514--117178530 Score: 1396
Period size: 150 Copynumber: 6.9 Consensus size: 149
117177504 TTTTTTTGGG
*
117177514 AAAGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAATAATACATTTGAAAC
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAATAATACATTTGAAAC
*
117177579 ATTTTTTGCTTAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC
66 ATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC
117177644 GAAAATAAAAAATACGAAT
131 GAAAATAAAAAATACGAAT
* ** *
117177663 AAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAATAATACTTAAATAATACATTTGAAA
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAA-AAAACTTAAATAATACATTTGAAA
* * * ** * * *
117177728 CATTATGTACTAAAATAATATAAAAAAATAAAATATAAAAATATTATATTTTAAAAAATAAAATC
65 CATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATA
*
117177793 CGAAAATAAAAAAATACGAAC
130 CGAAAAT-AAAAAATACGAAT
* *
117177814 AAAGTGCCAAAGTCAGGGTTATTTATTAAATTAATAT--AAAAACTTAAATAATACATTTGAAGC
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAATAATACATTTGAAAC
* *
117177877 ATTTTTTGCTAAAATAATAT--AAAAATAATATATGAAAATAATATATTTTAAAAAATAATATAC
66 ATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC
117177940 GAAAATAAAAAATACGAAT
131 GAAAATAAAAAATACGAAT
** ** * *
117177959 AAAGTGTTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAAACACTTAAAGAATATATTTGAA
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAA-ACTTAAATAATACATTTGAA
* * * * *
117178024 ACATTATTTACTAAAATAATATAAAGAAATAAAATACGAAAATAAAATATTTTAAAAAATAAGAT
64 ACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATAT
117178089 ACGAAAAT-----A-A--AA-
129 ACGAAAATAAAAAATACGAAT
117178101 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAAA
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGAAA
117178166 CATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTT-AAAAATAATATA
65 CATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATA
117178230 CGAAAATAAAAAATACGAAT
130 CGAAAATAAAAAATACGAAT
**
117178250 AAAGTGTTAAAATCAGGGTTATTTATTAAA--AATATAAAAAAAAACTTAAATAATACATTTGAA
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT--AAAAAAACTTAAATAATACATTTGAA
* * * * ** * *
117178313 ACATTATGTACTGAAATAATATAATGAAATAAAATACGAAAATAATATCTTTTAAAAAATAAGAT
64 ACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATAT
* *
117178378 ACGAAAATAAAAAAATATGAAG
129 ACGAAAAT-AAAAAATACGAAT
* *
117178400 AAAGTGCCAAAATCAGGGTTATTTATTAAGTTAATATAAAAAACACTTAAATTATACATTTGAAA
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGAAA
117178465 CATTTTTTGC-----T-ATAT-AAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATA
65 CATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATA
117178523 CGAAAATA
130 CGAAAATA
117178531 TTTTACTTAT
Statistics
Matches: 765, Mismatches: 79, Indels: 54
0.85 0.09 0.06
Matches are distributed among these distances:
140 18 0.02
141 74 0.10
142 33 0.04
143 3 0.00
144 46 0.06
145 50 0.07
146 47 0.06
147 5 0.01
148 112 0.15
149 126 0.16
150 130 0.17
151 116 0.15
152 5 0.01
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (149 bp):
AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAATAATACATTTGAAAC
ATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATAC
GAAAATAAAAAATACGAAT
Found at i:117177764 original size:15 final size:15
Alignment explanation
Indices: 117177744--117177791 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
117177734 GTACTAAAAT
117177744 AATATAAAAAAATAA
1 AATATAAAAAAATAA
* *
117177759 AATATAAAAATATTA
1 AATATAAAAAAATAA
* * *
117177774 TATTTTAAAAAATAA
1 AATATAAAAAAATAA
117177789 AAT
1 AAT
117177792 CCGAAAATAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATATAAAAAAATAA
Found at i:117177903 original size:11 final size:12
Alignment explanation
Indices: 117177887--117177921 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
117177877 ATTTTTTGCT
117177887 AAAATAATATA-
1 AAAATAATATAG
117177898 AAAATAATATATG
1 AAAATAATATA-G
117177911 AAAATAATATA
1 AAAATAATATA
117177922 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (12 bp):
AAAATAATATAG
Found at i:117177914 original size:13 final size:12
Alignment explanation
Indices: 117177886--117177922 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
117177876 CATTTTTTGC
117177886 TAAAATAATATA
1 TAAAATAATATA
117177898 -AAAATAATATA
1 TAAAATAATATA
117177909 TGAAAATAATATA
1 T-AAAATAATATA
117177922 T
1 T
117177923 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
13 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (12 bp):
TAAAATAATATA
Found at i:117177944 original size:15 final size:16
Alignment explanation
Indices: 117177900--117177957 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 16
117177890 ATAATATAAA
*
117177900 AATAATATATGAAAAT
1 AATAATATACGAAAAT
***
117177916 AAT-ATATTTTAAAA-
1 AATAATATACGAAAAT
117177930 AATAATATACGAAAAT
1 AATAATATACGAAAAT
*
117177946 AA-AAAATACGAA
1 AATAATATACGAA
117177958 TAAAGTGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 3 0.09
15 26 0.76
16 5 0.15
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (16 bp):
AATAATATACGAAAAT
Found at i:117178091 original size:30 final size:31
Alignment explanation
Indices: 117178035--117178100 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
117178025 CATTATTTAC
117178035 TAAAATAATATAAAGAAATAAAATACGAAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAA
* * *
117178066 TAAAATATTTTAAA-AAATAAGATACGAAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAA
117178096 TAAAA
1 TAAAA
117178101 AAAGTGCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 20 0.62
31 12 0.38
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (31 bp):
TAAAATAATATAAAGAAATAAAATACGAAAA
Found at i:117178235 original size:13 final size:13
Alignment explanation
Indices: 117178177--117178238 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
117178167 ATTTTTTGCT
*
117178177 AAAATAATATAAA
1 AAAATAATATACA
* *
117178190 AAAATAAAATACG
1 AAAATAATATACA
*
117178203 AAAATAATATATTTTA
1 AAAATAATATA---CA
*
117178219 AAAATAATATACG
1 AAAATAATATACA
117178232 AAAATAA
1 AAAATAA
117178239 AAAATACGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
13 27 0.71
16 11 0.29
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:117178295 original size:438 final size:438
Alignment explanation
Indices: 117177513--117178531 Score: 1405
Period size: 438 Copynumber: 2.3 Consensus size: 438
117177503 TTTTTTTTGG
*
117177513 GAAAGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGAA
1 GAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAA
117177577 ACATTTTTTGCTTAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATAT
66 ACA-TTTTT-C-TAAATAATAT-AAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATAT
* * *
117177642 ACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAATAAT
127 ACGAAAAT-----ATAC-AATAAAGTGCCAAAATCAGGGTTATTTATTAAAAAAATATAAAAAAC
* *
117177707 ACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATATAAAAATAT
186 ACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATAA
* *
117177772 TATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATT
251 TATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATT
* * * * *
117177837 TATTAAATTAATATAAAAACTTAAATAATACATTTGAAGCATTTTTTGCTAAAATAATATAA-AA
316 TATTAAATTAATAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAGAA
* * *
117177901 ATAATATATGAAAATAATATATTTTAAAAAATAATATACGAAAAT-AAAAAATACGAA
381 ATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA
* ** ** * *
117177958 TAAAGTGTTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAAACACTTAAAGAATATATTTGA
1 GAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTAAATAATACATTTGA
* *
117178023 AACATTATTTACTAAAATAATATAAAGAAATAAAATACGAAAATAAAATATTTTAAAAAATAAGA
65 AACATT-TTT-CT-AAATAATATAAA-AAATAAAATACGAAAATAATATATTTTAAAAAATAATA
**
117178088 TACGAAAATA-A-AA-AAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTA
126 TACGAAAATATACAATAAAGTGCCAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTA
* * * *
117178150 AATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATAT
191 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATAATATAT
* * **
117178215 TTT-AAAAATAATATACGAAAAT-AAAAAATACGAATAAAGTGTTAAAATCAGGGTTATTTATTA
256 TTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTTATT-
*
117178278 AAAATATAA-AAAAAAACTTAAATAATACATTTGAAACATTATGTACTGAAATAATATAATGAAA
