Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 321 of 427
Found at i:93488666 original size:31 final size:31
Alignment explanation
Indices: 93488589--93488700 Score: 135
Period size: 31 Copynumber: 3.7 Consensus size: 31
93488579 TTAGTCTTGA
* *
93488589 CATAT-ACTGGGCCGAAGCC-TTTCGTTTAAT
1 CATATCACTGGGCCGAAGCCTTTTC-ATAAAT
*
93488619 GAT-T-ACT-GGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
93488647 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
93488678 CATTTCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
93488701 ACTATAAACG
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
28 16 0.23
29 9 0.13
30 5 0.07
31 41 0.58
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:93488783 original size:42 final size:42
Alignment explanation
Indices: 93488724--93488815 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
93488714 TGGCCTATAG
* * *
93488724 GCCCATTTCAATATCACATGTAATATCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
93488766 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
93488808 GCCCATTT
1 GCCCATTT
93488816 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:93489034 original size:25 final size:26
Alignment explanation
Indices: 93488960--93489105 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
93488950 CCTCTTTAAT
93488960 AACTGGGG-A-AAGCCCTTTTCGGT-
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
93488983 AACT-GGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
93489008 AACTGGGGCATAAGCCCTTTT-GGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
93489033 AACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
93489059 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
93489085 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
93489106 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
22 3 0.03
23 5 0.04
24 12 0.11
25 27 0.24
26 65 0.58
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:93489054 original size:51 final size:52
Alignment explanation
Indices: 93488960--93489105 Score: 248
Period size: 51 Copynumber: 2.9 Consensus size: 52
93488950 CCTCTTTAAT
93488960 AACTGGGG-A-AAGCCCTTTTCGGT-AACT-GGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
93489008 AACTGGGGCATAAGCCCTTTT-GGTAAACTGGGGCATAAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
93489059 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
93489106 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
48 8 0.09
49 4 0.04
50 14 0.15
51 41 0.45
52 25 0.27
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:93489998 original size:27 final size:27
Alignment explanation
Indices: 93489907--93489990 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
93489897 GGGCATATTC
* *
93489907 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
93489934 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
93489961 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
93489988 GTC
1 GTC
93489991 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:93490006 original size:27 final size:27
Alignment explanation
Indices: 93489907--93490007 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
93489897 GGGCATATTC
* * *
93489907 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTATAGGGGCT-TTACG
93489934 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
*
93489961 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
**
93489988 GTCTTTTTA-CCTAATAGGGG
1 GTCACTTTACCCT-ATAGGGG
93490008 TATTTTAGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.05
27 61 0.94
28 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCCTATAGGGGCTTTACG
Found at i:93490082 original size:27 final size:27
Alignment explanation
Indices: 93490056--93490512 Score: 134
Period size: 27 Copynumber: 17.0 Consensus size: 27
93490046 ATCTACAAAC
*
93490056 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
93490083 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
93490112 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** **
93490139 C-AGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * ***
93490165 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
93490191 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
** *** *
93490219 TGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*** * *
93490246 CAAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *** *
93490273 CGAGGGTAAAAC-GATAATTCTGTAAAT
1 CAAGGGTATTTCAG-TAATTTTGTAAAT
* ** * *
93490300 CGAGGGTAAAAT-GGTAATTCTGTAAAT
1 CAAGGGT-ATTTCAGTAATTTTGTAAAT
*** *
93490327 CAAGGGTAAAAC-GATAATTATGTAAATT
1 CAAGGGTATTTCAG-TAATTTTGTAAA-T
* ** * *
93490355 C-GGGGTA-AACGGTAATTATGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *** * *
93490380 C-GGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* * ** *
93490406 C-GGGGTACTTT-GGTAATTTTACAAGT
1 CAAGGGTA-TTTCAGTAATTTTGTAAAT
**
93490432 CGAA-GGTATTTCAGTAATTTTACAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
* *
93490459 CGAGGGTATTTCAGT-ATTTT-TACAAA
1 CAAGGGTATTTCAGTAATTTTGTA-AAT
*
93490485 CTAAGGGTATTTCGGTAATTTTAGTAAA
1 C-AAGGGTATTTCAGTAATTTT-GTAAA
93490513 CTAAAGTATT
Statistics
Matches: 350, Mismatches: 53, Indels: 52
0.77 0.12 0.11
Matches are distributed among these distances:
25 9 0.03
26 89 0.25
27 212 0.61
28 18 0.05
29 19 0.05
30 3 0.01
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:93490423 original size:26 final size:26
Alignment explanation
Indices: 93490205--93490412 Score: 247
Period size: 27 Copynumber: 7.8 Consensus size: 26
93490195 GGGTATTTTA
* * *
93490205 GTAATTTTGTAAATTGAGGGTAAAACA
1 GTAATTCTGTAAATCG-GGGTAAAACG
* *
93490232 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATC-GGGGTAAAACG
*
93490259 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCG-GGGTAAAACG
* *
93490286 ATAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCG-GGGTAAAACG
*
93490313 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATC-GGGGTAAAACG
* *
93490340 ATAATTATGTAAATTCGGGGT-AAACG
1 GTAATTCTGTAAA-TCGGGGTAAAACG
*
93490366 GTAATTATGTAAATCGGGGTAAAACG
1 GTAATTCTGTAAATCGGGGTAAAACG
93490392 GTAATTCTGTAAATCGGGGTA
1 GTAATTCTGTAAATCGGGGTA
93490413 CTTTGGTAAT
Statistics
Matches: 159, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.04
26 42 0.26
27 108 0.68
28 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (26 bp):
GTAATTCTGTAAATCGGGGTAAAACG
Found at i:93497091 original size:17 final size:18
Alignment explanation
Indices: 93497049--93497097 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
93497039 AGTTGAAAAG
93497049 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
93497068 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
93497085 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
93497098 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:93497985 original size:40 final size:40
Alignment explanation
Indices: 93497919--93498085 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
93497909 AAATTGAATG
* * *
93497919 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
93497958 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
93497998 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
93498038 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
93498078 ATATCCGG
1 ATATCCGG
93498086 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:93505089 original size:17 final size:18
Alignment explanation
Indices: 93505047--93505095 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
93505037 AGTTGAAAAG
93505047 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
93505066 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
93505083 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
93505096 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:93505984 original size:40 final size:40
Alignment explanation
Indices: 93505918--93506084 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
93505908 AAATTGAATG
* * *
93505918 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
93505957 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
93505997 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
93506037 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
93506077 ATATCCGG
1 ATATCCGG
93506085 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:93514606 original size:2 final size:2
Alignment explanation
Indices: 93514599--93514632 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
93514589 TATCATTACT
93514599 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93514633 CGTATGGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93516128 original size:49 final size:49
Alignment explanation
