Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 282 of 325
Found at i:90315349 original size:17 final size:17
Alignment explanation
Indices: 90315327--90315360 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
90315317 TTTTACTACT
90315327 TTACACTTGGTTTAAAA
1 TTACACTTGGTTTAAAA
90315344 TTACACTTGGTTTAAAA
1 TTACACTTGGTTTAAAA
90315361 CTTATAAAAT
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:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
TTACACTTGGTTTAAAA
Found at i:90318059 original size:48 final size:48
Alignment explanation
Indices: 90317988--90318176 Score: 252
Period size: 48 Copynumber: 3.9 Consensus size: 48
90317978 ACTCGGGAGT
* * * * *
90317988 CTCGCACCCTAAGTGCCAATATCATGACACGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAA
* *
90318036 CTCGCACCTGAAGTGCTAATATCATGGCCTGAAGCCAAATCAATGAAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAA
** * *
90318084 CTCATACCCGAAGTGCTAATATCTTGGCCCGAAGCCAAATAAATGAAA
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAA
* **
90318132 CTCGCACCCGAAGTGCTGATATTTTGGCCCGAAGCCAAATCAATG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATG
90318177 TATTCCCTAA
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 123 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAA
Found at i:90321318 original size:28 final size:28
Alignment explanation
Indices: 90321287--90321342 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
90321277 TTTCTAATTA
* * *
90321287 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
90321315 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
90321343 TATAAACATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:90321399 original size:12 final size:12
Alignment explanation
Indices: 90321384--90321428 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
90321374 TCCAATACAT
90321384 TATTTTATCATA
1 TATTTTATCATA
90321396 TATTTTATCTATA
1 TATTTTATC-ATA
* * *
90321409 AATTATATTATA
1 TATTTTATCATA
90321421 TATTTTAT
1 TATTTTAT
90321429 ATTATATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTTATCATA
Found at i:90321428 original size:14 final size:14
Alignment explanation
Indices: 90321411--90321439 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
90321401 TATCTATAAA
90321411 TTATATTATATATT
1 TTATATTATATATT
90321425 TTATATTATATATT
1 TTATATTATATATT
90321439 T
1 T
90321440 CTTTGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATTATATATT
Found at i:90321645 original size:29 final size:30
Alignment explanation
Indices: 90321587--90321645 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 30
90321577 ACACCTTTTC
* *
90321587 TTTATTTATATATTTTATATATGTATATTA
1 TTTATTTATATATTTTATATATGAAAATTA
*
90321617 TTTATTT-TATAATTTTCT-TATGAAAATTA
1 TTTATTTATAT-ATTTTATATATGAAAATTA
90321646 CTCATATCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (30 bp):
TTTATTTATATATTTTATATATGAAAATTA
Found at i:90321797 original size:22 final size:22
Alignment explanation
Indices: 90321772--90321814 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
90321762 CTTTCTTATA
*
90321772 TTTTTATATATTATTTATTTTG
1 TTTTTATATACTATTTATTTTG
*
90321794 TTTTTTTATACTATTTATTTT
1 TTTTTATATACTATTTATTTT
90321815 ACTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTATATACTATTTATTTTG
Found at i:90332837 original size:13 final size:13
Alignment explanation
Indices: 90332819--90332843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90332809 TCGAAAATCA
90332819 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
90332832 AAAAAAAAAGAA
1 AAAAAAAAAGAA
90332844 AAATAGAGAG
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:90334093 original size:206 final size:204
Alignment explanation
Indices: 90333731--90334286 Score: 862
Period size: 206 Copynumber: 2.7 Consensus size: 204
90333721 GCAGATCTGG
* * *
90333731 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA-TCAAGACATAGTT
* * *
90333796 GATTTGGCTTTCACGTGCATACGATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAG
64 GATTT-GCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
90333861 AGAGCAGATCGAAGTTTAGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
128 AGAACAAATCGAAGTTTAGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
90333926 CAGATGATTAGA
193 CAGATGATTAGA
*
90333938 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAATCATAGTTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAGA-CATAGTTG
* * *
90334003 ATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCCAAGATGATTTGGCATATCTGTATTGTCAGA
65 ATTT-GCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
90334068 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
129 GAACAAATCGAAGTTTAGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
90334133 AGATGATTAGA
194 AGATGATTAGA
* * * *
90334144 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTCACAAGGAGCAAATCGAAGACATA-TCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATC-AAGACATAGT-T
* *
90334208 GATTTGGTTTTAGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
64 GATTTGCTTTCA-CGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
90334273 AGAACAAATCGAAG
128 AGAACAAATCGAAG
90334287 AAGCAGATTT
Statistics
Matches: 321, Mismatches: 24, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
205 10 0.03
206 301 0.94
207 10 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (204 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAGACATAGTTGA
TTTGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAATCGAAGTTTAGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAG
ATGATTAGA
Found at i:90335758 original size:28 final size:28
Alignment explanation
Indices: 90335727--90335782 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
90335717 TTTCTAATTA
* * *
90335727 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
90335755 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
90335783 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:90336240 original size:21 final size:21
Alignment explanation
Indices: 90336216--90336256 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90336206 TTTCTTATAT
*
90336216 TTTTATATATTATTTATTTTG
1 TTTTATATACTATTTATTTTG
*
90336237 TTTTTTATACTATTTATTTT
1 TTTTATATACTATTTATTTT
90336257 ACTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATATACTATTTATTTTG
Found at i:90336303 original size:14 final size:15
Alignment explanation
Indices: 90336280--90336343 Score: 51
Period size: 17 Copynumber: 4.1 Consensus size: 15
90336270 TGCAAATTAC
90336280 TTATTATATTTT-TA
1 TTATTATATTTTATA
*
90336294 TTATTTTATTTTATA
1 TTATTATATTTTATA
*
90336309 TTTCCTTATATTTTAT-
1 -TT-ATTATATTTTATA
90336325 TCATATTATATTATTATA
1 T--TATTATATT-TTATA
90336343 T
1 T
90336344 ATAACTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 11 0.28
15 3 0.08
16 9 0.23
17 15 0.38
18 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATATTTTATA
Found at i:90336330 original size:21 final size:19
Alignment explanation
Indices: 90336280--90336341 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
90336270 TGCAAATTAC
90336280 TTATTATATTTTTATTATT
1 TTATTATATTTTTATTATT
90336299 TTATTTTATATTTCCTTA-TATT
1 TTA--TTATATTT--TTATTATT
90336321 TTATTCATATTATATTATTAT
1 TTATT-ATATT-T-TTATTAT
90336342 ATATAACTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
19 3 0.09
20 2 0.06
21 16 0.46
22 11 0.31
23 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATATTTTTATTATT
Found at i:90337697 original size:17 final size:17
Alignment explanation
Indices: 90337675--90337714 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
90337665 GCTTAAAGGA
*
90337675 GAACACTATCATAATGT
1 GAACACTATCATAATGC
90337692 GAACACTATCATAATGC
1 GAACACTATCATAATGC
90337709 GAACAC
1 GAACAC
90337715 ACTTCCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (17 bp):
GAACACTATCATAATGC
Found at i:90338415 original size:15 final size:15
Alignment explanation
Indices: 90338395--90338499 Score: 138
Period size: 15 Copynumber: 7.0 Consensus size: 15
90338385 GTCATCACCT
90338395 TCGGGTCCTTCAGCA
1 TCGGGTCCTTCAGCA
* *
90338410 TCGGGTCCATCGGCA
1 TCGGGTCCTTCAGCA
90338425 TCGGGTCCTTCAGCA
1 TCGGGTCCTTCAGCA
* *
90338440 TCGGGTCCATCGGCA
1 TCGGGTCCTTCAGCA
*
90338455 TCGGGTCCTTCAGTA
1 TCGGGTCCTTCAGCA
* *
90338470 TCGGATCCTTCAGCC
1 TCGGGTCCTTCAGCA
*
90338485 TCGGATCCTTCAGCA
1 TCGGGTCCTTCAGCA
90338500 GAGGGGCCCT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 77 1.00
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.26
Consensus pattern (15 bp):
TCGGGTCCTTCAGCA
Found at i:90338429 original size:30 final size:30
Alignment explanation
Indices: 90338395--90338499 Score: 156
Period size: 30 Copynumber: 3.5 Consensus size: 30
90338385 GTCATCACCT
90338395 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
1 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
90338425 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
1 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
* * * * *
90338455 TCGGGTCCTTCAGTATCGGATCCTTCAGCC
1 TCGGGTCCTTCAGCATCGGGTCCATCGGCA
*
90338485 TCGGATCCTTCAGCA
1 TCGGGTCCTTCAGCA
90338500 GAGGGGCCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.26
Consensus pattern (30 bp):
TCGGGTCCTTCAGCATCGGGTCCATCGGCA
Found at i:90339372 original size:23 final size:22
Alignment explanation
Indices: 90339329--90339395 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
90339319 AATATGTATA
*
90339329 AAATT-TAAATAAAAATTAATTT
1 AAATTATAAAT-AAAATAAATTT
90339351 AAATTATAAATAAAATGAAATTT
1 AAATTATAAATAAAAT-AAATTT
* * *
90339374 AAATAGATAAATATATTAAATT
1 AAAT-TATAAATAAAATAAATT
90339396 AAGAATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 10 0.26
23 19 0.50
24 9 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (22 bp):
AAATTATAAATAAAATAAATTT
Found at i:90342276 original size:130 final size:130
Alignment explanation
Indices: 90341995--90342378 Score: 341
Period size: 130 Copynumber: 2.9 Consensus size: 130
90341985 TTTCGAAGAG
* * * * *
90341995 ATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGTATTATTCCCCGAAT
1 ATATTCGATTGTTTTGAACAAA-GAGAAATCGCAACCCAGCACGATAGGGCATGATTCCAC-AAT
* * * * * *