320 -AAAT-TAATAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAA-GAAA
* *
117178342 TAAAATACGAAAATAATATCTTTTAAAAAATAAGATACGAAAATAAAAAAATATGAA
382 TAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA
* *
117178399 GAAAGTGCCAAAATCAGGGTTATTTATTAAGTTAATATAAAAAACACTTAAATTATACATTTGAA
1 GAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAA
**
117178464 ACATTTTT-T-GCT-ATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGA
66 ACATTTTTCTAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGA
117178526 AAATAT
131 AAATAT
117178532 TTTACTTATT
Statistics
Matches: 510, Mismatches: 52, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
433 46 0.09
434 7 0.01
435 1 0.00
436 36 0.07
437 18 0.04
438 154 0.30
439 8 0.02
440 72 0.14
441 44 0.09
442 1 0.00
445 32 0.06
446 12 0.02
447 79 0.15
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (438 bp):
GAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAATAATACATTTGAA
ACATTTTTCTAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGA
AAATATACAATAAAGTGCCAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAA
TACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACAAAAATAATATATTTTAA
AAAATAAAATACGAAAATAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTTATTAAATTA
ATAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAGAAATAAAATACG
AAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA
Found at i:117180490 original size:72 final size:72
Alignment explanation
Indices: 117180404--117180548 Score: 229
Period size: 72 Copynumber: 2.0 Consensus size: 72
117180394 AGTCCAAGCA
* * * *
117180404 ATCGCATTCACATTC-GACTGATACTTCTTATCATCCGGATTTGGCGGGCAATGACTATTTCCCG
1 ATCGCATTCACATTCAG-CTGATACTTCTTATCATCCAGATTTGCCGAGCAATAACTATTTCCCG
117180468 GGCTCGTC
65 GGCTCGTC
*
117180476 ATCGCATTCACATTCAGCTGATACTTCTTATCATCCAGATTTTCCGAGCAATAACTATTTCCCGG
1 ATCGCATTCACATTCAGCTGATACTTCTTATCATCCAGATTTGCCGAGCAATAACTATTTCCCGG
117180541 GCTCGTC
66 GCTCGTC
117180548 A
1 A
117180549 GGGGGCAGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
72 66 0.99
73 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.32
Consensus pattern (72 bp):
ATCGCATTCACATTCAGCTGATACTTCTTATCATCCAGATTTGCCGAGCAATAACTATTTCCCGG
GCTCGTC
Found at i:117185977 original size:17 final size:17
Alignment explanation
Indices: 117185939--117186000 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 17
117185929 AAAAGTTATA
* *
117185939 CCTTCTTTTTT-ATTTT
1 CCTTCTTTTTTCCTTCT
*
117185955 CTTTCTTTTTTCCTTCT
1 CCTTCTTTTTTCCTTCT
117185972 CCTTCTTTTTCTTCTCTTCT
1 CCTTC-TTTT-TTC-CTTCT
117185992 CCTTTCTTT
1 CC-TTCTTT
117186001 CCCTTTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
16 10 0.27
17 7 0.19
18 4 0.11
19 3 0.08
20 10 0.27
21 3 0.08
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTTTTCCTTCT
Found at i:117186014 original size:30 final size:28
Alignment explanation
Indices: 117185947--117186020 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 28
117185937 TACCTTCTTT
117185947 TTTATTTTCTT-TCTTTTTTCCTTCTCC
1 TTTATTTTCTTCTCTTTTTTCCTTCTCC
*
117185974 TTCT-TTTTCTTCTCTTCTCCTTTCTTTC-CC
1 TT-TATTTTCTTCTCTT-T--TTTCCTTCTCC
117186004 TTTATTTTCTTCT-TTTT
1 TTTATTTTCTTCTCTTTT
117186021 GCTGCCGCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
26 1 0.03
27 9 0.22
28 6 0.15
29 4 0.10
30 13 0.32
31 7 0.17
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTATTTTCTTCTCTTTTTTCCTTCTCC
Found at i:117186132 original size:18 final size:19
Alignment explanation
Indices: 117186109--117186152 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
117186099 CCTTTTTTTA
* *
117186109 TTTTTTTCGTTTTCATC-T
1 TTTTTTTCGATTTCAGCAT
*
117186127 TTTTTTTTGATTTCAGCAT
1 TTTTTTTCGATTTCAGCAT
117186146 TTTTTTT
1 TTTTTTT
117186153 ACTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTTTTCGATTTCAGCAT
Found at i:117186265 original size:26 final size:25
Alignment explanation
Indices: 117186219--117186276 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 25
117186209 TGAACATACC
117186219 ATTTTGGTAATTACTTTTTATGTTGTATT
1 ATTTTGGTAATTA-TTTTTAT-TT-T-TT
117186248 ATTTTGG-AATT-TTTTTATTTTTT
1 ATTTTGGTAATTATTTTTATTTTTT
117186271 ATTTTG
1 ATTTTG
117186277 TACTTCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 8 0.28
24 1 0.03
25 2 0.07
26 7 0.24
28 4 0.14
29 7 0.24
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (25 bp):
ATTTTGGTAATTATTTTTATTTTTT
Found at i:117189770 original size:22 final size:21
Alignment explanation
Indices: 117189731--117189775 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
117189721 GTACAAGGAC
* *
117189731 AATTATGAATGATTCCAAGAA
1 AATTACGAATGATTCCAAAAA
117189752 AATTACGAATGATTCCCAAAAA
1 AATTACGAATGATT-CCAAAAA
117189774 AA
1 AA
117189776 AACTCCTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.24
Consensus pattern (21 bp):
AATTACGAATGATTCCAAAAA
Found at i:117192208 original size:17 final size:17
Alignment explanation
Indices: 117192186--117192220 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
117192176 CTGAAACTTG
*
117192186 AACCAAGCAGAGCCACA
1 AACCAAGCAAAGCCACA
117192203 AACCAAGCAAAGCCACA
1 AACCAAGCAAAGCCACA
117192220 A
1 A
117192221 TTTTACATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.34, G:0.14, T:0.00
Consensus pattern (17 bp):
AACCAAGCAAAGCCACA
Found at i:117195374 original size:21 final size:20
Alignment explanation
Indices: 117195348--117195396 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
117195338 TTTTAGAAAT
* *
117195348 TATAAAAGATCATTAAAAATA
1 TATAAAAAATCA-TAAAAAAA
*
117195369 TTTAAAAAATCATAAAAAAA
1 TATAAAAAATCATAAAAAAA
117195389 TATAAAAA
1 TATAAAAA
117195397 GCATAAGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
TATAAAAAATCATAAAAAAA
Found at i:117197015 original size:3 final size:3
Alignment explanation
Indices: 117197007--117197048 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
117196997 ATTTATCTAC
117197007 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
117197049 GTATTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:117197395 original size:20 final size:22
Alignment explanation
Indices: 117197356--117197398 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
117197346 TATATGAAAA
*
117197356 TTATTTTAAACTCTTTTATTAT
1 TTATTGTAAACTCTTTTATTAT
117197378 TTATTGTAAAC-C-TTTATTAT
1 TTATTGTAAACTCTTTTATTAT
117197398 T
1 T
117197399 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTGTAAACTCTTTTATTAT
Found at i:117198100 original size:4 final size:4
Alignment explanation
Indices: 117198077--117198116 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
117198067 ATCACATATG
*
117198077 TTAT TTCAT TTAT TTCAT TTAT TTGT TTAT TTAT TTAT TT
1 TTAT TT-AT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TT
117198117 TCTCCTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:117198107 original size:8 final size:8
Alignment explanation
Indices: 117198077--117198116 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 8
117198067 ATCACATATG
117198077 TTATTTCAT
1 TTATTT-AT
117198086 TTATTTCAT
1 TTATTT-AT
*
117198095 TTATTTGT
1 TTATTTAT
117198103 TTATTTAT
1 TTATTTAT
117198111 TTATTT
1 TTATTT
117198117 TCTCCTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (8 bp):
TTATTTAT
Found at i:117214080 original size:44 final size:44
Alignment explanation
Indices: 117214017--117214602 Score: 223
Period size: 44 Copynumber: 13.5 Consensus size: 44
117214007 GATTTTCAGC
* *
117214017 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCATTTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
* * ** * * * *
117214061 CTATTTCCCTGCTGCTTAGGGGGTTAAGATCTATAAATTT-G-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
* * * * *
117214103 CTGTTTCCCTACTACTTAGGGGGTTGAGGCCCTTCGTCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
* * * ** ** * * *
117214147 CTGTTTTCCTACTGCTTAGGGAGATAAGATCTGT-A-ATTCAAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
* * ** * *
117214189 CTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTTTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
* * * * * ***** *
117214233 -TATCTCCACTAATGCTTAGGGAGATAAGATTTGT-A-ATTCGAT
1 CTGTTTCC-CTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
* * * * * * **
117214275 ATGTTACCCTACCGCTTAGGGGTTTAAGACCCTTTGTCTTT-GAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCAT-TTTCGAT
* * * * * *
