Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 93 of 168
Found at i:27663921 original size:32 final size:33
Alignment explanation
Indices: 27663857--27663932 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
27663847 ATACAATATG
* * *
27663857 CAGTAACAGTCTGGGCCTGAGCCCTATTCAGTAA
1 CAGT-ACAGTGTGGGCCTGAGCCCAATACAGTAA
* *
27663891 CAGTACAGTGTGGG-CTTAGCCCAATACAGTAT
1 CAGTACAGTGTGGGCCTGAGCCCAATACAGTAA
*
27663923 TAGTACAGTG
1 CAGTACAGTG
27663933 CAATAATGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
32 23 0.64
33 9 0.25
34 4 0.11
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (33 bp):
CAGTACAGTGTGGGCCTGAGCCCAATACAGTAA
Found at i:27667302 original size:46 final size:46
Alignment explanation
Indices: 27667233--27667577 Score: 599
Period size: 46 Copynumber: 7.6 Consensus size: 46
27667223 TTTGAGTACT
*
27667233 TCTGATCAA-TGACAAAGTTATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
27667278 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
27667324 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
27667370 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
27667416 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
27667462 TTTGATCAAGTGACAAAGTGATAAGTGGTAGCTGTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
27667508 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
27667553 TCTGATCACG-GGC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
27667578 ATCATACGTA
Statistics
Matches: 290, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
43 12 0.04
44 2 0.01
45 30 0.10
46 246 0.85
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:27669898 original size:21 final size:21
Alignment explanation
Indices: 27669869--27669908 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27669859 TTTTAATTTG
27669869 ATTTCTTAT-ATAGAATTTATA
1 ATTTCTTATAATA-AATTTATA
*
27669890 ATTTTTTATAATAAATTTA
1 ATTTCTTATAATAAATTTA
27669909 GTAACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
ATTTCTTATAATAAATTTATA
Found at i:27672125 original size:139 final size:140
Alignment explanation
Indices: 27671944--27672196 Score: 377
Period size: 139 Copynumber: 1.8 Consensus size: 140
27671934 GCCACAAATT
* * *
27671944 TTATGGTAAATTATAATATATACAATTAGCATTATATAATTAAGGTAGATTATTAATGATATGTA
1 TTATGGTAAATTATAATATATACAATTAACATGATATAATTAAAGTAGATTATTAATGATATGTA
* * *
27672009 ATCCTATATATAACTATGTTATTA-AAATGTACA-TTTTATATTAATGATATGTGAGCTTAAACC
66 A-CCCATATACAACTATGATATTATAAA-GTACATTTTTATATTAATGATATGTGAGCTTAAACC
27672072 CTACCCTTAATC
129 CTACCCTTAATC
* *
27672084 TTATGGTAGA-TATAATATATACAATTAACATGATATTATTAAAGTAGATTATTAATGATATGTA
1 TTATGGTAAATTATAATATATACAATTAACATGATATAATTAAAGTAGATTATTAATGATATGTA
* *
27672148 ACCCATATACAATTATGATATTATAAAGTGCATTTTTATATTAATGATA
66 ACCCATATACAACTATGATATTATAAAGTACATTTTTATATTAATGATA
27672197 CTTAACCTTA
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
138 22 0.22
139 70 0.69
140 9 0.09
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (140 bp):
TTATGGTAAATTATAATATATACAATTAACATGATATAATTAAAGTAGATTATTAATGATATGTA
ACCCATATACAACTATGATATTATAAAGTACATTTTTATATTAATGATATGTGAGCTTAAACCCT
ACCCTTAATC
Found at i:27673739 original size:77 final size:77
Alignment explanation
Indices: 27673466--27673737 Score: 298
Period size: 76 Copynumber: 3.5 Consensus size: 77
27673456 GGAAATTAAA
* * * * *
27673466 AGTAAAAT-AAAATCGTTTTGGCATTGATTCCCACAGTTCAACAATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCACCGTTCAACGATTTTATTCC-AATTTTTTTT
*
27673530 ATTTCCAAAAATG
65 ATTTCCAAAAACG
* * * * *
27673543 AGTAAAATAAAAATTGTTTTGGGATTGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT-
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCACCGTTCAACGATTTTATTCCAATTTTTTTTA
27673607 TTTCCAAAAACG
66 TTTCCAAAAACG
* * * *** * *
27673619 AGTAAAATAAAAATCATTTCGAGAGTGATTCTTGCCATTCAATGATTTTATTCCAATTTTTTTTA
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCCACCGTTCAACGATTTTATTCCAATTTTTTTTA
27673684 TTTCCAAAAACG
66 TTTCCAAAAACG
* * * *
27673696 AGTAACAT-AAAATCTGTTTCGGGATTTATTCCTATCGTTCAA
1 AGTAAAATAAAAATC-GTTTCGGGATTGATTCCCACCGTTCAA
27673738 TGGATTTATT
Statistics
Matches: 163, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
76 70 0.43
77 53 0.33
78 40 0.25
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (77 bp):
AGTAAAATAAAAATCGTTTCGGGATTGATTCCCACCGTTCAACGATTTTATTCCAATTTTTTTTA
TTTCCAAAAACG
Found at i:27678013 original size:16 final size:15
Alignment explanation
Indices: 27677983--27678012 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27677973 GTTAATCCCA
27677983 AAAATTATTTGTTTT
1 AAAATTATTTGTTTT
27677998 AAAATTATTTGTTTT
1 AAAATTATTTGTTTT
27678013 TGTTATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
AAAATTATTTGTTTT
Found at i:27679898 original size:22 final size:24
Alignment explanation
Indices: 27679873--27679925 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
27679863 ATTTTTTTAA
*
27679873 ATAAAATACA-CAT-AATTTTTTC
1 ATAAAATAAACCATAAATTTTTTC
27679895 AT-AAATAAACCATAGAATTTTTTC
1 ATAAAATAAACCATA-AATTTTTTC
27679919 A-AAAATA
1 ATAAAATA
27679926 TGTTCTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 6 0.23
22 5 0.19
24 15 0.58
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAAAATAAACCATAAATTTTTTC
Found at i:27679967 original size:20 final size:21
Alignment explanation
Indices: 27679942--27679982 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27679932 TAAAGCTTGT
27679942 AAATTA-GAAAATAAAAATAA
1 AAATTATGAAAATAAAAATAA
**
27679962 AAATTATTTAAATAAAAATAA
1 AAATTATGAAAATAAAAATAA
27679983 TTACCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTATGAAAATAAAAATAA
Found at i:27680259 original size:24 final size:25
Alignment explanation
Indices: 27680219--27680266 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
27680209 TTCGATCGAG
27680219 TCGAGTTGAATCGAGTTAAAGAATT
1 TCGAGTTGAATCGAGTTAAAGAATT
* *
27680244 TCGAGTT-AGTCGAGTTGAAGAAT
1 TCGAGTTGAATCGAGTTAAAGAAT
27680267 CCTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.31
Consensus pattern (25 bp):
TCGAGTTGAATCGAGTTAAAGAATT
Found at i:27682262 original size:41 final size:41
Alignment explanation
Indices: 27682197--27682471 Score: 410
Period size: 41 Copynumber: 6.7 Consensus size: 41
27682187 CCTTTCAGGG
** * * * *
27682197 CTTTAGCGGCGTTTTTATAAAAGCGCCGCTAGTTCTCGGGT
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
27682238 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
*
27682279 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCT-TAGGG
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCT-GGT
27682320 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
* *
27682361 CTTTAGCAGCGTTTTCTGG-GAAGCGCCGCTAATGCTCAGGT
1 CTTTAGCGGCGTTTT-TGGAGAAGCGCCGCTAATGCTCTGGT
*
27682402 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
* *
27682443 CTTTAGCGGCGTTTTTGGAAAATCGCCGC
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGC
27682472 AAAAACATTT
Statistics
Matches: 216, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
40 4 0.02
41 208 0.96
42 4 0.02
ACGTcount: A:0.16, C:0.22, G:0.30, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
Found at i:27682957 original size:13 final size:14
Alignment explanation
Indices: 27682908--27682955 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
27682898 AGGGTTGTGA
27682908 TTTAGGGGTTAAGGG
1 TTTAGGGGTT-AGGG
27682923 -TTAGGGGTTAGGG
1 TTTAGGGGTTAGGG
* *
27682936 ATT-CGGGTTAGGG
1 TTTAGGGGTTAGGG
27682949 TTTAGGG
1 TTTAGGG
27682956 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.17, C:0.02, G:0.48, T:0.33
Consensus pattern (14 bp):
TTTAGGGGTTAGGG
Found at i:27683683 original size:27 final size:27
Alignment explanation
Indices: 27683651--27683704 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
27683641 TTACATGTTG
27683651 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
27683678 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
27683705 GAAAAGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.22
Consensus pattern (27 bp):
AAATTAATTAAGGGAATGTAAACAAGA
Found at i:27687051 original size:43 final size:43
Alignment explanation
Indices: 27687003--27687097 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
27686993 TTCAGGATAC
* * * *
27687003 TTTATTACCAAGATTTCCTTGATTAAGTAAATGTATTATATCT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
*
27687046 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATAT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
27687089 TTTATTACC
1 TTTATTACC
27687098 TTGCATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (43 bp):
TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
Found at i:27687206 original size:22 final size:21
Alignment explanation
Indices: 27687168--27687224 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
27687158 TAACTTTTGG
*
27687168 ATTTTAATTGTTATTAATTTATT
1 ATTTTAAAT-TTATTAATTT-TT
27687191 ATTTTAAATTTATTAATTTTT
1 ATTTTAAATTTATTAATTTTT
*
27687212 ATATTTATATTTA
1 AT-TTTAAATTTA
27687225 GTTTTAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 4 0.13
22 19 0.61
23 8 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
ATTTTAAATTTATTAATTTTT
Found at i:27687571 original size:42 final size:43
Alignment explanation
Indices: 27687357--27687647 Score: 394
Period size: 43 Copynumber: 6.8 Consensus size: 43
27687347 AAGATAAGTT
* * *
27687357 TTTAGCGGCGTTTTTGTGAAAAGCGTCGCTAAAGGT-CATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAC-TGGTC
* * * *
27687400 TTTAGCAGCGTTTGCGGGAAAAAGTGCTGCTAAAGGT-CATGGTC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTAC-TGGTC
* *
27687444 TATAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTACTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTC
*
27687487 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTATTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTC
27687530 TTTAGCGGCGTTTGTGGGAAAA-CGCCGCTAAAGGTACTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTC
*
27687572 TATAGCGGCGTTTGT--GAAATAGCGCCGCTAAAGGTACTGGTC
1 TTTAGCGGCGTTTGTGGGAAA-AGCGCCGCTAAAGGTACTGGTC
* *
27687614 TTTAGCGACGTTTGTGGGAAAAGCGCCGCAAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
27687648 TTAGCGACAC
Statistics
Matches: 221, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
40 4 0.02
41 1 0.00
42 66 0.30
43 108 0.49
44 42 0.19
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTACTGGTC
Found at i:27687636 original size:127 final size:129
Alignment explanation
Indices: 27687357--27687647 Score: 421
Period size: 127 Copynumber: 2.3 Consensus size: 129
27687347 AAGATAAGTT