90342060 TGCCAAACATCGAACATTTCTTTCGTTTTAAAGGGTTTTTAGAAAACGTGACTGAAATTCCGAAG
64 CGCCAAACATCAAACATTCCTTTCGTTTTAAAGGGTTTTTAGAAAACATGACTGAAATACCAAAG
*
90342125 GG
129 GA
* * * * * *
90342127 ATCTTCGATCGTTTAGAACAAATGAAAAAAGCGCAACCCAGCACGATAGGGCACGATTCTCAC-A
1 ATATTCGATTGTTTTGAACAAA-G-AGAAATCGCAACCCAGCACGATAGGGCATGATTC-CACAA
* *
90342191 TCGCCAAACATCAAACA-TCCTTT-GTTTTGAAA-GGTTTTTA-ATAACCATGAGTGAAA-ACCT
63 TCGCCAAACATCAAACATTCCTTTCGTTTT-AAAGGGTTTTTAGA-AAACATGACTGAAATACC-
90342251 AAAGGA
125 AAAGGA
* *
90342257 ATATTCGATTGTTTTGAACAAAGGAGAAATCACAACTCAGCACGATAGGGCATGATTCC-CGAAT
1 ATATTCGATTGTTTTGAACAAA-GAGAAATCGCAACCCAGCACGATAGGGCATGATTCCAC-AAT
* * * * * * * * * *
90342321 TGTCAAACACCGAGCATTGCTTTCGTTTTAAAGGATTTTTAGAAGACACGAGTGAAAT
64 CGCCAAACATCAAACATTCCTTTCGTTTTAAAGGGTTTTTAGAAAACATGACTGAAAT
90342379 TTTGAAGGGA
Statistics
Matches: 200, Mismatches: 40, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
127 1 0.00
128 1 0.00
129 45 0.22
130 56 0.28
131 31 0.16
132 36 0.18
133 28 0.14
134 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (130 bp):
ATATTCGATTGTTTTGAACAAAGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCACAATCG
CCAAACATCAAACATTCCTTTCGTTTTAAAGGGTTTTTAGAAAACATGACTGAAATACCAAAGGA
Found at i:90342397 original size:131 final size:129
Alignment explanation
Indices: 90341975--90342484 Score: 440
Period size: 132 Copynumber: 3.9 Consensus size: 129
90341965 CTTAAAATAT
* * *
90341975 ACGAGTGAAATTTCGAAGAGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGA
1 ACGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGA
* ** *
90342040 TAGGGTATTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCGTTTTAAAGGGTTTTTAGAAA
66 TAGGGCACGATT-CCCGAATTGCCAAACATCGAACATTCCTTTCGTTTTAAA-GGTTTTTAGAAA
90342105 -
129 C
* * ** * * * *
90342105 ACGTGACTGAAATTCCGAAGGGATCTTCGATCGTTTAGAACAAATGAAAAAAGCGCAACCCAGCA
1 AC--GAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACG-AGAAATCGCAACCCAGCA
* * *
90342170 CGATAGGGCACGATTCTC-ACATCGCCAAACATCAAACA-TCCTTT-GTTTTGAAAGGTTTTTA-
63 CGATAGGGCACGATTCCCGA-ATTGCCAAACATCGAACATTCCTTTCGTTTT-AAAGGTTTTTAG
90342231 ATAACC
126 A-AA-C
* * * * * * * *
90342237 ATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTTTGAACAAAGGAGAAATCACAACTCAGCACG
1 ACGAGTGAAATTCC-GAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACG
* * * * *
90342301 ATAGGGCATGATTCCCGAATTGTCAAACACCGAGCATTGCTTTCGTTTTAAAGGATTTTTAGAAG
65 ATAGGGCACGATTCCCGAATTGCCAAACATCGAACATTCCTTTCGTTTTAAAGG-TTTTTAGAA-
90342366 AC
128 AC
** ** * * * * * *
90342368 ACGAGTGAAATTTTGAAGGGACCTTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACATGT
1 ACGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGA
* * * *
90342433 TAGGGCACGATTCCACGAATTGTCAAATATCGAATA-TCGCCTTCGTTTTAAA
66 TAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTC-CTTTCGTTTTAAA
90342485 TAATTGTGAA
Statistics
Matches: 298, Mismatches: 64, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
129 46 0.15
130 59 0.20
131 82 0.28
132 84 0.28
133 27 0.09
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (129 bp):
ACGAGTGAAATTCCGAAGGGATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGA
TAGGGCACGATTCCCGAATTGCCAAACATCGAACATTCCTTTCGTTTTAAAGGTTTTTAGAAAC
Found at i:90345533 original size:132 final size:132
Alignment explanation
Indices: 90345333--90345575 Score: 380
Period size: 132 Copynumber: 1.8 Consensus size: 132
90345323 ATTTTGCTCC
* * * *
90345333 ACTGCAACTTCAGGGAGACAAGATCTACCGAATTCAACCTACTCCACTACAACTTTAGGGAGCTA
1 ACTGCAACTTCAGGAAAACAAGATCTA-CAAATTCAACCTACTCCACTACAACTTTAGGGAGATA
* *
90345398 GGTTGGTGGTTTAAATCTGCTTCACTGTAACTTCAGGAAGCCAAGATTCACCGCTTTCGATCTGA
65 GGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCGCTTTCGATCTGA
90345463 TCT
130 TCT
* * *
90345466 ACTGTAACTTCAGGAAAACAAGATCTA-AAATTTCAGCCTACTCCACTACAACTTTAGTGAGATA
1 ACTGCAACTTCAGGAAAACAAGATCTACAAA-TTCAACCTACTCCACTACAACTTTAGGGAGATA
90345530 GGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGA
65 GGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGA
90345576 CATGTAGGAT
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
131 2 0.02
132 74 0.74
133 24 0.24
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (132 bp):
ACTGCAACTTCAGGAAAACAAGATCTACAAATTCAACCTACTCCACTACAACTTTAGGGAGATAG
GTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCGCTTTCGATCTGAT
CT
Found at i:90357391 original size:130 final size:132
Alignment explanation
Indices: 90357142--90357493 Score: 315
Period size: 130 Copynumber: 2.7 Consensus size: 132
90357132 CGAGAAATTG
* * * * *
90357142 CAACCCAGCACGATAGGGTACTATTCCCCGACTTGCCAAACATCGAACATTTTTTTCGTTTTAAA
1 CAACCCAGCACGATAGGGCACGATTCCACGACTTGCCAAACATCAAACATTTATTTCGTTTTAAA
* * * * * *
90357207 GGGTTTTTAGAAAACGTGAGTGAAATTCCGAAGGGATCTTCGATCGTTTAGAACAAATGAAAAAA
66 GGGTTTTTAGAAAACATGAGTGAAATACCAAAGGAATATTCGATCGTTTAGAACAAACG-AAAAA
*
90357272 GCG
130 GCA
* *
90357275 TAACCCAGCACGATAGGGCACGATTCTCAC-A-TTGCCAAACATTAAACA-TTATTT-GTTTTGA
1 CAACCCAGCACGATAGGGCACGATTC-CACGACTTGCCAAACATCAAACATTTATTTCGTTTT-A
* * * * *
90357336 AA-GGTTTTTA-ATAACCATGAGTGAAA-ACCTAAAGGAATATTTGATTGTTTTGAACAAACGAG
64 AAGGGTTTTTAGA-AAACATGAGTGAAATACC-AAAGGAATATTCGATCGTTTAGAACAAACGAA
*
90357398 AAATCA
127 AAAGCA
* * * * * * * ***
90357404 CAACCCAACACGATAGGGCATGATTCC-CGAATTGTCAAACACCGAGCATTGCCTTCGTTTTAAA
1 CAACCCAGCACGATAGGGCACGATTCCACGACTTGCCAAACATCAAACATTTATTTCGTTTTAAA
* *
90357468 GGATTTTTAGAAGACATGAGTGAAAT
66 GGGTTTTTAGAAAACATGAGTGAAAT
90357494 TTTGAAGGGA
Statistics
Matches: 174, Mismatches: 34, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
127 1 0.01
128 2 0.01
129 43 0.25
130 54 0.31
131 32 0.18
132 16 0.09
133 24 0.14
134 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (132 bp):
CAACCCAGCACGATAGGGCACGATTCCACGACTTGCCAAACATCAAACATTTATTTCGTTTTAAA
GGGTTTTTAGAAAACATGAGTGAAATACCAAAGGAATATTCGATCGTTTAGAACAAACGAAAAAG
CA
Found at i:90357444 original size:129 final size:131
Alignment explanation
Indices: 90357081--90357574 Score: 347
Period size: 131 Copynumber: 3.8 Consensus size: 131
90357071 TTGCCTCACC
* * * * * ** *
90357081 TTAGAAAATACGAGTGAAATTCCGAA-GAGATATTCAATTATTTTGAACAAACGAGAAATTGCAA
1 TTAGAAAACATGAGTGAAATACCAAAGGA-ATATTCGATCGTTTTGAACAAACGAGAAATCGCAA
* * * *
90357145 CCCAGCACGATAGGGTACT-ATTCCCCGACTTGCCAAACATCGAACATTTTTTTCGTTTTAAAGG
65 CCCAGCACGATAGGGCA-TGATT-CCCGAATTGCCAAACATCAAACATTTATTTCGTTTTAAAGG
90357209 GTTT
128 GTTT
* * * * * * * * * *
90357213 TTAGAAAACGTGAGTGAAATTCCGAAGGGATCTTCGATCGTTTAGAACAAATGAAAAAAGCGTAA
1 TTAGAAAACATGAGTGAAATACCAAAGGAATATTCGATCGTTTTGAACAAACG-AGAAATCGCAA
* * *
90357278 CCCAGCACGATAGGGCACGATTCTC-ACATTGCCAAACATTAAACA-TTATTT-GTTTTGAAA-G
65 CCCAGCACGATAGGGCATGATTCCCGA-ATTGCCAAACATCAAACATTTATTTCGTTTT-AAAGG
90357339 GTTT
128 GTTT
* * * *
90357343 TTA-ATAACCATGAGTGAAA-ACCTAAAGGAATATTTGATTGTTTTGAACAAACGAGAAATCACA
1 TTAGA-AAACATGAGTGAAATACC-AAAGGAATATTCGATCGTTTTGAACAAACGAGAAATCGCA
* * * * * *** *
90357406 ACCCAACACGATAGGGCATGATTCCCGAATTGTCAAACACCGAGCATTGCCTTCGTTTTAAAGGA
64 ACCCAGCACGATAGGGCATGATTCCCGAATTGCCAAACATCAAACATTTATTTCGTTTTAAAGGG
90357471 TTT
129 TTT
* **** * ** *** * *
90357474 TTAGAAGACATGAGTGAAATTTTGAAGGGACCTTCGATTACTTTGAGCAAACGAGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATACCAAAGGAATATTCGATCGTTTTGAACAAACGAGAAATCGCAAC
* * * * *
90357539 CCAACATGTTAGGGCACGATTCCACGAATTGTCAAA
66 CCAGCACGATAGGGCATGATTCC-CGAATTGCCAAA
90357575 TATCGAATAT
Statistics
Matches: 283, Mismatches: 65, Indels: 28
0.75 0.17 0.07
Matches are distributed among these distances:
129 45 0.16
130 55 0.19
131 85 0.30
132 71 0.25
133 27 0.10
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (131 bp):
TTAGAAAACATGAGTGAAATACCAAAGGAATATTCGATCGTTTTGAACAAACGAGAAATCGCAAC
CCAGCACGATAGGGCATGATTCCCGAATTGCCAAACATCAAACATTTATTTCGTTTTAAAGGGTT
T
Found at i:90361234 original size:18 final size:20
Alignment explanation
Indices: 90361205--90361257 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
90361195 ACTTCGAACT
*
90361205 TTAATTATTTAATTATAAAAAA
1 TTAATTAATT-ATTA-AAAAAA
*
90361227 TTAATTAATAATTCAAAAAAA
1 TTAATTAATTATT-AAAAAAA
90361248 TTAATTAATT
1 TTAATTAATT
90361258 TCCAAGCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAATTAATTATTAAAAAAA
Found at i:90362818 original size:25 final size:25
Alignment explanation
Indices: 90362790--90362839 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
90362780 GTGAATGGAA
90362790 CAATACAACACATGTATTTTCTCAT
1 CAATACAACACATGTATTTTCTCAT
90362815 CAATACAACACATGTATTTTCTCAT
1 CAATACAACACATGTATTTTCTCAT
90362840 TATCACATTT
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:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (25 bp):
CAATACAACACATGTATTTTCTCAT
Found at i:90372303 original size:50 final size:50
Alignment explanation
Indices: 90372178--90372423 Score: 307
Period size: 49 Copynumber: 4.9 Consensus size: 50
90372168 TAGCCAAAGC
* * * *
90372178 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
*
90372227 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * *
90372277 CATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * * * *
90372328 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * *
90372377 AATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACGCGTGACCT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
90372424 CACAATAGGT
Statistics
Matches: 167, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
49 80 0.48
50 50 0.30
51 37 0.22
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:90377114 original size:15 final size:15
Alignment explanation
Indices: 90377094--90377126 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
90377084 GAAAATTCAC
90377094 AACACTATCCGCAAG
1 AACACTATCCGCAAG
90377109 AACACTATCCGCAAG
1 AACACTATCCGCAAG
90377124 AAC
1 AAC
90377127 TCTCCTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.33, G:0.12, T:0.12
Consensus pattern (15 bp):
AACACTATCCGCAAG
Found at i:90381341 original size:24 final size:25
Alignment explanation
Indices: 90381288--90381343 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
90381278 TTTTTGATAT
* *
90381288 ATGGCTATTCGGAGCTTCCCGATTA
1 ATGGCTCTTCGGAGCTACCCGATTA
*