Indices: 93516056--93516154 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
93516046 ACAATCAACA
93516056 TGTAAAAACATGGTAACATATACATAAAGATTTTTCTCCATTCAAACCT
1 TGTAAAAACATGGTAACATATACATAAAGATTTTTCTCCATTCAAACCT
93516105 TGTAAAAACATGGTAACATATACATAAAGATTTTTCTCCATTCAAACCT
1 TGTAAAAACATGGTAACATATACATAAAGATTTTTCTCCATTCAAACCT
93516154 T
1 T
93516155 TTTTCTTACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (49 bp):
TGTAAAAACATGGTAACATATACATAAAGATTTTTCTCCATTCAAACCT
Found at i:93516527 original size:43 final size:43
Alignment explanation
Indices: 93516466--93516552 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
93516456 GTTACATAAA
* * * *
93516466 TCGCATCCATCATGAACTC-AGACCTCTCAACGAGTTCGGATGC
1 TCGCAACCATAATGAACTCGA-ACCTCTCAACGAGCTCGAATGC
*
93516509 TCGCAACCATAATGAACTCGAACCTCTCAATGAGCTCGAATGC
1 TCGCAACCATAATGAACTCGAACCTCTCAACGAGCTCGAATGC
93516552 T
1 T
93516553 ACATACCTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
TCGCAACCATAATGAACTCGAACCTCTCAACGAGCTCGAATGC
Found at i:93519687 original size:43 final size:43
Alignment explanation
Indices: 93519625--93519734 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 43
93519615 TACAAGTTTA
* *
93519625 TACTTCGGTTTATCAAATGATGCACTATGTATGCTAGTATATT
1 TACTTTGGTTTATCCAATGATGCACTATGTATGCTAGTATATT
*
93519668 TACTTTGGTTTATCCAATGATGCACTATGTGTGCTAGTATATT
1 TACTTTGGTTTATCCAATGATGCACTATGTATGCTAGTATATT
* *
93519711 TACTTTGGCTTATCCAATAATGCA
1 TACTTTGGTTTATCCAATGATGCA
93519735 TTGAGGTGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (43 bp):
TACTTTGGTTTATCCAATGATGCACTATGTATGCTAGTATATT
Found at i:93521136 original size:17 final size:17
Alignment explanation
Indices: 93521111--93521146 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
93521101 GAATATAAGT
*
93521111 ATGCGTATAAATGAAGC
1 ATGCATATAAATGAAGC
93521128 ATGCATATAAATGAAGC
1 ATGCATATAAATGAAGC
93521145 AT
1 AT
93521147 TTGGCACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (17 bp):
ATGCATATAAATGAAGC
Found at i:93530828 original size:13 final size:13
Alignment explanation
Indices: 93530812--93530849 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
93530802 TATATTTTTT
*
93530812 TAAAAAATTTATA
1 TAAAAAATTAATA
93530825 T-AAAAA-TAATA
1 TAAAAAATTAATA
93530836 TAAAAAATTAATA
1 TAAAAAATTAATA
93530849 T
1 T
93530850 GGGCGGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 5 0.23
12 10 0.45
13 7 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:93531765 original size:6 final size:6
Alignment explanation
Indices: 93531754--93531778 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
93531744 ATTGTGATTA
93531754 GAATTG GAATTG GAATTG GAATTG G
1 GAATTG GAATTG GAATTG GAATTG G
93531779 TTATTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (6 bp):
GAATTG
Found at i:93534239 original size:10 final size:10
Alignment explanation
Indices: 93534226--93534256 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
93534216 AGATACTCAT
*
93534226 AAATACATCA
1 AAATATATCA
93534236 AAATATATCA
1 AAATATATCA
93534246 AAATATATCA
1 AAATATATCA
93534256 A
1 A
93534257 TCACTAGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATATATCA
Found at i:93534855 original size:25 final size:25
Alignment explanation
Indices: 93534804--93534918 Score: 90
Period size: 25 Copynumber: 4.5 Consensus size: 25
93534794 ATTAGAGCAC
*
93534804 ATAATCGGGAAGCCCTTTTTCGAGCCAT
1 ATAA-CGGGAAG--CTTATTCGAGCCAT
*
93534832 ATAACAGGAAGCTTATGT-GAGCCAT
1 ATAACGGGAAGCTTAT-TCGAGCCAT
* * * *
93534857 GTAATGGGAAGCTTATTCGGGCTAT
1 ATAACGGGAAGCTTATTCGAGCCAT
* **
93534882 ATAACGGGAAGCTCATAAGAGCCAT
1 ATAACGGGAAGCTTATTCGAGCCAT
*
93534907 A-ATCGGGAAGCT
1 ATAACGGGAAGCT
93534919 CTTACAAGCC
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
24 11 0.16
25 48 0.69
26 1 0.01
27 6 0.09
28 4 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (25 bp):
ATAACGGGAAGCTTATTCGAGCCAT
Found at i:93534928 original size:24 final size:24
Alignment explanation
Indices: 93534882--93534967 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
93534872 TTCGGGCTAT
93534882 ATAACGGGAAGCTCATAAGAGCC-
1 ATAACGGGAAGCTCATAAGAGCCA
*
93534905 ATAATCGGGAAGCTCTTACA-AGCCA
1 ATAA-CGGGAAGCTCATA-AGAGCCA
* * ** *
93534930 ATAACGGGTAGTTCCGAAGAGCTA
1 ATAACGGGAAGCTCATAAGAGCCA
*
93534954 TTAACGGGAAGCTC
1 ATAACGGGAAGCTC
93534968 CAGATAACCA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
23 5 0.10
24 40 0.80
25 5 0.10
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (24 bp):
ATAACGGGAAGCTCATAAGAGCCA
Found at i:93535023 original size:23 final size:25
Alignment explanation
Indices: 93534997--93535050 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
93534987 AAGTTCAAGC
* *
93534997 GAGCCAT-ATCGGGAAGCTC-CGAA
1 GAGCCATGATCAGGAAGCTCACAAA
93535020 GAGCCATGGATCAGGAAGCTCACAAA
1 GAGCCAT-GATCAGGAAGCTCACAAA
93535046 GAGCC
1 GAGCC
93535051 TTTAATCGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
25 11 0.42
26 8 0.31
ACGTcount: A:0.33, C:0.26, G:0.30, T:0.11
Consensus pattern (25 bp):
GAGCCATGATCAGGAAGCTCACAAA
Found at i:93536114 original size:14 final size:14
Alignment explanation
Indices: 93536078--93536114 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
93536068 TGATATTAGA
93536078 TATTTA-TTTTATT
1 TATTTACTTTTATT
93536091 TA-TTATCTTTTATT
1 TATTTA-CTTTTATT
93536105 TATTTACTTT
1 TATTTACTTT
93536115 CTAATTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 2 0.10
14 13 0.62
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTACTTTTATT
Found at i:93539083 original size:15 final size:15
Alignment explanation
Indices: 93539063--93539093 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93539053 CGAGGCATGG
93539063 TTGAAACGATTTAAT
1 TTGAAACGATTTAAT
93539078 TTGAAACGATTTAAT
1 TTGAAACGATTTAAT
93539093 T
1 T
93539094 AAGTTTTGAA
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:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (15 bp):
TTGAAACGATTTAAT
Found at i:93539729 original size:5 final size:5
Alignment explanation
Indices: 93539719--93539745 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
93539709 AAAACCCCGC
93539719 TCTGG TCTGG TCTGG TCTGG TCTGG TC
1 TCTGG TCTGG TCTGG TCTGG TCTGG TC
93539746 AGCTCAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.37, T:0.41
Consensus pattern (5 bp):
TCTGG
Found at i:93547097 original size:16 final size:15
Alignment explanation
Indices: 93547054--93547101 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
93547044 AAAGAAGAAG
93547054 AAAAAATA-ACAATAA
1 AAAAAATACA-AATAA
*
93547069 AAAAAGTACAAATAA
1 AAAAAATACAAATAA
*
93547084 AAAAAATGATAAATAA
1 AAAAAAT-ACAAATAA
93547100 AA
1 AA
93547102 GATAAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAAAATACAAATAA
Found at i:93547122 original size:17 final size:17
Alignment explanation
Indices: 93547100--93547135 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
93547090 TGATAAATAA
93547100 AAGATAAAACTAGGTAG
1 AAGATAAAACTAGGTAG
93547117 AAGATAAAACTAGGTAG
1 AAGATAAAACTAGGTAG
93547134 AA
1 AA
93547136 TCACTAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.17
Consensus pattern (17 bp):
AAGATAAAACTAGGTAG
Found at i:93559270 original size:15 final size:12
Alignment explanation
Indices: 93559238--93559269 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
93559228 AATGACATAA
93559238 TTCATCATAGAG
1 TTCATCATAGAG
93559250 TTCATCATAGAG
1 TTCATCATAGAG
93559262 TTCATCAT
1 TTCATCAT
93559270 CTTTAGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (12 bp):
TTCATCATAGAG
Found at i:93560714 original size:14 final size:14
Alignment explanation
Indices: 93560664--93560715 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
93560654 AAATTATTCA
93560664 ATTTATAT-TTTAT
1 ATTTATATATTTAT
*
93560677 -TTTATATA-TAACT
1 ATTTATATATTTA-T
*
93560690 ATTTATTTATTTAT
1 ATTTATATATTTAT
93560704 ATTTATATATTT
1 ATTTATATATTT
93560716 TGTGTTCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
12 9 0.29
13 1 0.03
14 19 0.61
15 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTATATATTTAT
Found at i:93560714 original size:18 final size:18
Alignment explanation
Indices: 93560664--93560715 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
93560654 AAATTATTCA
93560664 ATTTATATTT-TAT-TTT
1 ATTTATATTTATATATTT
* ** *
93560680 ATATATAACTATTTATTT
1 ATTTATATTTATATATTT
93560698 ATTTATATTTATATATTT
1 ATTTATATTTATATATTT
93560716 TGTGTTCTAA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
16 7 0.27
17 2 0.08
18 17 0.65
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATATTTATATATTT
Found at i:93567054 original size:11 final size:10
Alignment explanation
Indices: 93567027--93567060 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
