Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 186 of 433
Found at i:58475585 original size:81 final size:80
Alignment explanation
Indices: 58475434--58475647 Score: 245
Period size: 81 Copynumber: 2.6 Consensus size: 80
58475424 TTTTACCCTA
* * *
58475434 CAGGGGTATTTCGGTAATTTTACAAATTC--GGGTATTCGATAATTTTACAAACTAGAGGTATTT
1 CAGGGGTATTTCAGTAATTTTACAAA-TCGGGGGTTTTCGATAATTTTACAAACCAGAGGTATTT
**
58475497 TGATAATTTTTTAAAC
65 TGATAATTTTACAAAC
* * * * *
58475513 CGGGGGTATTTCAGTAATTTTACAAATCGGGGGTGTTTCGGTAGTTTTACAAACCGGGGGTATTT
1 CAGGGGTATTTCAGTAATTTTACAAATCGGGGGT-TTTCGATAATTTTACAAACCAGAGGTATTT
58475578 T-AGTAATTTTACAAAC
65 TGA-TAATTTTACAAAC
* * *
58475594 TAGGGGTATTTCAGTAATTTTACAAACCGAGAGGTATTTCGATAATTTTACAAA
1 CAGGGGTATTTCAGTAATTTTACAAATCG-GGGGT-TTTCGATAATTTTACAAA
58475648 TCGAGGGTCT
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 24 0.21
80 5 0.04
81 62 0.55
82 20 0.18
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (80 bp):
CAGGGGTATTTCAGTAATTTTACAAATCGGGGGTTTTCGATAATTTTACAAACCAGAGGTATTTT
GATAATTTTACAAAC
Found at i:58480155 original size:20 final size:20
Alignment explanation
Indices: 58480132--58480169 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58480122 ATTTGGGAAT
*
58480132 CATACAAAAAATTTTGAGCC
1 CATACAAAAAATTATGAGCC
*
58480152 CATACCAAAAATTATGAG
1 CATACAAAAAATTATGAG
58480170 AGAGTGTCAA
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:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (20 bp):
CATACAAAAAATTATGAGCC
Found at i:58483635 original size:40 final size:40
Alignment explanation
Indices: 58483488--58483679 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
58483478 CGAATGGTAA
* * *
58483488 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
*
58483529 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
58483569 CC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
58483608 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* * *
58483648 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58483680 CGCTATATCC
Statistics
Matches: 126, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
39 32 0.25
40 68 0.54
41 26 0.21
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:58483703 original size:79 final size:80
Alignment explanation
Indices: 58483485--58483705 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
58483475 ATTCGAATGG
* * *
58483485 TAACCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTAAATCCGGGTCAATTCCCGAAGGC
1 TAACCGGGCTAAGTCCCGAAGGCTTTTGTGC-GAGTCG-CTAAATCCGGGTAAAATCCCGAAGGC
*
58483549 ATTTGTGCGAGTTACTA
64 ATTTGTGCGAGCTACTA
* * * * *
58483566 -AATCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTC-CCAAATCCGGGTTAAGTCCCGAAGG
1 TAA-CCGGGCTAAG-TCCCGAAGGCTTTTGTGCGAG-TCGCTAAATCCGGGTAAAATCCCGAAGG
*
58483627 CATTTGTGCGAGCTATTA
63 CATTTGTGCGAGCTACTA
* * * *
58483645 TAACCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTCGCTATATCCGGATAAAAT-CCGAAGG
1 TAACCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTCGCTAAATCCGGGTAAAATCCCGAAGG
58483706 TACGTGATTC
Statistics
Matches: 115, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
79 52 0.45
80 60 0.52
81 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TAACCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTCGCTAAATCCGGGTAAAATCCCGAAGGCAT
TTGTGCGAGCTACTA
Found at i:58489174 original size:40 final size:39
Alignment explanation
Indices: 58489117--58489301 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
58489107 ATTAAATGAT
* * *
58489117 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
58489157 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
58489197 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
58489237 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
58489277 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
58489302 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:58489253 original size:80 final size:80
Alignment explanation
Indices: 58489116--58489322 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
58489106 AATTAAATGA
* * ** * *
58489116 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
58489181 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
58489194 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
58489259 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
58489276 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
58489323 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:58489307 original size:40 final size:39
Alignment explanation
Indices: 58489115--58489322 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
58489105 CAATTAAATG
* * ** *
58489115 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
58489155 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
58489195 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
58489235 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
58489275 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
58489315 ATATCCGG
1 ATATCCGG
58489323 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:58494863 original size:40 final size:40
Alignment explanation
Indices: 58494795--58494977 Score: 158
Period size: 40 Copynumber: 4.5 Consensus size: 40
58494785 TCCGGCTAAG
* * *
58494795 TCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAAT
1 TCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTCAAT
* * *
58494836 TCCCGAAGGCATTTGTGCGAGTTACTAAAT-CTGGACTAAGA
1 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTC-AA-T
* * * *
58494877 T-CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAG
1 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTCAAT
* * *
58494916 TCCCGAAGGCATTTGTGCGAGCTATTATAA-CCGGG-CTAT
1 TCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTCAAT
* *
58494955 GTCCCGAAGGCTTTTGAGCGAGT
1 -TCCCGAAGGCATTTGTGCGAGT
58494978 CGCTATATCC
Statistics
Matches: 114, Mismatches: 22, Indels: 13
0.77 0.15 0.09
Matches are distributed among these distances:
39 6 0.05
40 85 0.75
41 23 0.20
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTCAAT
Found at i:58494988 original size:80 final size:80
Alignment explanation
Indices: 58494784--58494989 Score: 224
Period size: 80 Copynumber: 2.6 Consensus size: 80
58494774 TTCGAATGGT
* *
58494784 ATCC-GGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTAAATCCGGGTCAATTCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGC-GAGTCG-CTAAATCCGGGTCAAGTCCCGAAGGCA
*
58494847 TTTGTGCGAGTTACTAA
64 TTTGTGCGAGCTACTAA
* * * * *
58494864 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTC-CCAAATCCGGGTTAAGTCCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCGAG-TCGCTAAATCCGGGTCAAGTCCCGAAGGCA
*
58494927 TTTGTGCGAGCTATTATA
64 TTTGTGCGAGCTACTA-A
* * *
58494945 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTCGCTATATCCGG
1 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTCGCTAAATCCGG
58494990 ATAAAATCCG
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
79 3 0.03
80 75 0.73
81 24 0.23
82 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTCGCTAAATCCGGGTCAAGTCCCGAAGGCATT
TGTGCGAGCTACTAA
Found at i:58509015 original size:47 final size:47
Alignment explanation
Indices: 58508936--58509109 Score: 126
Period size: 47 Copynumber: 3.7 Consensus size: 47
58508926 TTGGGTTATG
* * *
58508936 TGAGAGCCAGTATAAGACCATGTCTAGAACATGGCATTGGCATTGAGA
1 TGAG-GCCAGTATAAGACCATGTCTGGGACATGGCATAGGCATTGAGA
* * *
58508984 TGAGGGCTAGTATAAGA-CGTGTCTGGGACAT-GCATCAGCCACATT-ACGA
1 TGA-GGCCAGTATAAGACCATGTCTGGGACATGGCAT-AG--GCATTGA-GA
* * * *
58509033 T-A-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGA
1 TGAGGCCAGTATAAGACCATGTCTGGGACATGGCATAGGCATTGAGA
* * *
58509078 TGAGTTCCAGTGTAAGA-CGTGTCTGGGACATG
1 TGAG-GCCAGTATAAGACCATGTCTGGGACATG
58509110 CATCGGCCTC
Statistics
Matches: 100, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
45 5 0.05
46 16 0.16
47 40 0.40
48 31 0.31
49 8 0.08
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
TGAGGCCAGTATAAGACCATGTCTGGGACATGGCATAGGCATTGAGA
Found at i:58509101 original size:94 final size:93
Alignment explanation
Indices: 58508940--58509254 Score: 325
Period size: 94 Copynumber: 3.4 Consensus size: 93
58508930 GTTATGTGAG
* * * * * * *
58508940 AGCCAGTATAAGACCATGTCTAGAACATGGCATTGGCATTGAGATGAGGGCTAGTATAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACGTG
58509005 TCTGGGACATGCATCAGCCACATTACGAT
65 TCTGGGACATGCATCAGCCACATTACGAT
* *
58509034 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGAGTTCCAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACGTG
* * * * *
58509099 TCTGGGACATGCATCGGCCTCGATAATGGT
65 TCTGGGACATGCATCAGCCAC-ATTACGAT
** * * ** * *
58509129 AGCCAGTGTAAGA-TGTGTCTGGGTCAT-GCATCGGCTA-AGCTTCGTGCTAATGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACGTGT
*
58509191 CTGGGACATGCATCAG-CACTTATAC-AT
66 CTGGGACATGCATCAGCCACAT-TACGAT
58509218 GAGACCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 -AG-CC-AGTGTAAGACCATGTCTGGGACATGGCATC
58509255 AGCCTCAATG
Statistics
Matches: 180, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
89 2 0.01
90 5 0.03
91 35 0.19
92 11 0.06
93 19 0.11
94 90 0.50
95 18 0.10
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACGTGT
CTGGGACATGCATCAGCCACATTACGAT
Found at i:58509135 original size:47 final size:47
Alignment explanation
Indices: 58508996--58509298 Score: 196
Period size: 47 Copynumber: 6.4 Consensus size: 47
58508986 AGGGCTAGTA
* * * * *
58508996 TAAGACGTGTCTGGGACATGCATCAGCCAC-ATTACGATAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTCGATAATGGTAGCCAGTG
* * * * *
58509042 TAAGACCATGTCTGGGACATGGCATCGGCGTAGA-GATGAGT-TCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCAGCCTCGATAATG-GTAGCCAGTG
* *
58509090 TAAGACGTGTCTGGGACATGCATCGGCCTCGATAATGGTAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTCGATAATGGTAGCCAGTG
** * * * * * * *
58509137 TAAGATGTGTCTGGGTCATGCATC-GGCTAAGCT--TCGT-GCTAATG
1 TAAGACATGTCTGGGACATGCATCAGCCT-CGATAATGGTAGCCAGTG
*
58509181 TAAGACATGTCTGGGACATGCATCAGCACT-TATACAT-G-AGACCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGC-CTCGATA-ATGGTAG-CC-AGTG