117214319 CTGTTTCCCCACTACTTAGGGGGATAAGG-TC-TGCA-ATTCGGT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCAT-CATTTTCGAT
* * * * * * *
117214361 TTGTTACCCTACTGCTCAGGGGTTTAAGACCCTTCATCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
* * * * *
117214405 CTGTTTCCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
** ** * * *
117214449 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCAT-CATTTTCGA-T
* *** ** *
117214493 CTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGT-AAATTC-AG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
* * * *
117214534 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCATATTCGAT
1 C-TGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
*
117214579 CTATTTCCCTACTGCTTAGGGGGT
1 CTGTTTCCCTACTGCTTAGGGGGT
117214603 CAAGATCTGC
Statistics
Matches: 398, Mismatches: 124, Indels: 40
0.71 0.22 0.07
Matches are distributed among these distances:
41 3 0.01
42 126 0.32
43 38 0.10
44 227 0.57
45 4 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGGCCCATCATTTTCGAT
Found at i:117214162 original size:86 final size:86
Alignment explanation
Indices: 117214011--117214611 Score: 441
Period size: 86 Copynumber: 7.0 Consensus size: 86
117214001 ATATTTGATT
* * * * * * *
117214011 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCATTTTCGATCTATTTCCCTGCTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGC
* *
117214076 TTAGGGGGTTAAGATCTATAAA
66 TTAGGGGGATAAGATCTGT-AA
* * * * * *
117214098 TT-TGCCTGTTTCCCTACTACTTAGGGGGTTGAGGCCCTTCGTCTTCGATCTGTTTTCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGC
*
117214162 TTAGGGAGATAAGATCTGTAA
66 TTAGGGGGATAAGATCTGTAA
* ** * * * *
117214183 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTTTTCGAT-TATCTCCACTAATG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCC-CTACTG
* *
117214247 CTTAGGGAGATAAGATTTGTAA
65 CTTAGGGGGATAAGATCTGTAA
** * * * * * *
117214269 TTC-GATATGTTACCCTACCGCTTAGGGGTTTAAGACCCTTTGTCTTTGATCTGTTTCCCCACTA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTG
* *
117214333 CTTAGGGGGATAAGGTCTGCAA
65 CTTAGGGGGATAAGATCTGTAA
* ** * * *
117214355 TTCGGTTTGTTACCCTACTGCTCAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGC
** * *
117214420 TTAGGGGTTTAAGACCCTTCGT-C
66 TTAGGGGGATAAGA-TC-T-GTAA
* * ** ** * *
117214443 TTC-GATCTGTTTCCCTACTGCTTAGGGG-TTAA-GATCTGTAAATCTTC-AGCCTGTTACCCTA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCT-T-CGTCTTCGA-TCTGTTTCCCTA
* *
117214504 CTGCTTA-GGGGTTAAG-GCTTGTAAA
62 CTGCTTAGGGGGATAAGATC-TGT-AA
* * * * * * * *
117214529 TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCATATTCGATCTATTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGC
117214594 TTAGGGGG-TCAAGATCTG
66 TTAGGGGGAT-AAGATCTG
117214612 CGAATTCGCC
Statistics
Matches: 411, Mismatches: 82, Indels: 42
0.77 0.15 0.08
Matches are distributed among these distances:
84 2 0.00
85 11 0.03
86 306 0.74
87 40 0.10
88 51 0.12
89 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGC
TTAGGGGGATAAGATCTGTAA
Found at i:117214545 original size:130 final size:129
Alignment explanation
Indices: 117214267--117214611 Score: 358
Period size: 130 Copynumber: 2.7 Consensus size: 129
117214257 TAAGATTTGT
* * * * *
117214267 AATTCGATATGTTACCCTACCGCTTAGGGGTTTAAGACCCTTTGTCTTTGATCTGTTTCCCCACT
1 AATTCGATCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACT
* * * * * **
117214332 ACTTAGGGGGATAAGGTCTGCAATTCGGTTTGTTACCCTACTGCTCAGGGGTTTAAGACCCTTCA
66 GCTTAGGGGGTTAAGATCTGAAATTCAGCCTGTTACCCTACTGCTCAGGGGTTTAAGA-CCTTCA
** *
117214397 TCTTCGATCTGTTTCCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACT
1 AATTCGATCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACT
* *
117214462 GCTTA-GGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAG-GCTT
66 GCTTAGGGGGTTAAGATCTG-AAA--TTCAGCCTGTTACCCTACTGCTCAGGGGTTTAAGACCTT
*
117214524 GTA
128 -CA
* * * * * * *
117214527 AATTC-AGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGCTCATCATATTCGATCTATTTCCCTA
1 AATTCGATC-TGTTACCCTACTGCTTAGGGGTTTAAGA-CCCTTCGTCTTCGATCTGTTTCCCTA
*
117214590 CTGCTTAGGGGGTCAAGATCTG
64 CTGCTTAGGGGGTTAAGATCTG
117214612 CGAATTCGCC
Statistics
Matches: 179, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
129 18 0.10
130 119 0.66
131 18 0.10
132 24 0.13
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (129 bp):
AATTCGATCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACT
GCTTAGGGGGTTAAGATCTGAAATTCAGCCTGTTACCCTACTGCTCAGGGGTTTAAGACCTTCA
Found at i:117229097 original size:32 final size:32
Alignment explanation
Indices: 117229056--117229145 Score: 144
Period size: 33 Copynumber: 2.8 Consensus size: 32
117229046 AAGCCCCCCC
117229056 AAAAAAACCTAACCCAAAAAAAAAGAAGAAAA
1 AAAAAAACCTAACCCAAAAAAAAAGAAGAAAA
117229088 AAAAAAACCTAACCCAAAAAAAAAAGAAGAAAA
1 AAAAAAACCTAACCC-AAAAAAAAAGAAGAAAA
**
117229121 AAGAAAAACCTAACAAAAAAAAAAA
1 AA-AAAAACCTAACCCAAAAAAAAA
117229146 ACTAAAAACC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 15 0.28
33 28 0.52
34 11 0.20
ACGTcount: A:0.77, C:0.14, G:0.06, T:0.03
Consensus pattern (32 bp):
AAAAAAACCTAACCCAAAAAAAAAGAAGAAAA
Found at i:117229108 original size:33 final size:33
Alignment explanation
Indices: 117229056--117229146 Score: 148
Period size: 34 Copynumber: 2.8 Consensus size: 33
117229046 AAGCCCCCCC
117229056 AAAAAAACCTAACCC-AAAAAAAAAGAAGAAAA
1 AAAAAAACCTAACCCAAAAAAAAAAGAAGAAAA
117229088 AAAAAAACCTAACCCAAAAAAAAAAGAAGAAAA
1 AAAAAAACCTAACCCAAAAAAAAAAGAAGAAAA
**
117229121 AAGAAAAACCTAACAAAAAAAAAAAA
1 AA-AAAAACCTAACCCAAAAAAAAAA
117229147 CTAAAAACCT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 15 0.27
33 19 0.35
34 21 0.38
ACGTcount: A:0.77, C:0.14, G:0.05, T:0.03
Consensus pattern (33 bp):
AAAAAAACCTAACCCAAAAAAAAAAGAAGAAAA
Found at i:117229138 original size:18 final size:17
Alignment explanation
Indices: 117229056--117229150 Score: 72
Period size: 17 Copynumber: 5.7 Consensus size: 17
117229046 AAGCCCCCCC
**
117229056 AAAAAAACCTAACCCAA
1 AAAAAAACCTAACAAAA
* *
117229073 AAAAAAA--GAAGAAAA
1 AAAAAAACCTAACAAAA
*
117229088 AAAAAAACCTAACCCAAA
1 AAAAAAACCTAA-CAAAA
* *
117229106 AAAAAAA--GAAGAAAA
1 AAAAAAACCTAACAAAA
117229121 AAGAAAAACCTAACAAAA
1 AA-AAAAACCTAACAAAA
*
117229139 AAAAAAAACTAA
1 AAAAAAACCTAA
117229151 AAACCTAGCC
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
15 16 0.27
16 7 0.12
17 18 0.31
18 18 0.31
ACGTcount: A:0.76, C:0.15, G:0.05, T:0.04
Consensus pattern (17 bp):
AAAAAAACCTAACAAAA
Found at i:117229153 original size:32 final size:31
Alignment explanation
Indices: 117229056--117229146 Score: 130
Period size: 32 Copynumber: 2.8 Consensus size: 31
117229046 AAGCCCCCCC
*
117229056 AAAAAAACCTAACCCAAAAAAAAAGAAGAAAA
1 AAAAAAACCTAA-CCAAAAAAAAAAAAGAAAA
117229088 AAAAAAACCTAACCCAAAAAAAAAAGAAGAAAA
1 AAAAAAACCTAA-CCAAAAAAAAAA-AAGAAAA
117229121 AAGAAAAACCTAA-CAAAAAAAAAAAA
1 AA-AAAAACCTAACCAAAAAAAAAAAA
117229147 CTAAAAACCT
Statistics
Matches: 56, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
31 2 0.04
32 35 0.62
33 9 0.16
34 10 0.18
ACGTcount: A:0.77, C:0.14, G:0.05, T:0.03
Consensus pattern (31 bp):
AAAAAAACCTAACCAAAAAAAAAAAAGAAAA
Found at i:117229199 original size:11 final size:11
Alignment explanation
Indices: 117229183--117229209 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
117229173 TCCCACTTGC
117229183 CCCATTTTCCT
1 CCCATTTTCCT
117229194 CCCATTTTCCT
1 CCCATTTTCCT
117229205 CCCAT
1 CCCAT
117229210 CTACCACCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.48, G:0.00, T:0.41
Consensus pattern (11 bp):
CCCATTTTCCT
Found at i:117231684 original size:12 final size:12
Alignment explanation
Indices: 117231667--117231698 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
117231657 TCATGACTGA
117231667 CATGCATTCATT
1 CATGCATTCATT
117231679 CATGCATTCATT
1 CATGCATTCATT
*
117231691 CATACATT
1 CATGCATT
117231699 GCATATCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (12 bp):
CATGCATTCATT
Found at i:117237020 original size:72 final size:71
Alignment explanation
Indices: 117236899--117237093 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 71
117236889 GAGTTAAGCC
* * * *
117236899 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
117236963 TGAGGTA
65 TGAGGTA
** *
117236970 TTTTCAATTTTTGTATTTTAATTTCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
117237035 TGAGGTA
65 TGAGGTA
* * * *