93567017 ATTTCATATG
93567027 TTATTATTAA
1 TTATTATTAA
93567037 TTATTATTAA
1 TTATTATTAA
93567047 TATATTATTAA
1 T-TATTATTAA
93567058 TTA
1 TTA
93567061 GTTTCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATTATTAA
Found at i:93567072 original size:21 final size:21
Alignment explanation
Indices: 93567028--93567072 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
93567018 TTTCATATGT
* *
93567028 TATTATTAATTATTATTAATA
1 TATTATTAATTATTATCAAAA
93567049 TATTATTAATTAGTT-TCAAAA
1 TATTATTAATTA-TTATCAAAA
93567070 TAT
1 TAT
93567073 ACGTTTCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTATTAATTATTATCAAAA
Found at i:93570177 original size:21 final size:21
Alignment explanation
Indices: 93570151--93570190 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
93570141 ACCCTTCAGT
*
93570151 GGTATTGCGATATCCTCTTTG
1 GGTATTGCAATATCCTCTTTG
93570172 GGTATTGCAATATCCTCTT
1 GGTATTGCAATATCCTCTT
93570191 CTGGATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (21 bp):
GGTATTGCAATATCCTCTTTG
Found at i:93573973 original size:9 final size:9
Alignment explanation
Indices: 93573961--93574013 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 9
93573951 ATTTCAAAAT
93573961 AAAAATTTA
1 AAAAATTTA
93573970 AAAAATTTTA
1 AAAAA-TTTA
93573980 AAAAATGTATA
1 AAAAAT-T-TA
*
93573991 AAAAAATTA
1 AAAAATTTA
*
93574000 AAAAGTTCTA
1 AAAAATT-TA
93574010 AAAA
1 AAAA
93574014 GTGGTTCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
9 13 0.35
10 17 0.46
11 7 0.19
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAAATTTA
Found at i:93576437 original size:34 final size:34
Alignment explanation
Indices: 93576398--93576465 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
93576388 TCAAGAACCA
*
93576398 AAGAAAATGGAATTAGACCGGGGAAAGTCGAAAG
1 AAGAAAATGGAATTAGACCGGGAAAAGTCGAAAG
93576432 AAGAAAATGGAATTAGACCGGGAAAAGTCGAAAG
1 AAGAAAATGGAATTAGACCGGGAAAAGTCGAAAG
93576466 TCGTCGAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.31, T:0.12
Consensus pattern (34 bp):
AAGAAAATGGAATTAGACCGGGAAAAGTCGAAAG
Found at i:93576772 original size:43 final size:43
Alignment explanation
Indices: 93576724--93576844 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
93576714 TCCGATATGT
*
93576724 GATATCGTGTAAGACCATGTCTGGGACTTTGGCATCGACTT-GA
1 GATATCGTGTAAGACCATGTCTGGGACATTGGCATCGA-TTAGA
* * * *
93576767 GATATCATGTAAGACCGTGTCTGAGAAATTGGCATCGATTAGA
1 GATATCGTGTAAGACCATGTCTGGGACATTGGCATCGATTAGA
* * *
93576810 GAT-TACGTGTAAGGCCCTGTCTGGGACAGTGGCAT
1 GATAT-CGTGTAAGACCATGTCTGGGACATTGGCAT
93576845 TGATATTTGA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.05
43 62 0.95
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
GATATCGTGTAAGACCATGTCTGGGACATTGGCATCGATTAGA
Found at i:93578003 original size:42 final size:42
Alignment explanation
Indices: 93577956--93578042 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
93577946 ATGCCTATGT
93577956 GTTAGGTTCTTGAATGGCCAAATGAATTGGTCAAATTGGTAA
1 GTTAGGTTCTTGAATGGCCAAATGAATTGGTCAAATTGGTAA
93577998 GTTAGGTTCTTGAATGGCCAAATGAATTGGTCAAATTGGTAA
1 GTTAGGTTCTTGAATGGCCAAATGAATTGGTCAAATTGGTAA
93578040 GTT
1 GTT
93578043 TTTGGTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.34
Consensus pattern (42 bp):
GTTAGGTTCTTGAATGGCCAAATGAATTGGTCAAATTGGTAA
Found at i:93584297 original size:39 final size:40
Alignment explanation
Indices: 93584244--93584453 Score: 95
Period size: 40 Copynumber: 5.3 Consensus size: 40
93584234 GAGTTACCGG
* * *
93584244 AGTATAAACAGGGGCACAAATATGCATTC-AGGGTACTGA
1 AGTACAAATAGGGGCACAAATATGCAATCAAGGGTACTGA
* *** *
93584283 ATTACAAATAGGGGCATGTATGTGCAATCAAGGGTACTGA
1 AGTACAAATAGGGGCACAAATATGCAATCAAGGGTACTGA
* * *** * * * * * *
93584323 AGTACAAACAAGGGCATGCATGTGTAGTTAGGGGTACCGA
1 AGTACAAATAGGGGCACAAATATGCAATCAAGGGTACTGA
* ** * * *
93584363 AGTACAAA-ATGGGACACGTATGTGCAAACAGGGGTA-TCGA
1 AGTACAAATA-GGGGCACAAATATGCAATCAAGGGTACT-GA
* * * **
93584403 AGTACAAATAGAGGCACATATAAGCAATC-AGAGGTACCAA
1 AGTACAAATAGGGGCACAAATATGCAATCAAG-GGTACTGA
93584443 AGTACAAATAG
1 AGTACAAATAG
93584454 AGGTATATAT
Statistics
Matches: 130, Mismatches: 35, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
39 23 0.18
40 106 0.82
41 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.20
Consensus pattern (40 bp):
AGTACAAATAGGGGCACAAATATGCAATCAAGGGTACTGA
Found at i:93584319 original size:40 final size:40
Alignment explanation
Indices: 93584273--93584473 Score: 147
Period size: 40 Copynumber: 5.0 Consensus size: 40
93584263 ATATGCATTC
*
93584273 AGGGTACTGAATTACAAATAGGGGCATGTATGTGCAATCA
1 AGGGTACTGAAGTACAAATAGGGGCATGTATGTGCAATCA
* * * * * *
93584313 AGGGTACTGAAGTACAAACAAGGGCATGCATGTGTAGTTA
1 AGGGTACTGAAGTACAAATAGGGGCATGTATGTGCAATCA
* * * * *
93584353 GGGGTACCGAAGTACAAA-ATGGGACACGTATGTGCAAACA
1 AGGGTACTGAAGTACAAATA-GGGGCATGTATGTGCAATCA
* * ** **
93584393 GGGGTA-TCGAAGTACAAATAGAGGCACATATAAGCAATC-
1 AGGGTACT-GAAGTACAAATAGGGGCATGTATGTGCAATCA
** * * *
93584432 AGAGGTACCAAAGTACAAATAGAGGTATATATGTGCAATCA
1 AG-GGTACTGAAGTACAAATAGGGGCATGTATGTGCAATCA
93584473 A
1 A
93584474 ACAATAATCA
Statistics
Matches: 124, Mismatches: 31, Indels: 11
0.75 0.19 0.07
Matches are distributed among these distances:
39 2 0.02
40 120 0.97
41 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (40 bp):
AGGGTACTGAAGTACAAATAGGGGCATGTATGTGCAATCA
Found at i:93587135 original size:23 final size:24
Alignment explanation
Indices: 93587058--93587150 Score: 75
Period size: 23 Copynumber: 3.8 Consensus size: 24
93587048 AGACTCACCA
*
93587058 CAGCTCGTATGAGATTACTGATAT
1 CAGCTCGTATGAGCTTACTGATAT
* * * * *
93587082 AACACCTTGTAAGACCTTACT-ATTCT
1 --CAGCTCGTATGAGCTTACTGA-TAT
93587108 CAGCTCGTATGAGCTTACTGAT-T
1 CAGCTCGTATGAGCTTACTGATAT
93587131 CAGCTCGTCA-GAGCTTACTG
1 CAGCTCGT-ATGAGCTTACTG
93587151 TTTTAGTTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
23 19 0.35
24 17 0.31
25 2 0.04
26 16 0.30
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACTGATAT
Found at i:93588895 original size:96 final size:93
Alignment explanation
Indices: 93588747--93588920 Score: 258
Period size: 96 Copynumber: 1.8 Consensus size: 93
93588737 AGATGTAAGC
* * * *
93588747 CAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGTGTCAGTGTAAGACCATGTCTGGG
1 CAGTGTAAGACATGTCTAGGACATGCATCGACTAAGAGATGAGCCAGTGTAAGACCATGTCTGGG
*
93588812 ACATGGCGTCGGCCTCGATTTCGATAGT
66 ACATGGCATCGGCCTCGATTTCGATAGT
* *
93588840 CAGTGTAAGACCATGTTTAGGACATGGCATCGACTTAATAGATGAGCCAGTGTAAGACCATGTCT
1 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGAC-TAAGAGATGAGCCAGTGTAAGACCATGTCT
93588905 GGGACATGGCATCGGC
63 GGGACATGGCATCGGC
93588921 AATATACCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
93 10 0.14
94 12 0.17
95 8 0.11
96 41 0.58
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (93 bp):
CAGTGTAAGACATGTCTAGGACATGCATCGACTAAGAGATGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCCTCGATTTCGATAGT
Found at i:93588910 original size:47 final size:47
Alignment explanation
Indices: 93588654--93588918 Score: 188
Period size: 47 Copynumber: 5.7 Consensus size: 47
93588644 TATGAGAGAT
* * * *
93588654 AGTGTAAGAACATGTTTGGGACATGGCATCGGCATTGAGAT-GA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT-A-ATAGATGAGCC
* * * * * * *
93588702 AATGTTAGA-CATGTTTGGGACAT-GCGTCAACCTCA-AGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATAGATG--AGCC
** * *
93588748 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATAGATGAGCC
* * * * * *
93588792 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACT-TA-ATAGATGAGCC
* *
93588841 AGTGTAAGACCATGTTTAGGACATGGCATCGACTTAATAGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATAGATGAGCC
93588888 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
93588919 GCAATATACC
Statistics
Matches: 171, Mismatches: 34, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
43 3 0.02
44 12 0.07
45 16 0.09
46 47 0.27
47 49 0.29
48 10 0.06
49 31 0.18
50 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATAGATGAGCC
Found at i:93591224 original size:13 final size:13
Alignment explanation
Indices: 93591206--93591232 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93591196 ATGTGACTTG
93591206 GCTGTATTGATAA
1 GCTGTATTGATAA
93591219 GCTGTATTGATAA
1 GCTGTATTGATAA
93591232 G
1 G
93591233 TCAGTATACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (13 bp):
GCTGTATTGATAA
Found at i:93598083 original size:26 final size:26
Alignment explanation
Indices: 93598054--93598189 Score: 157
Period size: 26 Copynumber: 5.3 Consensus size: 26
93598044 CTGGCTTAAA
* * *
93598054 GCCTACTAGATAACCACCGGCTCAAG
1 GCCTGCTAAATAAACACCGGCTCAAG
*
93598080 GCCTGCTAAATAAACACCAGCTCAAG