* * *
27687357 TTTAGCGGCGTTTTTGTGAAAAGCGTCGCTAAAGGTCATGGTCTTTAGCAGCGTTTGCGGGAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCAGCGTTTGCGGGAAAA
* * *
27687422 AGTGCTGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTACTGGTC
66 AGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTACTGGTC
* *
27687487 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-ATTGGTCTTTAGCGGCGTTTGTGGG-AA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA-TGGTCTTTAGCAGCGTTTGCGGGAAA
27687550 AA-CGCCGCTAAAGGT-ACTGGTCTATAGCGGCGTTTGT-GAAATAGCGCCGCTAAAGGTACTGG
65 AAGCGCCGCTAAAGGTCA-TGGTCTATAGCGGCGTTTGTGGAAA-AGCGCCGCTAAAGGTACTGG
27687612 TC
128 TC
* *
27687614 TTTAGCGACGTTTGTGGGAAAAGCGCCGCAAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
27687648 TTAGCGACAC
Statistics
Matches: 148, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
126 4 0.03
127 54 0.36
128 31 0.21
129 5 0.03
130 54 0.36
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (129 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCAGCGTTTGCGGGAAAA
AGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTACTGGTC
Found at i:27689284 original size:19 final size:19
Alignment explanation
Indices: 27689249--27689303 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
27689239 TTTTTAAAAA
*
27689249 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
27689267 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
27689286 TGA-AAATTATTTTGAATT
1 T-ATAAA-TATTTTGAATT
27689304 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 7 0.21
19 14 0.42
20 12 0.36
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:27689286 original size:20 final size:20
Alignment explanation
Indices: 27689249--27689308 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
27689239 TTTTTAAAAA
*
27689249 TATAAAT-TTTAGAA-TTTT
1 TATAAATATTTTGAATTTTT
27689267 TATAAATATTTTGAATTTTT
1 TATAAATATTTTGAATTTTT
*
27689287 GA-AAATTATTTTGAATTATTT
1 TATAAA-TATTTTGAATT-TTT
27689308 T
1 T
27689309 GTAATTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 7 0.20
19 9 0.26
20 16 0.46
21 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TATAAATATTTTGAATTTTT
Found at i:27689402 original size:9 final size:9
Alignment explanation
Indices: 27689388--27689417 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27689378 ACATCAATCT
27689388 ATTATTCGA
1 ATTATTCGA
*
27689397 ATTATTTGA
1 ATTATTCGA
27689406 ATTATTCGA
1 ATTATTCGA
27689415 ATT
1 ATT
27689418 GTAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (9 bp):
ATTATTCGA
Found at i:27690611 original size:11 final size:11
Alignment explanation
Indices: 27690595--27690628 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27690585 GTTGGTGTTA
27690595 GTAATGTCTTT
1 GTAATGTCTTT
27690606 GTAATGTCTTT
1 GTAATGTCTTT
* *
27690617 ATAATGTGTTT
1 GTAATGTCTTT
27690628 G
1 G
27690629 ATGTGTATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.53
Consensus pattern (11 bp):
GTAATGTCTTT
Found at i:27691429 original size:29 final size:30
Alignment explanation
Indices: 27691384--27691453 Score: 106
Period size: 29 Copynumber: 2.3 Consensus size: 30
27691374 CAGAATACCT
* *
27691384 ATATATGCATGGGTTTTGTTATATATAT-A
1 ATATATGCGTGGATTTTGTTATATATATAA
27691413 ATATATGCGTGGATTTTGTTATATATATAAA
1 ATATATGCGTGGATTTTGTTATATATAT-AA
27691444 ATATATGCGT
1 ATATATGCGT
27691454 ATATGGTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 26 0.70
31 11 0.30
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (30 bp):
ATATATGCGTGGATTTTGTTATATATATAA
Found at i:27691438 original size:31 final size:29
Alignment explanation
Indices: 27691384--27691453 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 29
27691374 CAGAATACCT
* * *
27691384 ATATATGCATGGGTTTTGTTATATATATA
1 ATATATGCGTGGATTTTGTTATATATAAA
27691413 ATATATGCGTGGATTTTGTTATATATATAAA
1 ATATATGCGTGGATTTTG-T-TATATATAAA
27691444 ATATATGCGT
1 ATATATGCGT
27691454 ATATGGTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 16 0.44
30 1 0.03
31 19 0.53
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (29 bp):
ATATATGCGTGGATTTTGTTATATATAAA
Found at i:27691472 original size:34 final size:32
Alignment explanation
Indices: 27691398--27691483 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 32
27691388 ATGCATGGGT
*
27691398 TTTGTTATATATAT-AATATATGCGTGGAT--
1 TTTGTTATATATATAAATATATGCGTAGATGG
*
27691427 TTTGTTATATATATAAAATATATGCGTATATGG
1 TTTGTTATATATAT-AAATATATGCGTAGATGG
*
27691460 TTCTGTTATATATACACAATATAT
1 TT-TGTTATATATATA-AATATAT
27691484 ATGTGTGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
29 14 0.29
31 13 0.27
33 3 0.06
34 18 0.38
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.47
Consensus pattern (32 bp):
TTTGTTATATATATAAATATATGCGTAGATGG
Found at i:27692713 original size:17 final size:17
Alignment explanation
Indices: 27692680--27692731 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
27692670 TATGATGTGG
* *
27692680 TATGAATGAATTATTA-
1 TATGAATGAACTGTTAT
27692696 TATTGAATGAACTGTTAT
1 TA-TGAATGAACTGTTAT
*
27692714 TATGCATGAACTGTTAT
1 TATGAATGAACTGTTAT
27692731 T
1 T
27692732 TCATATGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 27 0.87
18 2 0.06
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (17 bp):
TATGAATGAACTGTTAT
Found at i:27692739 original size:17 final size:16
Alignment explanation
Indices: 27692702--27692735 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
27692692 ATTATATTGA
27692702 ATGAACTGTTATTATGC
1 ATGAACTGTTATTAT-C
27692719 ATGAACTGTTATT-TC
1 ATGAACTGTTATTATC
27692734 AT
1 AT
27692736 ATGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 1 0.06
17 13 0.76
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (16 bp):
ATGAACTGTTATTATC
Found at i:27698170 original size:44 final size:42
Alignment explanation
Indices: 27698103--27698215 Score: 156
Period size: 44 Copynumber: 2.6 Consensus size: 42
27698093 TTCTGATATG
* * *
27698103 TGATTTTGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATT
1 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
27698144 TGAGATTTATGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-TGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
*
27698189 TGATTTCGTGTAAGACCATGTCTGGGA
1 TGATTTTGTGTAAGACCATGTCTGGGA
27698216 TAGCGGCATT
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
41 1 0.02
42 20 0.31
43 10 0.16
44 30 0.47
45 3 0.05
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:27698224 original size:42 final size:43
Alignment explanation
Indices: 27698110--27698248 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
27698100 ATGTGATTTT
* * * *
27698110 GTGTAAGACCACGTCTGGGAC-GTTGGCATCGATTTGA-GATTTAT
1 GTGTAAGACCATGTCTGGGACAG-CGGCATCGATAT-ATGA-TTAC
** *
27698154 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTTC
1 GTGTAAGACCATGTCTGGGACAGCGGCATCGATATATGATTAC
* * *
27698196 GTGTAAGACCATGTCTGGGATAGCGGCATTGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGCGGCATCGATATATGATTAC
*
27698239 ATGTAAGACC
1 GTGTAAGACC
27698249 TCATCTGGGA
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 30 0.38
43 22 0.28
44 28 0.35
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGCGGCATCGATATATGATTAC
Found at i:27698269 original size:43 final size:43
Alignment explanation
Indices: 27698110--27698267 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
27698100 ATGTGATTTT
* * *
27698110 GTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTAT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATATT-TGA-TTAC
* * *
27698154 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTTC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTAC
* * *
27698196 GTGTAAGACCATGTCTGGGATAG-CGGCATTGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTAC
* *
27698239 ATGTAAGACC-TCATCTGGGACGTTGGCAT
1 GTGTAAGACCAT-GTCTGGGACGTTGGCAT
27698268 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
42 30 0.32
43 33 0.35
44 30 0.32
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:27701823 original size:17 final size:17
Alignment explanation
Indices: 27701801--27701834 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27701791 CAAGTGTTGG
27701801 AAATGTTCGATCCGATC
1 AAATGTTCGATCCGATC
27701818 AAATGTTCGATCCGATC
1 AAATGTTCGATCCGATC
27701835 GACCTGAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (17 bp):
AAATGTTCGATCCGATC
Found at i:27720179 original size:17 final size:18
Alignment explanation
Indices: 27720152--27720185 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27720142 TTTATTGGCT
27720152 TTTTCTTTTTGTATTTTG
1 TTTTCTTTTTGTATTTTG
*
27720170 TTTT-TTTTTGTGTTTT
1 TTTTCTTTTTGTATTTT
27720186 TTTAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTGTATTTTG
Found at i:27720196 original size:3 final size:3
Alignment explanation
Indices: 27720190--27720219 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27720180 TGTTTTTTTA
27720190 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27720220 CCTATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:27720322 original size:2 final size:2
Alignment explanation
Indices: 27720315--27720350 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
27720305 TTCTTACGTA
27720315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27720351 GCAATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27720444 original size:2 final size:2
Alignment explanation
Indices: 27720437--27720467 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27720427 CCTAACTTCA
27720437 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 A
27720468 CTTTTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27731469 original size:11 final size:11
Alignment explanation
Indices: 27731434--27731470 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
27731424 TATTTATGAT
27731434 TATGATATGTA
1 TATGATATGTA
**
27731445 TAAAATATGTA
1 TATGATATGTA
27731456 TATGATATGTA
1 TATGATATGTA
27731467 TATG
1 TATG
27731471 TGTGGGGTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (11 bp):
TATGATATGTA
Found at i:27740488 original size:47 final size:47
Alignment explanation
Indices: 27740432--27740525 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
27740422 GCAAATTGAT
*
27740432 TTTAAATTAGGTTCGATTGCTTCCAATTACCTATTTTATTTAATAGA
1 TTTAAATTAGGTTAGATTGCTTCCAATTACCTATTTTATTTAATAGA
*
27740479 TTTAAATTAGGTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
1 TTTAAATTAGGTTAGATTGCTTCCAATTACCTATTTTATTTAATAGA
27740526 GTTAGATTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (47 bp):
TTTAAATTAGGTTAGATTGCTTCCAATTACCTATTTTATTTAATAGA