117237042 ATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
117237094 ACCTTTTAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 6 0.06
72 70 0.66
73 30 0.28
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:117237267 original size:88 final size:88
Alignment explanation
Indices: 117237118--117237452 Score: 465
Period size: 88 Copynumber: 3.8 Consensus size: 88
117237108 ACTTTTTCAA
* * *
117237118 AATCAGCTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
*
117237183 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
*
117237206 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
117237271 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * *
117237294 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACAC-C-GAGGTATTTTCAATTTCT
* * ** *
117237359 GTTTTTCAAT-TTCTGTCTTTCAAAAAAA
64 G-TTTTCATTATTATGT-TTT--TGAAAG
* * *
117237387 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
117237452 T
66 T
117237453 GTCAAAAAAA
Statistics
Matches: 223, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
88 126 0.57
89 1 0.00
90 25 0.11
91 27 0.12
93 44 0.20
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:117237366 original size:14 final size:14
Alignment explanation
Indices: 117237347--117237381 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
117237337 CGCTGAGGTA
117237347 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
117237361 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
117237375 CTTTCAA
1 TTTTCAA
117237382 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:117237488 original size:74 final size:77
Alignment explanation
Indices: 117237362--117238055 Score: 228
Period size: 74 Copynumber: 8.8 Consensus size: 77
117237352 AATTTCCGTT
* *
117237362 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
117237426 CACACTGAGGTAA
65 CACACCGAGGTAA
* *
117237439 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
* *
117237502 CACGCCGAGGTAT
65 CACACCGAGGTAA
* * * *** * *
117237515 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA--AA-TCAACTCATATTGCGAGAGGTG
1 TTTCAATTTCTGTCTGTCAA------------AAAAAATCAACTC-A-T-ATTGCGAGAG--GCG
* *
117237577 AGTTGAGCCTCAGG-ACACGCTGAGGTAA
49 AGTTGAGCCTCAGGCACACACCGAGGTAA
* * * *
117237605 TTTCAATTTCTGT-TGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCA
*
117237668 CACGCCGAGGTATTTTCAA
65 CACACCGAGG-----T-AA
* * *** *** * *
117237687 TTTCCATTTTTCAATTTCTGCCTTTCAAAAAA--AA-TCAACTCATATTGCGAGAGGTGAGTTGA
1 TTT-CA-ATTTC--TGTCTG--TCAAAAAAAATCAACTC-A-T-ATTGCGAGAG--GCGAGTTGA
* * *
117237749 GCCTC-GGGACACGCTGAGGTAA
55 GCCTCAGGCACACACCGAGGTAA
* * * *** *
117237771 TTTTAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*** *
117237831 ACGTTGAGGTAT
66 ACACCGAGGTAA
* * * * *
117237843 TTTCAATTTCTGT-TTTC-AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
* * *
117237905 ACGCGCTGAGCTAT
66 ACAC-C-GAGGTAA
* * * * * *
117237919 TTTTAATTTCTATCTCTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCA
* *
117237983 CACACTGAGGTATTT
65 CACACCGAGGTA--A
* * * * * * *
117237998 TTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC
117238056 GGGTCACATG
Statistics
Matches: 473, Mismatches: 85, Indels: 116
0.70 0.13 0.17
Matches are distributed among these distances:
72 41 0.09
73 2 0.00
74 102 0.22
75 1 0.00
76 67 0.14
77 65 0.14
78 4 0.01
79 60 0.13
80 2 0.00
81 1 0.00
82 9 0.02
83 3 0.01
84 9 0.02
85 1 0.00
86 2 0.00
87 6 0.01
88 5 0.01
89 6 0.01
90 56 0.12
91 1 0.00
92 30 0.06
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACACCGAGGTAA
Found at i:117237609 original size:90 final size:89
Alignment explanation
Indices: 117237439--117237614 Score: 257
Period size: 92 Copynumber: 2.0 Consensus size: 89
117237429 ACTGAGGTAA
* *
117237439 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACA
*
117237504 CGCCGAGGTATTTTCAATTTCCGTT
65 CGCCGAGGTAATTTCAATTTCCGTT
*
117237529 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
117237592 CACGCTGAGGTAATTTCAATTTC
63 CACGCCGAGGTAATTTCAATTTC
117237615 TGTTGTCAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
90 34 0.44
91 2 0.03
92 42 0.54
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (89 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
GCCGAGGTAATTTCAATTTCCGTT
Found at i:117237639 original size:166 final size:166
Alignment explanation
Indices: 117237294--117237858 Score: 913
Period size: 166 Copynumber: 3.4 Consensus size: 166
117237284 TTTTTGAAAG
*
117237294 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
117237359 GTTTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 GTTTTTCAATTTCTGCCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
117237424 GACACACTGAGGTAATTTCAATTTCTGTTGTCAAAAA
130 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
*
117237461 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
117237526 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
117237591 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *
117237627 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
117237692 ATTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
117237757 ACACGCTGAGGTAATTTTAATTTCTGTTTTC--AAA
131 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *** * ** *
117237791 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
117237854 GTTTT
66 GTTTT
117237859 CAAAAAAATC
Statistics
Matches: 376, Mismatches: 22, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
162 26 0.07
164 35 0.09
166 232 0.62
167 83 0.22
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (166 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:117237671 original size:76 final size:75
Alignment explanation
Indices: 117237529--117237690 Score: 229
Period size: 74 Copynumber: 2.1 Consensus size: 75
117237519 AATTTCCGTT
*
117237529 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA
*
117237594 CGCTGAGGTAA
65 CGCCGAGGTAA
* *
117237605 TTTCAATTTCTG-TTGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTCAATTTCTGCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CA
*
117237668 CACGCCGAGGTAT
63 CACGCCGAGGTAA
117237681 TTTCAATTTC
1 TTTCAATTTC
117237691 CATTTTTCAA
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
74 42 0.54
75 2 0.03
76 34 0.44
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (75 bp):
TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAC
GCCGAGGTAA
Found at i:117237779 original size:90 final size:90
Alignment explanation
Indices: 117237605--117237780 Score: 243
Period size: 92 Copynumber: 2.0 Consensus size: 90
117237595 GCTGAGGTAA
* * *
117237605 TTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACA
117237670 CGCCGAGGTATTTTCAATTTCCATT
66 CGCCGAGGTATTTTCAATTTCCATT
*
117237695 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GG
1 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGC
*
117237757 ACACGCTGAGGTAATTTT-AATTTC
63 ACACGCCGAGGT-ATTTTCAATTTC
117237781 TGTTTTCAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
90 29 0.38
91 8 0.10
92 40 0.52
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCACA
CGCCGAGGTATTTTCAATTTCCATT
Found at i:117237966 original size:77 final size:76
Alignment explanation
Indices: 117237709--117238222 Score: 400
Period size: 72 Copynumber: 6.5 Consensus size: 76
117237699 AATTTCTGCC
* * *
117237709 TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAAT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATT
*
117237772 TTTAATTTCTGT
65 TTTAATTTCTAT
* ** ** *
117237784 TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAGACACGTTGAGGTATT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGGTATT
* *
117237844 TTCAATTTCTGT
65 TTTAATTTCTAT
* * *
117237856 TTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTT
117237921 TTAATTTCTAT
66 TTAATTTCTAT
* * * *
117237932 CTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTAT
1 -TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCTGAGGTA-
*
117237996 TTTTTCAATTTATATT
63 TTTTT-AATTTCTA-T
* * * * *
117238012 TTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCT-GAGGTATT
* ** *
117238076 TTCAAAATCTGTT
65 TTTAATTTCT-AT
* * *
117238089 TTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGGCTTGGCTCA-AGT
1 TTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACA-C
* * *
117238153 GCTGAGCTATTTTCAATTTCTGTTTTTT
54 GCTGAGGTATTTTTAATTTC-----TAT