* *
58509229 TAAGACCATGTCTGGGACATGGCATCAGCCTCAATGAA-GATAGCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAT-AATGGTAGCCAGTG
*
58509278 TAAGACCATGTTTGGGACATG
1 TAAGA-CATGTCTGGGACATG
58509299 GCATTGACAA
Statistics
Matches: 203, Mismatches: 33, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
44 27 0.13
45 4 0.02
46 25 0.12
47 61 0.30
48 29 0.14
49 41 0.20
50 13 0.06
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGCATCAGCCTCGATAATGGTAGCCAGTG
Found at i:58509242 original size:49 final size:48
Alignment explanation
Indices: 58509179--58509298 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 48
58509169 TTCGTGCTAA
*
58509179 TGTAAGA-CATGTCTGGGACATGCATCAGCACT-TAT-ACATGAGA-CCTAG
1 TGTAAGACCATGTCTGGGACATGCATCAGC-CTCAATGA-A-GAGAGCC-AG
*
58509227 TGTAAGACCATGTCTGGGACATGGCATCAGCCTCAATGAAGATAGCCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCAGCCTCAATGAAGAGAGCCAG
*
58509276 TGTAAGACCATGTTTGGGACATG
1 TGTAAGACCATGTCTGGGACATG
58509299 GCATTGACAA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
48 8 0.12
49 42 0.66
50 13 0.20
51 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGCATCAGCCTCAATGAAGAGAGCCAG
Found at i:58509898 original size:31 final size:31
Alignment explanation
Indices: 58509861--58509920 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
58509851 CTATGAATGC
58509861 ATTAATGTCTTTTGGGATGGAATTAGTATGA
1 ATTAATGTCTTTTGGGATGGAATTAGTATGA
58509892 ATTAATGTCTTTTGGGATGGAATTAGTAT
1 ATTAATGTCTTTTGGGATGGAATTAGTAT
58509921 ATTGAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.43
Consensus pattern (31 bp):
ATTAATGTCTTTTGGGATGGAATTAGTATGA
Found at i:58516565 original size:47 final size:46
Alignment explanation
Indices: 58516448--58516581 Score: 139
Period size: 47 Copynumber: 2.9 Consensus size: 46
58516438 TACGTTATGT
*
58516448 GAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGACATT--GAC
** * *
58516496 GAGGTCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCCACATT-AC
1 GAGAACCAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAC
* *
58516542 GATAACCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 GAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
58516582 GTAGAGATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
45 2 0.03
46 19 0.27
47 27 0.39
48 18 0.26
49 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (46 bp):
GAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAC
Found at i:58516571 original size:94 final size:95
Alignment explanation
Indices: 58516451--58516769 Score: 312
Period size: 94 Copynumber: 3.4 Consensus size: 95
58516441 GTTATGTGAG
*
58516451 AACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAG-GTCTAGTGTAAGACGT
1 AACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGTG-CTAGTGTAAGACGT
*
58516515 GTCTGGGACATGCATCAGCCAC-ATTACGAT
65 GTCTGGGACATGCATCAGCCACTATCACGAT
* * * * * * *
58516545 AACCAGTGTAAGACCATGTCTAGGACATGGCATCGACGTAGAGATGACTGCCAGTGTAAGATGTG
1 AACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACGTG
* * * * * *
58516610 TCTGGGACATGCATCGGCCTCAATGATGGT
66 TCTGGGACATGCATCAGCCACTATCACGAT
* * * ** *
58516640 AGCCAGAGTAAGA-CATGTCTAGGACAT-GCATCGGC--TAAG-CTTCGTGCTAGTGTAAGACAT
1 AACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAC-GAGTGCTAGTGTAAGACGT
* *
58516700 TTCTGGGACATGCATCAG-CACTTATACACGAG
65 GTCTGGGACATGCATCAGCCAC-TAT-CACGAT
* * *
58516732 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
58516770 ACTTAACCCA
Statistics
Matches: 181, Mismatches: 36, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
90 2 0.01
91 33 0.18
92 13 0.07
93 20 0.11
94 96 0.53
95 17 0.09
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (95 bp):
AACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACGTG
TCTGGGACATGCATCAGCCACTATCACGAT
Found at i:58516645 original size:47 final size:47
Alignment explanation
Indices: 58516503--58516674 Score: 154
Period size: 47 Copynumber: 3.7 Consensus size: 47
58516493 GACGAGGTCT
* * * * * * *
58516503 AGTGTAAGACGTGTCTGGGACATGCATCAGCCAC-ATTACGATAACC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATGATGATAGCC
* *
58516549 AGTGTAAGACCATGTCTAGGACATGGCATCGACGT-AGA-GATGACT-GCC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCA-ATGATGA-TAGCC
** * *
58516597 AGTGTAAGATGTGTCTGGGACATGCATCGGCCTCAATGATGGTAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATGATGATAGCC
*
58516644 AGAGTAAGACATGTCTAGGACATGCATCGGC
1 AGTGTAAGACATGTCTAGGACATGCATCGGC
58516675 TAAGCTTCGT
Statistics
Matches: 99, Mismatches: 19, Indels: 15
0.74 0.14 0.11
Matches are distributed among these distances:
46 19 0.19
47 58 0.59
48 20 0.20
49 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATGATGATAGCC
Found at i:58517585 original size:55 final size:55
Alignment explanation
Indices: 58517501--58517604 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
58517491 CTTAAACTTT
**
58517501 TAAGTCAGTATTGTCCACGGGTAGGCCACATGGGCGTGTGCCATAGCCGCGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACCGGCGTGTGCCATAGCCGCGTCTA
* *
58517556 TAAGTCAGTATTGTCCACGGGTAGGCCACACCGGCGTGTGTCATGGCCG
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACCGGCGTGTGCCATAGCCG
58517605 TGCACTAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACCGGCGTGTGCCATAGCCGCGTCTA
Found at i:58517616 original size:55 final size:55
Alignment explanation
Indices: 58517501--58517619 Score: 168
Period size: 55 Copynumber: 2.2 Consensus size: 55
58517491 CTTAAACTTT
** *
58517501 TAAGTCAGTATTGTCCACGGGTAGGCCACATGGGCGTGTGCCATAGCCGCGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACCGGCGTGTGCCATAGCCGCGACTA
* * *
58517556 TAAGTCAGTATTGTCCACGGGTAGGCCACACCGGCGTGTGTCATGGCCGTGCACTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACCGGCGTGTGCCATAGCCGCG-ACTA
58517612 -AAGTCAGT
1 TAAGTCAGT
58517620 GTTGCACAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 54 0.95
56 3 0.05
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACCGGCGTGTGCCATAGCCGCGACTA
Found at i:58518309 original size:44 final size:49
Alignment explanation
Indices: 58518240--58518370 Score: 157
Period size: 49 Copynumber: 2.8 Consensus size: 49
58518230 TCGAGACGTA
* *
58518240 AGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGC-TAGAGATG-T-G
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACAGAGATGCTAG
* * *
58518285 -TC-AGTGTAAGACCATGTCTGGGACATCCATCGGCACAGATATGCTAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACAGAGATGCTAG
*
58518332 AGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCAC
58518371 TTACACCCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
43 9 0.13
44 21 0.30
45 6 0.08
46 1 0.01
47 1 0.01
48 1 0.01
49 23 0.32
50 9 0.13
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACAGAGATGCTAG
Found at i:58519366 original size:20 final size:21
Alignment explanation
Indices: 58519327--58519366 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58519317 GAATTAATGG
58519327 CTACACGGGCGTGTTGCCCTT
1 CTACACGGGCGTGTTGCCCTT
*
58519348 CTACATGGGCGTG-TGCCCT
1 CTACACGGGCGTGTTGCCCT
58519367 GTTCCAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.33, G:0.30, T:0.28
Consensus pattern (21 bp):
CTACACGGGCGTGTTGCCCTT
Found at i:58525159 original size:28 final size:29
Alignment explanation
Indices: 58525127--58525316 Score: 99
Period size: 29 Copynumber: 6.6 Consensus size: 29
58525117 ATACTCGATT
* * *
58525127 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATACCATTCAAGC
** * *
58525156 -CGCACACACAGTGCCATACCCTTCGAGC
1 TCGCACACTTAGTGCCATACCATTCAAGC
* *
58525184 TCGCACACTTAGTGCCATA-TATTTCCAGC
1 TCGCACACTTAGTGCCATACCA-TTCAAGC
* *** *
58525213 AT-GCACACTCAGTGCCATATTTTTCCAGC
1 -TCGCACACTTAGTGCCATACCATTCAAGC
* *
58525242 AT-GCACACTTAGTGCCATA-TATTTCCAGC
1 -TCGCACACTTAGTGCCATACCA-TTCAAGC
* *
58525271 AT-GCACACTTAGTGCCATA-TATTTCCAGC
1 -TCGCACACTTAGTGCCATACCA-TTCAAGC
58525300 AT-GCACACTTAGTGCCA
1 -TCGCACACTTAGTGCCA
58525317 ATCTCGTCAC
Statistics
Matches: 140, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
28 22 0.16
29 116 0.83
30 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATACCATTCAAGC
Found at i:58525197 original size:29 final size:29
Alignment explanation
Indices: 58525186--58525316 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
58525176 CTTCGAGCTC
58525186 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
58525215 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
58525244 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
58525273 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
58525302 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
58525317 ATCTCGTCAC
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:58533001 original size:29 final size:29
Alignment explanation
Indices: 58532967--58533156 Score: 89
Period size: 29 Copynumber: 6.6 Consensus size: 29
58532957 TACTCGATTT
* * *
58532967 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
58532996 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
58533025 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
58533054 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
58533083 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
58533112 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
58533141 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
58533157 ATCTCGTCAC
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
28 1 0.01
29 137 0.99
30 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:58533059 original size:58 final size:58
Alignment explanation
Indices: 58533026--58533156 Score: 244
Period size: 58 Copynumber: 2.3 Consensus size: 58
58533016 CTTCGAGCTC
*
58533026 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
*
58533084 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
58533142 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
58533157 ATCTCGTCAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 71 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (58 bp):
GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCAT
Found at i:58533088 original size:87 final size:87