Found at i:27740531 original size:37 final size:37
Alignment explanation
Indices: 27740489--27740566 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
27740479 TTTAAATTAG
27740489 GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
1 GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
* *
27740526 GTTAGATTGCTTCGAATTACCTGTTTTATTTAATAGT
1 GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
27740563 GTTA
1 GTTA
27740567 AGGTCAGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (37 bp):
GTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
Found at i:27742224 original size:16 final size:18
Alignment explanation
Indices: 27742205--27742244 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
27742195 ATATTCTTAG
27742205 TTATATAT-ATTT-AAAA
1 TTATATATAATTTCAAAA
*
27742221 TTAT-TGTAATTTCAAAA
1 TTATATATAATTTCAAAA
27742238 TTATATA
1 TTATATA
27742245 ACATTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
15 2 0.11
16 8 0.42
17 8 0.42
18 1 0.05
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TTATATATAATTTCAAAA
Found at i:27744836 original size:19 final size:19
Alignment explanation
Indices: 27744812--27744848 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27744802 GTTTTTGGGG
*
27744812 TTTGGGGGGAAGTAAAAGT
1 TTTGGGGGAAAGTAAAAGT
27744831 TTTGGGGGAAAGTAAAAG
1 TTTGGGGGAAAGTAAAAG
27744849 GAAAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (19 bp):
TTTGGGGGAAAGTAAAAGT
Found at i:27744837 original size:18 final size:19
Alignment explanation
Indices: 27744811--27744848 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
27744801 AGTTTTTGGG
27744811 GTTTGGGGGG-AAGTAAAA
1 GTTTGGGGGGAAAGTAAAA
*
27744829 GTTTTGGGGGAAAGTAAAA
1 GTTTGGGGGGAAAGTAAAA
27744848 G
1 G
27744849 GAAAAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.42, T:0.24
Consensus pattern (19 bp):
GTTTGGGGGGAAAGTAAAA
Found at i:27751600 original size:24 final size:24
Alignment explanation
Indices: 27751562--27751616 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
27751552 TAAGACATGA
* * *
27751562 CCGTGTGATAGCTCGTGTCCTAGG
1 CCGTGTGACAACTCGTGTCCCAGG
27751586 CCGTGTGACAACTCGTGTCCCAGG
1 CCGTGTGACAACTCGTGTCCCAGG
27751610 CCGTGTG
1 CCGTGTG
27751617 CACCATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.29, G:0.33, T:0.25
Consensus pattern (24 bp):
CCGTGTGACAACTCGTGTCCCAGG
Found at i:27754396 original size:30 final size:30
Alignment explanation
Indices: 27754360--27754438 Score: 124
Period size: 30 Copynumber: 2.6 Consensus size: 30
27754350 CCCACATGAC
27754360 CGTGTGGCCCACACTGCCCAAATGGCGAGA-
1 CGTGTGGCCCACA-TGCCCAAATGGCGAGAT
27754390 CGTGTGGCCCACATTGCCCAAATGGCGAGAT
1 CGTGTGGCCCACA-TGCCCAAATGGCGAGAT
*
27754421 CGTATGGCCCACATGCCC
1 CGTGTGGCCCACATGCCC
27754439 TACTTGATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 34 0.74
31 12 0.26
ACGTcount: A:0.22, C:0.34, G:0.28, T:0.16
Consensus pattern (30 bp):
CGTGTGGCCCACATGCCCAAATGGCGAGAT
Found at i:27757002 original size:34 final size:34
Alignment explanation
Indices: 27756959--27757071 Score: 145
Period size: 34 Copynumber: 3.3 Consensus size: 34
27756949 AATGCTATAT
* **
27756959 GACATGCTTATAACAGATCAATACGGTAGCAAGG
1 GACATGCTTATAACAAATCAATACGGTAGCAAAA
* * ** *
27756993 GACATGCTTATAACATATTAATACTATAGCAATA
1 GACATGCTTATAACAAATCAATACGGTAGCAAAA
*
27757027 GACATGCTTATATCAAATCAATACGGTAGCAAAA
1 GACATGCTTATAACAAATCAATACGGTAGCAAAA
27757061 GACATGCTTAT
1 GACATGCTTAT
27757072 CATGTATTCG
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (34 bp):
GACATGCTTATAACAAATCAATACGGTAGCAAAA
Found at i:27766082 original size:30 final size:30
Alignment explanation
Indices: 27766046--27766106 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
27766036 TTTTTTTGAA
27766046 TTTTGAGTTAAACAAATCGAGTTATTCGAG
1 TTTTGAGTTAAACAAATCGAGTTATTCGAG
27766076 TTTTGAGTTAAACAAATCGAGTTATTCGAG
1 TTTTGAGTTAAACAAATCGAGTTATTCGAG
27766106 T
1 T
27766107 CAACTCGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (30 bp):
TTTTGAGTTAAACAAATCGAGTTATTCGAG
Found at i:27767060 original size:249 final size:249
Alignment explanation
Indices: 27766599--27767111 Score: 848
Period size: 249 Copynumber: 2.1 Consensus size: 249
27766589 TGTGTAAGCA
* * * * *
27766599 CTTTTGCTATAGTAGGTCCTGAAAAAATAATTTTGAGTTTACGTTTCTGAGCACATAGTATAAAA
1 CTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGACTTGACGTTTCTAAGCAAATAGTATAAAA
* * * * *
27766664 TCGCTTCTAGCAGGATGCTGTGTGATAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGGTTTTG
66 TCGCTTCTAGCAGGATGCTATGTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTG
*
27766729 CTACAGTAGGTCCTGGAAGAAATAACTTCGACTTGATGTTTCTGAGCAAATAGTATAAAATCGCT
131 CTACAGTAGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCT
*
27766794 TCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCG
196 TCTAGCAGGAAGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCG
*
27766848 CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGACTTGACGTTTCTAAGCAAATAGTATAAA
1 CTTTTGCTACAGTAGGTCCT-GAAAAAATAATTTTGACTTGACGTTTCTAAGCAAATAGTATAAA
* *
27766913 ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCTTCGTGGACGCGCTTTT
65 ATCGCTTCTAGCAGGATGCTATGTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTT
* *
27766978 GCTACAGTAGGTCCTGGAA-AAATAATTTCGACTTGACGTTTTTGAGCAAATAGTATAAAATCGC
130 GCTACAGTAGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGC
*
27767042 TTCTAGCAGGAAGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCG
195 TTCTAGCAGGAAGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCG
27767097 CTTTTGCTACAGTAG
1 CTTTTGCTACAGTAG
27767112 CATGTTTGGG
Statistics
Matches: 245, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
249 129 0.53
250 116 0.47
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (249 bp):
CTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGACTTGACGTTTCTAAGCAAATAGTATAAAA
TCGCTTCTAGCAGGATGCTATGTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTG
CTACAGTAGGTCCTGGAAGAAATAACTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCT
TCTAGCAGGAAGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCG
Found at i:27767077 original size:124 final size:125
Alignment explanation
Indices: 27766599--27767111 Score: 832
Period size: 125 Copynumber: 4.1 Consensus size: 125
27766589 TGTGTAAGCA
* * * * * *
27766599 CTTTTGCTATAGTAGGTCCT-GAAAAAATAATTTTGAGTTTACGTTTCTGAGCACATAGTATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAA
* * * *
27766663 ATCGCTTCTAGCAGGATGCTGTGTGATAAGAATTTGTGAAATCGCGCCCTCGTGGATGCG
66 ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCG
* * *
27766723 GTTTTGCTACAGTAGGTCCTGGAAGAAATAACTTCGACTTGATGTTTCTGAGCAAATAGTATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAA
*
27766788 ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCG
66 ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCG
* *
27766848 CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGACTTGACGTTTCTAAGCAAATAGTATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAA
* *
27766913 ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCTTCGTGGACGCG
66 ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCG
*
27766973 CTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGACTTGACGTTTTTGAGCAAATAGTATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAA
*
27767037 ATCGCTTCTAGCAGGAAGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCG
66 ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCG
27767097 CTTTTGCTACAGTAG
1 CTTTTGCTACAGTAG
27767112 CATGTTTGGG
Statistics
Matches: 360, Mismatches: 28, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 127 0.35
125 233 0.65
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
CTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAA
ATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCG
Found at i:27770316 original size:114 final size:114
Alignment explanation
Indices: 27770115--27770385 Score: 515
Period size: 114 Copynumber: 2.4 Consensus size: 114
27770105 AAATTATATT
*
27770115 TGTAAAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
1 TGTAAAATTATTAACTGAT-AATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
*
27770180 TAATTGTTAGTACCAGTCAAAACATTTTTCCAAATTTAACATTATGTGAA
65 TAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
27770230 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
27770295 AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
66 AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
27770344 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
27770386 ACCTTAAGGT
Statistics
Matches: 154, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
114 136 0.88
115 18 0.12
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (114 bp):
TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
AATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
Found at i:27770422 original size:21 final size:21
Alignment explanation
Indices: 27770396--27770693 Score: 248
Period size: 21 Copynumber: 13.8 Consensus size: 21
27770386 ACCTTAAGGT
27770396 TTTTAAGTTAAGGGTTTAGGG
1 TTTTAAGTTAAGGGTTTAGGG
* *
27770417 TTTTAAGTTAATGTTTTAGGG
1 TTTTAAGTTAAGGGTTTAGGG
27770438 TTTTAAGTTAAGGG-TTAGGG
1 TTTTAAGTTAAGGGTTTAGGG
*
27770458 TTATTAAGTTAA-TGTTTAGGG
1 TT-TTAAGTTAAGGGTTTAGGG
*
27770479 TCTTTAATTTAAGGG-TTAGGG
1 T-TTTAAGTTAAGGGTTTAGGG
*
27770500 TTTTTAAGTTAAGTG-TTAGGG
1 -TTTTAAGTTAAGGGTTTAGGG
*
27770521 TTTTTAATTTAA-GGTTTAGGG
1 -TTTTAAGTTAAGGGTTTAGGG
* * *
27770542 TTTTTAATTTAATGGTTAGGGTTAGGAT
1 -TTTTAAGTTAA--G---GGTTTAGG-G
* * * *
27770570 TTTTAACTTTAAGGTTTATGGT
1 TTTTAAGTTAAGGGTTTA-GGG
*
27770592 TTTTAAGTTAAGGGTTTAGGA
1 TTTTAAGTTAAGGGTTTAGGG
*
27770613 TTATTAATTTAAGGG-TTAGGG
1 TT-TTAAGTTAAGGGTTTAGGG
* *
27770634 TTATTAAGTTAAGGATTAAGGG
1 TT-TTAAGTTAAGGGTTTAGGG
*
27770656 TTTTAAGTTAAGGGTTTTGGG
1 TTTTAAGTTAAGGGTTTAGGG
*
27770677 TTTTTAATTTAAGGGTT
1 -TTTTAAGTTAAGGGTT
27770694 ATGTTTAGGG
Statistics
Matches: 230, Mismatches: 30, Indels: 33
0.78 0.10 0.11
Matches are distributed among these distances:
20 10 0.04
21 145 0.63
22 57 0.25
23 2 0.01
27 16 0.07
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.47
Consensus pattern (21 bp):
TTTTAAGTTAAGGGTTTAGGG
Found at i:27770505 original size:63 final size:63
Alignment explanation
Indices: 27770393--27770694 Score: 324
Period size: 63 Copynumber: 4.7 Consensus size: 63
27770383 AAAACCTTAA
* **
27770393 GGTTTTTAAGTTAAGGGTTTAGGGTTTTAAGTTAATGTTTTAGGG-TTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTAATTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * *
27770456 GGTTATTAAGTTAA-TGTTTAGGGTCTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGTGTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGT-TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * *
27770519 GGTTTTTAATTTAA-GGTTTAGGGTTTTTAATTTAATGGTTAGGGTTAGGATTTTTAACTTTAAG
1 GGTTTTTAAGTTAAGGGTTTAGGG-TTTTAATTT-A-----AGGGTTAGGGTTTTTAA-GTTAAG
* *
27770583 GTTTAT
58 GGTTAG
* * *
27770589 GGTTTTTAAGTTAAGGGTTTAGGATTATTAATTTAAGGGTTAGGGTTATTAAGTTAAGGATTAAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTT-TTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTT-AG
*
27770654 GG-TTTTAAGTTAAGGGTTTTGGGTTTTTAATTTAAGGGTTA
1 GGTTTTTAAGTTAAGGGTTTAGGG-TTTTAATTTAAGGGTTA
27770695 TGTTTAGGGT
Statistics
Matches: 202, Mismatches: 23, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
62 16 0.08
63 67 0.33
64 44 0.22
65 20 0.10
69 16 0.08
70 24 0.12
71 15 0.07
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (63 bp):
GGTTTTTAAGTTAAGGGTTTAGGGTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
Found at i:27770593 original size:49 final size:48
Alignment explanation
Indices: 27770514--27770657 Score: 163
Period size: 49 Copynumber: 3.1 Consensus size: 48
27770504 TAAGTTAAGT
* * *
27770514 GTTAGGGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAATGGTTAGG
1 GTTAGGATTTTTAATTTAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGG
*
27770562 GTTAGGATTTTTAACTTTAAGGTTTATGGTTTTTAAGTTAAGGG-T---
1 GTTAGGATTTTTAA-TTTAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGG
* * * *
27770607 -TTAGGATTATTAATTTAAGGGTTAGGGTTATTAAGTTAAGGATTAAGG
1 GTTAGGATTTTTAATTTAAGGTTTAGGGTTTTTAAGTTAAGGGTT-AGG
27770655 GTT
1 GTT
27770658 TTAAGTTAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
43 25 0.31
44 13 0.16
48 14 0.17
49 28 0.35
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (48 bp):
GTTAGGATTTTTAATTTAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGG
Found at i:27770771 original size:17 final size:18
Alignment explanation
Indices: 27770735--27770773 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
27770725 GTTTGTCAAT
*
27770735 TAAATTATATATTTAATTA
1 TAAATTATAAATTT-ATTA
27770754 TAAATTATAAATTT-TTA
1 TAAATTATAAATTTATTA
27770771 TAA
1 TAA
27770774 GTTAAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTATAAATTTATTA
Found at i:27771964 original size:7 final size:7
Alignment explanation
Indices: 27771954--27771979 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27771944 TTATATACAT
27771954 AATACTA
1 AATACTA
27771961 AATACTA
1 AATACTA
27771968 AATACTA
1 AATACTA
27771975 AATAC
1 AATAC
27771980 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:27772173 original size:20 final size:20
Alignment explanation
Indices: 27772148--27772185 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27772138 TTTATTTTTA
27772148 AAAATCTAA-ATAATAATTGT
1 AAAATCTAATATAA-AATTGT
27772168 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
27772186 TACCTCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:27773099 original size:12 final size:11
Alignment explanation
Indices: 27773079--27773120 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
27773069 ATTTTTACGG
*
27773079 TTTAAAAAAAT
1 TTTAAAAAAAA
27773090 TTTAAAAAAAA
1 TTTAAAAAAAA
**
27773101 TTT-AAAATTA
1 TTTAAAAAAAA
27773111 TTTAAAAAAA
1 TTTAAAAAAA
27773121 GGGATTTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTTAAAAAAAA
Found at i:27773211 original size:12 final size:12
Alignment explanation
Indices: 27773175--27773228 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
27773165 TTAAATATGG
27773175 ATTTGAG-GGAA
1 ATTTGAGAGGAA
27773186 ATTTG-GAAGG-A
1 ATTTGAG-AGGAA
27773197 ATTTGAGAGGAA
1 ATTTGAGAGGAA
27773209 ATTGTGA-A-GAA
1 ATT-TGAGAGGAA
27773220 ATTTGAGAG
1 ATTTGAGAG
27773229 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
10 4 0.11
11 21 0.58
12 8 0.22
13 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:27773211 original size:23 final size:23
Alignment explanation
Indices: 27773175--27773228 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
27773165 TTAAATATGG
*
27773175 ATTTGAG-GGAAATT-TGGAAGGA
1 ATTTGAGAGGAAATTGT-GAAGAA
27773197 ATTTGAGAGGAAATTGTGAAGAA
1 ATTTGAGAGGAAATTGTGAAGAA
27773220 ATTTGAGAG
1 ATTTGAGAG
27773229 AGGATTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 7 0.24
23 21 0.72
24 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (23 bp):
ATTTGAGAGGAAATTGTGAAGAA
Found at i:27782546 original size:19 final size:20
Alignment explanation
Indices: 27782504--27782543 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
27782494 ACTCATCGTA
*
27782504 TTCAAATAATTATTAGAAGT
1 TTCAAATAATTATCAGAAGT
27782524 TTCAAA-AATT-TCAGAAGT
1 TTCAAATAATTATCAGAAGT
27782542 TT
1 TT
27782544 TCAGTCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (20 bp):
TTCAAATAATTATCAGAAGT
Found at i:27783169 original size:25 final size:25
Alignment explanation
Indices: 27783140--27783189 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27783130 AATTTAAGTA
27783140 AGGCAAATTAAAGTAAAAATAGTTT
1 AGGCAAATTAAAGTAAAAATAGTTT
27783165 AGGCAAATTAAAGTAAAAATAGTTT
1 AGGCAAATTAAAGTAAAAATAGTTT
27783190 TATGGCATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.16, T:0.28
Consensus pattern (25 bp):
AGGCAAATTAAAGTAAAAATAGTTT
Found at i:27792087 original size:13 final size:13
Alignment explanation
Indices: 27792069--27792093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27792059 GAGGTTTGAT
27792069 TTATTTTGAACTC
1 TTATTTTGAACTC
27792082 TTATTTTGAACT
1 TTATTTTGAACT
27792094 ATTGTTAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (13 bp):
TTATTTTGAACTC
Found at i:27796134 original size:25 final size:25
Alignment explanation
Indices: 27796106--27796188 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
27796096 TAGGATCATC
**
27796106 ATGACATTTCATCGTCAAAATCAAA
1 ATGACATTTCATTTTCAAAATCAAA
* * *
27796131 ATGACATGTCATTTTTAGAATCAAA
1 ATGACATTTCATTTTCAAAATCAAA
*
27796156 ATGAC-TTGTCATTTTCAAGAT-AAA
1 ATGACATT-TCATTTTCAAAATCAAA
27796180 ATGACATTT
1 ATGACATTT
27796189 GATTATAAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 10 0.21
25 37 0.79
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (25 bp):
ATGACATTTCATTTTCAAAATCAAA
Found at i:27796217 original size:49 final size:49
Alignment explanation
Indices: 27796082--27796236 Score: 125
Period size: 49 Copynumber: 3.1 Consensus size: 49
27796072 CATAATAAGG
** * *
27796082 ATGACATTTGATTATAGGATCATCATGACATTTCATCGTCAAAATCAAA
1 ATGACATTTGATTATAGGATCAAAATGACCTTTCATTGTCAAAATCAAA
* * * * * *
27796131 ATGACATGTCATTTTTAGAATCAAAATGA-CTTGTCATTTTCAAGAT-AAA
1 ATGACATTTGA-TTATAGGATCAAAATGACCTT-TCATTGTCAAAATCAAA
* * ** *
27796180 ATGACATTTGATTATAAGGATCAGAATAACCTTTCATTACCAAAATCAGA
1 ATGACATTTGATTAT-AGGATCAAAATGACCTTTCATTGTCAAAATCAAA
*
27796230 ATAACAT
1 ATGACAT
27796237 ATGTTTATTT
Statistics
Matches: 80, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
48 3 0.04
49 43 0.54
50 34 0.43
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (49 bp):
ATGACATTTGATTATAGGATCAAAATGACCTTTCATTGTCAAAATCAAA
Found at i:27797931 original size:23 final size:23
Alignment explanation
Indices: 27797905--27797950 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27797895 TCTACAGATG
*
27797905 AATCGCACTGAAGTACCAGAATA
1 AATCACACTGAAGTACCAGAATA
* * *
27797928 AATCATATTGAAGTGCCAGAATA
1 AATCACACTGAAGTACCAGAATA
27797951 CTCCTACTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (23 bp):
AATCACACTGAAGTACCAGAATA
Found at i:27802471 original size:18 final size:16
Alignment explanation
Indices: 27802436--27802487 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
27802426 TTAAAATATA
*
27802436 TATATTTTTACTAAAT
1 TATATTTTTAATAAAT
27802452 TATATTTTTAAT-AAT
1 TATATTTTTAATAAAT
*
27802467 TAT-TATTT--TAAAT
1 TATATTTTTAATAAAT
27802480 TATATTTT
1 TATATTTT
27802488 ATAGTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 6 0.19
14 7 0.23
15 6 0.19
16 11 0.35
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATTTTTAATAAAT
Found at i:27802496 original size:28 final size:29
Alignment explanation
Indices: 27802447--27802502 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
27802437 ATATTTTTAC
27802447 TAAATTATATTTTTAATAATTAT-TATTT
1 TAAATTATATTTTTAATAATTATATATTT
*
27802475 TAAATTATATTTTATAGT-ATTATATATT
1 TAAATTATATTTT-TAATAATTATATATT
27802503 ATGATTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TAAATTATATTTTTAATAATTATATATTT
Found at i:27802517 original size:121 final size:120
Alignment explanation
Indices: 27802347--27802961 Score: 983
Period size: 121 Copynumber: 5.1 Consensus size: 120
27802337 TTCAAATTTT
27802347 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TAAGAATATTTA
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCTTAAGAATATTTA
* * *
27802411 ATATTAAGAGTTTTATTAAAATATATATATTTTTACTAAATTATATTTTTAATAATT
66 ATATTAAGAATTTTATT-AAAT-TATATATTTTTATTAAATTATATTTTTAATAATA
27802468 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--TTAAGAATATT
*
27802533 TAATATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATA
64 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATA
*
27802590 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTACATTCATTTAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--TTAAGAATATT
27802655 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATA
64 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATA
* * *
27802710 ATTATTCTAAATTATATTTTATACTATTATATATTATGATTTTAGTAAATTCATTTAAGAAAATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--TTAAGAATATT
27802775 TAAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATA
64 T-AATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATA
* *
27802831 ATTATTTTAAATGATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATT
1 ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-T-TAAGAATATT
27802896 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATA
64 TAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATA
*
27802951 ATTATGTTAAA
1 ATTATTTTAAA
27802962 ATATGATTAA
Statistics
Matches: 474, Mismatches: 15, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
120 137 0.29
121 164 0.35
122 141 0.30
123 4 0.01
124 28 0.06
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCTTAAGAATATTTA
ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATA
Found at i:27802566 original size:18 final size:17
Alignment explanation
Indices: 27802545--27802582 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
27802535 ATATTAAGAA
*
27802545 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