1 GCCTGCTAAATAAACACCGGCTCAAG
** *
93598106 GCCTAATAAATAAACACTGGCTCAAG
1 GCCTGCTAAATAAACACCGGCTCAAG
* *
93598132 GCCTGCTAAATCAACACCAGCTCAAG
1 GCCTGCTAAATAAACACCGGCTCAAG
* * *
93598158 TCATGCTAAATAACCACCGG-TCAAG
1 GCCTGCTAAATAAACACCGGCTCAAG
93598183 GCCTGCT
1 GCCTGCT
93598190 TTTCTTGTAT
Statistics
Matches: 90, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
25 10 0.11
26 80 0.89
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.18
Consensus pattern (26 bp):
GCCTGCTAAATAAACACCGGCTCAAG
Found at i:93598128 original size:52 final size:52
Alignment explanation
Indices: 93598054--93598189 Score: 193
Period size: 52 Copynumber: 2.6 Consensus size: 52
93598044 CTGGCTTAAA
*
93598054 GCCTACTAGATAACCACCGGCTCAAGGCCTGCTAAATAAACACCAGCTCAAG
1 GCCTACTAAATAACCACCGGCTCAAGGCCTGCTAAATAAACACCAGCTCAAG
* * * *
93598106 GCCTAATAAATAAACACTGGCTCAAGGCCTGCTAAATCAACACCAGCTCAAG
1 GCCTACTAAATAACCACCGGCTCAAGGCCTGCTAAATAAACACCAGCTCAAG
* * *
93598158 TCATGCTAAATAACCACCGG-TCAAGGCCTGCT
1 GCCTACTAAATAACCACCGGCTCAAGGCCTGCT
93598190 TTTCTTGTAT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 12 0.16
52 61 0.84
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.18
Consensus pattern (52 bp):
GCCTACTAAATAACCACCGGCTCAAGGCCTGCTAAATAAACACCAGCTCAAG
Found at i:93598170 original size:78 final size:77
Alignment explanation
Indices: 93598041--93598186 Score: 186
Period size: 78 Copynumber: 1.9 Consensus size: 77
93598031 TATTAAACAT
* * * *
93598041 ACACTGGCTTAAAGCCTACTAGATAACCACCGGCTCAAGGCCTGCTAAATAAACACCAGCTCAAG
1 ACACTGGCTCAAAGCCTACTAAATAACCACCAGCTCAAGGCATGCTAAATAAACACC-GCTCAAG
93598106 GCCTAATAAATAA
65 GCCTAATAAATAA
* * * * *
93598119 ACACTGGCTCAAGGCCTGCTAAATCAA-CACCAGCTCAAGTCATGCTAAATAACCACCGGTCAAG
1 ACACTGGCTCAAAGCCTACTAAAT-AACCACCAGCTCAAGGCATGCTAAATAAACACCGCTCAAG
93598183 GCCT
65 GCCT
93598187 GCTTTTCTTG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 10 0.17
78 46 0.79
79 2 0.03
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.18
Consensus pattern (77 bp):
ACACTGGCTCAAAGCCTACTAAATAACCACCAGCTCAAGGCATGCTAAATAAACACCGCTCAAGG
CCTAATAAATAA
Found at i:93605138 original size:43 final size:42
Alignment explanation
Indices: 93605081--93605168 Score: 149
Period size: 43 Copynumber: 2.1 Consensus size: 42
93605071 TTCGTGAGAT
*
93605081 ATGTGGCATCCGAGCTCATTGAGAGGTCCGAGTTCATTATGG
1 ATGTGGCATCCGAGCTCATTGAGAGGTCCGAGTTCATAATGG
*
93605123 ATGTGAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATGG
1 ATGTG-GCATCCGAGCTCATTGAGAGGTCCGAGTTCATAATGG
93605166 ATG
1 ATG
93605169 GGATTCATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (42 bp):
ATGTGGCATCCGAGCTCATTGAGAGGTCCGAGTTCATAATGG
Found at i:93616690 original size:26 final size:26
Alignment explanation
Indices: 93616605--93616699 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 26
93616595 CTACATAGTA
* ** *
93616605 CCTGCTAAATATACACTAGCTCAAAA
1 CCTGCTAAATAAACACCGGCTCAAAG
* *
93616631 CCTGCTAAATAAACACCGGCTTAAGG
1 CCTGCTAAATAAACACCGGCTCAAAG
* *
93616657 TCTGCTAAATAATCACCGGCTCAAAG
1 CCTGCTAAATAAACACCGGCTCAAAG
* *
93616683 CCTACTAAATAACCACC
1 CCTGCTAAATAAACACC
93616700 AACTCAATGC
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (26 bp):
CCTGCTAAATAAACACCGGCTCAAAG
Found at i:93621255 original size:47 final size:47
Alignment explanation
Indices: 93621183--93621313 Score: 208
Period size: 47 Copynumber: 2.8 Consensus size: 47
93621173 CACAATCGAT
* *
93621183 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACATATCCCG
*
93621230 AAGTACCTATACCATGGCCCGTAGCCAAATTAAGGTAACATATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACATATCCCG
* * *
93621277 GAGTACCTATACCATGGCTCGTAACCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
93621314 TTTACTCGAA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACATATCCCG
Found at i:93624097 original size:3 final size:3
Alignment explanation
Indices: 93624085--93624133 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
93624075 AATCTGAGTC
* *
93624085 AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAA AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
93624130 AAT A
1 AAT A
93624134 TATTTCTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:93626585 original size:14 final size:14
Alignment explanation
Indices: 93626566--93626593 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93626556 ACATTTATGT
93626566 GATGATATAAATGA
1 GATGATATAAATGA
93626580 GATGATATAAATGA
1 GATGATATAAATGA
93626594 TTACATAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (14 bp):
GATGATATAAATGA
Found at i:93629940 original size:43 final size:44
Alignment explanation
Indices: 93629878--93629985 Score: 166
Period size: 43 Copynumber: 2.5 Consensus size: 44
93629868 TATCCTAGAT
* * * *
93629878 ATGGTCTTACATGTTATCACATAT-CGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATACAATGCCAATGTCCCAGAC
93629921 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATACAATGCCAATGTCCCAGAC
93629964 ATGGTCTTACACGTAATCACAT
1 ATGGTCTTACACGTAATCACAT
93629986 CTCAGTAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
42 2 0.03
43 57 0.97
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (44 bp):
ATGGTCTTACACGTAATCACATATACAATGCCAATGTCCCAGAC
Found at i:93633592 original size:27 final size:27
Alignment explanation
Indices: 93633562--93633701 Score: 155
Period size: 27 Copynumber: 5.2 Consensus size: 27
93633552 GTGACGAAGT
93633562 CACCAGATACAGATATAGTGGCAGAGC
1 CACCAGATACAGATATAGTGGCAGAGC
93633589 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATA-GTGGCAGAGC
* * *
93633616 CACCAGAT-CAGTTAATTGTGGCATAGC
1 CACCAGATACAGAT-ATAGTGGCAGAGC
*
93633643 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATA-GTGGCAGAGC
* *
93633670 CACCA-AT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATAGTGGCAGAGC
93633696 CACCAG
1 CACCAG
93633702 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
26 30 0.32
27 63 0.66
28 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATAGTGGCAGAGC
Found at i:93633702 original size:53 final size:54
Alignment explanation
Indices: 93633562--93633704 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
93633552 GTGACGAAGT
* * *
93633562 CACCAGATACAGAT-ATAGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
93633616 CACCAGATCAGTTAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
93633670 CACCA-ATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
93633705 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
53 33 0.40
54 50 0.60
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:93635317 original size:26 final size:26
Alignment explanation
Indices: 93635287--93635342 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
93635277 TGAAATTCCC
93635287 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93635313 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93635339 ATCA
1 ATCA
93635343 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93640700 original size:26 final size:26
Alignment explanation
Indices: 93640670--93640803 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
93640660 TGAAATTCCC
93640670 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
93640696 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
93640722 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
93640748 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
93640774 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
93640800 ATCA
1 ATCA
93640804 ATTTGTATAA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93643909 original size:30 final size:30
Alignment explanation
Indices: 93643875--93643932 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
93643865 CTAGGCATTT
*
93643875 CCACACAGGCTA-AGCACACGCCCATGTGAG
1 CCACACAGGCTAGA-CACAAGCCCATGTGAG
* *
93643905 CCACACGGGCTGGACACAAGCCCATGTG
1 CCACACAGGCTAGACACAAGCCCATGTG
93643933 TCAGCCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.36, G:0.26, T:0.10
Consensus pattern (30 bp):
CCACACAGGCTAGACACAAGCCCATGTGAG
Found at i:93648186 original size:7 final size:7
Alignment explanation
Indices: 93648156--93648193 Score: 55
Period size: 6 Copynumber: 5.9 Consensus size: 7
93648146 GGTTTTCTCA
93648156 AAATG-G
1 AAATGAG
93648162 AAATG-G
1 AAATGAG
93648168 AAATGA-
1 AAATGAG
93648174 AAATGAG
1 AAATGAG
93648181 AAATGAG
1 AAATGAG
93648188 AAATGA
1 AAATGA
93648194 TTCATTTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:93660626 original size:13 final size:13
Alignment explanation
Indices: 93660608--93660633 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93660598 ATGAAATAAC
93660608 TTAATTCTCTGTA
1 TTAATTCTCTGTA
93660621 TTAATTCTCTGTA
1 TTAATTCTCTGTA