90381313 ATGGCTCTTTGGAGCTACCC-ATTA
1 ATGGCTCTTCGGAGCTACCCGATTA
*
90381337 TTGGCTC
1 ATGGCTC
90381344 GCATGAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTACCCGATTA
Found at i:90387195 original size:25 final size:25
Alignment explanation
Indices: 90387167--90387225 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
90387157 TGTAAACGAT
*
90387167 AAGCTCTTTTGAGCCATATAACGGG
1 AAGCTCTTGTGAGCCATATAACGGG
* ** *
90387192 AAGCTCATGTGAGCTGTATAATGGG
1 AAGCTCTTGTGAGCCATATAACGGG
90387217 AAGCTCTTG
1 AAGCTCTTG
90387226 CGATTTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (25 bp):
AAGCTCTTGTGAGCCATATAACGGG
Found at i:90390741 original size:16 final size:17
Alignment explanation
Indices: 90390709--90390741 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90390699 TACTGTGTTC
90390709 TTATTTTAATCCTTAAT
1 TTATTTTAATCCTTAAT
*
90390726 TTATTTTTAT-CTTAAT
1 TTATTTTAATCCTTAAT
90390742 CAAGACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTAATCCTTAAT
Found at i:90393008 original size:13 final size:13
Alignment explanation
Indices: 90392972--90393008 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
90392962 TGATAGTTTG
*
90392972 GTATGAATTTATAT
1 GTATG-ATTTGTAT
90392986 GTATGATTTGTAT
1 GTATGATTTGTAT
90392999 GTATGATTTG
1 GTATGATTTG
90393009 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:90393520 original size:20 final size:19
Alignment explanation
Indices: 90393492--90393549 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 19
90393482 TGCCCATGGG
*
90393492 CAGGCCACACGGGCGTGCTC
1 CAGGCCACACGGGCATG-TC
*
90393512 CAGGTCACACGGGCATGTC
1 CAGGCCACACGGGCATGTC
90393531 CTAGGCCACACGGGCATGT
1 C-AGGCCACACGGGCATGT
90393550 GCCCCTATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.19, C:0.34, G:0.33, T:0.14
Consensus pattern (19 bp):
CAGGCCACACGGGCATGTC
Found at i:90394368 original size:110 final size:107
Alignment explanation
Indices: 90394106--90394421 Score: 422
Period size: 110 Copynumber: 2.9 Consensus size: 107
90394096 TAAAAAAAAC
* * *
90394106 ATTTTTTTTTGTTCTGGCCTTCTAATGGCTGGCACCAGGGACTTTTTTCGTGTCCTAATGCAATT
1 ATTTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTT-GTGTCCCAATGCAATT
* *
90394171 TTTTTTA-TTGTTCTACACTGATGGTCAGCACCAGACCAGTAAA
65 TTTTTTACTT-TTCTACACTGATGGTCGGCACTAGACCAGTAAA
**** * * *
90394214 A--AAAATTAGTTTTGGCCTTCTAATGGCCGGCACCAAGGATTTTTTTGTGTCCCAATGCAATTT
1 ATTTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTGTGTCCCAATGCAA--T
*
90394277 TTTTTTTACTTTTCTACATTGATGGTCGGCACTAGACCAGTAAA
64 TTTTTTTACTTTTCTACACTGATGGTCGGCACTAGACCAGTAAA
* *
90394321 ATTTTTTTTTGGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTGTGCCCCAATGCAAAT
1 ATTTTTTTTT-GTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTGTGTCCCAATGCAATT
*
90394386 TATTTTACTTTTCTACACTGATGGTCGGCACTAGAC
65 TTTTTTACTTTTCTACACTGATGGTCGGCACTAGAC
90394422 TAGCAATTTA
Statistics
Matches: 178, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
105 13 0.07
106 36 0.20
107 40 0.22
108 38 0.21
109 2 0.01
110 49 0.28
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (107 bp):
ATTTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTGTGTCCCAATGCAATTT
TTTTTACTTTTCTACACTGATGGTCGGCACTAGACCAGTAAA
Found at i:90394760 original size:27 final size:27
Alignment explanation
Indices: 90394723--90394785 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
90394713 ATCATGAAAT
*
90394723 GAGTTTGTTTGTAGTGGATTGTATG-TGG
1 GAGTTT-TTTGTAGTGGATTGTA-GATGA
90394751 GAGTTTTTTGTAGTGGATTGTAGATGA
1 GAGTTTTTTGTAGTGGATTGTAGATGA
90394778 GAGTTTTT
1 GAGTTTTT
90394786 CATAGTGTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 26 0.79
28 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (27 bp):
GAGTTTTTTGTAGTGGATTGTAGATGA
Found at i:90394791 original size:27 final size:27
Alignment explanation
Indices: 90394734--90394792 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
90394724 AGTTTGTTTG
* **
90394734 TAGTGGATTGTATGTGGGAGTTTTTTG
1 TAGTGGATTGTATGTGAGAGTTTTTCA
90394761 TAGTGGATTGTA-GATGAGAGTTTTTCA
1 TAGTGGATTGTATG-TGAGAGTTTTTCA
90394788 TAGTG
1 TAGTG
90394793 TACAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.44
Consensus pattern (27 bp):
TAGTGGATTGTATGTGAGAGTTTTTCA
Found at i:90395411 original size:89 final size:88
Alignment explanation
Indices: 90395306--90395541 Score: 264
Period size: 90 Copynumber: 2.7 Consensus size: 88
90395296 CATTTTTTAT
* *
90395306 ATTTTCGTGTATTAATTTCTTAGAATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAGTCCG
1 ATTTTCGTGTATTAATTTCTTAGAATGTTTGTATTTTATTGTGTCTGTAAATTTAATTTAGTCCG
90395371 TATTATATGTAGTTTGAAT-TTAAA
66 TATTAT-TGTAGTTTGAATCTT-AA
* * * * * * * *
90395395 ATTTTCGTGTATTAATTTTACTCA-TATGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTG
1 ATTTTCGTGTATTAA-TTT-CTTAGAATGTTTGTATTTTATTGTGTCTGTAAATTTAATTTAGTC
* * **
90395459 CGTATTATTTTTGTTTGAATCTTTT
64 CGTATTATTGTAGTTTGAATCTTAA
*
90395484 ATTTT-TTGTATTAATATT-TTAGAATGTTTGTATTTTATTGTGTCTGTAAATTTAATTT
1 ATTTTCGTGTATTAAT-TTCTTAGAATGTTTGTATTTTATTGTGTCTGTAAATTTAATTT
90395542 GTCAATTTCT
Statistics
Matches: 121, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
86 2 0.02
87 31 0.26
88 10 0.08
89 30 0.25
90 45 0.37
91 3 0.02
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (88 bp):
ATTTTCGTGTATTAATTTCTTAGAATGTTTGTATTTTATTGTGTCTGTAAATTTAATTTAGTCCG
TATTATTGTAGTTTGAATCTTAA
Found at i:90395503 original size:20 final size:20
Alignment explanation
Indices: 90395466--90395504 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
90395456 GTGCGTATTA
*
90395466 TTTTTGTTTGAATCTTTTAT
1 TTTTTGTTTGAATATTTTAT
90395486 TTTTTGTATT-AATATTTTA
1 TTTTTGT-TTGAATATTTTA
90395505 GAATGTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTTGTTTGAATATTTTAT
Found at i:90398032 original size:21 final size:22
Alignment explanation
Indices: 90397986--90398033 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
90397976 GATTTCCATT
90397986 TCATTTAAATTATCTATCTTTC
1 TCATTTAAATTATCTATCTTTC
*
90398008 -CATTTAAATTTAT-T-TTTTTC
1 TCATTTAAA-TTATCTATCTTTC
90398028 TCATTT
1 TCATTT
90398034 CAAAGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.60
Consensus pattern (22 bp):
TCATTTAAATTATCTATCTTTC
Found at i:90398125 original size:5 final size:5
Alignment explanation
Indices: 90398095--90398217 Score: 52
Period size: 5 Copynumber: 22.6 Consensus size: 5
90398085 TTTTTTTAAA
* * * *
90398095 ATTTC ATTCC ATTTC ATAATC A--TC ATTTC ATTTT ATATTC ATGTAAC
1 ATTTC ATTTC ATTTC AT-TTC ATTTC ATTTC ATTTC AT-TTC AT-T-TC
* * * *
90398142 ATTTC ATTTA ATTTC ATATTC ATTAC AAATTAC ATTTC TTTTC ATATTC
1 ATTTC ATTTC ATTTC AT-TTC ATTTC --ATTTC ATTTC ATTTC AT-TTC
90398191 ATATTTC ATTTAAC ATTTC ATTTC ATT
1 --ATTTC ATTT--C ATTTC ATTTC ATT
90398218 AATTTTTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
3 3 0.03
5 53 0.58
6 17 0.19
7 16 0.18
8 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.01, T:0.52
Consensus pattern (5 bp):
ATTTC
Found at i:90398149 original size:28 final size:28
Alignment explanation
Indices: 90398117--90398192 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
90398107 TTCATAATCA
*
90398117 TCATTTCATTTTATATTCATGTA-ACATT
1 TCATTTCATTTTATATTCAT-TACAAATT
* *
90398145 TCATTTAATTTCATATTCATTACAAATT
1 TCATTTCATTTTATATTCATTACAAATT
*
90398173 ACATTTC-TTTTCATATTCAT
1 TCATTTCATTTT-ATATTCAT
90398193 ATTTCATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 5 0.12
28 35 0.88
ACGTcount: A:0.30, C:0.16, G:0.01, T:0.53
Consensus pattern (28 bp):
TCATTTCATTTTATATTCATTACAAATT
Found at i:90398594 original size:16 final size:16
Alignment explanation
Indices: 90398575--90398619 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
90398565 TCACTTTTTT
90398575 TTTCATTTCATTTTCA
1 TTTCATTTCATTTTCA
*
90398591 TTTCATTTC-GTTTCA
1 TTTCATTTCATTTTCA
90398606 TTTCCATTCTCATT
1 TTT-CATT-TCATT
90398620 CCTATTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 8 0.33
16 13 0.54
17 2 0.08
18 1 0.04
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTCATTTCATTTTCA
Found at i:90398604 original size:10 final size:10
Alignment explanation
Indices: 90398575--90398631 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 10
90398565 TCACTTTTTT
90398575 TTTCATTTCA
1 TTTCATTTCA
90398585 TTTTCATTTCA
1 -TTTCATTTCA
*
90398596 TTTCGTTTCA
1 TTTCATTTCA
90398606 TTTCCATTCTCA
1 TTT-CATT-TCA
*
90398618 TTCCTATTTCA
1 TTTC-ATTTCA
90398629 TTT
1 TTT
90398632 AAATTATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 12 0.31
11 19 0.49
12 8 0.21
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:90398604 original size:21 final size:22
Alignment explanation
Indices: 90398575--90398631 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
90398565 TCACTTTTTT
*
90398575 TTTCATTTCATTTTCATT-TCA
1 TTTCATTTCATTTCCATTCTCA
*
90398596 TTTCGTTTCATTTCCATTCTCA
1 TTTCATTTCATTTCCATTCTCA
*
90398618 TTCCTATTTCATTT
1 TTTC-ATTTCATTT
90398632 AAATTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 16 0.53
22 6 0.20
23 8 0.27
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTCATTTCATTTCCATTCTCA
Found at i:90398620 original size:6 final size:5
Alignment explanation
Indices: 90398575--90398631 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
90398565 TCACTTTTTT
* *
90398575 TTTCA TTTCA TTTTCA TTTCA TTTCG TTTCA TTTCCA TTCTCA TTCCTA
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTCA TTT-CA TT-TCA TTTC-A
90398624 TTTCA TTT
1 TTTCA TTT
90398632 AAATTATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 26 0.59
6 17 0.39
7 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:90398668 original size:38 final size:37
Alignment explanation
Indices: 90398626--90398706 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
90398616 CATTCCTATT
* *
90398626 TCATTTAAATTATATTTTTTTCAATTTAA-TTTTTTTTC
1 TCATTTAAATTATA-TTATCT-AATTTAATTTTTTTTTC
* * *
90398664 TCATTTCATTTATATTATCTATTTTAATTTTTTTTTC
1 TCATTTAAATTATATTATCTAATTTAATTTTTTTTTC
90398701 TCATTT
1 TCATTT
90398707 CATTTAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 6 0.16
37 19 0.51
38 12 0.32
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (37 bp):