Alignment explanation
Indices: 58532997--58533156 Score: 241
Period size: 87 Copynumber: 1.8 Consensus size: 87
58532987 ATTTAAGCCC
* *
58532997 GCACACACAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACAC
1 GCACACACAGTGCCATACACTTCCAGCAT-GCACACTTAGTGCCATATATTTCCAGCATGCACAC
58533061 TCAGTGCCATATTTTTCCAGCAT
65 TCAGTGCCATATTTTTCCAGCAT
** * *
58533084 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
1 GCACACACAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
*
58533149 TAGTGCCA
66 CAGTGCCA
58533157 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
87 64 0.98
88 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (87 bp):
GCACACACAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
CAGTGCCATATTTTTCCAGCAT
Found at i:58543069 original size:30 final size:30
Alignment explanation
Indices: 58543028--58543100 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
58543018 ATGGCCAGCC
* *
58543028 ACACACCCATGTGCCACACACGGCCAGTAG
1 ACACGCCCATGTGCCACACAAGGCCAGTAG
58543058 ACACGCCCATGTGCCACACAAGGCCAGTAG
1 ACACGCCCATGTGCCACACAAGGCCAGTAG
58543088 ACACGCCCATGTG
1 ACACGCCCATGTG
58543101 TCTAGGCCGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.29, C:0.38, G:0.22, T:0.11
Consensus pattern (30 bp):
ACACGCCCATGTGCCACACAAGGCCAGTAG
Found at i:58544249 original size:43 final size:43
Alignment explanation
Indices: 58544187--58544347 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
58544177 GCACAATGCT
* * * *
58544187 ATATCCCAGATATGGTCTTACATGTTATCA-TATATCGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACAATA-CGATGCCA
* * * * *
58544230 CTATCCCAGACAGGGTCTTACACGGAATTATAATACGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACAATACGATGCCA
* * *
58544273 ATATTCCAAACATGGTCTTACACGTAATCACAATACAATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACAATACGATGCCA
* **
58544316 ATGTCCCAGACATGGTCTTACTTGTAATCACA
1 ATATCCCAGACATGGTCTTACACGTAATCACA
58544348 TCTCGATAAC
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
43 93 0.97
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACACGTAATCACAATACGATGCCA
Found at i:58546980 original size:21 final size:21
Alignment explanation
Indices: 58546956--58546995 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
58546946 TCAAGGTTCA
*
58546956 AATCACATTGAGCTTGTTTCG
1 AATCACATTGAGCTCGTTTCG
58546977 AATCACATTGAGCTCGTTT
1 AATCACATTGAGCTCGTTT
58546996 TGCTAACATT
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:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (21 bp):
AATCACATTGAGCTCGTTTCG
Found at i:58552037 original size:43 final size:43
Alignment explanation
Indices: 58551924--58552076 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 43
58551914 AACTCGCACA
* * ** *
58551924 ATGCC-ATATCCTAGACATGGTCTTACATGTTATCAT-TTATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATAATA-CG
* * * * *
58551966 ATGCCACTGTCCTAAATAGGGTCATACACGAAATCATAATACG
1 ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATAATACG
* *
58552009 ATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCATAATACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGA-AATCATAATACG
*
58552052 ATGCCAATGTCCTAGACATGTTCTT
1 ATGCCAATGTCCTAGACATGGTCTT
58552077 GCATGTAATC
Statistics
Matches: 89, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 6 0.07
43 81 0.91
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGAAATCATAATACG
Found at i:58559497 original size:93 final size:93
Alignment explanation
Indices: 58559338--58559509 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
58559328 CCCCCATAAG
* * * * *
58559338 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
58559403 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
58559431 CGAACTCGAACTTAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
58559496 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
58559510 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:58559498 original size:46 final size:46
Alignment explanation
Indices: 58559339--58559506 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
58559329 CCCCATAAGC
* * * *
58559339 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
* * ** *
58559385 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCA-TAAAT
* * *
58559432 GAACTCGAACTTAACTCAACGAGTTCGGACATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
*
58559478 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
58559507 TGCTCAACCA
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 59 0.61
47 29 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT
Found at i:58563502 original size:16 final size:16
Alignment explanation
Indices: 58563483--58563513 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58563473 CTTCTTCACT
58563483 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
58563499 TACTTACTTACTTAA
1 TACTCACTTACTTAA
58563514 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:58563519 original size:20 final size:20
Alignment explanation
Indices: 58563480--58563519 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
58563470 AAACTTCTTC
* *
58563480 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
58563500 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
58563520 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:58563892 original size:55 final size:52
Alignment explanation
Indices: 58563753--58563960 Score: 195
Period size: 55 Copynumber: 3.8 Consensus size: 52
58563743 ATCCTTTTGA
* * *
58563753 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTA-CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
58563806 AACTCACTAATGTCATGTCTTGGCATGGTCTTACGTGGGA-CCTTTGCCTTATAG
1 AACTTAC-AATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
**
58563860 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-G
1 -AACTTA-CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
58563913 AAACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTA-CAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
58563961 AAACCCAAAT
Statistics
Matches: 128, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
52 3 0.02
53 43 0.34
54 8 0.06
55 71 0.55
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (52 bp):
AACTTACAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:58563897 original size:108 final size:110
Alignment explanation
Indices: 58563753--58563949 Score: 292
Period size: 108 Copynumber: 1.8 Consensus size: 110
58563743 ATCCTTTTGA
* * *
58563753 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACTAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
58563816 TGT-CATGTCTTGGCATGGTCTTACGTGGGACCTTTGCCTTATAGT
65 TGTCCATGCCTTGGCATGGTCTTACGTGGGACCTTTGCCTTATAGT
* * *
58563861 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
58563926 TTCCATGCCTTGGCATGGTCTTAC
66 GTCCATGCCTTGGCATGGTCTTAC
58563950 ATGGTATCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.63
109 8 0.10
110 20 0.26
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
GTCCATGCCTTGGCATGGTCTTACGTGGGACCTTTGCCTTATAGT
Found at i:58578185 original size:18 final size:19
Alignment explanation
Indices: 58578143--58578211 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
58578133 AAAGATCGAC
58578143 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
58578162 TGTTACTGTAT-ATTTGAT
1 TGTTACTGAATAATTTAAT
*
58578180 TTTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
*
58578199 TGTTACTGGATAA
1 TGTTACTGAATAA
58578212 CCGATCAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 15 0.36
19 27 0.64
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:58578254 original size:18 final size:18
Alignment explanation
Indices: 58578233--58578283 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
58578223 ATTGATACTA
*
58578233 AATAACTGATTATTATTG
1 AATAACTGATTATTATCG
* *
58578251 AATAATTGATTGTTATCG
1 AATAACTGATTATTATCG
*
58578269 AATAACTGACTATTA
1 AATAACTGATTATTA
58578284 CTAAATAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (18 bp):
AATAACTGATTATTATCG
Found at i:58578290 original size:18 final size:18
Alignment explanation
Indices: 58578228--58578291 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
58578218 AATTGATTGA
58578228 TACTAAATAACTGATTAT
1 TACTAAATAACTGATTAT
* * * *
58578246 TATTGAATAATTGATTGT
1 TACTAAATAACTGATTAT
* *
58578264 TA-TCGAATAACTGACTAT
1 TACT-AAATAACTGATTAT
58578282 TACTAAATAA
1 TACTAAATAA
58578292 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (18 bp):
TACTAAATAACTGATTAT
Found at i:58580703 original size:40 final size:40
Alignment explanation
Indices: 58580658--58580824 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
58580648 CGGAATATAT
58580658 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
58580698 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58580738 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58580778 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58580817 CCGGATAT
1 CCGGATAT
58580825 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58580808 original size:80 final size:79
Alignment explanation
Indices: 58580674--58580824 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
58580664 ATAATCACGT
*
58580674 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
58580739 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
58580754 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
58580817 CCGGATAT
64 CCGGATAT
58580825 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:58582063 original size:58 final size:59
Alignment explanation
Indices: 58581998--58582110 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
58581988 TCCCCTTTTC
58581998 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACA-AATTTTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAACATAATTTTTTTCTTTTCTTT
*** **
58582056 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTCTTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATAATTTTTTTCTTTT
58582111 TTTTTCTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
58 31 0.66
59 16 0.34
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (59 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATAATTTTTTTCTTTTCTTT
Found at i:58582112 original size:10 final size:10
Alignment explanation
Indices: 58582097--58582121 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58582087 GGATGAACAT
58582097 TTTTTTTTTC
1 TTTTTTTTTC
58582107 TTTTTTTTTC
1 TTTTTTTTTC
58582117 TTTTT
1 TTTTT
58582122 CCATACTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:58591406 original size:43 final size:43
Alignment explanation
Indices: 58591251--58591407 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
58591241 TATGTTTTCG
* * **
58591251 TGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTTATG
1 TGTAAGACTACGTCTGGGACATTGGCATCGA-TATTTGA-TTACA
* * * *
58591295 TGTAAGACTATGTCTGGGACATCGGCATC-ATATTTGATTTCC
1 TGTAAGACTACGTCTGGGACATTGGCATCGATATTTGATTACA
* * *
58591337 TATAAGACCCTA--TCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGA--CTACGTCTGGGACATTGGCATCGATATTTGATTACA
*
58591380 TGTAAGACTACGTCTGGGACTTTGGCAT
1 TGTAAGACTACGTCTGGGACATTGGCAT
58591408 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 3 0.03
42 23 0.26
43 35 0.39
44 29 0.32
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTAAGACTACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:58598001 original size:2 final size:2
Alignment explanation
Indices: 58597994--58598023 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
58597984 CGGCTCTTGC
58597994 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
58598024 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58598789 original size:40 final size:40
Alignment explanation
Indices: 58598732--58598876 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
58598722 TCGAATGATG
*
58598732 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGTTACTAAA
*
58598772 TCCGGACTAAGATCCGAAGGCATTTGTGATAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTAAA
*
58598812 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTAAA
**
58598852 TCCAGGA-TAAGCCCCGAAGGCATTT
1 TCC-GGACTAAGATCCGAAGGCATTT
58598877 TTGCGAGCTA
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
40 85 0.89
41 11 0.11
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTAAA
Found at i:58598917 original size:80 final size:79
Alignment explanation
Indices: 58598732--58598917 Score: 198
Period size: 80 Copynumber: 2.3 Consensus size: 79
58598722 TCGAATGATG
* *
58598732 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGT-CCGAAGGATTTGTGCTAAGTTACTAAATCCGGACTAAGACCCGAAGGCATTT
* *
58598797 GTGATAGTTACTAAA
65 GTGAGAGCTACTAAA
* * *
58598812 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGGA-TAAGCCCCGAAGGCAT
1 TCCGGGCTAAG-TCCGAAGG-ATTTGTGCTAAGTTACTAAATCC-GGACTAAGACCCGAAGGCAT
* *
58598875 TTTTGCGAGCTACTATAA
63 TTGTGAGAGCTACTA-AA
*
58598893 -CCGGGCTATGTCTCGAAGGTATTTG
1 TCCGGGCTAAGTC-CGAAGG-ATTTG
58598918 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
79 2 0.02
80 74 0.83
81 13 0.15
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCGAAGGATTTGTGCTAAGTTACTAAATCCGGACTAAGACCCGAAGGCATTTG
TGAGAGCTACTAAA
Found at i:58600742 original size:27 final size:28
Alignment explanation
Indices: 58600710--58600764 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
58600700 GCAAAGAAAG
58600710 TTTGAG-AAAAAATATGAATACAAGAGA
1 TTTGAGAAAAAAATATGAATACAAGAGA
58600737 TTTGAGAAAAAAATATGAATACAAGAGA
1 TTTGAGAAAAAAATATGAATACAAGAGA
58600765 AGACATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (28 bp):
TTTGAGAAAAAAATATGAATACAAGAGA
Found at i:58600774 original size:28 final size:28
Alignment explanation
Indices: 58600716--58600774 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
58600706 AAAGTTTGAG
****
58600716 AAAAAATATGAATACAAGAGATTTGAGA
1 AAAAAATATGAATACAAGAGAAGACAGA
*
58600744 AAAAAATATGAATACAAGAGAAGACATA
1 AAAAAATATGAATACAAGAGAAGACAGA
58600772 AAA
1 AAA
58600775 GCTTGCTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.63, C:0.05, G:0.15, T:0.17
Consensus pattern (28 bp):
AAAAAATATGAATACAAGAGAAGACAGA
Found at i:58608655 original size:47 final size:45
Alignment explanation
Indices: 58608533--58608759 Score: 145
Period size: 47 Copynumber: 4.9 Consensus size: 45
58608523 AGGAATTGAC
* *
58608533 GATTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
1 GATTAAGGAT-CCATGTAAGACCATGTCAAGACATGGCATCGGCAA
** * *
58608579 G-GCAAGGATCCTGTGTAAGACCATGTCAAGACATGGCATCGGCATT
1 GATTAAGGATCC-ATGTAAGACCATGTCAAGACATGGCATCGGCA-A
** ** *
58608625 GATTAAGGACTCCATGTAAGACCACATCAAGATGTGGCATTGGCACTAA
1 GATTAAGGA-TCCATGTAAGACCATGTCAAGACATGGCATCGG--C-AA
* *** * * *
58608674 GA-CAAGGATACCATGTAAGACCATGTTTGGAACATGGTATTTGGTAA
1 GATTAAGGAT-CCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCAA
* * *
58608721 GA-TAAGGATATCATGTAAGACCATGCCAAGGCATGGCAT
1 GATTAAGGAT-CCATGTAAGACCATGTCAAGACATGGCAT
58608760 TGATAAGTTC
Statistics
Matches: 138, Mismatches: 33, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
44 2 0.01
45 36 0.26
46 8 0.06
47 56 0.41
48 23 0.17
49 8 0.06
50 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (45 bp):
GATTAAGGATCCATGTAAGACCATGTCAAGACATGGCATCGGCAA
Found at i:58608788 original size:54 final size:54
Alignment explanation
Indices: 58608724--58608931 Score: 204
Period size: 54 Copynumber: 3.9 Consensus size: 54
58608714 TTGGTAAGAT
* *
58608724 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * * *
58608778 AAGGAAATCATGTAAGACCATGTCAATACATGGTATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * ** * **
58608833 AAAGG-TCCCATGTAAGACGATGCCAAGGTATGGCATTGGTGTGTT-TATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
58608886 AAGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
58608932 AAAAAGGAAA
Statistics
Matches: 123, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
52 4 0.03
53 38 0.31
54 39 0.32
55 38 0.31
56 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:58612927 original size:6 final size:6
Alignment explanation
Indices: 58612916--58612986 Score: 106
Period size: 6 Copynumber: 11.8 Consensus size: 6
58612906 TGAAACTTTA
*
58612916 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * *
58612964 ATTTTA ATTTTA ATTTTA ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTT
58612987 CGCAACCATT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (6 bp):
ATTTTG
Found at i:58613047 original size:3 final size:3
Alignment explanation
Indices: 58613039--58613075 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
58613029 TTAAATTTAT
58613039 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
58613076 ATAAATTTTT
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):
TTA
Found at i:58621045 original size:11 final size:11
Alignment explanation
Indices: 58620996--58621047 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
58620986 ATTAAATTGA
58620996 ACTTATTAAAC
1 ACTTATTAAAC
*
58621007 ACAT-TTAAAC
1 ACTTATTAAAC
58621017 ACTTATTGAACATGC
1 ACTTATT-AA-A--C
58621032 ACTTATTAAAC
1 ACTTATTAAAC
58621043 ACTTA
1 ACTTA
58621048 GCTTAGATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 9 0.26
11 11 0.32
12 2 0.06
13 2 0.06
14 2 0.06
15 8 0.24
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (11 bp):
ACTTATTAAAC
Found at i:58624257 original size:21 final size:21
Alignment explanation
Indices: 58624232--58624277 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
58624222 CTTTTTCCTT
* *
58624232 TCTTTTTTTTTTAATTTTTTA
1 TCTTTTCTTTTCAATTTTTTA
* *
58624253 TCTTTTCTTTTCACTTTTTTT
1 TCTTTTCTTTTCAATTTTTTA
58624274 TCTT
1 TCTT
58624278 GTACTTTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (21 bp):
TCTTTTCTTTTCAATTTTTTA
Found at i:58628525 original size:35 final size:35
Alignment explanation
Indices: 58628479--58628552 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
58628469 ACAAAGTAAG
58628479 AAGATATCATCAAATTCATCAAAGGTCCTTTTACA
1 AAGATATCATCAAATTCATCAAAGGTCCTTTTACA
58628514 AAGATATCATCAAATTCATCAAAGGTCCTTTTACA
1 AAGATATCATCAAATTCATCAAAGGTCCTTTTACA
58628549 AAGA
1 AAGA
58628553 CTTATTTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (35 bp):
AAGATATCATCAAATTCATCAAAGGTCCTTTTACA
Found at i:58629059 original size:21 final size:21
Alignment explanation
Indices: 58629016--58629066 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
58629006 TTACCTGCAT
58629016 TTAAACACATTAAATTGAACTTA
1 TTAAACACATTAAA-T-AACTTA
58629039 TTAAACACATTTAAA-AACTTA
1 TTAAACACA-TTAAATAACTTA
*
58629060 TTGAACA
1 TTAAACA
58629067 TGCACTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 12 0.46
23 9 0.35
24 5 0.19
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (21 bp):
TTAAACACATTAAATAACTTA
Found at i:58629871 original size:50 final size:50
Alignment explanation
Indices: 58629736--58629872 Score: 184
Period size: 50 Copynumber: 2.7 Consensus size: 50
58629726 TTATTTGTGC
* * * * * * *
58629736 ACAAGCTACCACTGATTTGCAGATAAACTGCCTCTGATAACGCTTTGTGG
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTATGG
*
58629786 ACAAGCCACCACTGGTATGCAGATATACTGCCACTTATAACACTTTATGG
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTATGG
* *
58629836 ACAAGCCACCACTGATATGTAGATATATTGCCACTTA
1 ACAAGCCACCACTGATATGCAGATATACTGCCACTTA
58629873 CTTCCACCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
ACAAGCCACCACTGATATGCAGATATACTGCCACTTATAACACTTTATGG
Found at i:58634069 original size:40 final size:39
Alignment explanation
Indices: 58633970--58634190 Score: 160
Period size: 40 Copynumber: 5.5 Consensus size: 39
58633960 TTCGAATGGT
* * * *
58633970 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAA
* *
58634011 ATCCGG-GTCAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACT-AAGT-CCGAAGGCATTTGTGCGAGTTACTAA
* *
58634051 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAA
** * *
58634091 ATCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGCTATTATA
1 ATCCGGACTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-A
* * * * ** *
58634132 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTCGCTAT
1 ATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTAA
*
58634171 ATCCGGA-TAAAATCCGAAGG
1 ATCCGGACT-AAGTCCGAAGG
58634191 TACGTGATTC
Statistics