27802563 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
27802580 TTT
1 TTT
27802583 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:27802800 original size:17 final size:18
Alignment explanation
Indices: 27802780--27802820 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27802770 AAATTTAAAT
27802780 ATTA-AGAATTTTATTAA
1 ATTATAGAATTTTATTAA
* *
27802797 ATTATATATTTTTATTAA
1 ATTATAGAATTTTATTAA
27802815 ATTATA
1 ATTATA
27802821 TTTAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTATAGAATTTTATTAA
Found at i:27803143 original size:39 final size:41
Alignment explanation
Indices: 27803087--27803192 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
27803077 TTTCCTTATG
* *
27803087 CTATTACACCTTTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
27803127 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACACCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
27803172 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
27803193 ACGCATCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 8 0.15
40 1 0.02
41 8 0.15
42 1 0.02
43 1 0.02
44 23 0.42
45 4 0.07
46 9 0.16
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.30
Consensus pattern (41 bp):
CTATTACACCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:27803167 original size:44 final size:46
Alignment explanation
Indices: 27803100--27803192 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
27803090 TTACACCTTT
* *
27803100 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
27803144 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
27803190 ATT
1 ATT
27803193 ACGCATCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 4 0.09
46 18 0.40
ACGTcount: A:0.38, C:0.31, G:0.03, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
Found at i:27803220 original size:16 final size:16
Alignment explanation
Indices: 27803174--27803227 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
27803164 AGAATTACCT
27803174 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
27803190 ATTACGCATCTATTCC
1 ATTACACCTCTATTCC
*
27803206 ATTACACCTCAATTCC
1 ATTACACCTCTATTCC
*
27803222 AATACA
1 ATTACA
27803228 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:27806353 original size:51 final size:51
Alignment explanation
Indices: 27806277--27806381 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
27806267 GTAAGGGGGG
27806277 ATTTTGGAATGTAAAGAAAAAATACAGAGACAAAGAAAATAGAAAAAAAAT
1 ATTTTGGAATGTAAAGAAAAAATACAGAGACAAAGAAAATAGAAAAAAAAT
27806328 ATTTTGGAATGTAAAGAAAAAATACAGAGACAAAGAAAATAGAAAAAAAAT
1 ATTTTGGAATGTAAAGAAAAAATACAGAGACAAAGAAAATAGAAAAAAAAT
27806379 ATT
1 ATT
27806382 GATAGGAAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (51 bp):
ATTTTGGAATGTAAAGAAAAAATACAGAGACAAAGAAAATAGAAAAAAAAT
Found at i:27806371 original size:26 final size:26
Alignment explanation
Indices: 27806291--27806375 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
27806281 TGGAATGTAA
27806291 AGAAAAAATACAGAGACAAAGAAAAT
1 AGAAAAAATACAGAGACAAAGAAAAT
**** * * *
27806317 AGAAAAAAAATATTTTG-GAATG-TAA-
1 AG--AAAAAATACAGAGACAAAGAAAAT
27806342 AGAAAAAATACAGAGACAAAGAAAAT
1 AGAAAAAATACAGAGACAAAGAAAAT
27806368 AGAAAAAA
1 AGAAAAAA
27806376 AATATTGATA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
23 9 0.22
24 3 0.08
25 4 0.10
26 12 0.30
27 3 0.08
28 9 0.22
ACGTcount: A:0.67, C:0.05, G:0.15, T:0.13
Consensus pattern (26 bp):
AGAAAAAATACAGAGACAAAGAAAAT
Found at i:27808187 original size:98 final size:98
Alignment explanation
Indices: 27808047--27808241 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
27808037 TAAAAAATAA
* * *
27808047 TAAAGGAAATATTTCGAGTTTGAGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
27808112 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
27808145 TAAATGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
27808210 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
27808242 ATTTTATTGT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:27810913 original size:19 final size:20
Alignment explanation
Indices: 27810868--27810913 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
27810858 AATTTATAAA
27810868 AAAAAATCATAATAAATATT
1 AAAAAATCATAATAAATATT
*
27810888 ATAAAAA-CA-AATAAATTTGT
1 A-AAAAATCATAATAAATAT-T
27810908 AAAAAA
1 AAAAAA
27810914 ACATGAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 13 0.57
20 5 0.22
21 5 0.22
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATCATAATAAATATT
Found at i:27810915 original size:20 final size:20
Alignment explanation
Indices: 27810867--27810917 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
27810857 AAATTTATAA
27810867 AAAAAAATCATAATAAATATT
1 AAAAAAA-CATAATAAATATT
* *
27810888 ATAAAAACA-AATAAATTTGT
1 AAAAAAACATAATAAATAT-T
27810908 AAAAAAACAT
1 AAAAAAACAT
27810918 GAGCAAGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 8 0.32
20 11 0.44
21 6 0.24
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAAAACATAATAAATATT
Found at i:27811135 original size:9 final size:9
Alignment explanation
Indices: 27811121--27811197 Score: 55
Period size: 10 Copynumber: 7.9 Consensus size: 9
27811111 ATTCCATATG
*
27811121 TTTTATTAT
1 TTTTATAAT
27811130 TTTTATAAT
1 TTTTATAAT
*
27811139 TTATTAGAACT
1 TT-TTATAA-T
27811150 TTTTATAAGT
1 TTTTATAA-T
*
27811160 TTTTATGACT
1 TTTTAT-AAT
*
27811170 TATTTATAAG
1 T-TTTATAAT
27811180 TTTTATAAGT
1 TTTTATAA-T
*
27811190 TTATATAA
1 TTTTATAA
27811198 ATTCCATGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
9 17 0.31
10 28 0.52
11 9 0.17
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.58
Consensus pattern (9 bp):
TTTTATAAT
Found at i:27811165 original size:30 final size:30
Alignment explanation
Indices: 27811120--27811197 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
27811110 TATTCCATAT
* *
27811120 GTTTTATTA-TTTTTATAATTTA-TTAGAA
1 GTTTTATAAGTTTTTATAACTTATTTAGAA
* * *
27811148 CTTTTTATAAGTTTTTATGACTTATTTATAA
1 -GTTTTATAAGTTTTTATAACTTATTTAGAA
*
27811179 GTTTTATAAGTTTATATAA
1 GTTTTATAAGTTTTTATAA
27811198 ATTCCATGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 7 0.18
30 27 0.69
31 5 0.13
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
GTTTTATAAGTTTTTATAACTTATTTAGAA
Found at i:27811185 original size:20 final size:20
Alignment explanation
Indices: 27811129--27811183 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
27811119 TGTTTTATTA
27811129 TTTTTATAA-TTTATTA-GAAC
1 TTTTTATAAGTTT-TTATG-AC
27811149 TTTTTATAAGTTTTTATGAC
1 TTTTTATAAGTTTTTATGAC
27811169 TTATTTATAAGTTTT
1 TT-TTTATAAGTTTT
27811184 ATAAGTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTATAAGTTTTTATGAC
Found at i:27811193 original size:21 final size:21
Alignment explanation
Indices: 27811131--27811188 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
27811121 TTTTATTATT
27811131 TTTATAA-TTTATT-AGAACTT-
1 TTTATAAGTTT-TTAAG-ACTTA
*
27811151 TTTATAAGTTTTTATGACTTA
1 TTTATAAGTTTTTAAGACTTA
27811172 TTTATAAGTTTTATAAG
1 TTTATAAGTTTT-TAAG
27811189 TTTATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 13 0.41
21 16 0.50
22 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTATAAGTTTTTAAGACTTA
Found at i:27813503 original size:43 final size:43
Alignment explanation
Indices: 27813450--27813735 Score: 296
Period size: 43 Copynumber: 6.7 Consensus size: 43
27813440 GTTTTTAGAA
27813450 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCTC
* *
27813493 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTC-C
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCTC
* * * *
27813535 AACAAACGCCGCTAAAGACCAAGAGCATTAGCGGCACTTTTCTC
1 -ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCTC
* * *
27813579 ACAAACGCCGCTAAAG-ACAAAGACCTTTAGCGGCACTTTCCCC
1 ACAAACGCCGCTAAAGAAC-AAGACCTTTAGCGGCGCTTTTCTC
* * * *
27813622 ACAAACGCCGCTAAAGACCATA-ACCTTTAGCGACGTTTTTTGTC
1 ACAAACGCCGCTAAAGAACA-AGACCTTTAGCGGCG-CTTTTCTC
* * * * * *
27813666 ACAAATGCCGCTATAGATCAA-ACCTTTAGCAGCGCTTCTCGC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCTC
* *
27813708 AAAAACGCCACTAAA-AACATA-ACCTTTA
1 ACAAACGCCGCTAAAGAACA-AGACCTTTA
27813736 AAAANNNNNN
Statistics
Matches: 204, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
41 3 0.01
42 25 0.12
43 152 0.75
44 24 0.12
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCTC
Found at i:27813558 original size:86 final size:85
Alignment explanation
Indices: 27813430--27813722 Score: 329
Period size: 86 Copynumber: 3.4 Consensus size: 85
27813420 GCGTCGCTAA
* ** *
27813430 CTTTAGCGGCGTTTTTAGAAACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCTCAC
1 CTTTAGCGGCGCTTTT-CCAACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
27813495 AAACGCCGCTAAAGACCATGAC
65 AAACGCCGCTAAAGACCA-GAC
* * *
27813517 CTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCAAGAGCATTAGCGGCACTTTTCTCACA
1 CTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACA
*
27813582 AACGCCGCTAAAGACAAAGAC
66 AACGCCGCTAAAGAC-CAGAC
* * * * * *
27813603 CTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAGACCATA-ACCTTTAGCGACGTTTTTTGTCA
1 CTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCA-AGACCTTTAGCGGCG-CTTTTCTCA
* * * *
27813667 CAAATGCCGCTATAGATCAAAC
64 CAAACGCCGCTAAAGACCAGAC
* * *
27813689 CTTTAGCAGCGCTTCTCGCAA-AAACGCCACTAAA
1 CTTTAGCGGCGCTTTTC-CAACAAACGCCGCTAAA
27813723 AACATAACCT
Statistics
Matches: 174, Mismatches: 28, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
86 134 0.77
87 40 0.23
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACA
AACGCCGCTAAAGACCAGAC
Found at i:27813695 original size:129 final size:129
Alignment explanation
Indices: 27813450--27813735 Score: 337
Period size: 129 Copynumber: 2.2 Consensus size: 129
27813440 GTTTTTAGAA
* * *
27813450 ACAAACGCCGCTAAAGA-ACAAGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAT
1 ACAAACGCCGCTAAAGACA-AAGACCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAGACCAT
* * * * * *
27813514 GACCTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCAAGAGCATTAGCGGCACTTTTCTC
65 AACCTTTAGCGACGCTTTTCCAACAAACGCCGCTAAAGACCAAGACCATTAGCAGCACTTCTCGC
27813579 ACAAACGCCGCTAAAGACAAAGACCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAGACCATA
1 ACAAACGCCGCTAAAGACAAAGACCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAGACCATA
* * * * * * *
27813644 ACCTTTAGCGACGTTTTTTGTC-ACAAATGCCGCTATAGATCAA-ACCTTTAGCAGCGCTTCTCG
66 ACCTTTAGCGACG-CTTTT-CCAACAAACGCCGCTAAAGACCAAGACCATTAGCAGCACTTCTCG
27813707 C
129 C
* * * *
27813708 AAAAACGCCACTAAAAACATA-ACCTTTA
1 ACAAACGCCGCTAAAGACAAAGACCTTTA
27813736 AAAANNNNNN
Statistics