TCATTTAAATTATATTATCTAATTTAATTTTTTTTTC
Found at i:90398697 original size:36 final size:37
Alignment explanation
Indices: 90398650--90398722 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
90398640 TTTTTTTCAA
* *
90398650 TTTAA-TTTTTTTTCTCATTTCATTTATATTATCTAT
1 TTTAATTTTTTTTTCTCATTTCATTTAAATCATCTAT
90398686 TTTAATTTTTTTTTCTCATTTCATTTAAATCATCTAT
1 TTTAATTTTTTTTTCTCATTTCATTTAAATCATCTAT
90398723 CTTTCCATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 5 0.15
37 29 0.85
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.64
Consensus pattern (37 bp):
TTTAATTTTTTTTTCTCATTTCATTTAAATCATCTAT
Found at i:90398763 original size:27 final size:28
Alignment explanation
Indices: 90398733--90399094 Score: 161
Period size: 27 Copynumber: 14.2 Consensus size: 28
90398723 CTTTCCATGC
90398733 AAATTAATTTTTTTTCTCAATTT-ATTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
*
90398760 AAATTAAATTTTTTTCTC-ATTTCATTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * *
90398787 AAATTTATCTTTCTT-TCAA--T--TTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* *
90398810 AATTTAA-TTTTTTTCTC-ATTTCTTTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * *
90398836 GAATTAATTTTTTTCCTC-ATTTCAATT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * *
90398863 AAATTTATCTTTCTT-TCAA--T--TTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
*
90398886 -AATATAA--TTTTTTCTCAGTTT-ATTT
1 AAAT-TAATTTTTTTTCTCAATTTCATTT
*
90398911 AAATTAATTTTTTTCCTC-ATTTCATTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * * * * *
90398938 CAATTTATCTTTCTT-TCAATTTTAATT
1 AAATTAATTTTTTTTCTCAATTTCATTT
*
90398965 ---TTAA--TTTTTTCTC-ATTTCTTTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
**
90398987 AAATTAA-AATTTTTCTTC-ATTTCATTT
1 AAATTAATTTTTTTTC-TCAATTTCATTT
* * *
90399014 AAATTTATCTTTCTT-TCAA--T--TTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
* * *
90399037 -AATTCAA-ATTTTGTCTC-ATTTCTTTT
1 AAATT-AATTTTTTTTCTCAATTTCATTT
*
90399063 AAATTAATTTTTTTCCTC-ATTTCATTT
1 AAATTAATTTTTTTTCTCAATTTCATTT
90399090 AAATT
1 AAATT
90399095 TTTCTTTCTT
Statistics
Matches: 249, Mismatches: 51, Indels: 70
0.67 0.14 0.19
Matches are distributed among these distances:
21 5 0.02
22 32 0.13
23 22 0.09
24 6 0.02
25 13 0.05
26 37 0.15
27 130 0.52
28 4 0.02
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.60
Consensus pattern (28 bp):
AAATTAATTTTTTTTCTCAATTTCATTT
Found at i:90398841 original size:76 final size:74
Alignment explanation
Indices: 90398693--90399178 Score: 556
Period size: 76 Copynumber: 6.5 Consensus size: 74
90398683 TATTTTAATT
* * * ** *
90398693 TTTTTTTCTCATTTCATTTAAA-TCATCTATCTTTCCA-TGCAAATTAATTTTTTTTCTCAATTT
1 TTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAA--TTTTTTCTC-ATTT
90398756 -ATTTAAATTAAA
63 CATTTAAATT-AA
*
90398768 TTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTTTTCTCATTTCT
1 TTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAA-TTTTTTCTCATTTCA
*
90398833 TTTGAATTAA
65 TTTAAATTAA
* *
90398843 TTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATATAATTTTTTCTCAGTTT-
1 TTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTTTCTCA-TTTC
90398907 ATTTAAATTAA
64 ATTTAAATTAA
*
90398918 TTTTTTTCCTCATTTCATTTCAATTTATCTTTCTTTCAATTTTAATTTTAATTTTTTCTCATTTC
1 TTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAA-TTTAATTTTTTCTCATTTC
*
90398983 TTTTAAATTAA
64 ATTTAAATTAA
** * *
90398994 AATTTTTCTTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATTTTGTCTCATTTC
1 TTTTTTTC-TCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATT-TAATTTTTTCTCATTTC
*
90399059 TTTTAAATTAA
64 ATTTAAATTAA
* * * * * *
90399070 TTTTTTTCCTCATTTCATTTAAATTTTTCTTTCTTTC-CTAGTAAATTTAAATTTTTCCTCAATT
1 TTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAAT-TTTAATTT-AATTTTTTCTCATTT
* *
90399134 CACTTATATT-A
63 CATTTAAATTAA
*
90399145 TTTTTTT-TCATTTCATTTAAA-TTATCTATCTTTC
1 TTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTC
90399179 CATGTAATTT
Statistics
Matches: 363, Mismatches: 36, Indels: 27
0.85 0.08 0.06
Matches are distributed among these distances:
72 11 0.03
73 14 0.04
75 112 0.31
76 218 0.60
77 8 0.02
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.60
Consensus pattern (74 bp):
TTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTTTCTCATTTCAT
TTAAATTAA
Found at i:90398865 original size:151 final size:148
Alignment explanation
Indices: 90398685--90399187 Score: 571
Period size: 151 Copynumber: 3.4 Consensus size: 148
90398675 ATATTATCTA
* * **
90398685 TTTTAATT--TTTTTTT-CTCATTTCATTTAAA-TCATCTATCTTTCCATGCAAATTAATTTTTT
1 TTTTAATTAATTTTTTTCCTCATTTCATTTAAATTTATCTATCTTTCAATGTTAATTAA--TTTT
90398746 TTCTCAATTTATTTAAATTAAATTTTTTT-CTCATTTCATTTAAATTTATCTTTCTTTCAATTTT
64 TTCTCAATTTATTTAAATT-AATTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAATTTT
90398810 AATTTAATTTTTTTCTCATTTC
128 AATTTAA-TTTTTTCTCATTTC
* * *
90398832 TTTTGAATTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATATAATTTT
1 TTTT-AATTAATTTTTTTCCTCATTTCATTTAAATTTATCTATCTTTCAATGTTAAT-TAATTTT
* *
90398897 TTCTCAGTTTATTTAAATTAATTTTTTTCCTCATTTCATTTCAATTTATCTTTCTTTCAATTTTA
64 TTCTCAATTTATTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTA
90398962 ATTTTAATTTTTTCTCATTTC
129 A-TTTAATTTTTTCTCATTTC
** * * *
90398983 TTTTAAATTAAAATTTTTCTTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATTT
1 TTTT-AATTAATTTTTTTCCTCATTTCATTTAAATTTATCTATCTTTCAATGTTAATT--AATTT
* * * * *
90399048 TGTCTC-ATTTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTTTCTTTCTTTC-CTAG
63 TTTCTCAATTT-ATTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAT-T
* * *
90399111 TAAATTTAAATTTTTCCTCAATTC
126 TTAATTT-AATTTTTTCTCATTTC
** *
90399135 ACTTATATT-ATTTTTTT--TCATTTCATTTAAA-TTATCTATCTTTCCATG-TAATT
1 TTTTA-ATTAATTTTTTTCCTCATTTCATTTAAATTTATCTATCTTTCAATGTTAATT
90399188 TTCATTTTCT
Statistics
Matches: 311, Mismatches: 31, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
147 9 0.03
148 18 0.06
149 14 0.05
150 17 0.05
151 152 0.49
152 98 0.32
153 3 0.01
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.60
Consensus pattern (148 bp):
TTTTAATTAATTTTTTTCCTCATTTCATTTAAATTTATCTATCTTTCAATGTTAATTAATTTTTT
CTCAATTTATTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAAT
TTAATTTTTTCTCATTTC
Found at i:90399030 original size:21 final size:22
Alignment explanation
Indices: 90398988--90399040 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
90398978 ATTTCTTTTA
* *
90398988 AATTAAAATTTTTCTTCATTTC
1 AATTTAAATTTATCTTCATTTC
90399010 -ATTTAAATTTATCTTTC-TTTC
1 AATTTAAATTTATC-TTCATTTC
*
90399031 AATTTTAATT
1 AATTTAAATT
90399041 CAAATTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTAAATTTATCTTCATTTC
Found at i:90399035 original size:22 final size:23
Alignment explanation
Indices: 90398979--90399040 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
90398969 TTTTTTCTCA
* * * *
90398979 TTTCTTTTAAATTAAAATTTTTC
1 TTTCATTTCAATTTAAATTTATC
90399002 -TTCATTTC-ATTTAAATTTATC
1 TTTCATTTCAATTTAAATTTATC
*
90399023 TTTC-TTTCAATTTTAATT
1 TTTCATTTCAATTTAAATT
90399041 CAAATTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTCATTTCAATTTAAATTTATC
Found at i:90399150 original size:227 final size:222
Alignment explanation
Indices: 90398693--90399203 Score: 643
Period size: 227 Copynumber: 2.3 Consensus size: 222
90398683 TATTTTAATT
* * * *
90398693 TTTTTTTCTCATTTCATTTAAATCATCTATCTTTCCATGCAA-ATTAATTTTTTTTCTCAATTTA
1 TTTTTTT-TCATTTCATTTAAATTATCTATCTTTCAATGTAATTTTAA--TTTTTTCTC-ATTTA
* * *
90398757 TTTAAATTAAATTTTTTTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTTAATTTTT
62 TTTAAATTAAATTTTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATTTT
* * * *
90398822 TTCTCATTTCTTTTGAATTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTA
127 GTCTCATTTCTTTTAAATTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATGTAA
* * * *
90398887 ATATAATTTTTTCTCAGTTTATTTAAATTAA
192 ATATAATTTTTCCTCAATTCACTTAAATTAA
* * *
90398918 TTTTTTTCCTCATTTCATTTCAATTTATCTTTCTTTCAATTTTAATTTTAATTTTTTCTCATTTC
1 TTTTTTT--TCATTTCATTT-AAATTATCTATCTTTCAA-TGTAATTTTAATTTTTTCTCATTT-
*
90398983 TTTTAAATTAAAATTTTTCT-TCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATT
61 ATTTAAATT-AAATTTTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATT
* * *
90399047 TTGTCTCATTTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTTTCTTTCTTTC-CTAG
125 TTGTCTCATTTCTTTTAAATTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAAT-G
* *
90399111 TAAATTTAAATTTTTCCTCAATTCACTTATATT-A
189 TAAATAT-AATTTTTCCTCAATTCACTTAAATTAA
* *
90399145 TTTTTTTTCATTTCATTTAAATTATCTATCTTTCCATGTAATTTTCATTTTCTTCTCAT
1 TTTTTTTTCATTTCATTTAAATTATCTATCTTTCAATGTAATTTTAATTTT-TTCTCAT
90399204 ACCATTTATC
Statistics
Matches: 248, Mismatches: 29, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
223 13 0.05
224 22 0.09
225 18 0.07
226 17 0.07
227 142 0.57
228 32 0.13
229 4 0.02
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.59
Consensus pattern (222 bp):
TTTTTTTTCATTTCATTTAAATTATCTATCTTTCAATGTAATTTTAATTTTTTCTCATTTATTTA
AATTAAATTTTTCTCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATTTTGTCT
CATTTCTTTTAAATTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATGTAAATAT
AATTTTTCCTCAATTCACTTAAATTAA
Found at i:90402430 original size:115 final size:108
Alignment explanation
Indices: 90402194--90402794 Score: 676
Period size: 115 Copynumber: 5.4 Consensus size: 108
90402184 AGAATGAAAA
* * *
90402194 ATTGGAACACGAAAAAATTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAAAATTTTTTT-TTA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACC-AATTTTTTTTATTA
* * **
90402258 CTGGTCTGGTGCCGGCAATCAGTGTAGAAAAGTAAAAAAATTTAA
65 -TGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAATTTGC
* *
90402303 ATTGGGACACGAAAAAAGTCCCTGGTGCCGGCCATTAGAAGGCCAAAACCAATTTTTTTTTGAAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAA-TTTTTTTT----
* *
90402368 AATTACTGGTCTAGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTGC
61 -ATTA-TGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAATTTGC
* * * *
90402418 ATTGGGAGACGAAAAAAGTCCCTAGTGCCGACCATTAAAAGGCCAAGAACGAATTTTTTTTAAAT