Matches: 145, Mismatches: 27, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
39 11 0.08
40 104 0.72
41 30 0.21
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:58634175 original size:80 final size:80
Alignment explanation
Indices: 58633970--58634176 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 80
58633960 TTCGAATGGT
* *
58633970 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTAAATCCGGGTCAATTCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGC-GAGTCG-CTAAATCCGGGTCAAGTCCCGAAGGCA
*
58634034 TTTGTGCGAGTTACTAA
64 TTTGTGCGAGCTACTAA
* * * * *
58634051 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTC-CCAAATCCGGGTTAAGTCTCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCGAG-TCGCTAAATCCGGGTCAAGTCCCGAAGGCA
*
58634114 TTTGTGCGAGCTATTATA
64 TTTGTGCGAGCTACTA-A
* * *
58634132 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTCGCTATATCCGG
1 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTCGCTAAATCCGG
58634177 ATAAAATCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
79 3 0.03
80 72 0.69
81 29 0.28
82 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTCGCTAAATCCGGGTCAAGTCCCGAAGGCATT
TGTGCGAGCTACTAA
Found at i:58636862 original size:43 final size:43
Alignment explanation
Indices: 58636799--58636881 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 43
58636789 ACATGTATTG
*
58636799 CATCCATCATGAACGTGGACCAC-TCAACGAGCTCAGATGCTTA
1 CATCCATAATGAACGTGGACC-CTTCAACGAGCTCAGATGCTTA
*
58636842 CATCCATAATGAAC-TCGGACCCTTCAACGAGCTCGGATGC
1 CATCCATAATGAACGT-GGACCCTTCAACGAGCTCAGATGC
58636882 CACATATATC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
42 2 0.06
43 34 0.94
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (43 bp):
CATCCATAATGAACGTGGACCCTTCAACGAGCTCAGATGCTTA
Found at i:58636911 original size:42 final size:43
Alignment explanation
Indices: 58636804--58637008 Score: 148
Period size: 42 Copynumber: 4.7 Consensus size: 43
58636794 TATTGCATCC
* * * * **
58636804 ATCATGAACGTGGACCACTCAACGAGCTCAGATGCTTACATCC
1 ATCACGAACTTGGACCACTCAACGAGCTCGGATGCTCACATAT
* * *
58636847 ATAATGAACTCGGACC-CTTCAACGAGCTCGGATGC-CACATAT
1 ATCACGAACTTGGACCAC-TCAACGAGCTCGGATGCTCACATAT
* * * * *
58636889 ATCACGAACTTGGACCACTCAACAAGTTCGAATTTCTCATATATAT
1 ATCACGAACTTGGACCACTCAACGAGCTCGGA-TGCTC--ACATAT
** * *
58636935 ATCACGAACTCAGACCGCTCAACGAGC-CTGGATG-TCATATAT
1 ATCACGAACTTGGACCACTCAACGAGCTC-GGATGCTCACATAT
* * *
58636977 GTCACGAACCTGGACCACTCAACGAGTTCGGA
1 ATCACGAACTTGGACCACTCAACGAGCTCGGA
58637009 CTTCTTATTC
Statistics
Matches: 126, Mismatches: 28, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
42 59 0.47
43 33 0.26
44 3 0.02
45 2 0.02
46 29 0.23
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
ATCACGAACTTGGACCACTCAACGAGCTCGGATGCTCACATAT
Found at i:58639957 original size:15 final size:15
Alignment explanation
Indices: 58639939--58639993 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
58639929 GACAAGAAGA
*
58639939 CCAAAATAAAGAAAT
1 CCAAGATAAAGAAAT
* *
58639954 CCAAGACAAAAAAAT
1 CCAAGATAAAGAAAT
*
58639969 CCAAGATGAAGAAAT
1 CCAAGATAAAGAAAT
58639984 CCAAGATAAA
1 CCAAGATAAA
58639994 AAAAAAAATC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.62, C:0.16, G:0.11, T:0.11
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:58646681 original size:43 final size:43
Alignment explanation
Indices: 58646602--58646684 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
58646592 ACATGCATCG
* * ** *
58646602 CATCCATCATGAACTCGGACCACTCAATTAGTTCGGATGCTCT
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGCTCT
* *
58646645 CATCCATAATGAGCTCAGACCTCTCAACGAGCTCGGATGC
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
58646685 CACATATATC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
CATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGCTCT
Found at i:58646783 original size:50 final size:50
Alignment explanation
Indices: 58646688--58646783 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 50
58646678 CGGATGCCAC
* * * * *
58646688 ATATATCACGAAATTGGACCACTCAACAAGTTTGGATTTCTTATATATAT
1 ATATATCACGAAATCGGACCACTCAACAAGCTCGGATGTCATATATATAT
* ** *
58646738 ATATATCACGAACTCGGACTGCTCAACGAGCTCGGATGTCATATAT
1 ATATATCACGAAATCGGACCACTCAACAAGCTCGGATGTCATATAT
58646784 GTCACGAACC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (50 bp):
ATATATCACGAAATCGGACCACTCAACAAGCTCGGATGTCATATATATAT
Found at i:58646798 original size:42 final size:42
Alignment explanation
Indices: 58646736--58646815 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
58646726 TCTTATATAT
* **
58646736 ATATATATCACGAACTCGGACTGCTCAACGAGCTCGGATGTC
1 ATATATATCACGAACCCGGACCACTCAACGAGCTCGGATGTC
* *
58646778 ATATATGTCACGAACCCGGACCACTCAACGAGTTCGGA
1 ATATATATCACGAACCCGGACCACTCAACGAGCTCGGA
58646816 CTTCTTAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (42 bp):
ATATATATCACGAACCCGGACCACTCAACGAGCTCGGATGTC
Found at i:58662452 original size:28 final size:29
Alignment explanation
Indices: 58662421--58662475 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
58662411 ATGGGCGACC
58662421 ACACGGGCATGT-CTTGGCCGTGTGAAGG
1 ACACGGGCATGTGCTTGGCCGTGTGAAGG
* *
58662449 ACACGGGCGTGTGCTTGGCCTTGTGAA
1 ACACGGGCATGTGCTTGGCCGTGTGAA
58662476 AACCCCTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.16, C:0.22, G:0.38, T:0.24
Consensus pattern (29 bp):
ACACGGGCATGTGCTTGGCCGTGTGAAGG
Found at i:58672074 original size:27 final size:28
Alignment explanation
Indices: 58672044--58672103 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
58672034 TAAGTTGTAG
58672044 AATTACT-AAAATACCCCTGTAAGGTAA
1 AATTACTCAAAATACCCCTGTAAGGTAA
* *
58672071 AATTA-TCGAAATACCCCTGTAGGGTAA
1 AATTACTCAAAATACCCCTGTAAGGTAA
58672098 AATTAC
1 AATTAC
58672104 CGAAATGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (28 bp):
AATTACTCAAAATACCCCTGTAAGGTAA
Found at i:58672107 original size:27 final size:27
Alignment explanation
Indices: 58672052--58672212 Score: 171
Period size: 27 Copynumber: 6.0 Consensus size: 27
58672042 AGAATTACTA
* * *
58672052 AAATACCCCTGTAAGGTAAAATTATCG
1 AAATACCCCTATAGGGTAAAATTACCG
*
58672079 AAATACCCCTGTAGGGTAAAATTACCG
1 AAATACCCCTATAGGGTAAAATTACCG
* * * *
58672106 AAATGCCTCTATAGGATAGAATTACCG
1 AAATACCCCTATAGGGTAAAATTACCG
*
58672133 AAATACCCTTATAGGGTAGAAA-TACCG
1 AAATACCCCTATAGGGTA-AAATTACCG
* *
58672160 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTATAGGGTAAAATTACCG
* * * *
58672187 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTATAGGGTAAAATTACC
58672213 ATTTTGCCCC
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 107 0.96
28 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATTACCG
Found at i:58672985 original size:26 final size:27
Alignment explanation
Indices: 58672956--58673015 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
58672946 CCACATATAT
*
58672956 ATATCTGT-TCTGGTGGCCTACG-CACA
1 ATATCTGTATCTGGT-GACTACGTCACA
*
58672982 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACTACGTCACA
58673009 ATATCTG
1 ATATCTG
58673016 GCAGCCTCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACTACGTCACA
Found at i:58679658 original size:27 final size:27
Alignment explanation
Indices: 58679624--58679795 Score: 177
Period size: 27 Copynumber: 6.4 Consensus size: 27
58679614 TGGATAAGTT
**
58679624 GTAGAATTACTAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
58679651 GTATAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
58679678 GTAGAATTACC-AAATACCCCTAT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
58679703 GATAGAATTACCGAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * * *
58679731 GTAGAAATATCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * **
58679758 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
58679785 GTAAAATTACC
1 GTAGAATTACC
58679796 ATTTTGCCCC
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.02
26 21 0.17
27 96 0.79
28 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:58679758 original size:80 final size:81
Alignment explanation
Indices: 58679625--58679777 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 81
58679615 GGATAAGTTG
* * * *
58679625 TAGAATTACTAAAATACCCCTGTAAGGTATAATTACCGAAATACCCCTGTAGGGTAGAATTACC-
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCG
58679689 AAATACCCCTATAGGA
66 AAATACCCCTATAGGA
* * * *
58679705 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTATAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCG
*
58679770 AGATACCC
66 AAATACCC
58679778 TTGTGGGGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
80 56 0.89
81 7 0.11
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCG
AAATACCCCTATAGGA
Found at i:58679807 original size:54 final size:53
Alignment explanation
Indices: 58679636--58679796 Score: 216
Period size: 53 Copynumber: 3.0 Consensus size: 53
58679626 AGAATTACTA
* * * * *
58679636 AAATACCCCTGTAAGGTATAATTACCGAAATACCCCTGTAGGGTAGAATTACC
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACC
* *
58679689 AAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TATCG
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATTA-CC
* *
58679743 AAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACC
58679796 A
1 A
58679797 TTTTGCCCCT
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 47 0.50
54 47 0.50
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (53 bp):
AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACC
Found at i:58682404 original size:15 final size:16
Alignment explanation
Indices: 58682384--58682414 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
58682374 ACCTTTCATG
58682384 CCATTTCA-TACTCAA
1 CCATTTCATTACTCAA
58682399 CCATTTCATTACTCAA
1 CCATTTCATTACTCAA
58682415 TTCCACAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (16 bp):
CCATTTCATTACTCAA
Found at i:58684893 original size:43 final size:41
Alignment explanation
Indices: 58684846--58684967 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
58684836 TCACATATCT
* * * * *
58684846 ATGCCACTGTCCCAGACAGGGTCTTACAGGAAATCGATTAACG
1 ATGCCAATGTCCCAAACAGGGTCTTACACGAAATC-AAT-ACA
* *
58684889 ATGCCAATGTCCCAAACATGGTTTTACACGAAACCTCAATACA