117238181 TTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
117238223 TTTTTAATTT
Statistics
Matches: 355, Mismatches: 49, Indels: 63
0.76 0.10 0.13
Matches are distributed among these distances:
72 62 0.17
74 32 0.09
75 5 0.01
76 25 0.07
77 61 0.17
78 12 0.03
79 56 0.16
80 3 0.01
81 5 0.01
82 28 0.08
87 1 0.00
88 55 0.15
89 1 0.00
91 2 0.01
92 6 0.02
93 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (76 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTT
TTAATTTCTAT
Found at i:117238050 original size:79 final size:76
Alignment explanation
Indices: 117237692--117238222 Score: 421
Period size: 77 Copynumber: 6.7 Consensus size: 76
117237682 TTCAATTTCC
*
117237692 ATTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-
1 ATTTTT-AATTTCTG-TTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
**
117237755 GGACACGCTGAGGT
63 TCACACGCTGAGGT
* * ** *
117237769 AATTTTAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GA
1 ATTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
117237830 CACGTTGAGGT
66 CACGCTGAGGT
* * ** *
117237841 ATTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
1 ATTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* *
117237906 CGCGCTGAGCT
66 CACGCTGAGGT
* * *
117237917 ATTTTTAATTTCTATCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 ATTTTTAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
*
117237982 ACACACTGAGGT
65 ACACGCTGAGGT
* * * * * *
117237994 ATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 A-TTTTT-AATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
*
117238059 TCACATG-TCGAGGT
63 TCACACGCT-GAGGT
* ** *
117238073 ATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 ATTTTTAATTTCTG-TTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* ** * * *
117238138 AGGCTTGGCTCA-AGTGCTGAGCT
54 AGCCTCAGATCACA-CGCTGAGGT
*
117238161 ATTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTTTAATTTCTG-----TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
117238223 TTTTTAATTT
Statistics
Matches: 369, Mismatches: 55, Indels: 55
0.77 0.11 0.11
Matches are distributed among these distances:
72 64 0.17
74 33 0.09
75 4 0.01
76 30 0.08
77 67 0.18
78 12 0.03
79 58 0.16
80 1 0.00
81 5 0.01
82 28 0.08
87 1 0.00
88 57 0.15
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
ATTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGCTGAGGT
Found at i:117238093 original size:14 final size:13
Alignment explanation
Indices: 117238074--117238109 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
117238064 TGTCGAGGTA
117238074 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
117238087 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
117238101 TTTTCAAAA
1 TTTTCAAAA
117238110 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:117238167 original size:88 final size:88
Alignment explanation
Indices: 117238018--117238179 Score: 220
Period size: 88 Copynumber: 1.8 Consensus size: 88
117238008 TATTTTTCAA
* * *
117238018 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
117238083 TCTGTTTTTCAAATTCTGTTTTC
66 TCTGTTTTTCAAATTCTGTTTTC
* * *
117238106 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGGCTTGGCTCA-A-GTGCTGAGCTATTTTCAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGT-C-GAGCTATTTTCAA
**
117238169 TTTCTGTTTTT
64 AATCTGTTTTT
117238180 TTTTCAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
86 2 0.03
87 2 0.03
88 60 0.94
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTCAAATTCTGTTTTC
Found at i:117238240 original size:30 final size:30
Alignment explanation
Indices: 117238204--117238265 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
117238194 CAACTCATAT
117238204 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
117238234 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
117238264 TG
1 TG
117238266 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:117238348 original size:254 final size:248
Alignment explanation
Indices: 117237842--117238433 Score: 761
Period size: 254 Copynumber: 2.4 Consensus size: 248
117237832 CGTTGAGGTA
* *
117237842 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTCAAATTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
* *
117237907 GCGCTGAGCTATTTTTAATTTC----TATCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
65 GCGCTGAGCTATTTTCAATTTCTGTTTTTCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
*
117237968 TTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACA
130 TTGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACA
* * ** * *
117238033 TTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
194 TTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* * *
117238088 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGGCTTGGCTCAAG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* * *
117238152 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
66 CGCTGAGCTATTTTCAATTTCTGTTTTTCTCTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAG
* * * * * * *
117238217 TTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATC
130 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATC
*
117238279 AACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
186 AACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* **
117238342 TTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
117238406 CGCTGAGCTATTTTCAATTTCTGTTTTT
66 CGCTGAGCTATTTTCAATTTCTGTTTTT
117238434 AATGTCTGTT
Statistics
Matches: 299, Mismatches: 32, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
244 61 0.20
246 17 0.06
248 12 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 145 0.48
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTCAATTTCTGTTTTTCTCTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATT
GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:117239111 original size:18 final size:18
Alignment explanation
Indices: 117239088--117239146 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
117239078 TAAGCCCCCC
117239088 AAAAAAAACCTAACCCAA
1 AAAAAAAACCTAACCCAA
**
117239106 AAAAAAAGA-AGAA---AA
1 AAAAAAA-ACCTAACCCAA
*
117239121 AAGAAAAACCTAACCCAA
1 AAAAAAAACCTAACCCAA
117239139 AAAAAAAA
1 AAAAAAAA
117239147 GAAGAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
14 1 0.03
15 10 0.33
18 18 0.60
19 1 0.03
ACGTcount: A:0.75, C:0.17, G:0.05, T:0.03
Consensus pattern (18 bp):
AAAAAAAACCTAACCCAA
Found at i:117239142 original size:34 final size:34
Alignment explanation
Indices: 117239091--117239177 Score: 153
Period size: 34 Copynumber: 2.6 Consensus size: 34
117239081 GCCCCCCAAA
117239091 AAAAACCTAACCC-AAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAGAAGAAAAAAG
117239124 AAAAACCTAACCCAAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAGAAGAAAAAAG
117239158 AAAAACCTAA--CAAAAAAAAA
1 AAAAACCTAACCCAAAAAAAAA
117239178 CTAAAAAAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 10 0.19
33 13 0.25
34 30 0.57
ACGTcount: A:0.75, C:0.15, G:0.07, T:0.03
Consensus pattern (34 bp):
AAAAACCTAACCCAAAAAAAAAAGAAGAAAAAAG
Found at i:117239233 original size:12 final size:12
Alignment explanation
Indices: 117239216--117239245 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
117239206 TCCCATTTGC
117239216 CCCATTTTTCCT
1 CCCATTTTTCCT
117239228 CCCATTTTTCCT
1 CCCATTTTTCCT
117239240 CCCATT
1 CCCATT
117239246 GTCTACCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.43, G:0.00, T:0.47
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:117249391 original size:56 final size:56
Alignment explanation
Indices: 117249331--117249444 Score: 183
Period size: 56 Copynumber: 2.0 Consensus size: 56
117249321 CTAAGTTAGA
*
117249331 CTCAGCTGGTTTTTATTATAAATACTTAATAATATAAATTAAAAATAACTCAAGAT
1 CTCAGCTCGTTTTTATTATAAATACTTAATAATATAAATTAAAAATAACTCAAGAT
* * * *
117249387 CTCAGCTCTTTTTTATTATAAATACTTAATAATGTAAATTAAAAATAATTTAAGAT
1 CTCAGCTCGTTTTTATTATAAATACTTAATAATATAAATTAAAAATAACTCAAGAT
117249443 CT
1 CT
117249445 AAACTCAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (56 bp):
CTCAGCTCGTTTTTATTATAAATACTTAATAATATAAATTAAAAATAACTCAAGAT
Found at i:117250853 original size:49 final size:48
Alignment explanation
Indices: 117250769--117250864 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 48
117250759 GAAAATTCTG
* *
117250769 ATATTTAGTTCGAGATCGAGTCAGTCAAAACGAGAAATTATTTCAGCT
1 ATATTTAGTTCAAGATCGAGTCAGTCAAAACGAGAAACTATTTCAGCT