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCC-AGAACCAATTTTTTTT--AT
* *
90402483 TATTGGTTTGGTGCTGACCATCAGTGTAGAAAAGTAAAAAAAAAAATTTGC
63 TA-TGGTCTGGTGCTGGCCATCAGTGTAGAAAAGT----AAAAAAATTTGC
* * * *
90402534 ATTGGGACACGAAAAAAGTCCTTGGTGCCGGCCATTAAAAGGCTAGAACCAAATTTTTTTTA-T-
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACC-AATTTTTTTTATTA
* *
90402597 TGGTTTGGTG-TCGGCCATTAGTGTAGAAAAGTAAAAATAATTTGC
65 TGGTCTGGTGCT-GGCCATCAGTGTAGAAAAGTAAAAA-AATTTGC
* * * ** * *
90402642 ATTGGGAAACAAAAAAAGTCCCTGGTGCTAGCCATTAGAAGGCTAGAA-CAA-ATTTTTT-TTAT
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAATTTTTTTTATTAT
*
90402704 GGTCTGGTGTTGGCCATCAGTGTAGAAAAGTAAAAAAATTTGC
66 GGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAATTTGC
* *
90402747 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCTAGAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAA
90402795 TAAAAAAAAA
Statistics
Matches: 429, Mismatches: 45, Indels: 40
0.83 0.09 0.08
Matches are distributed among these distances:
105 56 0.13
106 35 0.08
107 7 0.02
108 51 0.12
109 53 0.12
110 1 0.00
111 28 0.07
112 35 0.08
113 1 0.00
114 1 0.00
115 95 0.22
116 66 0.15
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (108 bp):
ATTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCCAGAACCAATTTTTTTTATTAT
GGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAATTTGC
Found at i:90407655 original size:74 final size:74
Alignment explanation
Indices: 90407534--90407682 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
90407524 CCATAGTTAT
*
90407534 TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATGAAGAAAACAATGGTT
1 TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATAAAGAAAACAATGGTT
90407599 CAATCATGA
66 CAATCATGA
90407608 TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATAAAGAAAACAATGGTT
1 TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATAAAGAAAACAATGGTT
90407673 CAATCATGA
66 CAATCATGA
90407682 T
1 T
90407683 CCTCTTACTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.28
Consensus pattern (74 bp):
TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATAAAGAAAACAATGGTT
CAATCATGA
Found at i:90420386 original size:19 final size:21
Alignment explanation
Indices: 90420352--90420392 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
90420342 ATTGGATGGA
90420352 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
90420373 TCAGCT-TT-CGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
90420392 T
1 T
90420393 GGCATATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:90424860 original size:43 final size:44
Alignment explanation
Indices: 90424799--90424893 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 44
90424789 AATGCCAACA
* * *
90424799 TCCCAGAC-GTGGTCTTACATGTAAT-TCAGTATCGAAGCCTCTG
1 TCCCAGACAGTGGTCTTACACGAAATCTCA-AATCGAAGCCTCTG
* *
90424842 TCCCAGACAG-GGTCTTACACGAAATCTCAAATCGAGGCCTGTG
1 TCCCAGACAGTGGTCTTACACGAAATCTCAAATCGAAGCCTCTG
90424885 TCCCAGACA
1 TCCCAGACA
90424894 CGGTATTGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 41 0.91
44 4 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (44 bp):
TCCCAGACAGTGGTCTTACACGAAATCTCAAATCGAAGCCTCTG
Found at i:90430807 original size:31 final size:31
Alignment explanation
Indices: 90430766--90430835 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
90430756 AATGATGCTT
*
90430766 TAATAAGTAAGACAAAAAATGATTTAGACTC
1 TAATGAGTAAGACAAAAAATGATTTAGACTC
90430797 TAATGAGTAAGACAAAAAATGATTTAGACTC
1 TAATGAGTAAGACAAAAAATGATTTAGACTC
90430828 TAATGAGT
1 TAATGAGT
90430836 CTTCACTGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (31 bp):
TAATGAGTAAGACAAAAAATGATTTAGACTC
Found at i:90430825 original size:16 final size:16
Alignment explanation
Indices: 90430775--90430825 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
90430765 TTAATAAGTA
90430775 AGACAAAAAATGATTT
1 AGACAAAAAATGATTT
*** * *
90430791 AGAC-TCTAATGAGTA
1 AGACAAAAAATGATTT
90430806 AGACAAAAAATGATTT
1 AGACAAAAAATGATTT
90430822 AGAC
1 AGAC
90430826 TCTAATGAGT
Statistics
Matches: 24, Mismatches: 10, Indels: 2
0.67 0.28 0.06
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.24
Consensus pattern (16 bp):
AGACAAAAAATGATTT
Found at i:90434428 original size:5 final size:5
Alignment explanation
Indices: 90434418--90434498 Score: 55
Period size: 5 Copynumber: 16.0 Consensus size: 5
90434408 CCCTTTCCAT
* *
90434418 TTTTA TTTTA TTTTA TTTTA TCCTTA TTATTA TTTT- TCTTTC TTTCT-
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TT-TTA TTTTA T-TTTA TTT-TA
90434465 TTATT- TTTTA TTTTA TTATTA -TTT- TTTTA TTTTA
1 TT-TTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA
90434499 AAGTATTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
4 8 0.12
5 41 0.64
6 15 0.23
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:90434505 original size:21 final size:19
Alignment explanation
Indices: 90434468--90434511 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
90434458 TCTTTCTTTA
*
90434468 TTTTTTATTTTATTATTAT
1 TTTTTTATTTTAGTATTAT
90434487 TTTTTTATTTTAAAGTATTAT
1 TTTTTTATTTT--AGTATTAT
90434508 TTTT
1 TTTT
90434512 ACTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTATTTTAGTATTAT
Found at i:90437039 original size:45 final size:44
Alignment explanation
Indices: 90436949--90437079 Score: 165
Period size: 45 Copynumber: 3.0 Consensus size: 44
90436939 CCGAATTTAT
* * * *
90436949 TCACCGGCATT-TTGCCTGCTAGGCTCGAGGCCCGAAAAATATC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
** * *
90436992 TCACTGGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCAGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAATATC
90437037 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 TCACCAGCATTATAGCCTGCTAGGCT-CAAGGCCCGAATAATA
90437080 CTGTACAACA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
43 10 0.13
44 13 0.17
45 51 0.68
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (44 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
Found at i:90443642 original size:44 final size:45
Alignment explanation
Indices: 90443588--90443673 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
90443578 CCGAATTTAT
* *
90443588 TCACCGGCATT-TTGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
*
90443632 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAAT
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT
90443674 ACTGTACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 10 0.26
45 28 0.74
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
Found at i:90444688 original size:26 final size:30
Alignment explanation
Indices: 90444648--90444723 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 30
90444638 AGGATCATTG
90444648 ATTTTATTTGT-TTTCT-TTTTTA-T-TT-T
1 ATTTTATTT-TATTTCTCTTTTTAGTGTTCT
90444674 ATTTTATTTTATTTCTCTTTTTAGTTGTTCT
1 ATTTTATTTTATTTCTCTTTTTAG-TGTTCT
90444705 ATTTTATTTTTATTT-TCTT
1 ATTTTA-TTTTATTTCTCTT
90444724 GTACTTCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
25 1 0.02
26 14 0.33
27 6 0.14
29 1 0.02
30 2 0.05
31 11 0.26
32 8 0.19
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (30 bp):
ATTTTATTTTATTTCTCTTTTTAGTGTTCT
Found at i:90452997 original size:58 final size:58
Alignment explanation
Indices: 90452922--90453041 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 58
90452912 TGGTTCATAT
90452922 TAAAATAATGTTAATTTTATAGGAATTTAAATTTTTATGGAAAA-ACAAAAATTGATGA
1 TAAAATAATGTTAATTTTATAGGAATTTAAATTTTTATGGAAAACA-AAAAATTGATGA
* *
90452980 TAAAATAATTTTCATTTTATAGGAATTTAAATTTTTATGGAAAACAAAAAATTGATGA
1 TAAAATAATGTTAATTTTATAGGAATTTAAATTTTTATGGAAAACAAAAAATTGATGA
90453038 -AAAA
1 TAAAA
90453042 GTAAAATCAC
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
57 4 0.07
58 54 0.92
59 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.38
Consensus pattern (58 bp):
TAAAATAATGTTAATTTTATAGGAATTTAAATTTTTATGGAAAACAAAAAATTGATGA
Found at i:90453164 original size:17 final size:17
Alignment explanation
Indices: 90453138--90453180 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
90453128 AAAAATTATC
*
90453138 AAATAGAATTGATTTCAA
1 AAATA-AATTAATTTCAA
* *
90453156 AATTAAATTAATTTGAA
1 AAATAAATTAATTTCAA
90453173 AAATAAAT
1 AAATAAAT
90453181 AAAAATATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (17 bp):
AAATAAATTAATTTCAA
Found at i:90456767 original size:34 final size:34
Alignment explanation
Indices: 90456700--90456790 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 34
90456690 TTTCAGTTAG
* * *
90456700 GTGCCTTAGCCCCTCTTTTAGTAGCAGTAGTAGTTT
1 GTGCCTTAG-CCC-ATTTCAGTAACAGTAGTAGTTT
* *
90456736 G-GGCTTGAGCCCATTTCAGTAACAGTGGTAGTTT
1 GTGCCTT-AGCCCATTTCAGTAACAGTAGTAGTTT
*
90456770 GTGCCTTAGCCTATTTCAGTA
1 GTGCCTTAGCCCATTTCAGTA
90456791 CAATATGCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
34 32 0.70
35 11 0.24
36 3 0.07
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (34 bp):
GTGCCTTAGCCCATTTCAGTAACAGTAGTAGTTT
Found at i:90457639 original size:17 final size:18
Alignment explanation
Indices: 90457599--90457639 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
90457589 CTATGGTCAA
*
90457599 CCAAAACCTCTCATTAGT
1 CCAAAACCTCTCATTAAT
*
90457617 CTAAAACC-CTCATTAAT
1 CCAAAACCTCTCATTAAT
90457634 CCAAAA
1 CCAAAA
90457640 ACATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.24
Consensus pattern (18 bp):
CCAAAACCTCTCATTAAT
Found at i:90463970 original size:21 final size:20
Alignment explanation
Indices: 90463946--90463984 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
90463936 GAGTATTTTT
90463946 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
90463967 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
90463985 ACAAGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:90464606 original size:48 final size:48
Alignment explanation
Indices: 90464535--90464677 Score: 205
Period size: 48 Copynumber: 3.0 Consensus size: 48
90464525 ATTAGGGGAA
* * * *
90464535 ACATTAAGTTGGCTTCGAGCCATGACATTGGCACTTCGGGTGCAAGTT
1 ACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCAAGAT
**
90464583 ACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGAT
1 ACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCAAGAT
* * *
90464631 ACATTGATTTGGCTTCGGGCCATGATATTGGTACTTAGGGTGCAAGA
1 ACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCAAGA
90464678 CTCCCGAGTA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (48 bp):
ACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCAAGAT
Found at i:90466464 original size:43 final size:42
Alignment explanation
Indices: 90466310--90466465 Score: 177
Period size: 43 Copynumber: 3.6 Consensus size: 42
90466300 TATTGAGATG
* * *
90466310 TGATTACATGTAAGACCATGTCTGGAACATTGGAATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA-TA
* *
90466353 TGATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTATAA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-A
* * * * *
90466396 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATA
* *
90466439 TGATAACATGTAAGACCATATCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
90466466 TATGGCACTG
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 92 0.96
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:90471834 original size:25 final size:25
Alignment explanation
Indices: 90471806--90471860 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
90471796 GATTTAAAGA
90471806 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
90471831 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
90471856 ATTCG
1 ATTCG
90471861 TTATTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:90472091 original size:40 final size:40
Alignment explanation
Indices: 90472024--90472184 Score: 259
Period size: 40 Copynumber: 4.0 Consensus size: 40
90472014 GATTACACAT
* * * * *
90472024 CACCGGCACGAATGCCCTTCAGCACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
90472064 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
90472104 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
90472144 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
90472184 C
1 C
90472185 TCTCAATTCT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:90486331 original size:47 final size:47
Alignment explanation
Indices: 90486258--90486351 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
90486248 ACAACCAAAG
90486258 ACGTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
1 ACGTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
*
90486305 ACGTATGGCATCATCAGAAACGCCATTGATTTTAAATGTATCGCATA
1 ACGTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
90486352 GTTCCAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (47 bp):
ACGTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
Found at i:90492336 original size:21 final size:20
Alignment explanation
Indices: 90492312--90492350 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
90492302 GAGTATTTTT
90492312 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
90492333 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
90492351 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:90492967 original size:48 final size:48
Alignment explanation
Indices: 90492894--90493036 Score: 205
Period size: 48 Copynumber: 3.0 Consensus size: 48
90492884 CATTAGGGGA
* * * **
90492894 TACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTTGGGTGTGAGT
1 TACATTGAGTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAGT
** *
90492942 TACATTGAGTTGGCTTTTGGTCATGATATTGGCACTTCGGGTGCAAGT
1 TACATTGAGTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAGT
*
90492990 TACATTGATTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAG
1 TACATTGAGTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAG
90493037 ACTCTCAAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.36
Consensus pattern (48 bp):
TACATTGAGTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAGT
Found at i:90502817 original size:40 final size:40
Alignment explanation
Indices: 90502733--90502916 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
90502723 TTGAATGCTG
* * * *
90502733 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
90502772 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
90502813 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
90502853 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
90502893 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
90502917 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:90502870 original size:80 final size:81
Alignment explanation
Indices: 90502733--90502913 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
90502723 TTGAATGCTG
* * *
90502733 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
90502797 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
90502813 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
90502874 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
90502893 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
90502914 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:90502937 original size:39 final size:38
Alignment explanation
Indices: 90502814--90502963 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
90502804 GTTATTAATT
* ** * *
90502814 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
90502854 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
90502893 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
90502933 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
90502964 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:90507131 original size:129 final size:130
Alignment explanation
Indices: 90506901--90507170 Score: 499
Period size: 129 Copynumber: 2.1 Consensus size: 130
90506891 GGAAACCTCC
* *
90506901 GAGAAATATTACTGAAGTTCGGAGCTTTTTGGGGCTCGCCGGTTTATTACCGACGATTTGTGAAA
1 GAGAAATGTCACTGAAGTTCGGAGCTTTTTGGGGCTCGCCGGTTTATTACCGACGATTTGTGAAA
90506966 GGTTTTCGATGATAGCCACACCAATGACGAAGCTACTTC-AAAGGATGTTAAGTTCGAGTGGACG
66 GGTTTTCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAGTGGACG
90507030 GAGAAATGTCACTGAAGTTCGGAGCTTTTTGGGGCTCGCCGG-TTATTACCGACGATTTGTGAAA
1 GAGAAATGTCACTGAAGTTCGGAGCTTTTTGGGGCTCGCCGGTTTATTACCGACGATTTGTGAAA
90507094 GGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAGTGGAC
66 GGTTT-TCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAGTGGAC
90507159 G
130 G
90507160 GAGAAATGTCA
1 GAGAAATGTCA
90507171 GAAAAGTTCG
Statistics
Matches: 137, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
128 27 0.20
129 74 0.54
130 36 0.26
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (130 bp):
GAGAAATGTCACTGAAGTTCGGAGCTTTTTGGGGCTCGCCGGTTTATTACCGACGATTTGTGAAA
GGTTTTCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAGTGGACG
Found at i:90508253 original size:99 final size:101
Alignment explanation
Indices: 90508081--90508281 Score: 336
Period size: 99 Copynumber: 2.0 Consensus size: 101
90508071 AGATTCACCT
* *
90508081 CACGATTTTGGAAGAAATGCAAGAAGCTCTGGGTACCAAGCTGCATTTTAGCACTGCTTTCACCC
1 CACGATTTTGGAAGAAATGCAAGAAGCTCTGGGTACCAAGCTACACTTTAGCACTGCTTTCACCC
90508146 CAAACCGATGGTCAATCCGAGCGGATAATTC-GATA
66 CAAACCGATGGTCAATCCGAGCGGATAATTCAGATA
*
90508181 CACGATTTTGGAAGAAATTGCAAG-AGCTCT-GGTACCAAGCTACACTTTAGCACTGCTTTTACC
1 CACGATTTTGGAAGAAA-TGCAAGAAGCTCTGGGTACCAAGCTACACTTTAGCACTGCTTTCACC
*
90508244 CCCAACCGATGGTCAATCCGAGCGGATAATTCAGATA
65 CCAAACCGATGGTCAATCCGAGCGGATAATTCAGATA
90508281 C
1 C
90508282 TTGAGGATAT
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
99 61 0.64
100 28 0.29
101 6 0.06
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (101 bp):
CACGATTTTGGAAGAAATGCAAGAAGCTCTGGGTACCAAGCTACACTTTAGCACTGCTTTCACCC
CAAACCGATGGTCAATCCGAGCGGATAATTCAGATA
Found at i:90510637 original size:40 final size:40
Alignment explanation
Indices: 90510532--90510714 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
90510522 TTGAATGCTG
* * * *
90510532 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
90510571 ATCCGGACTAAGAT-CCGAA-GTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
90510611 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
90510651 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
90510691 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
90510715 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 21 0.17
40 98 0.81
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:90510668 original size:79 final size:81
Alignment explanation
Indices: 90510532--90510711 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
90510522 TTGAATGCTG
* * *
90510532 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAA-GTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
90510595 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
90510611 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
90510672 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
90510691 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
90510712 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 2 0.02
79 41 0.47
80 45 0.51
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:90513614 original size:41 final size:41
Alignment explanation
Indices: 90513542--90513726 Score: 123
Period size: 41 Copynumber: 4.5 Consensus size: 41
90513532 AATACTCGAT
* *
90513542 ATCTCGCACACTAAGTGCCAAAACATATCGAAGGTAT-TATA
1 ATCTCGCACACTAAGTGCCAAAACATATCGAAGCTATCT-CA
*** *
90513583 ATCTCGCACACTAAGTGCC-TTTCATAGTCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCAAAACATA-TCGAAGCTATCTCA
* * *
90513624 ATCTCGCACACTAAGTGCC-ATATATATCCGAAGTTAT-TCCA
1 ATCTCGCACACTAAGTGCCAAAACATAT-CGAAGCTATCT-CA
* * * * *
90513665 ATAT-GCACACTAAGTGCTATATATATAGCTGAAGCTATCTCGA
1 ATCTCGCACACTAAGTGCCA-AAACATATC-GAAGCTATCTC-A
*
90513708 A--ACGCACACTAAGTGCCAA
1 ATCTCGCACACTAAGTGCCAA
90513727 TCATAGTCGA
Statistics
Matches: 117, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
40 19 0.16
41 65 0.56
42 30 0.26
43 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCAAAACATATCGAAGCTATCTCA
Found at i:90513631 original size:82 final size:84
Alignment explanation
Indices: 90513542--90513726 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 84
90513532 AATACTCGAT
* *
90513542 ATCTCGCACACTAAGTGCCAAAACATAT-CGAAGGTATTATAATCTCGCACACTAAGTGCCT-T-
1 ATCTCGCACACTAAGTGCCAAAACATATCCGAAGGTATTACAATAT-GCACACTAAGTG-CTATA