93660634 AAAACTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (13 bp):
TTAATTCTCTGTA
Found at i:93662636 original size:13 final size:14
Alignment explanation
Indices: 93662620--93662650 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
93662610 ATAACTCCAG
93662620 AAAATAAAAA-TAA
1 AAAATAAAAATTAA
93662633 AAAATAAAAATTAA
1 AAAATAAAAATTAA
93662647 AAAA
1 AAAA
93662651 ATAAGTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAATTAA
Found at i:93663187 original size:15 final size:16
Alignment explanation
Indices: 93663156--93663189 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
93663146 ATTATTTTAG
*
93663156 TTATTTATTTAATTTT
1 TTATTTATTTAAATTT
93663172 TTATTT-TTTAAATTT
1 TTATTTATTTAAATTT
93663187 TTA
1 TTA
93663190 AATTTATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTATTTAAATTT
Found at i:93668985 original size:18 final size:17
Alignment explanation
Indices: 93668962--93669013 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
93668952 TCTCCTTATG
93668962 CTTCTTTTCTTTTTTCTT
1 CTTCTTTTCTTTTTTC-T
* *
93668980 CTTCTTCTCTTCTTTCT
1 CTTCTTTTCTTTTTTCT
*
93668997 CTTCATCTTCTTTTTTC
1 CTTC-TTTTCTTTTTTC
93669014 CTATAACACC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (17 bp):
CTTCTTTTCTTTTTTCT
Found at i:93668996 original size:15 final size:15
Alignment explanation
Indices: 93668920--93669009 Score: 50
Period size: 15 Copynumber: 6.2 Consensus size: 15
93668910 TCTTCTCATT
*
93668920 TTTCGCTTCATCTTC
1 TTTCTCTTCATCTTC
* * *
93668935 -TTCTCCCTCAACCTC
1 TTTCT-CTTCATCTTC
93668950 TTTCTCCTT-ATGCTTC
1 TTTCT-CTTCAT-CTTC
*
93668966 TTT-TCTT--TTTTC
1 TTTCTCTTCATCTTC
93668978 -TTCTTCTTC-TCTTC
1 TTTC-TCTTCATCTTC
93668992 TTTCTCTTCATCTTC
1 TTTCTCTTCATCTTC
93669007 TTT
1 TTT
93669010 TTTCCTATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
11 2 0.03
12 3 0.05
13 5 0.09
14 15 0.26
15 20 0.34
16 13 0.22
ACGTcount: A:0.06, C:0.33, G:0.02, T:0.59
Consensus pattern (15 bp):
TTTCTCTTCATCTTC
Found at i:93669244 original size:3 final size:3
Alignment explanation
Indices: 93669238--93669274 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
93669228 CTTTTTTTTA
93669238 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
93669275 TTAAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:93669797 original size:21 final size:21
Alignment explanation
Indices: 93669773--93669876 Score: 80
Period size: 21 Copynumber: 5.2 Consensus size: 21
93669763 AAGTCTAGCT
*
93669773 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
93669794 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
* *
93669812 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
* *
93669833 GAAGC-C-CGAAG-G-TTAACT
1 GAAGCACAC-AAGTGCTAAACG
93669851 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
93669872 GAAGC
1 GAAGC
93669877 CCGGAGGCTA
Statistics
Matches: 63, Mismatches: 10, Indels: 20
0.68 0.11 0.22
Matches are distributed among these distances:
18 16 0.25
19 13 0.21
20 13 0.21
21 21 0.33
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:93669817 original size:39 final size:39
Alignment explanation
Indices: 93669755--93669894 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
93669745 ATCGTGATTT
* * *
93669755 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
93669794 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
93669833 GAAGCCCGAAGGTTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
93669872 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
93669895 TCATCAGAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:93675504 original size:24 final size:24
Alignment explanation
Indices: 93675467--93675565 Score: 103
Period size: 24 Copynumber: 4.0 Consensus size: 24
93675457 ATGATTTTCT
93675467 TTTTATATACATTATTTATTTTAAAC
1 TTTTATAT--ATTATTTATTTTAAAC
*
93675493 TTTTACATATTATTTATTTTAAA-
1 TTTTATATATTATTTATTTTAAAC
* * *
93675516 TTTATATACATTATGTA-GTTAAAC
1 TTT-TATATATTATTTATTTTAAAC
93675540 TATTTTATATATTATTTATTTTAAAC
1 --TTTTATATATTATTTATTTTAAAC
93675566 CCTCTTTATT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
23 8 0.13
24 25 0.42
25 11 0.18
26 16 0.27
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTATATATTATTTATTTTAAAC
Found at i:93675560 original size:49 final size:48
Alignment explanation
Indices: 93675468--93675564 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 48
93675458 TGATTTTCTT
* *
93675468 TTTATATACATTATTTATTTTAAACTTTTACATATTATTTATTTTAAA
1 TTTATATACATTATGTATGTTAAACTTTTACATATTATTTATTTTAAA
*
93675516 TTTATATACATTATGTA-GTTAAACTATTTTATATATTATTTATTTTAAA
1 TTTATATACATTATGTATGTTAAAC--TTTTACATATTATTTATTTTAAA
93675565 CCCTCTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.14
48 16 0.36
49 22 0.50
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (48 bp):
TTTATATACATTATGTATGTTAAACTTTTACATATTATTTATTTTAAA
Found at i:93684951 original size:26 final size:26
Alignment explanation
Indices: 93684915--93684971 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
93684905 ATGAAATGCC
93684915 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
93684941 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
93684967 TATCA
1 TATCA
93684972 ATTTTTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:93691449 original size:2 final size:2
Alignment explanation
Indices: 93691442--93691468 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93691432 GGTGTGCAAT
93691442 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 T
93691469 CAACTTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93692912 original size:15 final size:16
Alignment explanation
Indices: 93692892--93692924 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
93692882 TATATATTTT
93692892 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
93692907 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
93692924 T
1 T
93692925 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:93693010 original size:22 final size:22
Alignment explanation
Indices: 93692971--93693029 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
93692961 GTTTTAAGAA
*
93692971 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
93692992 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
93693014 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
93693030 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:93693046 original size:26 final size:24
Alignment explanation
Indices: 93693000--93693047 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
93692990 ATTTGTTTTA
*
93693000 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
93693024 ATATTTGATTTATTATATTTTTAA
1 ATATTT-ATTT-TTATATTTTTAA
93693048 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:93698241 original size:33 final size:33
Alignment explanation
Indices: 93698204--93698287 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
93698194 GAGGAGTGGA
* * *
93698204 GTACTGTGGTGGATAC-AGGTAGGGGGTAGTGCT
1 GTACTGTGGTGGATACGA-GCAGGGAGAAGTGCT
** *
93698237 GTACTGCAGTGGATACGAGCAGGGAGAAGTGTT
1 GTACTGTGGTGGATACGAGCAGGGAGAAGTGCT
*
93698270 GTGCTGTGGTGGATACGA
1 GTACTGTGGTGGATACGA
93698288 CCCAAAGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
33 40 0.98
34 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.43, T:0.25
Consensus pattern (33 bp):
GTACTGTGGTGGATACGAGCAGGGAGAAGTGCT
Found at i:93698445 original size:18 final size:18
Alignment explanation
Indices: 93698422--93698475 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
93698412 TCCAGCTGTG
*
93698422 GCTCGGGCTCTGGCTCTA
1 GCTCGGGCTCAGGCTCTA
* **
93698440 GCTCGGGCTCGGGAGCTA
1 GCTCGGGCTCAGGCTCTA
*
93698458 GCTCTGGCTCAGGCTCTA
1 GCTCGGGCTCAGGCTCTA
93698476 TATTGGCTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.09, C:0.31, G:0.35, T:0.24
Consensus pattern (18 bp):
GCTCGGGCTCAGGCTCTA
Found at i:93701394 original size:151 final size:152
Alignment explanation
Indices: 93701221--93701766 Score: 816
Period size: 151 Copynumber: 3.6 Consensus size: 152
93701211 TTTCGATGAT
* *
93701221 TTTTG-CCATTTGTTGGTATTTTTT-AATTTTCGGATTTTATTTGTTAAAATATACTATTTTCGT
1 TTTTGACCATTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
**
93701284 ATTTTGTTTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATA
66 ATTTTAATTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATA
*
93701349 TTAATTTAATAAATAACCTTGA
131 TTAATTTAGTAAATAACCTTGA
* *
93701371 TTTTGGCCATTTGTTTGTATTTTTTAAATTTTTGAATTTTTGAATTTTATTTTTTAAAATATACT
1 TTTTGACCATTTGTTTGTATTTTTTAAATTTTCG-------G-ATTTTATTTTTTAAAATATACT
* *
93701436 ATTTTTGTATTTT-ATTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTA--ATT
58 ATTTTCGTATTTTAATTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTGTT
*
93701498 TTTTTATATTAATTTAGTAAATAACCCTGA
123 TTTTTATATTAATTTAGTAAATAACCTTGA
* * **
93701528 TTTTGACAATTTTTTTGTATTTTTTAAATTTTTAGATTTTATTTTTTAAAATATACTATTTTCGT
1 TTTTGACCATTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
* *
93701593 A-ATTAATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATA
66 ATTTTAATTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATA
*
93701657 TTAATTTAGTAAATAACTTTGA
131 TTAATTTAGTAAATAACCTTGA
93701679 TTTTGACCATTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
1 TTTTGACCATTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
*
93701744 ATTTTATTTTTTATATTATTTTA
66 ATTTTAATTTTTATATTATTTTA
93701767 GTAAAAAACC
Statistics
Matches: 358, Mismatches: 24, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
148 2 0.01
149 75 0.21
150 6 0.02
151 110 0.31
152 26 0.07
157 60 0.17
159 46 0.13
160 33 0.09
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (152 bp):
TTTTGACCATTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
ATTTTAATTTTTATATTATTTTAATACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATA
TTAATTTAGTAAATAACCTTGA
Found at i:93701824 original size:16 final size:16
Alignment explanation
Indices: 93701803--93701869 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
93701793 CCCACAAAAG
*
93701803 TTATTTTTTTCGTATT
1 TTATTTTTTTAGTATT
* * **
93701819 TTATTTTTTGATTAAG
1 TTATTTTTTTAGTATT
*
93701835 ATATTTTTTTAGTATT
1 TTATTTTTTTAGTATT
*
93701851 TTATTTTTTATACTATT
1 TTATTTTTT-TAGTATT
93701868 TT
1 TT
93701870 TGTAAAAGGT
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
16 30 0.79
17 8 0.21
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (16 bp):
TTATTTTTTTAGTATT
Found at i:93702376 original size:3 final size:3
Alignment explanation
Indices: 93702362--93702406 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
93702352 GTGCCGCCTC
*
93702362 CTT CTC CTT CTT CTT CTT C-T CTT -TT CTT CTT CTT CTT CTTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT
93702406 C
1 C
93702407 CCATAAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:93702390 original size:13 final size:15
Alignment explanation
Indices: 93702362--93702406 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
93702352 GTGCCGCCTC
93702362 CTTCTCCTTCTTCTT
1 CTTCTCCTTCTTCTT
93702377 CTTCT-CTT-TTCTT
1 CTTCTCCTTCTTCTT
*
93702390 CTTCTTCTTCTTTCTT
1 CTTCTCCTTC-TTCTT
93702406 C
1 C
93702407 CCATAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.37
14 6 0.22
15 5 0.19
16 6 0.22
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (15 bp):
CTTCTCCTTCTTCTT
Found at i:93702390 original size:16 final size:16
Alignment explanation
Indices: 93702369--93702406 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
93702359 CTCCTTCTCC
93702369 TTCTTCTTCTTC-TCTT
1 TTCTTCTTCTTCTTC-T
93702385 TTCTTCTTCTTCTTCT
1 TTCTTCTTCTTCTTCT
93702401 TTCTTC
1 TTCTTC
93702407 CCATAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TTCTTCTTCTTCTTCT
Found at i:93705979 original size:45 final size:45
Alignment explanation
Indices: 93705915--93706006 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
93705905 ACGAGGATCA
93705915 TAGCAGAAACCCTATTGCATTTATTCCTTTTTAAGTTTGAACAAT
1 TAGCAGAAACCCTATTGCATTTATTCCTTTTTAAGTTTGAACAAT
93705960 TAGCAGAAACCCTATTGCATTTATTCCTTTTTAAGTTTGAACAAT
1 TAGCAGAAACCCTATTGCATTTATTCCTTTTTAAGTTTGAACAAT
93706005 TA
1 TA
93706007 TTCTCTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (45 bp):
TAGCAGAAACCCTATTGCATTTATTCCTTTTTAAGTTTGAACAAT
Found at i:93708431 original size:19 final size:20
Alignment explanation
Indices: 93708403--93708441 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
93708393 GTCCATTATT
93708403 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
93708422 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
93708442 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:93708459 original size:25 final size:23
Alignment explanation
Indices: 93708422--93708467 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
93708412 TTTGTTTTAA
*
93708422 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
93708445 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
93708468 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:93713401 original size:311 final size:304
Alignment explanation
Indices: 93712845--93713456 Score: 1073
Period size: 311 Copynumber: 2.0 Consensus size: 304
93712835 CCAAATGCAT
*
93712845 ACCAACATTTACAAGCCAAATCTCGTGGCTAATATCATCACTCAAAACATACCCAAATAATACTA
1 ACCAACATTTACAAGCCAAATCTCATGGCTAATATCATCACTCAAAACATACCCAAATAATACTA
* *
93712910 GCCTATACATACCATATATACAAAGCTTTAAAAGTACCAACAAGAATATCGATAGTGTGACGATG
66 GCCTATACATACCATATATACAAAGCTTCAAAAGTACCAACAAGAATATCGATAGTGTGACAATG
93712975 TTCCTGATGATTCCCGATGTCCGAGCTAGCTTCGATAATCTATAAAATAGGGAAAGAACACACAA
131 TTCCTGATGATTCCCGATGTCCGAGCTAGCTTCGATAATCTATAAAATAGGGAAAGAACACACAA
93713040 AGTAAGCTTTAAAAGCTTAGTAAGCCATATACAAATAAAGTCATCATAAGAACATTTGCATATCA
196 AGTAAGCTTTAAAAGCTTAGTAAGCCATATACAAATAAAGTCATCATAAGAACATTTGCATATCA
* *
93713105 ATTCAATTATGCTAAGCATAGCTAAACACATACAAGTTCACTAC
261 ATTCAATTATACCAAGCATAGCTAAACACATACAAGTTCACTAC
*
93713149 ACCAACATTTACAAGCCAAATCTCATGGCTAATATCATCATTCAAAACATACCCAAATAATACTA
1 ACCAACATTTACAAGCCAAATCTCATGGCTAATATCATCACTCAAAACATACCCAAATAATACTA
93713214 GCCTATACATGCCATATACCATATATACAAAGCTTCAAAAGTACCAACAAG-ATGATCGATAGTG
66 GCCTAT--A---C--ATACCATATATACAAAGCTTCAAAAGTACCAACAAGAAT-ATCGATAGTG
* *
93713278 TGACAATTTTCCTGATGATTCCCGATGTCTGAGCTAGCTTCGATAATCTATAAAATAGGGAAAGA
123 TGACAATGTTCCTGATGATTCCCGATGTCCGAGCTAGCTTCGATAATCTATAAAATAGGGAAAGA
93713343 ACACACAAAGTAAGCTTTAAAAGCTTAGTAAGCCATATACAAATAAAGTCATCATAAGAACATTT
188 ACACACAAAGTAAGCTTTAAAAGCTTAGTAAGCCATATACAAATAAAGTCATCATAAGAACATTT
93713408 GCATATCAATTCAATTATACCAAGCATAGCTAAACACATACAAGTTCAC
253 GCATATCAATTCAATTATACCAAGCATAGCTAAACACATACAAGTTCAC
93713457 AAACCTTTCT
Statistics
Matches: 292, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
304 69 0.24
306 1 0.00
309 1 0.00
310 2 0.01
311 219 0.75
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (304 bp):
ACCAACATTTACAAGCCAAATCTCATGGCTAATATCATCACTCAAAACATACCCAAATAATACTA
GCCTATACATACCATATATACAAAGCTTCAAAAGTACCAACAAGAATATCGATAGTGTGACAATG
TTCCTGATGATTCCCGATGTCCGAGCTAGCTTCGATAATCTATAAAATAGGGAAAGAACACACAA
AGTAAGCTTTAAAAGCTTAGTAAGCCATATACAAATAAAGTCATCATAAGAACATTTGCATATCA
ATTCAATTATACCAAGCATAGCTAAACACATACAAGTTCACTAC
Found at i:93713744 original size:43 final size:43
Alignment explanation
Indices: 93713697--93713803 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
93713687 TTGATGTCCC
* * * *
93713697 TATCCCAGACAAGGTCTTATACAAAATCAT-ATAACGATGCCAG
1 TATCCCAGACATGGTCTTACACAAAATCATAAT-ACAATGCCAA
* *
93713740 TATCCTAGACATGGTCTTACACATAATCATAATACAATGCCAA
1 TATCCCAGACATGGTCTTACACAAAATCATAATACAATGCCAA
*
93713783 TGTCCCAGACATGGTCTTACA
1 TATCCCAGACATGGTCTTACA
93713804 TGTAATCATA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 53 0.96
44 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (43 bp):
TATCCCAGACATGGTCTTACACAAAATCATAATACAATGCCAA
Found at i:93726360 original size:42 final size:42
Alignment explanation
Indices: 93726276--93726365 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 42
93726266 TGTGACTAGC
*
93726276 CCGTGTACCATTCGAAATGGCCTTACACACCTGTGTGCCAGA
1 CCGTGTACCATTCGAAATGGCCTTACACACCTGTATGCCAGA
* *
93726318 CCGTGTACCCTTCGAAATGGCC-T-CACACGCTCGTATGTCAGA
1 CCGTGTACCATTCGAAATGGCCTTACACAC-CT-GTATGCCAGA
93726360 CCGTGT
1 CCGTGT
93726366 GCTAGGTCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 5 0.12
41 3 0.07
42 35 0.81
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.24
Consensus pattern (42 bp):
CCGTGTACCATTCGAAATGGCCTTACACACCTGTATGCCAGA
Found at i:93737999 original size:3 final size:3
Alignment explanation
Indices: 93737991--93738048 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
93737981 TGGGCTACCA
*
93737991 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
93738039 AAT AAA AAT A
1 AAT AAT AAT A
93738049 TTCTCAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:93742492 original size:31 final size:31
Alignment explanation
Indices: 93742424--93742484 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
93742414 AATGTTTAGG
*
93742424 TAACTAAAATGAAAGCATCCTAAAAATTGGA
1 TAACCAAAATGAAAGCATCCTAAAAATTGGA
*
93742455 TAACCAAAATGAAAGCA-CCTTAAAAGTTGG
1 TAACCAAAATGAAAGCATCC-TAAAAATTGG
93742485 GTGACCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (31 bp):
TAACCAAAATGAAAGCATCCTAAAAATTGGA
Found at i:93742843 original size:19 final size:19
Alignment explanation
Indices: 93742813--93742858 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