* * *
117250817 ATATTTTGTTCAAGATCGATTCAAGTCAAAATGAGAAACTATTTCAGC
1 ATATTTAGTTCAAGATCGAGTC-AGTCAAAACGAGAAACTATTTCAGC
117250865 GTTAATTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 19 0.45
49 23 0.55
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (48 bp):
ATATTTAGTTCAAGATCGAGTCAGTCAAAACGAGAAACTATTTCAGCT
Found at i:117250934 original size:20 final size:20
Alignment explanation
Indices: 117250909--117250947 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
117250899 TTTTAGTGAA
117250909 GGGATATTAAACTCTTTGCG
1 GGGATATTAAACTCTTTGCG
117250929 GGGATATTAAACTCTTTGC
1 GGGATATTAAACTCTTTGC
117250948 CGCTTAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
GGGATATTAAACTCTTTGCG
Found at i:117261713 original size:13 final size:13
Alignment explanation
Indices: 117261695--117261722 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
117261685 TGTGGGCTTA
117261695 TGGAAATTACAGT
1 TGGAAATTACAGT
117261708 TGGAAATTACAGT
1 TGGAAATTACAGT
117261721 TG
1 TG
117261723 AATTGAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (13 bp):
TGGAAATTACAGT
Found at i:117265266 original size:23 final size:24
Alignment explanation
Indices: 117265232--117265289 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
117265222 ATCAACTGCG
*
117265232 ATGAAAGCAAAAT-ATAT-ATATAT
1 ATGAAAGAAAAATGA-ATGATATAT
*
117265255 ATGAAAGAAAAATGAATGCTATAT
1 ATGAAAGAAAAATGAATGATATAT
117265279 AT-AAAGAAAAA
1 ATGAAAGAAAAA
117265290 GTTCCATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.24
Consensus pattern (24 bp):
ATGAAAGAAAAATGAATGATATAT
Found at i:117271346 original size:22 final size:22
Alignment explanation
Indices: 117271314--117271355 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
117271304 TATACATGTA
* *
117271314 ATATTACTTGAATAGTTATGAG
1 ATATTAATTGAATAATTATGAG
*
117271336 ATATTAATTGAGTAATTATG
1 ATATTAATTGAATAATTATG
117271356 TCTCCTTTAA
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:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATATTAATTGAATAATTATGAG
Found at i:117276081 original size:127 final size:127
Alignment explanation
Indices: 117275937--117276218 Score: 474
Period size: 127 Copynumber: 2.2 Consensus size: 127
117275927 ATGTTTGGAA
* *
117275937 GGAATCATGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTT
1 GGAATCATGCCCTATCGTGCTGGGTTTCGATTACCCGTTTGTTCAAAATAATCAAATATTCCTTT
**
117276002 AGAATTTCACTCGTGTTTTCTAAATTCTAAAACAAGGCAATGTTTGATGTTTAGAAATTCGG
66 AGAATTTCACTCGTGTTTTCTAAATTCTAAAACAAGGCAATGTTCAATGTTTAGAAATTCGG
117276064 GGAATCATGCCCTATCGTGCTGGGTTTCGATTACCCGTTTGTTCAAAATAATCAAATATTCCTTT
1 GGAATCATGCCCTATCGTGCTGGGTTTCGATTACCCGTTTGTTCAAAATAATCAAATATTCCTTT
* * *
117276129 AGAATTTCACTCGTGTTTTTTAAATTCTAAAACAAGGCAATGTTCAATGTTTGGAAATTTGG
66 AGAATTTCACTCGTGTTTTCTAAATTCTAAAACAAGGCAATGTTCAATGTTTAGAAATTCGG
* * *
117276191 GGAATCGTGCCCTACCGCGCTGGGTTTC
1 GGAATCATGCCCTATCGTGCTGGGTTTC
117276219 AGTTTTTCGT
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
127 145 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (127 bp):
GGAATCATGCCCTATCGTGCTGGGTTTCGATTACCCGTTTGTTCAAAATAATCAAATATTCCTTT
AGAATTTCACTCGTGTTTTCTAAATTCTAAAACAAGGCAATGTTCAATGTTTAGAAATTCGG
Found at i:117280724 original size:67 final size:67
Alignment explanation
Indices: 117280608--117280797 Score: 254
Period size: 67 Copynumber: 2.8 Consensus size: 67
117280598 ATGGGTTGTA
* * * * * *
117280608 ATAGGGTATAATGTGTAAGACCATAACTCGACTATGGCAATATAAAGAGTCTGTCAGGATATTAA
1 ATAGGGTATGATGTGTAAGACCATAGCTCAACTATGGCAATATAGAGAGTCTGCCAGGACATTAA
117280673 AC
66 AC
* * * * *
117280675 ATAGGATATGATGTGTAAGACTATAGCTCAACTATGGCAACATAGAGAGTTTGCCAGGACATTAG
1 ATAGGGTATGATGTGTAAGACCATAGCTCAACTATGGCAATATAGAGAGTCTGCCAGGACATTAA
117280740 AC
66 AC
* * *
117280742 ATAGGGTATGATGTGTAAGACCAAAGCTCAGCTATGGCATTATAGAGAGTCTGCCA
1 ATAGGGTATGATGTGTAAGACCATAGCTCAACTATGGCAATATAGAGAGTCTGCCA
117280798 TGGAACATCC
Statistics
Matches: 105, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 105 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (67 bp):
ATAGGGTATGATGTGTAAGACCATAGCTCAACTATGGCAATATAGAGAGTCTGCCAGGACATTAA
AC
Found at i:117282495 original size:106 final size:107
Alignment explanation
Indices: 117282262--117282533 Score: 327
Period size: 106 Copynumber: 2.6 Consensus size: 107
117282252 CAATAAGAGT
*
117282262 CTTTGTCTCGTTGAGTATATAA-TACCCAACCGAACTCACAGATGAGCACGCACTTTGAGACATA
1 CTTTGTCTCGTTGAGTATATAATTACCCAACCGAACTCACAGAGGAGCACGCACTTTGAGACA-A
* * *
117282326 TCACATTAGCTCATATACAGAGCTAGTTTCACTGAAGAGCAAA
65 CCACATTAGCTCATATACAGAGCGAGTCTCACTGAAGAGCAAA
* * * * * *
117282369 CTTTGTCTTGTTAAGTATATAATTACCCAATCGAACTTATAGAGGAGCATGCACTTTGAGAC-AC
1 CTTTGTCTCGTTGAGTATATAATTACCCAACCGAACTCACAGAGGAGCACGCACTTTGAGACAAC
* *
117282433 CACTTTAGCTCATATATAGAGTCGAG-CTCACT-AAGGAGCAAA
66 CACATTAGCTCATATACAGAG-CGAGTCTCACTGAA-GAGCAAA
* * * * * *
117282475 CTTTGTCTCATTGAGCATATAATTACCCAACCAAACTCACAAAGGAGCACACGCTTTGA
1 CTTTGTCTCGTTGAGTATATAATTACCCAACCGAACTCACAGAGGAGCACGCACTTTGA
117282534 TACATATCAT
Statistics
Matches: 138, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
105 2 0.01
106 79 0.57
107 23 0.17
108 34 0.25
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (107 bp):
CTTTGTCTCGTTGAGTATATAATTACCCAACCGAACTCACAGAGGAGCACGCACTTTGAGACAAC
CACATTAGCTCATATACAGAGCGAGTCTCACTGAAGAGCAAA
Found at i:117283057 original size:18 final size:18
Alignment explanation
Indices: 117283034--117283077 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
117283024 ACCTAGCTCT
117283034 AAAGACAATCAACCCTAA
1 AAAGACAATCAACCCTAA
117283052 AAAGACAATCAACCCTAA
1 AAAGACAATCAACCCTAA
*
117283070 CAAGACAA
1 AAAGACAA
117283078 GAACTTACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.57, C:0.27, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAGACAATCAACCCTAA
Found at i:117283704 original size:67 final size:69
Alignment explanation
Indices: 117283592--117283921 Score: 312
Period size: 67 Copynumber: 4.9 Consensus size: 69
117283582 GTGACACGTC
* * *
117283592 AGGACATTAAACATGGGGTATGATGTATAAGACTATAGCTCGA-CTATAATAACATAAAGAG-CC
1 AGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGAGCTATAACAACATAAAGAGTCC
117283655 TGCT
66 TGCT
* * * *
117283659 AGGGCATTAAATATGGGGTATGATGCGTAAGACCATAGCTCGA-CTATAACAACATAGAGAG--C
1 AGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGAGCTATAACAACATAAAGAGTCC
117283721 TCGCT
66 T-GCT
* * * * *
117283726 AGGACATTAAACATGTGGTATGA--TGTAAGGCCATAGCT-TAGCTATGACAACATAAACAGTCA
1 AGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGAGCTATAACAACATAAAGAGTC-
* *
117283788 AT-CG
65 CTGCT
* * * * *
117283792 A-GACATTAAACATGGGGTATGATGTGTAAAATCATAACTC-AGCTATGGA-AACATAGAGAGTC
1 AGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGAGCTAT-AACAACATAAAGAGTC
*
117283854 C-GCC
65 CTGCT
* * *
117283858 AGGACATTAAACATGGGGTATGATGTGTAAGACCAAAACTCG-GCTATGACAACATAGAA-AGTC
1 AGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGAGCTATAACAACATA-AAGAGTC
117283921 C
65 C
117283922 ACTAGAAGGT
Statistics
Matches: 218, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
64 1 0.00
65 48 0.22
66 8 0.04
67 157 0.72
68 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (69 bp):
AGGACATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGAGCTATAACAACATAAAGAGTCC
TGCT
Found at i:117287368 original size:30 final size:29
Alignment explanation
Indices: 117287306--117287368 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
117287296 CCATTTTGAC
*
117287306 AAAATACAAAGGCAATAAAGTTTCCTTCA
1 AAAATACAAAGGCAATAAAGTTTCCTTAA
* *
117287335 AAAATACGAAGGCAAT-TAGTTATTCCTTAA
1 AAAATACAAAGGCAATAAAG-T-TTCCTTAA
117287365 AAAA
1 AAAA
117287369 GCCAACAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 16 0.55
30 11 0.38
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.25
Consensus pattern (29 bp):
AAAATACAAAGGCAATAAAGTTTCCTTAA
Found at i:117288006 original size:19 final size:17
Alignment explanation
Indices: 117287968--117288018 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
117287958 GGGAAGGAAG
* *
117287968 AAAGAAAAGGCAAAAGAA
1 AAAGAAGAGG-AAAAAAA
117287986 AAAGAGAGAGAGAAAAAAA
1 AAAGA-AGAG-GAAAAAAA
117288005 AAAGAAGAGGAAAA
1 AAAGAAGAGGAAAA
117288019 TCTCCCATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 5 0.17
18 9 0.31
19 14 0.48
20 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAGAAGAGGAAAAAAA
Found at i:117288427 original size:14 final size:14
Alignment explanation
Indices: 117288410--117288445 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
117288400 TTATAAAGAG
117288410 TGTAAAATTTTCTA
1 TGTAAAATTTTCTA
117288424 TGTAAAATTTTCTA
1 TGTAAAATTTTCTA
*
117288438 TGTGAAAT
1 TGTAAAAT
117288446 AAATATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (14 bp):
TGTAAAATTTTCTA
Found at i:117288608 original size:18 final size:18
Alignment explanation
Indices: 117288585--117288620 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
117288575 TAGTTAAATA
*
117288585 AATATGTTTTATGAAAGT
1 AATATGTTATATGAAAGT
117288603 AATATGTTATATGAAAGT
1 AATATGTTATATGAAAGT
117288621 GAATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (18 bp):
AATATGTTATATGAAAGT
Found at i:117292118 original size:8 final size:8
Alignment explanation
Indices: 117292105--117292136 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
117292095 AAATAGGGAC
117292105 TAAAATGT
1 TAAAATGT
117292113 TAAAATGT
1 TAAAATGT
117292121 TAAAATGT
1 TAAAATGT
117292129 TAAAATGT
1 TAAAATGT
117292137 GAGGGCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
TAAAATGT
Found at i:117292602 original size:43 final size:42
Alignment explanation
Indices: 117292510--117292606 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
117292500 TATGTGATTT
* * * *
117292510 CATGTAAGACCACGTCTGGGGCATTGACATCATATTTGATTT
1 CATGTAAGACCACGTCTGGGACAGTGACATCATATTTGACTA
* * *
117292552 CGTGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTTGACTA
1 CATGTAAGACCAC-GTCTGGGACAGTGACATC-ATATTTGACTA
117292595 CATGTAAGACCA
1 CATGTAAGACCA
117292607 TATTTGGGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.55
43 19 0.43
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACAGTGACATCATATTTGACTA
Found at i:117310680 original size:30 final size:30
Alignment explanation
Indices: 117310644--117310700 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
117310634 TATGCACTTT
*
117310644 CACACGGGTA-ACCCACATGCCCGTGTGAGG
1 CACACGGGTAGA-CCACACGCCCGTGTGAGG
*
117310674 CACACGGGTAGACCACACGCTCGTGTG
1 CACACGGGTAGACCACACGCCCGTGTG
117310701 TCATGGTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.14
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGAGG
Found at i:117313458 original size:30 final size:30
Alignment explanation
Indices: 117313393--117313458 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
117313383 TTCAAATTCG
* * *
117313393 CCTTATTTTTCGTTTGAGAAAATTTAGCTT
1 CCTTATTTTTCATTTAAGAAAATTCAGCTT
* *
117313423 CCTTATTTTTCATTTAAGAATATTCAGTTT
1 CCTTATTTTTCATTTAAGAAAATTCAGCTT
*
117313453 TCTTAT
1 CCTTAT
117313459 AAAAAAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (30 bp):
CCTTATTTTTCATTTAAGAAAATTCAGCTT
Found at i:117313751 original size:18 final size:18
Alignment explanation
Indices: 117313712--117313751 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
117313702 GTCCACCTTT
* *
117313712 TTTCCCATTTCCTTGTTG
1 TTTCCCATTTCCTTGCTA
117313730 TTTCCCATTTCCTTGCTA
1 TTTCCCATTTCCTTGCTA
117313748 TTTC
1 TTTC
117313752 AAACAGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.55
Consensus pattern (18 bp):
TTTCCCATTTCCTTGCTA
Found at i:117315714 original size:19 final size:20
Alignment explanation
Indices: 117315660--117315715 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
117315650 ATTTTTTAAA
*
117315660 ATTTAAAAAAATTAAAATGT
1 ATTTACAAAAATTAAAATGT
**
117315680 ATTTTTAAAAATTAAAATGT
1 ATTTACAAAAATTAAAATGT
*
117315700 A-TTACAAATATTAAAA
1 ATTTACAAAAATTAAAA
117315716 ACTAATTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
ATTTACAAAAATTAAAATGT
Found at i:117315944 original size:71 final size:72
Alignment explanation
Indices: 117315856--117315988 Score: 223
Period size: 71 Copynumber: 1.9 Consensus size: 72
117315846 ATTCTTTATA
*
117315856 TAGAAATTAAAATTTATAATAAACCTTTATG-TTGGCTGGTTTTGGAGATATATTAAATGTTCTT
1 TAGAAATTAAAATTTATAATAAACCCTTATGTTTGGCTGGTTTTGGAGATATATTAAATGTTCTT
117315920 TATCATG
66 TATCATG
* * *
117315927 TAGACATTAAAATTTATAATAAACCCTTATGTTTGGTTGGTTTTTGAGATATATTAAATGTT
1 TAGAAATTAAAATTTATAATAAACCCTTATGTTTGGCTGGTTTTGGAGATATATTAAATGTT
117315989 TTCTATTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
71 29 0.51
72 28 0.49
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (72 bp):
TAGAAATTAAAATTTATAATAAACCCTTATGTTTGGCTGGTTTTGGAGATATATTAAATGTTCTT
TATCATG
Found at i:117316945 original size:2 final size:2
Alignment explanation
Indices: 117316938--117316976 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
117316928 TTATTTTTGT
117316938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117316977 GTCTTAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:117319847 original size:20 final size:20
Alignment explanation
Indices: 117319824--117319862 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
117319814 AAGTGCAGTA
117319824 AGAGGCACTGAAGTGCAAAT
1 AGAGGCACTGAAGTGCAAAT
117319844 AGAGGCACTGAAGTGCAAA
1 AGAGGCACTGAAGTGCAAA
117319863 CTCGCACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.31, T:0.13
Consensus pattern (20 bp):
AGAGGCACTGAAGTGCAAAT
Found at i:117322350 original size:20 final size:20
Alignment explanation
Indices: 117322307--117322353 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
117322297 AGTAAGAAAC
*
117322307 GGGCCAAAAATGGACAAATT
1 GGGCCAAAAACGGACAAATT
117322327 -GGCCAAAAACGGACAAATT
1 GGGCCAAAAACGGACAAATT
117322346 GGGCCAAA
1 GGGCCAAA
117322354 TTCAGTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.11
Consensus pattern (20 bp):
GGGCCAAAAACGGACAAATT
Found at i:117327856 original size:46 final size:46
Alignment explanation
Indices: 117327789--117327964 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
117327779 TATTTGGGCA
117327789 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
117327835 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* *
117327880 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
117327928 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
117327965 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.05
45 1 0.01
46 63 0.57
47 28 0.25
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:117327944 original size:93 final size:93
Alignment explanation
Indices: 117327785--117327956 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
117327775 AGGATATTTG
* *
117327785 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
117327850 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
117327878 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
117327943 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
117327957 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:117329444 original size:25 final size:25
Alignment explanation
Indices: 117329415--117329462 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
117329405 CTCTCCTCCC
117329415 TCTTCTATTTTCTT-TTCTCCCTTCA
1 TCTTCTA-TTTCTTCTTCTCCCTTCA
*
117329440 TCTTCTATTTCTTCTTCTTCCTT
1 TCTTCTATTTCTTCTTCTCCCTT
117329463 TACCCCAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.62
Consensus pattern (25 bp):
TCTTCTATTTCTTCTTCTCCCTTCA
Found at i:117331273 original size:5 final size:5
Alignment explanation
Indices: 117331254--117331303 Score: 57
Period size: 5 Copynumber: 9.6 Consensus size: 5
117331244 TCTGAGTCCA
*
117331254 TTTATT TTTATT TTTAT TTTAT TTTATT TTTGT TTTAT TTTA- TTTAT
1 TTTA-T TTTA-T TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT
117331301 TTT
1 TTT
117331304 TTCTTAAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
4 4 0.10
5 22 0.55
6 14 0.35
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:117331305 original size:16 final size:16
Alignment explanation
Indices: 117331254--117331298 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
117331244 TCTGAGTCCA
117331254 TTTATTTTTATTTTTAT
1 TTTA-TTTTATTTTTAT
*
117331271 TTTATTTTATTTTTGT
1 TTTATTTTATTTTTAT
117331287 TTTATTTTATTT
1 TTTATTTTATTT
117331299 ATTTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTATTTTATTTTTAT
Found at i:117331305 original size:21 final size:20
Alignment explanation
Indices: 117331253--117331305 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 20
117331243 CTCTGAGTCC
117331253 ATTTATTTTTATTTTTATTTT
1 ATTTATTTTT-TTTTTATTTT
*
117331274 ATTTTATTTTTGTTTTATTTT
1 A-TTTATTTTTTTTTTATTTT
117331295 ATTTATTTTTT