90513604 T-CATAG-TCGAAGCTATCTCG
64 TACATAGCT-GAAGCTATCTCG
* * * *
90513624 ATCTCGCACACTAAGTGCC-ATATATATCCGAAGTTATTCCAATATGCACACTAAGTGCTATATA
1 ATCTCGCACACTAAGTGCCAAAACATATCCGAAGGTATTACAATATGCACACTAAGTGCTATATA
*
90513688 TATAGCTGAAGCTATCTCG
66 CATAGCTGAAGCTATCTCG
**
90513707 A-AACGCACACTAAGTGCCAA
1 ATCTCGCACACTAAGTGCCAA
90513727 TCATAGTCGA
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
80 2 0.02
81 19 0.22
82 48 0.55
83 18 0.20
84 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (84 bp):
ATCTCGCACACTAAGTGCCAAAACATATCCGAAGGTATTACAATATGCACACTAAGTGCTATATA
CATAGCTGAAGCTATCTCG
Found at i:90513715 original size:42 final size:40
Alignment explanation
Indices: 90513587--90513725 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 40
90513577 ATTATAATCT
* **
90513587 CGCACACTAAGTGCC-TTTCATAGT-CGAAGCTATCTCGATCT
1 CGCACACTAAGTGCCATAT-ATA-TCCGAAGCTATCTCGA-AA
* *
90513628 CGCACACTAAGTGCCATATATATCCGAAGTTAT-TCCAATA
1 CGCACACTAAGTGCCATATATATCCGAAGCTATCTCGAA-A
* * *
90513668 TGCACACTAAGTGCTATATATATAGCTGAAGCTATCTCGAAA
1 CGCACACTAAGTGCCATATATAT--CCGAAGCTATCTCGAAA
90513710 CGCACACTAAGTGCCA
1 CGCACACTAAGTGCCA
90513726 ATCATAGTCG
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
40 25 0.31
41 26 0.32
42 25 0.31
43 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATATCCGAAGCTATCTCGAAA
Found at i:90516731 original size:35 final size:35
Alignment explanation
Indices: 90516692--90516762 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
90516682 AAAATGAATG
90516692 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
1 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
* *
90516727 TTGTAAAAATCTTGGTTTTGAGGTTTTTGTATCTT
1 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
90516762 T
1 T
90516763 CATAGAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.06, G:0.18, T:0.54
Consensus pattern (35 bp):
TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
Found at i:90522640 original size:30 final size:30
Alignment explanation
Indices: 90522605--90522740 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
90522595 ACACCCATGA
*
90522605 GCTGACCAACACCAGGATTGCTGATGTGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
* * *
90522635 GCTGACCAACTCCGGGATAGCTAAT-TAGTT
1 GCTGACCAACACCAGGATAGCTGATGT-GTT
* *
90522665 GCTGACCAACACCAGGATTGTTGATGTGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
* * *
90522695 GCTGACCAACTCCGGGATAGCTGATGAGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
*
90522725 GCTGACCAACCCCAGG
1 GCTGACCAACACCAGG
90522741 GTTATTGAGG
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
29 1 0.01
30 86 0.98
31 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.24
Consensus pattern (30 bp):
GCTGACCAACACCAGGATAGCTGATGTGTT
Found at i:90522676 original size:60 final size:60
Alignment explanation
Indices: 90522605--90522740 Score: 236
Period size: 60 Copynumber: 2.3 Consensus size: 60
90522595 ACACCCATGA
*
90522605 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATTAGTT
1 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
* *
90522665 GCTGACCAACACCAGGATTGTTGATGTGTTGCTGACCAACTCCGGGATAGCTGATGAGTT
1 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
*
90522725 GCTGACCAACCCCAGG
1 GCTGACCAACACCAGG
90522741 GTTATTGAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.24
Consensus pattern (60 bp):
GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
Found at i:90523683 original size:21 final size:21
Alignment explanation
Indices: 90523657--90523699 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
90523647 GGTTCGCTGT
*
90523657 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
90523678 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
90523699 A
1 A
90523700 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:90523699 original size:16 final size:16
Alignment explanation
Indices: 90523680--90523712 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
90523670 TGTATTGGAT
*
90523680 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
90523696 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
90523712 T
1 T
90523713 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:90523757 original size:45 final size:44
Alignment explanation
Indices: 90523691--90523785 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
90523681 GGATTAGAGG
* *
90523691 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
90523736 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
90523780 TGTAAT
1 TGTAAT
90523786 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:90523968 original size:18 final size:17
Alignment explanation
Indices: 90523947--90523981 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90523937 TTATTATTTA
*
90523947 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
90523965 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
90523982 GGTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:90523975 original size:28 final size:27
Alignment explanation
Indices: 90523905--90523977 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
90523895 TTTATTATCA
*
90523905 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
90523933 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
90523960 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
90523978 AAATGGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:90524094 original size:144 final size:147
Alignment explanation
Indices: 90523866--90524137 Score: 469
Period size: 144 Copynumber: 1.9 Consensus size: 147
90523856 ATGATTATTG
90523866 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
90523931 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATGGTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGC
90523996 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
90524015 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
*
90524077 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTA
90524138 ATATTCTTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
144 90 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:90524112 original size:18 final size:17
Alignment explanation
Indices: 90524091--90524125 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90524081 TTATTATTAA
*
90524091 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
90524109 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
90524126 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:90528513 original size:11 final size:11
Alignment explanation
Indices: 90528497--90528522 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90528487 TAAGGTTAAT
90528497 ATTTTAGTTTC
1 ATTTTAGTTTC
90528508 ATTTTAGTTTC
1 ATTTTAGTTTC
90528519 ATTT
1 ATTT
90528523 CTACTATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (11 bp):
ATTTTAGTTTC
Found at i:90534641 original size:41 final size:41
Alignment explanation
Indices: 90534596--90534728 Score: 151
Period size: 41 Copynumber: 3.2 Consensus size: 41
90534586 ACAAAGGCTA
* * * *
90534596 CTAGGCTTAAGGCCTAATT-TTATACACTGACACGAAGTCTG
1 CTAGGCTCAAGGCCTAATTCAT-TACACCGACACGAAGCCTG
* *
90534637 CTAGGCTCAAAGCCTAATTCATTACACCGACATGAAGCCTG
1 CTAGGCTCAAGGCCTAATTCATTACACCGACACGAAGCCTG
* * * *
90534678 CTAGGCTCAAGGCCTAAATCGTTACACCGACACAAAACCTG
1 CTAGGCTCAAGGCCTAATTCATTACACCGACACGAAGCCTG
*
90534719 CTAGGTTCAA
1 CTAGGCTCAA
90534729 AACCTGATAC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 77 0.99
42 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (41 bp):
CTAGGCTCAAGGCCTAATTCATTACACCGACACGAAGCCTG
Found at i:90536031 original size:21 final size:20
Alignment explanation
Indices: 90536007--90536058 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
90535997 CCATAACATG
*
90536007 AAATTTGGATTAAATTGAGTA
1 AAATTTGGATTAAAAT-AGTA
* * *
90536028 AAATATGAATTAAAATAGTT
1 AAATTTGGATTAAAATAGTA
90536048 AAATTT-GATTA
1 AAATTTGGATTA
90536059 TATAGTTCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 13 0.52
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
AAATTTGGATTAAAATAGTA
Found at i:90536900 original size:14 final size:14
Alignment explanation
Indices: 90536881--90536934 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
90536871 TTAAAGCAAG
90536881 AATTAAGAACACAT
1 AATTAAGAACACAT
*
90536895 AATTAAGAATAAGAACA-
1 AATTAAG---AA-CACAT
90536912 AATTAAGAACACAT
1 AATTAAGAACACAT
90536926 AATTAAGAA
1 AATTAAGAA
90536935 TAAGAACAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
13 3 0.09
14 18 0.55
17 9 0.27
18 3 0.09
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.20
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:90536916 original size:31 final size:31
Alignment explanation
Indices: 90536881--90536943 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
90536871 TTAAAGCAAG
90536881 AATTAAGAACACATAATTAAGAATAAGAACA
1 AATTAAGAACACATAATTAAGAATAAGAACA
90536912 AATTAAGAACACATAATTAAGAATAAGAACA
1 AATTAAGAACACATAATTAAGAATAAGAACA
90536943 A
1 A
90536944 GTATTTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (31 bp):
AATTAAGAACACATAATTAAGAATAAGAACA
Found at i:90542768 original size:10 final size:10
Alignment explanation
Indices: 90542753--90542782 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
90542743 CTCTATTCTC
90542753 TTGTTATTTA
1 TTGTTATTTA
90542763 TTGTTATTTA
1 TTGTTATTTA
90542773 TTGTTTATTT
1 TTG-TTATTT
90542783 GAATGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (10 bp):
TTGTTATTTA
Found at i:90544415 original size:16 final size:15
Alignment explanation
Indices: 90544387--90544422 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
90544377 TTAAACTTAC
*
90544387 TTTTTTTTTATTTTA
1 TTTTTTTTAATTTTA
90544402 TTTTTCTTTAATTTTA
1 TTTTT-TTTAATTTTA
90544418 TTTTT
1 TTTTT
90544423 ACTACATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTTAATTTTA
Found at i:90546398 original size:25 final size:25
Alignment explanation
Indices: 90546364--90546415 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
90546354 TCCGTACACT
90546364 TAGTGCCATCTCAAATAACCGAGAC
1 TAGTGCCATCTCAAATAACCGAGAC
90546389 TAGTGCCATCTCAAATAACCGAGAC
1 TAGTGCCATCTCAAATAACCGAGAC
90546414 TA
1 TA