93742803 AATTCTTATT
93742813 ATTTTTTAATTTTCAAATAA
1 ATTTTTTAATTTTCAAA-AA
*
93742833 ATTTTTT-ATTTTCTAAAA
1 ATTTTTTAATTTTCAAAAA
93742851 ATTATTTT
1 ATT-TTTT
93742859 TAAAATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTTAATTTTCAAAAA
Found at i:93746549 original size:41 final size:41
Alignment explanation
Indices: 93746492--93746574 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
93746482 TTTGACTAAG
93746492 TATACTATTTGTGTGAAGCATCATTTAGTGAACTCTTTGTT
1 TATACTATTTGTGTGAAGCATCATTTAGTGAACTCTTTGTT
*
93746533 TATACTATTTGTGTGAAGCGTCATTTAGTGAACTCTTTGTT
1 TATACTATTTGTGTGAAGCATCATTTAGTGAACTCTTTGTT
93746574 T
1 T
93746575 TGGCGTGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (41 bp):
TATACTATTTGTGTGAAGCATCATTTAGTGAACTCTTTGTT
Found at i:93746871 original size:52 final size:52
Alignment explanation
Indices: 93746793--93746897 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
93746783 ATCAAGAGAG
93746793 TTAGTGGAATTATCTAATTTTTCACTAATCCTTGTCTCCAAGCTTAAGTATA
1 TTAGTGGAATTATCTAATTTTTCACTAATCCTTGTCTCCAAGCTTAAGTATA
**
93746845 TTAGTGGAATTATCTAATTTTTCACTAATCCTTGTCTCTGAGCTTAAGTATA
1 TTAGTGGAATTATCTAATTTTTCACTAATCCTTGTCTCCAAGCTTAAGTATA
93746897 T
1 T
93746898 CAGTATAGCG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (52 bp):
TTAGTGGAATTATCTAATTTTTCACTAATCCTTGTCTCCAAGCTTAAGTATA
Found at i:93748942 original size:42 final size:42
Alignment explanation
Indices: 93748883--93748966 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
93748873 AATCTTAATT
*
93748883 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
1 GGGAAAATAGGTCCCTTATTCTAATAAACTACTAAAACATAA
* *
93748925 GGGAAAATAGGTCCCTTATTTTAATAAACTACTAAAAGATAA
1 GGGAAAATAGGTCCCTTATTCTAATAAACTACTAAAACATAA
93748967 AATAAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (42 bp):
GGGAAAATAGGTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:93749018 original size:19 final size:18
Alignment explanation
Indices: 93748994--93749037 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
93748984 AATATGAATA
93748994 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
*
93749012 AAGATTTATCTATCTAAAT
1 AA-ATTTATCTACCTAAAT
93749031 AAATTTA
1 AAATTTA
93749038 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:93752864 original size:42 final size:42
Alignment explanation
Indices: 93752814--93752893 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
93752804 ATAATTGGGG
93752814 AAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGGGA
1 AAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGGGA
*
93752856 AAATAGTTCCCTTATTCTAATAAACTACTAAAATATAA
1 AAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
93752894 AATAAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.31
Consensus pattern (42 bp):
AAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAGGGA
Found at i:93760638 original size:9 final size:9
Alignment explanation
Indices: 93760619--93760659 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
93760609 TTTTGGTTAA
93760619 AAATT-ACC
1 AAATTAACC
*
93760627 AAAGTAACC
1 AAATTAACC
93760636 AAATTAACC
1 AAATTAACC
93760645 AAATTAACC
1 AAATTAACC
93760654 AAATTA
1 AAATTA
93760660 CCCGAATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 4 0.13
9 26 0.87
ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22
Consensus pattern (9 bp):
AAATTAACC
Found at i:93760667 original size:9 final size:9
Alignment explanation
Indices: 93760655--93760685 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
93760645 AAATTAACCA
93760655 AATTACCCG
1 AATTACCCG
93760664 AATTACCCG
1 AATTACCCG
*
93760673 AATTACCTG
1 AATTACCCG
93760682 AATT
1 AATT
93760686 GAATCACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (9 bp):
AATTACCCG
Found at i:93760667 original size:18 final size:18
Alignment explanation
Indices: 93760631--93760685 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
93760621 ATTACCAAAG
* *
93760631 TAACCAAATTAACCAAAT
1 TAACCAAATTACCCGAAT
93760649 TAACCAAATTACCCGAAT
1 TAACCAAATTACCCGAAT
* * *
93760667 TACCCGAATTACCTGAAT
1 TAACCAAATTACCCGAAT
93760685 T
1 T
93760686 GAATCACTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.25
Consensus pattern (18 bp):
TAACCAAATTACCCGAAT
Found at i:93762249 original size:46 final size:46
Alignment explanation
Indices: 93762182--93762359 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
93762172 TGTAACCTGC
* *
93762182 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * **
93762228 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG--T--TCGCAT
* * **
93762278 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
93762321 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
93762360 CCCAAATATC
Statistics
Matches: 106, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 63 0.59
47 27 0.25
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:93762349 original size:93 final size:93
Alignment explanation
Indices: 93762190--93762361 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
93762180 GCCCATAAGT
***
93762190 GAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
93762255 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
*
93762283 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93762348 CGAGCTCAGATGCC
66 CGAGCTCAGATGCC
93762362 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:93764126 original size:41 final size:41
Alignment explanation
Indices: 93764081--93764178 Score: 96
Period size: 38 Copynumber: 2.5 Consensus size: 41
93764071 ACCTCGAGTT
* **
93764081 GATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAGATTC
1 GATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG-GCC
** * *
93764122 GATGAGGTACT-GG-GT-ACCAACTTTACTTCGGCTAGGCC
1 GATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGGCC
93764160 GATGAGACACTGGGTGTCA
1 GATGAGACACTGGGTGTCA
93764179 ACTATTACTT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
38 17 0.39
39 13 0.30
40 4 0.09
41 10 0.23
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (41 bp):
GATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGGCC
Found at i:93764187 original size:39 final size:40
Alignment explanation
Indices: 93764081--93764214 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 40
93764071 ACCTCGAGTT
* **
93764081 GATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATTC
1 GATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGAGCC
** ** *
93764122 GATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GCC
1 GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
* *
93764160 GATGAGACACTGGGTGTCAACTATTACTTCGAAT-GATCC
1 GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
* *
93764199 GATGAGGCACTAGGTG
1 GATGAGACACTGGGTG
93764215 CCATATTGGT
Statistics
Matches: 73, Mismatches: 17, Indels: 8
0.74 0.17 0.08
Matches are distributed among these distances:
38 20 0.27
39 36 0.49
41 14 0.19
42 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
Found at i:93764349 original size:18 final size:18
Alignment explanation
Indices: 93764326--93764366 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
93764316 TATAAAAAAA
93764326 AGAAA-TTGAATTATGAAT
1 AGAAATTTGAATTATG-AT
*
93764344 AGAAATTTGAATTGTGAT
1 AGAAATTTGAATTATGAT
93764362 AGAAA
1 AGAAA
93764367 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.32
Consensus pattern (18 bp):
AGAAATTTGAATTATGAT
Found at i:93772698 original size:24 final size:24
Alignment explanation
Indices: 93772671--93772725 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 24
93772661 ACCGAATTCA
*
93772671 TAAACCATATATATAAGGCACATT
1 TAAAACATATATATAAGGCACATT
*
93772695 TAAAAAATATATATATAAGGCACATT
1 T--AAAACATATATATAAGGCACATT
93772721 TAAAA
1 TAAAA
93772726 AAAAAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
26 22 0.81
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (24 bp):
TAAAACATATATATAAGGCACATT
Found at i:93772729 original size:28 final size:26
Alignment explanation
Indices: 93772677--93772727 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
93772667 TTCATAAACC
93772677 ATATATATAAGGCACATTTAAAAAAT
1 ATATATATAAGGCACATTTAAAAAAT
93772703 ATATATATAAGGCACATTTAAAAAA
1 ATATATATAAGGCACATTTAAAAAA
93772728 AAAACAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (26 bp):
ATATATATAAGGCACATTTAAAAAAT
Found at i:93784148 original size:14 final size:14
Alignment explanation
Indices: 93784129--93784158 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93784119 ATTTAACTGA
*
93784129 ATATACATATACTC
1 ATATACATATAATC
93784143 ATATACATATAATC
1 ATATACATATAATC
93784157 AT
1 AT
93784159 GAATCATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATACATATAATC
Found at i:93784648 original size:43 final size:42
Alignment explanation
Indices: 93784483--93784653 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 42
93784473 ATATCGTACA
* *
93784483 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* * * *
93784526 ATGTCACTG-CCCTAGATAG-GGTCTTACACGAATCAAATA-CG
1 ATGCCAATGTCCC-AGA-CGTGGTCTTACACGAATCACATATCG
** * * *
93784567 ATGCTGATGTCCCCGACATGGTCTTACACTTAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACAC-GAATCACATATCG
* *
93784610 ATGCCAAAGTCCCAGACGTGGTCTTACACGAGAACACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA-ATCACATATCG
93784653 A
1 A
93784654 AAATCCTATG
Statistics
Matches: 99, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
41 19 0.19
42 23 0.23
43 56 0.57
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:93792714 original size:26 final size:26
Alignment explanation
Indices: 93792685--93792734 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
93792675 TCTGTAAAGG
93792685 ATGAAA-AGTGTGTGAGTGGATAATGA
1 ATGAAATA-TGTGTGAGTGGATAATGA
* *
93792711 ATGAAATATGTTTGTGTGGATAAT
1 ATGAAATATGTGTGAGTGGATAAT
93792735 AGATATCCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (26 bp):
ATGAAATATGTGTGAGTGGATAATGA
Found at i:93795714 original size:39 final size:39
Alignment explanation
Indices: 93795667--93795795 Score: 231
Period size: 39 Copynumber: 3.3 Consensus size: 39
93795657 TTCGCACAAA
93795667 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
* *
93795706 CCTGGATATCACAACTCGCACAATTGCCTTCGGGCTTAT
1 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
*
93795745 CCCGGATATCACAACTTGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
93795784 CCCGGATATCAC
1 CCCGGATATCAC
93795796 CCGAACAATC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (39 bp):
CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
Found at i:93796453 original size:2 final size:2
Alignment explanation
Indices: 93796446--93796477 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
93796436 TCATATGCAA
93796446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93796478 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93803761 original size:39 final size:39
Alignment explanation
Indices: 93803681--93803796 Score: 198
Period size: 39 Copynumber: 2.9 Consensus size: 39
93803671 GTTATAGTAG
*
93803681 CTCGCACACA-TGCCTTCGGGACTTAACCCGGATATCACAA
1 CTCGCACA-ATTGCCTTCGGG-CTTAGCCCGGATATCACAA
93803721 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
93803760 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
93803797 CCGAACATTC
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
39 56 0.76
40 18 0.24
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.22
Consensus pattern (39 bp):
CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
Found at i:93807558 original size:46 final size:46
Alignment explanation
Indices: 93807508--93807683 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
93807498 TGGTTGAGCA
*
93807508 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
93807554 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
93807601 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
93807647 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93807684 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:93807664 original size:93 final size:93
Alignment explanation
Indices: 93807505--93807676 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
93807495 GGATGGTTGA
* *
93807505 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
93807570 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
93807598 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
93807663 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
93807677 CTTATGGGCG
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:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93810162 original size:18 final size:18
Alignment explanation
Indices: 93810128--93810162 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93810118 TATGCCAAAA
**
93810128 TGGTATCGATATTTAATT
1 TGGTATCGATACCTAATT
93810146 TGGTATCGATACCTAAT
1 TGGTATCGATACCTAAT
93810163 AACAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (18 bp):
TGGTATCGATACCTAATT
Found at i:93810175 original size:21 final size:21
Alignment explanation
Indices: 93810149--93810199 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
93810139 TTTAATTTGG
93810149 TATCGATACCTAATAACAAA-A
1 TATCGATACCT-ATAACAAAGA
*
93810170 TATCGATACCTATTACAAAGA
1 TATCGATACCTATAACAAAGA
*
93810191 TATTGATAC
1 TATCGATAC
93810200 TTTGTGCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (21 bp):
TATCGATACCTATAACAAAGA
Found at i:93812491 original size:45 final size:45
Alignment explanation
Indices: 93812333--93812735 Score: 423
Period size: 45 Copynumber: 8.7 Consensus size: 45
93812323 AGGGTAAGAT
* * * * *
93812333 GCTGATGCCATGTCCCGGACATGGTCTTACACTAGCTCAT-ATGTCGAG
1 GCTGATGCCATGT-CC-AACATGGTCTTACACTGGCTC-TCA-ATCAAC
* * ** * *
93812381 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCCAT
1 GCTGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTC-AATCAAC
* * *
93812429 GCCGATGCCATGTCCAACATGGTCTTCCACTGGCTCACAATCAAC
1 GCTGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAAC
*
93812474 GCTGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAAT
1 GCTGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAAC
*
93812519 GCTGATGCCTTGTCCAACATGGTCTTACACTGGCTCTCAATCAAC
1 GCTGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAAC
* *
93812564 GCCGATGCCATGTCCAACATGGTTTTACACTGGCTCTCAATCAAC
1 GCTGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAAC
* * **
93812609 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACATT
1 GCTGATGCCATGTCCAACATGGTCTTACACTGGCTCTCA-ATCAAC
* * * **
93812655 GTTGATGCCATGTTCCAAACATGGTCTTACACTGGCACATGAAAT-ATG
1 GCTGATGCCATG-TCC-AACATGGTCTTACACTGGCTC-T-CAATCAAC
93812703 GCTGATGCCATGTCCCAGACATGGTCTTACACT
1 GCTGATGCCATGT-CCA-ACATGGTCTTACACT
93812736 AGCACACATA
Statistics
Matches: 312, Mismatches: 33, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
45 167 0.54
46 32 0.10
47 9 0.03
48 101 0.32
49 2 0.01
50 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
GCTGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAAC
Found at i:93817180 original size:16 final size:15
Alignment explanation
Indices: 93817139--93817183 Score: 65
Period size: 14 Copynumber: 3.0 Consensus size: 15
93817129 CAAAGATAAC
93817139 AAGAAATCCAAG-TA
1 AAGAAATCCAAGATA
93817153 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
93817168 GAGAAATTCCAAGATA
1 AAGAAA-TCCAAGATA
93817184 TGATGCTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 12 0.43
15 7 0.25
16 9 0.32
ACGTcount: A:0.56, C:0.13, G:0.16, T:0.16
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:93820845 original size:45 final size:45
Alignment explanation
Indices: 93820641--93820847 Score: 252
Period size: 45 Copynumber: 4.5 Consensus size: 45
93820631 CATGTCTTAG
* * * * *
93820641 ACATGGTTTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCA
1 ACATGGTCTTACACTAGCTCTCA-ATCAACGCCGATGCCATGT-CCA
** * * * *
93820688 GACATGGTCTTACACTAGCTCTCGTCTCCATGCAGATGCCGTGTCCA
1 -ACATGGTCTTACACTAGCTCTC-AATCAACGCCGATGCCATGTCCA
* *
93820735 ACATGGTCTTACACTGGCTCACAATCAACGCCGATGCCATGTCCA
1 ACATGGTCTTACACTAGCTCTCAATCAACGCCGATGCCATGTCCA
*
93820780 ACATGGTCTTACACTGGCTCTCAATCAACGCCGATGCCATGTCCA
1 ACATGGTCTTACACTAGCTCTCAATCAACGCCGATGCCATGTCCA
93820825 ACATGGTCTTACACTAGCTCTCA
1 ACATGGTCTTACACTAGCTCTCA
93820848 TAACATTGTC
Statistics
Matches: 140, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
45 83 0.59
46 20 0.14
47 3 0.02
48 34 0.24
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (45 bp):
ACATGGTCTTACACTAGCTCTCAATCAACGCCGATGCCATGTCCA
Found at i:93821174 original size:26 final size:26
Alignment explanation
Indices: 93821137--93821220 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
93821127 TGATACAAAT
* *
93821137 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93821163 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93821189 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
93821215 TGATAA
1 TGATAA
93821221 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:93824429 original size:12 final size:12
Alignment explanation
Indices: 93824412--93824441 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
93824402 ACTCGAGGAA
93824412 GAGGCCGTGGTC
1 GAGGCCGTGGTC
93824424 GAGGCCGTGGTC
1 GAGGCCGTGGTC
93824436 GAGGCC
1 GAGGCC
93824442 AAGGTAATAC
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:0.27, G:0.50, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Done.