Matches: 134, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
128 7 0.05
129 103 0.77
130 23 0.17
131 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (129 bp):
ACAAACGCCGCTAAAGACAAAGACCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAGACCATA
ACCTTTAGCGACGCTTTTCCAACAAACGCCGCTAAAGACCAAGACCATTAGCAGCACTTCTCGC
Found at i:27814152 original size:43 final size:43
Alignment explanation
Indices: 27814086--27814176 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
27814076 ACATATGCAA
* *
27814086 GGTAATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTAT-TTAATCAAGGAAATCTT
* *
27814129 GGTAATAAAAGATATAATACATTTATTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
27814172 -GTAAT
1 GGTAAT
27814177 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 37 0.86
44 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
Found at i:27815221 original size:25 final size:26
Alignment explanation
Indices: 27815193--27815247 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
27815183 CCAATAGTTG
27815193 ATAAAACCAATA-ATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
* *
27815218 AT-AACCCCATACATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
27815243 ATAAA
1 ATAAA
27815248 TCAATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 7 0.27
25 17 0.65
26 2 0.08
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (26 bp):
ATAAAACCAATACATATGATCAAATT
Found at i:27818071 original size:145 final size:146
Alignment explanation
Indices: 27817801--27818128 Score: 455
Period size: 145 Copynumber: 2.3 Consensus size: 146
27817791 TTTAAAAGTA
* * * * *
27817801 ATTTTTTGTGGCGTTTTATATGAAAATGCCGCTATTGCTTATCTATTGCGGCGTTTTTTATAAAA
1 ATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGATTAACTATTGCGGCGTTTTTTATAAAA
* * * * *
27817866 ATGCCGCAAAAAATTATTTTATTTGGAATAAAACGACGCTGTTTGTTATATAAAATGGCGCTA-T
66 ACGCCGCAAAAAATTATTTTATTTAGAATAAAACGACACTGTTTGCTATATAAAAGGGCGCTATT
27817930 TTTTTAAAATAAAATT
131 TTTTTAAAATAAAATT
* *
27817946 ATTTTTTGTGGCGTTTTTTAAAAAAACGCCGCTATTGATTAACTTTTGCGGCG-TTTTTA-AAAA
1 ATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGATTAACTATTGCGGCGTTTTTTATAAAA
* * * *
27818009 ACGCCGTAAAAAATTATTTTATTTAGAATAAAACGACACTATTTTGCTATGCTAAGAGGGCGCTA
66 ACGCCGCAAAAAATTATTTTATTTAGAATAAAACGACACT-GTTTGCTAT-ATAAAAGGGCGCTA
* *
27818074 TTTTTTTTAAGTAAAATT
129 TTTTTTTAAAATAAAATT
27818092 ATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTG
1 ATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTG
27818129 CTTATCTGCT
Statistics
Matches: 161, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
143 40 0.25
144 13 0.08
145 57 0.35
146 51 0.32
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (146 bp):
ATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGATTAACTATTGCGGCGTTTTTTATAAAA
ACGCCGCAAAAAATTATTTTATTTAGAATAAAACGACACTGTTTGCTATATAAAAGGGCGCTATT
TTTTTAAAATAAAATT
Found at i:27819102 original size:33 final size:33
Alignment explanation
Indices: 27819060--27819122 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
27819050 AATCTAAATT
27819060 CTAAACCCTAACCCGACCCAGAATCCCTAATCC
1 CTAAACCCTAACCCGACCCAGAATCCCTAATCC
*
27819093 CTAAACCCTAACTCGACCCAGAATCCCTAA
1 CTAAACCCTAACCCGACCCAGAATCCCTAA
27819123 CCNNNNNNNN
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.43, G:0.06, T:0.16
Consensus pattern (33 bp):
CTAAACCCTAACCCGACCCAGAATCCCTAATCC
Found at i:27819299 original size:15 final size:15
Alignment explanation
Indices: 27819279--27819307 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27819269 AACCTCTAAC
27819279 CCCTAAATCCATAAA
1 CCCTAAATCCATAAA
27819294 CCCTAAATCCATAA
1 CCCTAAATCCATAA
27819308 CTGATCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCCATAAA
Found at i:27820153 original size:41 final size:41
Alignment explanation
Indices: 27820084--27820249 Score: 233
Period size: 41 Copynumber: 4.0 Consensus size: 41
27820074 GGTTTAAGAT
* * * *
27820084 CCGAGCATCAGCGGCACTTCTTAAAAAACGCCGCTAAAGGC
1 CCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGC
* *
27820125 CCGAGCATTAGCGGTGCTTATTCGAAAACGCCGCTAAAGGC
1 CCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGC
* *
27820166 CCGAGCATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGC
1 CCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGC
* * *
27820207 CAGAGCATTAGTGGCGCTTCTTCAAAAACGCCGCTAAAGGC
1 CCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGC
27820248 CC
1 CC
27820250 CAAAAACTCA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 110 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (41 bp):
CCGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGC
Found at i:27820409 original size:40 final size:40
Alignment explanation
Indices: 27820285--27820420 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
27820275 GGGCTTAGGC
* *
27820285 TTTTT-GCGGCGCTTTTCAAAAAACGCCGCTAATGCT-TA
1 TTTTTAGCGGCGCTTTTTAAAAAGCGCCGCTAATGCTCTA
*
27820323 TTTTTAGCGGCG-TTTTCTAAAAAGCACCGCTAATGCTCTA
1 TTTTTAGCGGCGCTTTT-TAAAAAGCGCCGCTAATGCTCTA
** *
27820363 CCTTTAGCGGCG-TTTTTATAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGCTTTTTA-AAAAGCGCCGCTAATGCTCTA
*
27820403 TTTTTAGTGGCGCTTTTT
1 TTTTTAGCGGCGCTTTTT
27820421 GTCCAAACGC
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
38 9 0.11
39 25 0.30
40 44 0.53
41 5 0.06
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGCTTTTTAAAAAGCGCCGCTAATGCTCTA
Found at i:27820442 original size:12 final size:12
Alignment explanation
Indices: 27820425--27820450 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27820415 CTTTTTGTCC
27820425 AAACGCCGCTAA
1 AAACGCCGCTAA
27820437 AAACGCCGCTAA
1 AAACGCCGCTAA
27820449 AA
1 AA
27820451 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:27827874 original size:25 final size:25
Alignment explanation
Indices: 27827834--27827881 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
27827824 CTTAGTTTCG
*
27827834 TTTTGTTATTTTTTTTTCTTTTAGC
1 TTTTGTTATTTTTTTTTCATTTAGC
27827859 TTTT-TTATTTTATTTTTCATTTA
1 TTTTGTTATTTT-TTTTTCATTTA
27827882 AAATATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTTGTTATTTTTTTTTCATTTAGC
Found at i:27828538 original size:25 final size:27
Alignment explanation
Indices: 27828495--27828562 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
27828485 TTGTATTTTC
* * * *
27828495 TATACATATAAATACGCAT-TTTTTTA
1 TATATATATATATAAGCATATTTTTAA
27828521 TATATA-ATATATAAGCATATTTTTAA
1 TATATATATATATAAGCATATTTTTAA
*
27828547 TATATATATTTATAAG
1 TATATATATATATAAG
27828563 TACGCATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 10 0.29
26 17 0.49
27 8 0.23
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (27 bp):
TATATATATATATAAGCATATTTTTAA
Found at i:27828601 original size:6 final size:6
Alignment explanation
Indices: 27828590--27828616 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
27828580 CATACATACT
27828590 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
27828617 CCTAACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:27833628 original size:7 final size:7
Alignment explanation
Indices: 27833603--27833646 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
27833593 AGTGATGTGA
27833603 AAAAATG
1 AAAAATG
27833610 AAAAGATG
1 AAAA-ATG
27833618 -AAAATG
1 AAAAATG
27833624 AAAAATG
1 AAAAATG
27833631 AAAAA-G
1 AAAAATG
27833637 TAAAAATG
1 -AAAAATG
27833645 AA
1 AA
27833647 GAGGCTAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 4 0.12
7 25 0.76
8 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:27833642 original size:21 final size:21
Alignment explanation
Indices: 27833603--27833646 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27833593 AGTGATGTGA
*
27833603 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
27833624 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
27833645 AA
1 AA
27833647 GAGGCTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:27835003 original size:44 final size:44
Alignment explanation
Indices: 27834948--27835980 Score: 1021
Period size: 44 Copynumber: 23.4 Consensus size: 44
27834938 CATACTGGTG
*
27834948 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAT
1 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
*** * *
27834992 ATGAAGTAGATC-AGAGATAGCAGATCTTATCTTCATGTGTTGAC
1 ATGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGAC
27835036 ATGAAGTAGATCGAA-AGTAATGGATCTTGTCTTCATGTATTGAC
1 ATGAAGTAGATCGAAGA-TAATGGATCTTGTCTTCATGTATTGAC
*** *
27835080 ATGAAGTAGATC-AGAGATAGCAGATCTTATCTTCATGTATTGAC
1 ATGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGAC
* * *
27835124 ATGAAGTAGATCGAAGGTAATGAATTTTGTCTTCATGTATTGAC
1 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
*** * * * **
27835168 ATGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCCTATACTGGTG
1 ATGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTA-TTGAC
* * *
27835213 GTGAAGTAGATCGAAGGTAATTGATCTTGTCTTCATGTATTGAC
1 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
* * * *
27835257 ATGAAGTAGATC-AGAGATAGTAGATCTTATCTTCTTGTATTGAC
1 ATGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGAC
27835301 ATGAAGTAGATCGAA-AGTAATGGATCTTGTCTTCATGTATTGAC
1 ATGAAGTAGATCGAAGA-TAATGGATCTTGTCTTCATGTATTGAC
*** *
27835345 ATGAAGTAGATC-AGAGATAGCAGATCTTATCTTCATGTATTGAC
1 ATGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGAC
*
27835389 ATGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTATTGAC
1 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
*** * **
27835433 ATGAAGTAGATC--AGAT-ATAGCAGATCTTGTCTTCCCATACTGGTG
1 ATGAAGTAGATCGAAGATAAT-G--GATCTTGTCTTCATGTA-TTGAC
* * *
27835478 GTGAAGTAGATCGAAGGTAATGAATCTTGTCTTCATGTATTGAC
1 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
*** *
27835522 ATGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGGC
1 ATGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGAC
*
27835566 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGGC
1 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
* ** **
27835610 GTGACA-TAGATC-AGAGATAACAGATCTTGTCTTCATGTATTGGT
1 ATGA-AGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGAC
*
27835654 ATGAAGTAGATCGGAGATAATGGATCTTGTCTTCATGTATTGAC
1 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
*** *
27835698 ATGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGGC
1 ATGAAGTAGATCGA-AGATAATGGATCTTGTCTTCATGTATTGAC
* * * *
27835742 GTGAAGAAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTACTGGC
1 ATGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGAC
* * *
27835786 GTGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTACTGGC
1 ATGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGAC
* * *
27835830 GTGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTACTGGC
1 ATGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGAC
* * *
27835874 GTGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTACTGGC
1 ATGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATGTATTGAC
* *** *
27835918 GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGCATTGAC
1 ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
27835962 ATGAAGTAGATCGAAGATA
1 ATGAAGTAGATCGAAGATA
27835981 CCAGTCTTAT
Statistics
Matches: 840, Mismatches: 115, Indels: 68
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.00
42 4 0.00
43 11 0.01
44 748 0.89
45 68 0.08
46 1 0.00
47 4 0.00
48 2 0.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (44 bp):
ATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGAC
Found at i:27835394 original size:265 final size:264
Alignment explanation
Indices: 27834921--27835973 Score: 1485
Period size: 265 Copynumber: 4.0 Consensus size: 264
27834911 GCTAAAAAGC
* * *
27834921 AGCAGATCTTGTCTTCCCATACTGGTGATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGGTAATTGATCTTGTCTTCATGT
* *
27834986 ATTGATATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTGTTGACATGAAGTAGATCGAA
66 ATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCG-A
27835051 AGTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCAT
130 AGTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCAT
* *
27835116 GTATTGACATGAAGTAGATCGAAGGTAATGAATTTTGTCTTCATGTATTGACATGAAGTAGATCA
195 GTATTGACATGAAGTAGATCGAAGATAATGAATCTTGTCTTCATGTATTGACATGAAGTAGATCA
27835181 GAGAT
260 GAGAT
*
27835186 AGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAGGTAATTGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGGTAATTGATCTTGTCTTCATGT
* *
27835251 ATTGACATGAAGTAGATCAGAGATAGTAGATCTTATCTTCTTGTATTGACATGAAGTAGATCGAA
66 ATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCG-A
27835316 AGTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCAT
130 AGTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCAT
* *
27835381 GTATTGACATGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCA
195 GTATTGACATGAAGTAGATCGAAGATAATGAATCTTGTCTTCATGTATTGACATGAAGTAGATCA
*
27835446 GATAT
260 GAGAT
27835451 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGGTAA-TGAATCTTGTCTTCATG
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGGTAATTG-ATCTTGTCTTCATG
* *
27835515 TATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGA
65 TATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGA
* * * *
27835580 AGATAATGGATCTTGTCTTCATGTATTGGCGTGACA-TAGATCAGAGATAACAGATCTTGTCTTC
130 AG-TAATGGATCTTGTCTTCATGTATTGACATGA-AGTAGATCAGAGATAGCAGATCTTATCTTC
** * *
27835644 ATGTATTGGTATGAAGTAGATCGGAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGAT
193 ATGTATTGACATGAAGTAGATCGAAGATAATGAATCTTGTCTTCATGTATTGACATGAAGTAGAT
27835709 CAGAGAT
258 CAGAGAT
*** * * * * **
27835716 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGAAGATCGAA-GAAAGCAGATCTTGTCTTCATG
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGGTAA-TTGATCTTGTCTTCATG
* * * * * * * *
27835779 TACTGGCGTGAAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCG
65 TATTGACATGAAGTAGATCAG-AGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCG
* * * * * *
27835843 AAG-AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-GAAGAAAGCAGATCTTGTCT
129 AAGTAATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGATAGCAGATCTTATCT
* * * *
27835906 TCATGTACTGGCGTGAAGTAGATCGAAGAT-A-GCAGATCTTGTCTTCATGCATTGACATGAAGT
191 TCATGTATTGACATGAAGTAGATCGAAGATAATG-A-ATCTTGTCTTCATGTATTGACATGAAGT
27835969 AGATC
254 AGATC
27835974 GAAGATACCA
Statistics
Matches: 727, Mismatches: 49, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
262 4 0.01
263 7 0.01
264 197 0.27
265 518 0.71
266 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (264 bp):
AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGGTAATTGATCTTGTCTTCATGT
ATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAA
GTAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTATCTTCATG
TATTGACATGAAGTAGATCGAAGATAATGAATCTTGTCTTCATGTATTGACATGAAGTAGATCAG
AGAT
Found at i:27835978 original size:88 final size:88
Alignment explanation
Indices: 27834921--27835973 Score: 1395
Period size: 88 Copynumber: 11.9 Consensus size: 88
27834911 GCTAAAAAGC
*** * *
27834921 AGCAGATCTTGTCTTCCCATACTGGTGATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
*
27834986 ATTGATATGAAGTAGATCAGAGAT
65 ATTGACATGAAGTAGATCAGAGAT
* * *
27835010 AGCAGATCTTATCTTCATGTGTTGACATGAAGTAGATCGAA-AGTAATGGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGA-TAATGGATCTTGTCTTCATGT
27835074 ATTGACATGAAGTAGATCAGAGAT
65 ATTGACATGAAGTAGATCAGAGAT
* * * * *
27835098 AGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGTAATGAATTTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
27835163 TTGACATGAAGTAGATCAGAGAT
66 TTGACATGAAGTAGATCAGAGAT
* * * ** * *
27835186 AGCAGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAGGTAATTGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
27835251 ATTGACATGAAGTAGATCAGAGAT
65 ATTGACATGAAGTAGATCAGAGAT
* * * *
27835275 AGTAGATCTTATCTTCTTGTATTGACATGAAGTAGATCGAA-AGTAATGGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGA-TAATGGATCTTGTCTTCATGT
27835339 ATTGACATGAAGTAGATCAGAGAT
65 ATTGACATGAAGTAGATCAGAGAT
* * *
27835363 AGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
*
27835428 TTGACATGAAGTAGATCAGATAT
66 TTGACATGAAGTAGATCAGAGAT
*** * ** * *
27835451 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGGTAATGAATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
27835516 ATTGACATGAAGTAGATCAGAGAT
65 ATTGACATGAAGTAGATCAGAGAT
27835540 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
* *
27835605 TTGGCGTGACA-TAGATCAGAGAT
66 TTGACATGA-AGTAGATCAGAGAT
* * *
27835628 AACAGATCTTGTCTTCATGTATTGGTATGAAGTAGATCGGAGATAATGGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
27835693 TTGACATGAAGTAGATCAGAGAT
66 TTGACATGAAGTAGATCAGAGAT
* *
27835716 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGA-AA-GCAGATCTTGTCTTCATG
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATG
* * * *
27835779 TACTGGCGTGAAGTAGATC-GAAGAA
64 TATTGACATGAAGTAGATCAG-AGAT
* *
27835804 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATG
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATG--GATCTTGTCTTCATG
* * * *
27835867 TACTGGCGTGAAGTAGATC-GAAGAA
64 TATTGACATGAAGTAGATCAG-AGAT
* * *** *
27835892 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGCA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
27835957 TTGACATGAAGTAGATC
66 TTGACATGAAGTAGATC
27835974 GAAGATACCA
Statistics
Matches: 872, Mismatches: 79, Indels: 27
0.89 0.08 0.03
Matches are distributed among these distances:
86 1 0.00
87 5 0.01
88 689 0.79
89 177 0.20
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (88 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTA
TTGACATGAAGTAGATCAGAGAT
Found at i:27837860 original size:2 final size:2
Alignment explanation
Indices: 27837849--27837880 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
27837839 ATTCATCTTC
27837849 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27837881 CTTTTTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27838954 original size:20 final size:19
Alignment explanation
Indices: 27838926--27838963 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
27838916 GAAATTTAAA
27838926 ATATTTTTTAAATTTTTAT
1 ATATTTTTTAAATTTTTAT
*
27838945 ATATTATTTTGAATTTTTA
1 ATATT-TTTTAAATTTTTA
27838964 AATTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
ATATTTTTTAAATTTTTAT
Found at i:27840020 original size:20 final size:19
Alignment explanation
Indices: 27839982--27840025 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
27839972 TTATATTTAT
*
27839982 AATATTTACTATAAATAAA
1 AATATTTACAATAAATAAA
*
27840001 AATATTCTACAATTAATAAA
1 AATATT-TACAATAAATAAA
*
27840021 TATAT
1 AATAT
27840026 ATTTGCTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATATTTACAATAAATAAA
Found at i:27840189 original size:2 final size:2
Alignment explanation
Indices: 27840184--27840223 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
27840174 GTCACGTGTG
27840184 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27840224 AATTTTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27846309 original size:29 final size:29
Alignment explanation
Indices: 27846267--27846328 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
27846257 AGACTGTATC
*
27846267 ACACGGCTGTGTGGCAAA-CTGTGTGGGTT
1 ACACGGCTATGTGGCAAATC-GTGTGGGTT
**
27846296 ACACGGCTATGTGGCTGATCGTGTGGGTT
1 ACACGGCTATGTGGCAAATCGTGTGGGTT
27846325 ACAC
1 ACAC
27846329 AGTTGTGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.27
Consensus pattern (29 bp):
ACACGGCTATGTGGCAAATCGTGTGGGTT
Found at i:27846337 original size:29 final size:29
Alignment explanation
Indices: 27846287--27846357 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
27846277 GTGGCAAACT
* *
27846287 GTGTGGGTTACACGGCTATGTGGCT-GATC
1 GTGTGGGTTACACAGCTATGTGG-TAGACC
* *
27846316 GTGTGGGTTACACAGTTGTGTGGTAGACC
1 GTGTGGGTTACACAGCTATGTGGTAGACC
*
27846345 GTGTGGGTCACAC
1 GTGTGGGTTACAC
27846358 GACTGTGTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.15, C:0.17, G:0.38, T:0.30
Consensus pattern (29 bp):
GTGTGGGTTACACAGCTATGTGGTAGACC
Found at i:27846364 original size:29 final size:29
Alignment explanation
Indices: 27846265--27846365 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 29
27846255 GTAGACTGTA
* * * *
27846265 TCACACGGCTGTGTGGCAAACTGTGTGGG
1 TCACACGACTGTGTGGTAGACCGTGTGGG
* * * *
27846294 TTACACGGCTATGTGGCT-GATCGTGTGGG
1 TCACACGACTGTGTGG-TAGACCGTGTGGG
* *
27846323 TTACAC-AGTTGTGTGGTAGACCGTGTGGG
1 TCACACGA-CTGTGTGGTAGACCGTGTGGG
27846352 TCACACGACTGTGT
1 TCACACGACTGTGT
27846366 CGTTGGCTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
28 1 0.02
29 54 0.96
30 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.29
Consensus pattern (29 bp):
TCACACGACTGTGTGGTAGACCGTGTGGG
Found at i:27861617 original size:26 final size:26
Alignment explanation
Indices: 27861588--27861642 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
27861578 AATTTTCTCC
27861588 AAATTTTA-TCGAGGGTAAAATTGTCA
1 AAATTTTACT-GAGGGTAAAATTGTCA
*
27861614 AAATTTTACTGAGGGTAAAATTGTTA
1 AAATTTTACTGAGGGTAAAATTGTCA
27861640 AAA
1 AAA
27861643 AATTTATTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (26 bp):
AAATTTTACTGAGGGTAAAATTGTCA