90546416 AGTCAGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (25 bp):
TAGTGCCATCTCAAATAACCGAGAC
Found at i:90546494 original size:30 final size:29
Alignment explanation
Indices: 90546448--90546514 Score: 116
Period size: 30 Copynumber: 2.3 Consensus size: 29
90546438 CCTCAAGTAA
90546448 CCAAAGCTAGTTAAATCGCACACCTAGTG
1 CCAAAGCTAGTTAAATCGCACACCTAGTG
*
90546477 CCAAAGCTAGTTTAAATCGCACACTTAGTG
1 CCAAAGCTAG-TTAAATCGCACACCTAGTG
90546507 CCAAAGCT
1 CCAAAGCT
90546515 TCCGATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (29 bp):
CCAAAGCTAGTTAAATCGCACACCTAGTG
Found at i:90552944 original size:23 final size:22
Alignment explanation
Indices: 90552908--90552954 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
90552898 GAACATGATA
* *
90552908 AATAAAAAATAAAAATAAAAAC
1 AATAAAAAAGAAAAAGAAAAAC
*
90552930 AATAGAAAAAGAAAACGAAAAAC
1 AATA-AAAAAGAAAAAGAAAAAC
90552953 AA
1 AA
90552955 AGTGAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (22 bp):
AATAAAAAAGAAAAAGAAAAAC
Found at i:90559387 original size:191 final size:190
Alignment explanation
Indices: 90559064--90559426 Score: 717
Period size: 191 Copynumber: 1.9 Consensus size: 190
90559054 ATAAACATAT
90559064 CCCACATGGTACAGTCGAGGTAACACATACTAAATTCAGAACTTTTAAGTAAATAATACTCGACT
1 CCCACATGGTACAGTCGAGGTAACACATACTAAATTCAGAACTTTTAAGTAAATAATACTCGACT
90559129 CAGACCTTATTTTGATAAAATTGATAGCAGAAGTGAGGAGTTTGAACTCCTCAATCCATCGTAAT
66 CAGACCTTATTTTGATAAAATTGATAGCAGAAGTGAGGAGTTTGAACTCCTCAATCCATCGTAAT
90559194 CATGCGAATGAGAGGTAAGTCGAGCTTAGACTCTAAATAAGCTTTTCTCGGGAGGCAACC
131 CATGCGAATGAGAGGTAAGTCGAGCTTAGACTCTAAATAAGCTTTTCTCGGGAGGCAACC
90559254 CCCACATGGTACAGTCGAGGTAACACATACTAAATTCAGAACTTTTAAGGTAAATAATACTCGAC
1 CCCACATGGTACAGTCGAGGTAACACATACTAAATTCAGAACTTTTAA-GTAAATAATACTCGAC
90559319 TCAGACCTTATTTTGATAAAATTGATAGCAGAAGTGAGGAGTTTGAACTCCTCAATCCATCGTAA
65 TCAGACCTTATTTTGATAAAATTGATAGCAGAAGTGAGGAGTTTGAACTCCTCAATCCATCGTAA
90559384 TCATGCGAATGAGAGGTAAGTCGAGCTTAGACTCTAAATAAGC
130 TCATGCGAATGAGAGGTAAGTCGAGCTTAGACTCTAAATAAGC
90559427 AATAACAACA
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
190 48 0.28
191 124 0.72
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (190 bp):
CCCACATGGTACAGTCGAGGTAACACATACTAAATTCAGAACTTTTAAGTAAATAATACTCGACT
CAGACCTTATTTTGATAAAATTGATAGCAGAAGTGAGGAGTTTGAACTCCTCAATCCATCGTAAT
CATGCGAATGAGAGGTAAGTCGAGCTTAGACTCTAAATAAGCTTTTCTCGGGAGGCAACC
Found at i:90562374 original size:12 final size:13
Alignment explanation
Indices: 90562357--90562394 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
90562347 ATCCTGGAAT
90562357 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
90562369 ATTAAGAACATATA
1 ATTAAGAACA-AGA
90562383 ATTAAGAACAAG
1 ATTAAGAACAAG
90562395 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:90574331 original size:40 final size:40
Alignment explanation
Indices: 90574187--90574331 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 40
90574177 TACTCGAATG
* *
90574187 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * * *
90574228 ACATCCGGACTAAGATCCGAAGGTATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * * *
90574268 ATGTCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
90574308 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
90574332 CTTGTGCGAG
Statistics
Matches: 86, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 59 0.69
41 27 0.31
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:90577157 original size:13 final size:13
Alignment explanation
Indices: 90577139--90577163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90577129 GTCGTGTGGT
90577139 TCGCACGGCCGTA
1 TCGCACGGCCGTA
90577152 TCGCACGGCCGT
1 TCGCACGGCCGT
90577164 GGCTCGTTAT
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:0.12, C:0.40, G:0.32, T:0.16
Consensus pattern (13 bp):
TCGCACGGCCGTA
Found at i:90583552 original size:27 final size:27
Alignment explanation
Indices: 90583515--90583719 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
90583505 TAAATTGTAC
90583515 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
90583542 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90583569 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90583595 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90583623 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90583651 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90583678 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90583705 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90583720 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90583654 original size:109 final size:108
Alignment explanation
Indices: 90583516--90583719 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
90583506 AAATTGTACA
* *
90583516 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
90583581 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
90583624 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
90583689 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
90583720 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:90591841 original size:27 final size:27
Alignment explanation
Indices: 90591804--90592008 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
90591794 TAAATTGTAC
90591804 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
90591831 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90591858 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90591884 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90591912 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90591940 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90591967 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90591994 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90592009 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90591943 original size:109 final size:108
Alignment explanation
Indices: 90591805--90592008 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
90591795 AAATTGTACA
* *
90591805 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
90591870 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
90591913 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
90591978 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
90592009 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:90593577 original size:7 final size:7
Alignment explanation
Indices: 90593565--90593665 Score: 59
Period size: 7 Copynumber: 13.9 Consensus size: 7
90593555 TATATAAAAA
90593565 TATATAT
1 TATATAT
90593572 TATATAT
1 TATATAT
90593579 TATATTAACT
1 TATA-T-A-T
90593589 TA-ATAT
1 TATATAT
90593595 T-TAAGTAT
1 TAT-A-TAT
90593603 TAATATAT
1 T-ATATAT
*
90593611 AATATAT
1 TATATAT
90593618 TAT-TA-
1 TATATAT
90593623 TATTATAT
1 TA-TATAT
90593631 TATAT-T
1 TATATAT
90593637 ATATTATAT
1 -TA-TATAT
90593646 TATATAT
1 TATATAT
* *
90593653 AATATAA
1 TATATAT
90593660 TATATA
1 TATATA
90593666 AAACATAAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 28
0.69 0.05 0.26
Matches are distributed among these distances:
5 2 0.03
6 6 0.08
7 43 0.57
8 16 0.21
9 4 0.05
10 4 0.05
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (7 bp):
TATATAT
Found at i:90593624 original size:15 final size:14
Alignment explanation
Indices: 90593600--90593665 Score: 80
Period size: 15 Copynumber: 4.6 Consensus size: 14
90593590 AATATTTAAG
90593600 TATTAATATATAATA
1 TATT-ATATATAATA
*
90593615 TATTAT-TATATTA
1 TATTATATATAATA
*
90593628 TATTATATTATATTA
1 TATTATA-TATAATA
90593643 TATTATATATAATA
1 TATTATATATAATA
*
90593657 TAATATATA
1 TATTATATA
90593666 AAACATAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.26
14 16 0.35
15 18 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATATATAATA
Found at i:90593626 original size:5 final size:5
Alignment explanation
Indices: 90593618--90593664 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
90593608 TATAATATAT
* *
90593618 TATTA TATTA TATTA TATTA TATTA TATTA TA-TA TAATA TAATA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
90593665 AAAACATAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:90594876 original size:22 final size:22
Alignment explanation
Indices: 90594847--90594903 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
90594837 TAGCACGTTA
90594847 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
90594870 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
90594891 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
90594904 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:90596071 original size:25 final size:26
Alignment explanation
Indices: 90596043--90596096 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
90596033 GGTGGTTTAT
90596043 ATTCCCTTAGCACTGA-TTTTCACTG
1 ATTCCCTTAGCACTGATTTTTCACTG
*
90596068 ATTCCCTTAGCTCTGATTTTTCACTG
1 ATTCCCTTAGCACTGATTTTTCACTG
90596094 ATT
1 ATT
90596097 TTGGGTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (26 bp):
ATTCCCTTAGCACTGATTTTTCACTG
Found at i:90597650 original size:14 final size:14
Alignment explanation
Indices: 90597631--90597657 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
90597621 AGAAGCAAAC
90597631 AAAAGAAAAATTAG
1 AAAAGAAAAATTAG
90597645 AAAAGAAAAATTA
1 AAAAGAAAAATTA
90597658 AACTAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAAGAAAAATTAG
Found at i:90602433 original size:4 final size:4
Alignment explanation
Indices: 90602424--90602465 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
90602414 TGAAACAGGG
90602424 GAAA GAAA G-AA G-AA GAAA GAAA GAAA GAAA GAAA GAAA -AAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
90602466 GGAAAAACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 9 0.25
4 27 0.75
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:90619865 original size:8 final size:8
Alignment explanation
Indices: 90619852--90619885 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
90619842 CAAGCTAAAT
90619852 ATTCAAGC
1 ATTCAAGC
90619860 ATTCAAGC
1 ATTCAAGC
*
90619868 ATTAAAGC
1 ATTCAAGC
90619876 ATTCAA-C
1 ATTCAAGC
90619883 ATT
1 ATT
90619886 TGATTTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (8 bp):
ATTCAAGC
Done.