1 ATGCCAATGTCCCAAACAGGGTCTTACACGAAA--TCAATACA
* *
58684932 ATGCCAATGTCCCAAACGGGGTCTTACATGAAATCA
1 ATGCCAATGTCCCAAACAGGGTCTTACACGAAATCA
58684968 TATCTCGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 3 0.05
43 59 0.89
44 2 0.03
45 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
ATGCCAATGTCCCAAACAGGGTCTTACACGAAATCAATACA
Found at i:58692577 original size:27 final size:28
Alignment explanation
Indices: 58692521--58692590 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
58692511 AAACTTGTAC
58692521 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
58692549 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
58692576 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58692591 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:58692601 original size:27 final size:27
Alignment explanation
Indices: 58692521--58692602 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
58692511 AAACTTGTAC
* *
58692521 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
58692549 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
58692576 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
58692603 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:58704983 original size:46 final size:46
Alignment explanation
Indices: 58704916--58705044 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 46
58704906 TATAACCCGC
** *
58704916 CCATAAGCAAACTCGGACTCAACTCAATGAGCTC-GACCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CGTTCGCAT
*
58704962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
58705008 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
58705045 TACCCAAATA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 76 0.97
47 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:58708961 original size:93 final size:93
Alignment explanation
Indices: 58708832--58709004 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
58708822 CGCCCATAAG
* * * * * * *
58708832 CGAACTCGGACTCAACTCAATGAGGTCGGGCGTTCGCATCCATAAGTGAGCTTGTACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
58708897 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
58708925 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
1 CGAACTCGGACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
*
58708990 ATGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
58709005 CAAATATCCG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:58708996 original size:46 final size:46
Alignment explanation
Indices: 58708825--58709000 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 46
58708815 TGTAACCCGC
* * * *
58708825 CCATAAGCGAACTCGGACTCAACTCAATGAGGTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * * *
58708871 CCATAAGTGAGCTTGTACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
58708921 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
58708964 CCATAAGTGAACTCGGACTCAAATCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58709001 TGCCCAAATA
Statistics
Matches: 100, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 57 0.57
47 26 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58711039 original size:21 final size:21
Alignment explanation
Indices: 58711013--58711053 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
58711003 TGGCGAAAAT
58711013 TATAAACAAATAAGGGCTAAC
1 TATAAACAAATAAGGGCTAAC
58711034 TATAAACAAATAAGGGCTAA
1 TATAAACAAATAAGGGCTAA
58711054 GAGGATCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.20
Consensus pattern (21 bp):
TATAAACAAATAAGGGCTAAC
Found at i:58715650 original size:29 final size:29
Alignment explanation
Indices: 58715616--58715747 Score: 97
Period size: 29 Copynumber: 4.6 Consensus size: 29
58715606 TACTCGATTT
* * *
58715616 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
58715645 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
58715674 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
58715703 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
58715732 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
58715748 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:58715708 original size:58 final size:59
Alignment explanation
Indices: 58715615--58715747 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 59
58715605 ATACTCGATT
* * * *
58715615 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
* * * * * *
58715673 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACATAGTGCCATACACTTCCAGCA
58715732 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
58715748 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 4 0.06
58 58 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACATAGTGCCATACACTTCCAGCA
Found at i:58723399 original size:29 final size:29
Alignment explanation
Indices: 58723365--58723521 Score: 92
Period size: 29 Copynumber: 5.6 Consensus size: 29
58723355 TACTCGATTT
* * *
58723365 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
58723394 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* *
58723423 CGCACACTTAGTGCCATA-TATT---TCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
58723448 AGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
58723477 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
58723506 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
58723522 ATCTCGTCAC
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
25 20 0.19
26 2 0.02
28 2 0.02
29 84 0.78
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:58723452 original size:25 final size:25
Alignment explanation
Indices: 58723424--58723505 Score: 128
Period size: 25 Copynumber: 3.1 Consensus size: 25
58723414 CTTCGAGCTC
58723424 GCACACTTAGTGCCATATATTTCCA
1 GCACACTTAGTGCCATATATTTCCA
58723449 GCACACTTAGTGCCATATATTTCCAGCA
1 GCACACTTAGTGCCATATATTT-C--CA
58723477 TGCACACTTAGTGCCATATATTTCCA
1 -GCACACTTAGTGCCATATATTTCCA
58723503 GCA
1 GCA
58723506 TGCACACTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
25 25 0.47
26 3 0.06
28 3 0.06
29 22 0.42
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (25 bp):
GCACACTTAGTGCCATATATTTCCA
Found at i:58731571 original size:17 final size:17
Alignment explanation
Indices: 58731535--58731569 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
58731525 GTTAAATTCT
58731535 AATAGCTATAAGGATTA
1 AATAGCTATAAGGATTA
*
58731552 AATAGCTAT-GGGATTA
1 AATAGCTATAAGGATTA
58731568 AA
1 AA
58731570 ATCTAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.29
Consensus pattern (17 bp):
AATAGCTATAAGGATTA
Found at i:58736365 original size:180 final size:180
Alignment explanation
Indices: 58736069--58736394 Score: 519
Period size: 180 Copynumber: 1.8 Consensus size: 180
58736059 ATTTTATCTA
* * * *
58736069 AAACTAGACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTAAGCCAATTAGTACA
1 AAACTAGACGCACATATATTCTTACCATAAAATTTTCAGAATTTTTAGTTAAGCCAATTAGTACA
58736134 GTTTATTCATTAAAGATACCCCTATTTCACTATTAGATAGTTTCAACCTCTCTTCACTAAAAATT
66 GTTTATTCATTAAAGATACCCCTATTTCACTATTAGATAGTTTCAACCTCTCTTCACTAAAAATT
*
58736199 ATTTATTTCATGGTACGGGACTCCAAATTGAGAACCACTAATTTTTACAG
131 ATTTATCTCATGGTACGGGACTCCAAATTGAGAACCACTAATTTTTACAG
* * * *
58736249 AAACTAGACGCACATATATTCTTACCATAAGATTTTTAGAATTTTTAGTTTATCCAATTAGTACA
1 AAACTAGACGCACATATATTCTTACCATAAAATTTTCAGAATTTTTAGTTAAGCCAATTAGTACA
* * * *
58736314 GTTTATTCATTAAATATATCCCTATTTCACTGTCT-GATAGTTTCGACCTCTCTTCACTAAAAAT
66 GTTTATTCATTAAAGATACCCCTATTTCACTAT-TAGATAGTTTCAACCTCTCTTCACTAAAAAT
58736378 TATTTATCTCATGGTAC
130 TATTTATCTCATGGTAC
58736395 AGCTCTCAGA
Statistics
Matches: 132, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 131 0.99
181 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.39
Consensus pattern (180 bp):
AAACTAGACGCACATATATTCTTACCATAAAATTTTCAGAATTTTTAGTTAAGCCAATTAGTACA
GTTTATTCATTAAAGATACCCCTATTTCACTATTAGATAGTTTCAACCTCTCTTCACTAAAAATT
ATTTATCTCATGGTACGGGACTCCAAATTGAGAACCACTAATTTTTACAG
Found at i:58738457 original size:47 final size:47
Alignment explanation
Indices: 58738387--58738681 Score: 466
Period size: 47 Copynumber: 6.3 Consensus size: 47
58738377 CCCTTCGGGA
* * * *
58738387 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
58738434 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGG-
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
58738480 CTGTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CT-TATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* * *
58738528 CTTATCACATATATACACATTCGCATTCCTCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
58738575 CTTATCACATATATACATATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
58738622 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
58738669 TTTACCACATATA
1 CTTATCACATATA
58738682 CATATCTTAT
Statistics
Matches: 230, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 226 0.98
48 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:58738535 original size:22 final size:22
Alignment explanation
Indices: 58738510--58738584 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
58738500 TTCACATTCG
58738510 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
** * *
58738532 TCACATATATACACATTC-GCATTCC
1 TCACAT-T-GGC-CATTCGGCCTT-A
*
58738557 TCACATTGGCCATTTGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
58738579 TCACAT
1 TCACAT
58738585 ATATACATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 16 0.41
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.33
Consensus pattern (22 bp):
TCACATTGGCCATTCGGCCTTA
Found at i:58741671 original size:50 final size:50
Alignment explanation
Indices: 58741588--58742030 Score: 383
Period size: 50 Copynumber: 8.8 Consensus size: 50
58741578 ACCGAAGCTC
*
58741588 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * ** * *
58741638 TCTGGTATACATAGTAGCCTGCAATTAGCACTACACATATGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * ** * *
58741688 TCCGATACACGTAGTAGCCTGCACTTAGTACTACACAAACGA-TTGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT--A-TCAA
* ** *
58741740 -CGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * *
58741789 TCCGGTACACGTAGTAGCCTGCACTTAGAATTACACACGTGACCTAATC-A