Found at i:27861655 original size:26 final size:26
Alignment explanation
Indices: 27861598--27861658 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
27861588 AAATTTTATC
* *
27861598 GAGGGTAAAATTGTCAAAATTTTACT
1 GAGGGTAAAATTGTAAAAAATTTACT
*
27861624 GAGGGTAAAATTGTTAAAAAATTTATT
1 GAGGGTAAAATTG-TAAAAAATTTACT
27861651 G-GGGTAAA
1 GAGGGTAAA
27861659 TTTTGGATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (26 bp):
GAGGGTAAAATTGTAAAAAATTTACT
Found at i:27867433 original size:21 final size:22
Alignment explanation
Indices: 27867408--27867474 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 22
27867398 TCTGTAATTT
27867408 AAGGTAATTTTAAATA-TTTTA
1 AAGGTAATTTTAAATATTTTTA
** **
27867429 AAGGTGTTTTTCCATATTTTTA
1 AAGGTAATTTTAAATATTTTTA
* *
27867451 ATGG-AATTTTAAATCGTTTTTA
1 AAGGTAATTTTAAAT-ATTTTTA
27867473 AA
1 AA
27867475 TTAGCCCCGA
Statistics
Matches: 33, Mismatches: 11, Indels: 3
0.70 0.23 0.06
Matches are distributed among these distances:
21 18 0.55
22 15 0.45
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.49
Consensus pattern (22 bp):
AAGGTAATTTTAAATATTTTTA
Found at i:27870223 original size:24 final size:24
Alignment explanation
Indices: 27870173--27870223 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
27870163 TAGGAAGAAA
* **
27870173 ATGGTTGTTTGATATGTTTTTGAT
1 ATGGTTATTTGATATGTTTAAGAT
* *
27870197 ATGGTTATTTGGTATGTTTAAGGT
1 ATGGTTATTTGATATGTTTAAGAT
27870221 ATG
1 ATG
27870224 TTAAATGAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (24 bp):
ATGGTTATTTGATATGTTTAAGAT
Found at i:27877193 original size:21 final size:22
Alignment explanation
Indices: 27877159--27877215 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
27877149 TACATGGCCA
27877159 TGTGGC-TCCT-CACACACCTG
1 TGTGGCTTCCTCCACACACCTG
* *
27877179 TGTGTCTTCC-CCACACGCCTG
1 TGTGGCTTCCTCCACACACCTG
27877200 TGTGGCTTCCTCCACA
1 TGTGGCTTCCTCCACA
27877216 TGCCCATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 5 0.16
21 21 0.68
22 5 0.16
ACGTcount: A:0.12, C:0.40, G:0.19, T:0.28
Consensus pattern (22 bp):
TGTGGCTTCCTCCACACACCTG
Found at i:27881794 original size:2 final size:2
Alignment explanation
Indices: 27881787--27881811 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27881777 TGGTGTGGGA
27881787 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27881812 ATGGGTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27882393 original size:18 final size:18
Alignment explanation
Indices: 27882370--27882407 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
27882360 ATGTCTAAGA
27882370 TTAAATTAAAATTAAAGT
1 TTAAATTAAAATTAAAGT
27882388 TTAAATTAAAATTAAAGT
1 TTAAATTAAAATTAAAGT
27882406 TT
1 TT
27882408 CAAGTATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAAATTAAAATTAAAGT
Found at i:27899780 original size:7 final size:7
Alignment explanation
Indices: 27899768--27899824 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
27899758 TTTGAGTCAA
27899768 AAAAATG
1 AAAAATG
27899775 AAAAATG
1 AAAAATG
27899782 AAAAAATG
1 -AAAAATG
27899790 -AAAATG
1 AAAAATG
*
27899796 ATAAATG
1 AAAAATG
27899803 AAAAAATG
1 -AAAAATG
27899811 AAAAA-G
1 AAAAATG
27899817 TAAAAATG
1 -AAAAATG
27899825 GAGAGGCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
6 7 0.16
7 22 0.51
8 14 0.33
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:27899786 original size:8 final size:8
Alignment explanation
Indices: 27899767--27899815 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
27899757 CTTTGAGTCA
27899767 AAAAAATG
1 AAAAAATG
27899775 -AAAAATG
1 AAAAAATG
27899782 AAAAAATG
1 AAAAAATG
27899790 --AAAATG
1 AAAAAATG
*
27899796 -ATAAATG
1 AAAAAATG
27899803 AAAAAATG
1 AAAAAATG
27899811 AAAAA
1 AAAAA
27899816 GTAAAAATGG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 6 0.17
7 12 0.33
8 18 0.50
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.14
Consensus pattern (8 bp):
AAAAAATG
Found at i:27899793 original size:21 final size:21
Alignment explanation
Indices: 27899769--27899824 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
27899759 TTGAGTCAAA
27899769 AAAATGAAAAATGAAAAAATG
1 AAAATGAAAAATGAAAAAATG
*
27899790 AAAATGATAAATGAAAAAATG
1 AAAATGAAAAATGAAAAAATG
*
27899811 AAAAAGTAAAAATG
1 AAAATG-AAAAATG
27899825 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (21 bp):
AAAATGAAAAATGAAAAAATG
Found at i:27899807 original size:14 final size:15
Alignment explanation
Indices: 27899767--27899824 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
27899757 CTTTGAGTCA
27899767 AAAAAATGAAAAATG
1 AAAAAATGAAAAATG
27899782 AAAAAATG-AAAATG
1 AAAAAATGAAAAATG
*
27899796 -ATAAATGAAAAAATG
1 AAAAAATG-AAAAATG
*
27899811 AAAAAGT-AAAAATG
1 AAAAAATGAAAAATG
27899825 GAGAGGCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.16
14 13 0.35
15 14 0.38
16 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.16
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:27901374 original size:132 final size:132
Alignment explanation
Indices: 27901213--27901922 Score: 814
Period size: 132 Copynumber: 5.4 Consensus size: 132
27901203 GACACCAGCC
* ** * *
27901213 TTACCTCCCTGTGGTTACAATGGAGTACATTGAAGTTAGTAATTCTATCTCCCAGGTTGGCAGTG
1 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTAGCAGTG
* * *
27901278 GTATAGATTGAAGATTATAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGA
66 GAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGA
27901343 TT
131 TT
* *
27901345 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTGGTAGTG
1 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTAGCAGTG
* * * *
27901410 GAATAGATTGGAA-ATTACAGATCTTGTCTCCCTAAGCAGTAGCT-GAGCAGATCGAAAATGACA
66 GAATAGATT-GAAGATTATAGATCTTATCTCCCTAAGCAGTAG-TGGAGCAGATCGAAGATGGCA
*
27901473 AATT
129 GATT
* * ** * * * * * * * * *
27901477 TTATCTTCAAG-AG-TA-AG-GAAGCAGATTTAAGCCA-CAAGTCCTATCTCCCTGGTCAACAGT
1 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TTCTATCTCCCTGGTTAGCAGT
* *
27901537 GGAATAGGTTG-GGATT-TCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCA
65 GGAATAGATTGAAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCA
27901600 GATT
129 GATT
* * *
27901604 TTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATATCCCTGGGTAGCAGTG
1 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTAGCAGTG
* *
27901669 GAATAGATTGAAGATT-TCAGATCTTATCTCCCTAAGCAGTAGCGGAGTAGATCGAAGATGGCAG
66 GAATAGATTGAAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAG
27901733 ATT
130 ATT
* * * * *
27901736 TTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAATAGTTCTA-CTTCCATAGG-CAGCAG
1 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCT-GGTTAGCAG
* * * * * *
27901799 TGGAATAGATTGAATATTACAGATCTTATCTCCTTAAGCAATAGCGGAGCAGATCGAAGATGACA
64 TGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCA
27901864 GATT
129 GATT
** * * *
27901868 TTACCTCCCTAAGGTTACAGTGGAGTATATTGAAGCCACTAATCCTATCTCCCTG
1 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
27901923 AAATTACAGT
Statistics
Matches: 486, Mismatches: 76, Indels: 33
0.82 0.13 0.06
Matches are distributed among these distances:
126 1 0.00
127 55 0.11
128 40 0.08
129 4 0.01
130 4 0.01
131 42 0.09
132 333 0.69
133 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGTTAGCAGTG
GAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGA
TT
Found at i:27902174 original size:50 final size:50
Alignment explanation
Indices: 27902112--27902370 Score: 186
Period size: 50 Copynumber: 5.2 Consensus size: 50
27902102 GCAATGGAAC
* * * *
27902112 AAGATTAAAGCCACAACGGTGAATCTTGCTTCCTTGACATTGCCGTTAAA
1 AAGATTAAAGCCACAACAGCGAATCTTGCTTCCTCGACATTGCAGTTAAA
* ** * **
27902162 AGGATTAAAGCCACAACAGCGAATCTCACTT-CTCAAGCGGTGCAG-TAAA
1 AAGATTAAAGCCACAACAGCGAATCTTGCTTCCTCGA-CATTGCAGTTAAA
* * * * *
27902211 ACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAA
1 A-AGATTAAAGCCACAACAGCGAATCTTGCTTCCTCGACATTGCAGTTAAA
* * * * **
27902262 AAGATTAAAGCTACAACAGCGAATCTT-ATTACCTTGGCGA-TG-AGTGGAA
1 AAGATTAAAGCCACAACAGCGAATCTTGCTT-CCTCGAC-ATTGCAGTTAAA
* * * * * **
27902311 CAGATTAACGCCATAACGGCGAACCTTGCTTCCTCGACATCACAGTTAAA
1 AAGATTAAAGCCACAACAGCGAATCTTGCTTCCTCGACATTGCAGTTAAA
*
27902361 CAGATTAAAG
1 AAGATTAAAG
27902371 TTACGAGTTA
Statistics
Matches: 154, Mismatches: 46, Indels: 18
0.71 0.21 0.08
Matches are distributed among these distances:
48 1 0.01
49 41 0.27
50 103 0.67
51 9 0.06
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
AAGATTAAAGCCACAACAGCGAATCTTGCTTCCTCGACATTGCAGTTAAA
Found at i:27902366 original size:99 final size:99
Alignment explanation
Indices: 27902100--27902370 Score: 296
Period size: 100 Copynumber: 2.7 Consensus size: 99
27902090 TTCCCTGAGA
* * *
27902100 ATGCAATGGAACAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTTGACATTGCCGTTAAAAGG
1 ATGCAGTGGAAC-AGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAA-G
27902165 ATTAAAGCCACAACAGCGAATCTCACTTCTCAAGCG
64 ATTAAAGCCACAACAGCGAATCTCACTTCTCAAGCG
* ** * * *
27902201 GTGCAGTAAAACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
1 ATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGCAGTT-AAAAGA
* * **
27902266 TTAAAGCTACAACAGCGAATCTTA-TTAC-CTTGGCG
65 TTAAAGCCACAACAGCGAATCTCACTT-CTC-AAGCG
* * * * **
27902301 ATG-AGTGGAACAGATTAACGCCATAACGGCGAACCTTGCTTCCTCGACATCACAGTTAAACAGA
1 ATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAA-AGA
27902365 TTAAAG
65 TTAAAG
27902371 TTACGAGTTA
Statistics
Matches: 141, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
98 3 0.02
99 55 0.39
100 71 0.50
101 12 0.09
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (99 bp):
ATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAGAT
TAAAGCCACAACAGCGAATCTCACTTCTCAAGCG
Found at i:27902837 original size:14 final size:15
Alignment explanation
Indices: 27902818--27902846 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27902808 CGAGTCCAAA
27902818 AATAACCC-AATTAC
1 AATAACCCAAATTAC
27902832 AATAACCCAAATTAC
1 AATAACCCAAATTAC
27902847 CAGCCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAACCCAAATTAC
Found at i:27908024 original size:45 final size:45
Alignment explanation
Indices: 27907960--27908045 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
27907950 ATAGATACTT
*
27907960 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATATCC
1 GGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATATCC
27908005 GGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGAT
1 GGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGAT
27908046 GTTCGGTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATATCC
Done.