Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 78 of 362
Found at i:24473891 original size:47 final size:47
Alignment explanation
Indices: 24473668--24473895 Score: 214
Period size: 48 Copynumber: 4.9 Consensus size: 47
24473658 ACATTAGGGT
* *
24473668 TATGTCGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGA
1 TATGT-GAT-CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
* * * ** * *
24473717 TATGTAATTTCGTGTAAGACCATAACTAGG-C-TGTC--T-GCATCGA
1 TATGTGA-TCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
* *
24473760 TATGTGATCCCACGTAAGACCATGTTTGGGACATGGCATTGGCATCGA
1 TATGTGAT-CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
** *
24473808 CCTATGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
1 TATGTGATCC-ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
* * * *
24473856 TATGTGATCCATGTAAGATCATATCTGGTATATGGCATTG
1 TATGTGATCCATGTAAGACCATGTCTGGGACATGGCATTG
24473896 CCATTCTACC
Statistics
Matches: 142, Mismatches: 29, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 26 0.18
44 2 0.01
45 3 0.02
46 3 0.02
47 30 0.21
48 71 0.50
49 6 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (47 bp):
TATGTGATCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
Found at i:24485709 original size:47 final size:47
Alignment explanation
Indices: 24485632--24485761 Score: 197
Period size: 47 Copynumber: 2.8 Consensus size: 47
24485622 GTGCGACTGA
*
24485632 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGGATAATT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGGATAAGT
* * * * *
24485679 TACCTTGATTTTGCTACGGGACATGTTATAGGTACTCTAGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGGATAAGT
*
24485726 TACGTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
24485762 TATCAATTGA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGGATAAGT
Found at i:24488223 original size:116 final size:116
Alignment explanation
Indices: 24487978--24488227 Score: 344
Period size: 116 Copynumber: 2.2 Consensus size: 116
24487968 AGGGTTACAT
*
24487978 CACATGCCCGTGTGGCCAAGCAGTATGCCTCACACTACTGAGACACACGCCCGTGTGGCCAGGCC
1 CACATGCCCATGTGGCCAAGCAGTATGCCTCACACTACTGAGACACACGCCCGTGTGGCCAGGCC
* * *
24488043 ATGTAACTCTCTGACTTGGGTCACACGTCCATGTGTGTTGCCCGTGTGTGA
66 ATGTAACTCTCTAACTTGGGTCACACGTCCATGTGTGCTACCCGTGTGTGA
* * * * *
24488094 CAC-TCACCCATGTGGCCAAGCTGTGTGCCTCACAC-AGTTGAGACACACGCTCGTGTGGCCAGG
1 CACAT-GCCCATGTGGCCAAGCAGTATGCCTCACACTA-CTGAGACACACGCCCGTGTGGCCAGG
* *
24488157 CCATGTAACTCTCTAAGTTGGGTCACACG-CCTATGTGTGCTACTCGTGTGTGA
64 CCATGTAACTCTCTAACTTGGGTCACACGTCC-ATGTGTGCTACCCGTGTGTGA
*
24488210 CACATGCCTATGTGGCCA
1 CACATGCCCATGTGGCCA
24488228 GGCCGAGTGC
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
115 4 0.03
116 112 0.96
117 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (116 bp):
CACATGCCCATGTGGCCAAGCAGTATGCCTCACACTACTGAGACACACGCCCGTGTGGCCAGGCC
ATGTAACTCTCTAACTTGGGTCACACGTCCATGTGTGCTACCCGTGTGTGA
Found at i:24489143 original size:43 final size:43
Alignment explanation
Indices: 24489095--24489180 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
24489085 TCATATTTCA
24489095 TTTCTCATCTCATAATCATTTCTCAT-ATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATCATTT-CCATTTCAATAT
* * *
24489138 TTTCTCATCTCATATTCATTTCTTATCATTTCCATTTTAATAT
1 TTTCTCATCTCATAATCATTTCTCATCATTTCCATTTCAATAT