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT-ATCAA
* * * * * ** * *
58741839 TATGATACACATAGTAGCCTTCACTTAGTACTACACACGTGATCGAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTATCAA
* * *
58741890 TCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * *
58741940 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA--AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * *
58741988 ACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATG
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACATG
58742031 TGTTCTAACA
Statistics
Matches: 314, Mismatches: 67, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
48 5 0.02
49 5 0.02
50 197 0.63
51 74 0.24
52 33 0.11
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:58741870 original size:151 final size:151
Alignment explanation
Indices: 58741591--58742028 Score: 572
Period size: 151 Copynumber: 2.9 Consensus size: 151
58741581 GAAGCTCTCT
* *
58741591 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTATACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * ** * * *
58741656 CTGCAATTAGCACTACACATATGA-CTTATCCATCCGATACACGTAGTAGCCTGCACTTAGTACT
66 CTGCACTTAGAACTACACACGTGACCTAAT-CATCTGATACACATAGTAGCCTGCACTTAGTACT
* ** *
58741720 ACACAAACGATTGAAGTTAACG
130 ACACAAACGATCGAAACTAACA
* * *
58741742 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
58741807 CTGCACTTAGAATTACACACGTGACCTAATCATATGATACACATAGTAGCCTTCACTTAGTACTA
66 CTGCACTTAGAACTACACACGTGACCTAATCATCTGATACACATAGTAGCCTGCACTTAGTACTA
*** *
58741872 CACACGTGATCGAAACTATCA
131 CACAAACGATCGAAACTAACA
*
58741893 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * * *
58741958 CTGCACTTAGTACTACACACGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTAC
66 CTGCACTTAGAACTACACACGTGACCT-AATC-ATCTGATACACATAGTAGCCTGCACTTAGTAC
58742023 TACACA
129 TACACA
58742029 TGTGTTCTAA
Statistics
Matches: 248, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
151 209 0.84
152 7 0.03
153 32 0.13
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGAACTACACACGTGACCTAATCATCTGATACACATAGTAGCCTGCACTTAGTACTA
CACAAACGATCGAAACTAACA
Found at i:58741977 original size:101 final size:101
Alignment explanation
Indices: 58741591--58742030 Score: 404
Period size: 101 Copynumber: 4.4 Consensus size: 101
58741581 GAAGCTCTCT
* *
58741591 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT-ATCAATCTGGTATACATAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATCAATCTGGTACACATAGTAG
* * ** ** * *
58741655 CCTGCAATTAGCACTACACATATGACTTATCCATCC
66 CCTGCACTTAGTACTACACACGTGACAAAACTATCC
* * ** * * * **
58741691 GATACACGTAGTAGCCTGCACTTAGTACTACACAAACGA-TTGAAGTTAA-CGGGTATGCATAGT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AA-TCAATCTGGTACACATAGT
* ** ** * *
58741754 AGCCTGCACTTAGTACTACACATGCAACCTATCAATCC
64 AGCCTGCACTTAGTACTACACACGTGACAAAACTATCC
* * * * * * *
58741792 GGTACACGTAGTAGCCTGCACTTAGAATTACACACGTGACCTAATC-ATATGATACACATAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATCAATCTGGTACACATAGTAG
* * *
58741856 CCTTCACTTAGTACTACACACGTGATCGAAACTATCA
66 CCTGCACTTAGTACTACACACGTGA-CAAAACTATCC
* *
58741893 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTACACGTAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATCAATCTGGTACACATAGTAG
* *
58741957 CCTGCACTTAGTACTACACACGTGACCTAAAACTGTCT
66 CCTGCACTTAGTACTACACACGTGA-C-AAAACTATCC
*** *
58741995 TAAACACATAGTAGCCTGCACATAGTACTACACATG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATG
58742031 TGTTCTAACA
Statistics
Matches: 275, Mismatches: 57, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
99 2 0.01
100 68 0.25
101 163 0.59
102 42 0.15
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAATCAATCTGGTACACATAGTAG
CCTGCACTTAGTACTACACACGTGACAAAACTATCC
Found at i:58746817 original size:15 final size:14
Alignment explanation
Indices: 58746783--58746842 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
58746773 TATAGATAAC
* *
58746783 AAGAAAACCAGGATT
1 AAGAAATCCAAGA-T
*
58746798 AAGAAGTCCAAGAT
1 AAGAAATCCAAGAT
58746812 AGAGAAATCCAAGAT
1 A-AGAAATCCAAGAT
58746827 AAGGAAATCCAAGAT
1 AA-GAAATCCAAGAT
58746842 A
1 A
58746843 CAATATCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 3 0.08
15 36 0.92
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:58746818 original size:30 final size:30
Alignment explanation
Indices: 58746784--58746842 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
58746774 ATAGATAACA
* *
58746784 AGAAAACCAGGATTAA-GAAGTCCAAGATAG
1 AGAAAACCAAGA-TAAGGAAATCCAAGATAG
*
58746814 AGAAATCCAAGATAAGGAAATCCAAGATA
1 AGAAAACCAAGATAAGGAAATCCAAGATA
58746843 CAATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.14, G:0.20, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAGGAAATCCAAGATAG
Found at i:58746991 original size:2 final size:2
Alignment explanation
Indices: 58746984--58747022 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
58746974 ATACCTTCCC
58746984 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
58747023 GAACAGAGCA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58750343 original size:16 final size:16
Alignment explanation
Indices: 58750324--58750355 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58750314 AATTGTTTTC
58750324 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
58750340 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
58750356 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:58750664 original size:50 final size:50
Alignment explanation
Indices: 58750566--58750852 Score: 315
Period size: 50 Copynumber: 5.7 Consensus size: 50
58750556 CTGGTACGCA
* * * **
58750566 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCCAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCCGGTACACG
* * * * *
58750616 TAGTGGCCTGTACTTAGTACTACACATGCGACCTATCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCCGGTACACG
* * * * * *
58750666 TAATAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACCCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCCGGTACACG
* ** * * * *
58750716 TAGTAGCCTGCACTTTGTACTACACACGTGATCGAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAATCCGGTACACG
* *
58750767 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTC-GTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC-CGGTACACG
*
58750817 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
58750853 AACTGTCTTA
Statistics
Matches: 196, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
50 155 0.79
51 41 0.21
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCCGGTACACG
Found at i:58750814 original size:151 final size:150
Alignment explanation
Indices: 58750555--58750894 Score: 421
Period size: 151 Copynumber: 2.2 Consensus size: 150
58750545 ACCGAAGCTC
* * ** * *
58750555 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCCAATACACGTAGT
1 TCTGATACCCATAGTAGCCTGCACTTAGTACTACACACGTGACGAAACCATCCAATACACATAGT
* * *
58750620 GGCCTGTACTTAGTACTACACATGCGACCTATCAATCCGGTACACGTAATAGCCTGCACTTAGTA
66 AGCCTGCACTTAGTACTACACATGCGACCTAACAATCCGGTACACGTAATAGCCTGCACTTAGTA
58750685 CTACACACGTGACCTAACCA
131 CTACACACGTGACCTAACCA
* * *** *
58750705 TCTGATACCCATAGTAGCCTGCACTTTGTACTACACACGTGATCGAAACTATCGGGTACGCATAG
1 TCTGATACCCATAGTAGCCTGCACTTAGTACTACACACGTGA-CGAAACCATCCAATACACATAG
* *
58750770 TAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTC-GTACACGTAGTAGCCTGTACTTAG
65 TAGCCTGCACTTAGTACTACACATGCGACCTAACAATC-CGGTACACGTAATAGCCTGCACTTAG
**
58750834 TACTACACACGTGACCTAAAACTG
129 TACTACACACGTGACCT--AACCA
* * * * *
58750858 TCTTAAACGCATAGTAGCCTGTACATAGTACTACACA
1 TCTGATACCCATAGTAGCCTGCACTTAGTACTACACA
58750895 TGTGTTCTGG
Statistics
Matches: 161, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
150 39 0.24
151 87 0.54
152 1 0.01
153 34 0.21
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (150 bp):
TCTGATACCCATAGTAGCCTGCACTTAGTACTACACACGTGACGAAACCATCCAATACACATAGT
AGCCTGCACTTAGTACTACACATGCGACCTAACAATCCGGTACACGTAATAGCCTGCACTTAGTA
CTACACACGTGACCTAACCA
Found at i:58751278 original size:19 final size:20
Alignment explanation
Indices: 58751250--58751296 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
58751240 AAGAACATGT
58751250 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
58751271 TA-ATATCAAAGTATTCACA
1 TATATATCAAAATAATCACA
58751290 TATATAT
1 TATATAT
58751297 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:58753422 original size:7 final size:7
Alignment explanation
Indices: 58753410--58753438 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
58753400 CTATGGCTAC
58753410 AAGGTAT
1 AAGGTAT
58753417 AAGGTAT
1 AAGGTAT
58753424 AAGGTAT
1 AAGGTAT
58753431 AAGGTAT
1 AAGGTAT
58753438 A
1 A
58753439 CAATGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
AAGGTAT
Found at i:58753655 original size:33 final size:32
Alignment explanation
Indices: 58753606--58753724 Score: 105
Period size: 33 Copynumber: 3.6 Consensus size: 32
58753596 ATCAGGGTAG
* * *
58753606 TAAACATAGAACAGAGATAGTCTGTCAAGACAG
1 TAAACATGGAATAGAGATAGTCT-TCAAGACAA
* *
58753639 TAAACATGGAATAGAGATAGTCCACTGAA-ACAA
1 TAAACATGGAATAGAGATAGT-C-TTCAAGACAA
* * * *
58753672 TAAACACGAAATAGAGATAGTCTACTAGGACAA
1 TAAACATGGAATAGAGATAGTCTTC-AAGACAA
*
58753705 TAAACATGGAATAAAGATAG
1 TAAACATGGAATAGAGATAG
58753725 CCCATCGAGA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
32 2 0.03
33 62 0.91
34 4 0.06
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.18
Consensus pattern (32 bp):
TAAACATGGAATAGAGATAGTCTTCAAGACAA
Found at i:58753864 original size:21 final size:21
Alignment explanation
Indices: 58753821--58753861 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
58753811 TCAGGCCAAA
58753821 AAGTATCGATACCTTTTTAAAT
1 AAGTATCGATA-CTTTTTAAAT
58753843 AAGTATCGATA-TTTTTAAA
1 AAGTATCGATACTTTTTAAA
58753862 ATATTGATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
AAGTATCGATACTTTTTAAAT
Found at i:58758218 original size:3 final size:3
Alignment explanation
Indices: 58758210--58758243 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
58758200 GGATGATTTA
58758210 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