1 ATTTATTTTTT
117331306 CTTAAGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.31
21 11 0.38
22 9 0.31
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (20 bp):
ATTTATTTTTTTTTTATTTT
Found at i:117347980 original size:2 final size:2
Alignment explanation
Indices: 117347973--117347997 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
117347963 ACGCACATTC
117347973 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
117347998 CAATTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:117367321 original size:19 final size:19
Alignment explanation
Indices: 117367297--117367352 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
117367287 ACTCAACTAT
*
117367297 TCAATTTTATTTGTTTCAG
1 TCAATTTTATATGTTTCAG
*
117367316 TCAATTTT-TATCTTT---
1 TCAATTTTATATGTTTCAG
*
117367331 TCAATTTTATCTGTTTCAG
1 TCAATTTTATATGTTTCAG
117367350 TCA
1 TCA
117367353 TCAATGGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
15 8 0.28
16 5 0.17
18 5 0.17
19 11 0.38
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (19 bp):
TCAATTTTATATGTTTCAG
Found at i:117367338 original size:14 final size:16
Alignment explanation
Indices: 117367316--117367348 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
117367306 TTTGTTTCAG
117367316 TCAATTTTTATCT-TT
1 TCAATTTTTATCTGTT
117367331 TCAA-TTTTATCTGTT
1 TCAATTTTTATCTGTT
117367346 TCA
1 TCA
117367349 GTCATCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.61
Consensus pattern (16 bp):
TCAATTTTTATCTGTT
Found at i:117368498 original size:6 final size:6
Alignment explanation
Indices: 117368484--117368514 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
117368474 AGTAGCAATG
*
117368484 GCAGAA GCAGGA GCAGGA GCAGGA GCAGGA G
1 GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA G
117368515 TAGTTGCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.48, T:0.00
Consensus pattern (6 bp):
GCAGGA
Found at i:117373451 original size:22 final size:23
Alignment explanation
Indices: 117373408--117373456 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
117373398 AACTTATCAA
117373408 AAATAACAAAAAAATATAAATT-
1 AAATAACAAAAAAATATAAATTC
* *
117373430 AAATAA-AAAATAAATTTCAATTC
1 AAATAACAAAA-AAATATAAATTC
117373453 AAAT
1 AAAT
117373457 TAATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
22 15 0.65
23 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AAATAACAAAAAAATATAAATTC
Found at i:117374604 original size:6 final size:6
Alignment explanation
Indices: 117374589--117374624 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
117374579 CCCGCCCCGC
*
117374589 CCTGCA CCTGCT CCTGCT CCTGCT CCTGCT -CTGCT C
1 CCTGCT CCTGCT CCTGCT CCTGCT CCTGCT CCTGCT C
117374625 TTCATATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.03, C:0.50, G:0.17, T:0.31
Consensus pattern (6 bp):
CCTGCT
Found at i:117376131 original size:4 final size:4
Alignment explanation
Indices: 117376122--117376170 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
117376112 CATGCATAGA
* * * * *
117376122 ACAT ACAT ACAT ACAT ACAT ATAT ACAT GCAT GCAT GCAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
117376170 A
1 A
117376171 TGCTTTTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:117379685 original size:20 final size:21
Alignment explanation
Indices: 117379652--117379690 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
117379642 TATTCCTTCT
117379652 CTTTTAATACACTT-TTTTAA
1 CTTTTAATACACTTCTTTTAA
117379672 CTTTTAAATA-ACTTCTTTT
1 CTTTT-AATACACTTCTTTT
117379691 TGCAATCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (21 bp):
CTTTTAATACACTTCTTTTAA
Found at i:117381537 original size:5 final size:5
Alignment explanation
Indices: 117381493--117381517 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
117381483 AAAAGAATAG
117381493 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
117381518 TAAAAACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:117384495 original size:34 final size:34
Alignment explanation
Indices: 117384447--117384519 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
117384437 GAGAGAGTCT
* **
117384447 ATTTGTATCCACTCCAGCTCCGAAACAAATTGTA
1 ATTTATATCCACTCCAGCTCCGAAACAAATAATA
117384481 ATTTATATCCACTCCAGCTCCGAAACAAATAATA
1 ATTTATATCCACTCCAGCTCCGAAACAAATAATA
117384515 ATTTA
1 ATTTA
117384520 AACATCCGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (34 bp):
ATTTATATCCACTCCAGCTCCGAAACAAATAATA
Found at i:117385782 original size:20 final size:20
Alignment explanation
Indices: 117385754--117385791 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
117385744 TAAAAATAAT
* *
117385754 AATATACATAATATATACAA
1 AATACACATAATACATACAA
117385774 AATACACATAATACATAC
1 AATACACATAATACATAC
117385792 GTATATAACA
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:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (20 bp):
AATACACATAATACATACAA
Found at i:117388024 original size:87 final size:87
Alignment explanation
Indices: 117387824--117388214 Score: 452
Period size: 87 Copynumber: 4.4 Consensus size: 87
117387814 ACGTGAGCTA
* * * *
117387824 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTG-AAA-CTTAATTTGAAAAATAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAGCATAAATTG-AAAA-ACATT
* * *
117387887 --TTGAAAATACCTC-GACATGTGACCCG
62 AATTGAGAATAACTCAG-C--GTGCCCCG
*
117387913 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACATTAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACATTAATT
117387978 GAGAATAACTCAGCGTGCCCCG
66 GAGAATAACTCAGCGTGCCCCG
* * *
117388000 AGGCTTAACTCACCTATTGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACATTAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACATTAATT
*
117388065 GAGAATAACTCAGTGTGCCCCG
66 GAGAATAACTCAGCGTGCCCCG
*** *
117388087 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CATAAATTGAAAAACGGAAATC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACATTAATT
* * *
117388151 GAAAATACCTCAGCGTGCCCTGAGCCA
66 GAGAATAACTCAGCGTG-CC----CCG
*
117388178 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
117388215 TTGATGATAA
Statistics
Matches: 267, Mismatches: 25, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
86 32 0.12
87 140 0.52
88 8 0.03
89 48 0.18
90 1 0.00
91 38 0.14
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAACATTAATT
GAGAATAACTCAGCGTGCCCCG
Found at i:117388277 original size:163 final size:158
Alignment explanation
Indices: 117388086--117388595 Score: 517
Period size: 148 Copynumber: 3.2 Consensus size: 158
117388076 AGTGTGCCCC
**
117388086 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAAA-ACGGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAAATT-AAAACACAAAAAT
117388150 CGAAAATACCTCAGCGTGCCCTGAGCCAAGGCTCAACTCACCCCTCGCAATATGAGTTG-ATTTT
64 CGAAAATACCTCAGCGTGCCCT--G---AGGCTCAACTCACCCCTCGCAATATGAGTTGAATTTT
**** ** * * *
117388214 TTTGATGATAAATTAAAAATACCTCAATGTGACTT
124 GAAAAACAGAAATTAAAAATACCTCAACGTGACCT
* *
117388249 GAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGAAAAATAAATTAAAACACAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTAAAACACAAAAATCG
* **
117388314 ACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGAATTTTGAAAAAC
66 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGAATTTTGAAAAAC
* * * *
117388379 AGAAATTGAAAATATCTCAGCGTGTCCT
131 AGAAATTAAAAATACCTCAACGTGACCT
** *
117388407 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT------T---TTAACAA-ACAGTAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTAA-AACACAAAAATC
* * * *
117388461 GAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCC-CGCAATATGAGTTGATTTTTTTAAC
65 GAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACC-CCTCGCAATATGAGTTGA-ATTTTGAA-
* * * *
117388525 AAACAGTAATTGAAAATACCTCAGCGTGCCCT
127 AAACAGAAATTAAAAATACCTCAACGTGACCT
* *
117388557 AAGGCTCAACTCACCTCTTGCAATTATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTT
117388596 TTGAAAACAG
Statistics
Matches: 304, Mismatches: 35, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
148 59 0.19
149 8 0.03
150 50 0.16
151 11 0.04
152 4 0.01
157 33 0.11
158 59 0.19
160 1 0.00
161 4 0.01
162 33 0.11
163 42 0.14
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (158 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTAAAACACAAAAATCG
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGAATTTTGAAAAAC
AGAAATTAAAAATACCTCAACGTGACCT
Done.