24489181 CAATCACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.24, C:0.22, G:0.01, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATCATTTCCATTTCAATAT
Found at i:24490444 original size:27 final size:27
Alignment explanation
Indices: 24490412--24490467 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
24490402 GCTAATTTAG
24490412 TCCCTTTATTTTATTTCAATTTACAAT
1 TCCCTTTATTTTATTTCAATTTACAAT
*
24490439 TCCCTTTATTTTATTTCAATTTATAAT
1 TCCCTTTATTTTATTTCAATTTACAAT
24490466 TC
1 TC
24490468 AACTTTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.00, T:0.57
Consensus pattern (27 bp):
TCCCTTTATTTTATTTCAATTTACAAT
Found at i:24494119 original size:18 final size:18
Alignment explanation
Indices: 24494081--24494119 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24494071 TGATGTCGGG
* *
24494081 ATTACCAATCCAGGCTGA
1 ATTACCAATCCAAGCTAA
*
24494099 ATTACCAGTCCAAGCTAA
1 ATTACCAATCCAAGCTAA
24494117 ATT
1 ATT
24494120 TAGACCCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (18 bp):
ATTACCAATCCAAGCTAA
Found at i:24496626 original size:12 final size:12
Alignment explanation
Indices: 24496609--24496639 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24496599 AGAATTGAGC
24496609 ATACGGGCAGAG
1 ATACGGGCAGAG
24496621 ATACGGGCAGAG
1 ATACGGGCAGAG
*
24496633 ACACGGG
1 ATACGGG
24496640 TGTGTATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.42, T:0.06
Consensus pattern (12 bp):
ATACGGGCAGAG
Found at i:24500732 original size:27 final size:27
Alignment explanation
Indices: 24500701--24500755 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
24500691 TGGGCTTAAT
24500701 GGGCCGAAATAGGGTTAATGGGCCAAC
1 GGGCCGAAATAGGGTTAATGGGCCAAC
*
24500728 GGGCCGAAATCGGGTTAATGGGCCAAC
1 GGGCCGAAATAGGGTTAATGGGCCAAC
24500755 G
1 G
24500756 AGCCCAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.38, T:0.15
Consensus pattern (27 bp):
GGGCCGAAATAGGGTTAATGGGCCAAC
Found at i:24500767 original size:27 final size:27
Alignment explanation
Indices: 24500707--24500767 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
24500697 TAATGGGCCG
* * *
24500707 AAATAGGGTTAATGGGCCAACGGGCCG
1 AAATCGGGTTAATGGGCCAACGAGCCC
24500734 AAATCGGGTTAATGGGCCAACGAGCCC
1 AAATCGGGTTAATGGGCCAACGAGCCC
*
24500761 AATTCGG
1 AAATCGG
24500768 TAAAAATGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.21, G:0.33, T:0.16
Consensus pattern (27 bp):
AAATCGGGTTAATGGGCCAACGAGCCC
Found at i:24501281 original size:20 final size:21
Alignment explanation
Indices: 24501238--24501283 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
24501228 ACTATTTTGT
24501238 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
24501258 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
24501277 TATGGGC
1 TATGGGC
24501284 AACGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:24505332 original size:20 final size:21
Alignment explanation
Indices: 24505289--24505334 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
24505279 ACTGTTTTGT
24505289 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
24505309 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
24505328 TATGGGC
1 TATGGGC
24505335 TACACCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:24505426 original size:60 final size:62
Alignment explanation
Indices: 24505355--24505498 Score: 172
Period size: 60 Copynumber: 2.4 Consensus size: 62
24505345 ATATCTCGAC
*