58758244 AGTATGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:58761042 original size:46 final size:46
Alignment explanation
Indices: 58760975--58761147 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
58760965 AACCCGCCCC
* *
58760975 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGACGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCA
* * * *
58761021 TAAGTGAACTCGTACTCAACTCAAGGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA---C-ATTTGCATCCA
* * * *
58761069 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCA
58761114 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
58761148 TGCTGAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCA
Found at i:58761087 original size:93 final size:93
Alignment explanation
Indices: 58760980--58761150 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
58760970 GCCCCTAAGT
* * *
58760980 GAACTCGGACTCAACTCAATGAGCTCGGACGTTTGCATCCATAAGTGAACTCGTACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
58761045 GGAGTTCGGATGCCTAGTTACATCTCAC
66 GGAGTTCGGATGCCTAGTTACATCTCAC
* *
58761073 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58761138 TGAGTTCGGATGC
66 GGAGTTCGGATGC
58761151 TGAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
GGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58762057 original size:27 final size:26
Alignment explanation
Indices: 58762019--58762106 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 26
58762009 ATGGAGGAAG
* *
58762019 TGTTCTGGTGGCTATGCCACGATTATC
1 TGTTCTGGTGGCTCTGCCAC-AATATC
58762046 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTCTGCCACAATATC
* *
58762072 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTCTGCCACAATATC
58762099 TGTTCTGG
1 TGTTCTGG
58762107 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 13 0.23
27 43 0.77
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.38
Consensus pattern (26 bp):
TGTTCTGGTGGCTCTGCCACAATATC
Found at i:58779377 original size:43 final size:43
Alignment explanation
Indices: 58779299--58779424 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
58779289 TATCCCAGAT
* ** * *
58779299 ATGGTCTTACATGTTATCAC-ATATCAATGCAAATGTCTCAAAC
1 ATGGTCTTACACGAAATCACAATA-CAATGCCAATGTCCCAAAC
* * * *
58779342 ATGGTCTTGCACGAAATCA-TATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCACAAT-ACAATGCCAATGTCCCAAAC
*
58779385 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCA
1 ATGGTCTTACACGAAATCACAATACAATGCCAATGTCCCA
58779425 CTTACATGTA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 65 0.96
44 3 0.04
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACAATACAATGCCAATGTCCCAAAC
Found at i:58781467 original size:13 final size:13
Alignment explanation
Indices: 58781451--58781491 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
58781441 ATATAATCGA
58781451 TTCATATAGCCAT
1 TTCATATAGCCAT
*
58781464 TTCATATAACCAT
1 TTCATATAGCCAT
*
58781477 TTCATATAGTCAT
1 TTCATATAGCCAT
58781490 TT
1 TT
58781492 AAAAGTGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.44
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:58783396 original size:40 final size:40
Alignment explanation
Indices: 58783335--58783592 Score: 349
Period size: 40 Copynumber: 6.5 Consensus size: 40
58783325 CGGATGATAA
* *
58783335 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58783375 CCAGGTTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
58783415 ACGGGTTAAGTCACGAAGGCATTTGTGGGACTTACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
58783455 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
58783495 TCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
58783535 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
58783575 CC-GGTTAACTCCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
58783593 TACTTGGCTT
Statistics
Matches: 193, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 15 0.08
40 178 0.92
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58791420 original size:40 final size:40
Alignment explanation
Indices: 58791365--58791622 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
58791355 CGGATGATAA
* * * *
58791365 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACGAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
58791405 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58791445 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58791485 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
58791525 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
58791565 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
58791605 CC-GGTTAACTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58791623 TACTTGGCTT
Statistics
Matches: 199, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.08
40 183 0.92
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58795669 original size:22 final size:23
Alignment explanation
Indices: 58795638--58795697 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
58795628 TTTAATCCTT
*
58795638 TTTATATATTTCTAAAT-TTTT-A
1 TTTATTTATTT-TAAATATTTTAA
58795660 TTTATTTATTTTAAATATTTTAAA
1 TTTATTTATTTTAAATATTTT-AA
58795684 TATTATTTATTTTA
1 T-TTATTTATTTTA
58795698 CTATAAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 5 0.15
22 14 0.42
24 2 0.06
25 12 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTATTTATTTTAAATATTTTAA
Found at i:58795810 original size:29 final size:30
Alignment explanation
Indices: 58795724--58795840 Score: 96
Period size: 33 Copynumber: 3.7 Consensus size: 30
58795714 TATATAAAAA
*
58795724 ATTATTTATCGTATATTATTT-TATTATATAT
1 ATTATTTAT--TATGTTATTTATATTATATAT
*
58795755 -TTATATTATTATGTTATGTTGTCTATTATATAT
1 ATTAT-TTATTATGTTA--TT-TATATTATATAT
*
58795788 ATTATCTATTAT-TTATTTATATTTTATCATAT
1 ATTATTTATTATGTTATTTATA--TTAT-ATAT
*
58795820 ATTATTTATTATGTTGTTTAT
1 ATTATTTATTATGTTATTTAT
58795841 CTTTATCTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
29 9 0.13
30 6 0.08
31 10 0.14
32 19 0.27
33 23 0.32
34 4 0.06
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTATTTATTATGTTATTTATATTATATAT
Found at i:58797775 original size:49 final size:49
Alignment explanation
Indices: 58797703--58797896 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 49
58797693 GCCGAAGCTA
* *
58797703 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
58797752 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * *
58797802 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
58797850 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
58797897 TCACAATAGA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.31
50 41 0.34
51 40 0.33
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:58797887 original size:101 final size:99
Alignment explanation
Indices: 58797714--58797900 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
58797704 CTGGTACGCA
* * *
58797714 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
58797779 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
58797813 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
58797877 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
58797901 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 43 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:58800076 original size:15 final size:15
Alignment explanation
Indices: 58800020--58800084 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
58800010 TAAAGATAAC
*
58800020 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
58800034 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
58800049 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
58800064 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
58800079 AAGAAA
1 AAGAAA
58800085 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:58800086 original size:30 final size:31
Alignment explanation
Indices: 58800020--58800088 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
58800010 TAAAGATAAC
*
58800020 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
58800050 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
58800079 AAGAAACCCA
1 AAGAAACCCA
58800089 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:58803181 original size:50 final size:51
Alignment explanation
Indices: 58803071--58803206 Score: 170
Period size: 50 Copynumber: 2.7 Consensus size: 51
58803061 CTGGTACTTA
* * * **
58803071 TAGTAGCCTGCACCTAGTACTACACATACGA-C-CAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACACG
* * *
58803120 TAGTAGGCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACACG
*
58803170 TAGTAGCCTGCACTTTGTACTACACATGCGACCTCAC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
58803207 AATAAATCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 26 0.36
50 43 0.59
51 4 0.05
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACCAGTCTAATACACG
Found at i:58805377 original size:15 final size:15
Alignment explanation
Indices: 58805321--58805385 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
58805311 TAAAGATAAC
*
58805321 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
58805335 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
58805350 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
58805365 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
58805380 AAGAAA
1 AAGAAA
58805386 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:58805387 original size:30 final size:31
Alignment explanation
Indices: 58805321--58805389 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
58805311 TAAAGATAAC
*
58805321 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
58805351 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
58805380 AAGAAACCCA
1 AAGAAACCCA
58805390 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:58808083 original size:19 final size:20
Alignment explanation
Indices: 58808047--58808084 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
58808037 AATAGACTCA
* *
58808047 TTAAACTTTATTTCAAATTT
1 TTAAACTTTAATTAAAATTT
58808067 TTAAA-TTTAATTAAAATT
1 TTAAACTTTAATTAAAATT
58808085 ACAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAACTTTAATTAAAATTT
Done.