24505355 TTGTAATAGGGCTACGGCCCAGATTGACACTGATATGGGCT-AGGCCCAG-TATACTCTGATG
1 TTGTAATAGGGCTACGGCCCAGATTAACACTGATATGGGCTAAGGCCCAGTTA-ACTCTGATG
* * * *
24505416 TTGTAA-AGGGCTATGGCCCATATTAATATTGATATGGGCTAAGGCCCAGTTAACTCTGAT-
1 TTGTAATAGGGCTACGGCCCAGATTAACACTGATATGGGCTAAGGCCCAGTTAACTCTGATG
*
24505476 TTCTGAATAGGGCTTA-GGCCCAG
1 TTGT-AATAGGGC-TACGGCCCAG
24505499 TAAAGCTTGA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
60 32 0.45
61 24 0.34
62 13 0.18
63 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (62 bp):
TTGTAATAGGGCTACGGCCCAGATTAACACTGATATGGGCTAAGGCCCAGTTAACTCTGATG
Found at i:24508403 original size:27 final size:27
Alignment explanation
Indices: 24508340--24508410 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
24508330 TTTTAGTTGC
** *
24508340 CTTATTTTTAAATAAAAAATTATCCTAA
1 CTTATTTTTAAA-ATGAAATTATCCCAA
* *
24508368 CTTAATTTTAAAATGAAATTGTCCCAA
1 CTTATTTTTAAAATGAAATTATCCCAA
*
24508395 TTTATTTTTAAAATGA
1 CTTATTTTTAAAATGA
24508411 TTAGATTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 25 0.69
28 11 0.31
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (27 bp):
CTTATTTTTAAAATGAAATTATCCCAA
Found at i:24509225 original size:28 final size:28
Alignment explanation
Indices: 24509193--24509249 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
24509183 CCCTTAGTGT
*
24509193 TGTTCGTAGATTTTAAATTTAGTCTCTA
1 TGTTCATAGATTTTAAATTTAGTCTCTA
24509221 TGTTCATAGATTTTAAATTTAGTCTCTA
1 TGTTCATAGATTTTAAATTTAGTCTCTA
24509249 T
1 T
24509250 CTTTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.51
Consensus pattern (28 bp):
TGTTCATAGATTTTAAATTTAGTCTCTA
Found at i:24509297 original size:29 final size:26
Alignment explanation
Indices: 24509201--24509299 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 26
24509191 GTTGTTCGTA
*
24509201 GATTTTAAATTTAGTCTCTATGTTCATA
1 GATTTTAAATTTAGTCTCTATGTT--TT
*
24509229 GATTTTAAATTTAGTCTCTATCTTTT
1 GATTTTAAATTTAGTCTCTATGTTTT
*
24509255 TATTTTAAAGAATTTAGTCTCTATGTTTT
1 GATTTT--A-AATTTAGTCTCTATGTTTT
24509284 CGAATTTTAAAATTTA
1 -G-ATTTT-AAATTTA
24509300 AATTCAATTG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
26 6 0.10
28 24 0.39
29 24 0.39
30 2 0.03
31 5 0.08
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (26 bp):
GATTTTAAATTTAGTCTCTATGTTTT
Found at i:24509395 original size:3 final size:3
Alignment explanation
Indices: 24509387--24509420 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24509377 TAGTAGCCAT
24509387 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24509421 AGCATTGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24513916 original size:48 final size:46
Alignment explanation
Indices: 24513810--24513978 Score: 184
Period size: 44 Copynumber: 3.7 Consensus size: 46
24513800 TTTCTTGTAT
* * ** *
24513810 GCCAGTGTAAGACGTGTCTGGGACATGCATCGACCACATTATGAGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTATGATGA-TA
24513856 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTTGATGATGATA
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTT-ATGATGATA
* * *
24513904 GCCAGTGTAAGACGTGTCTGGGACATGCATCGG-C-TAAGAGTCAT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTATGA-TGATA
* *
24513948 GCTAGTGTAAGACATGTCCGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
24513979 AGCACGTATA
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
44 31 0.29
45 4 0.04
46 26 0.24
47 16 0.15
48 31 0.29
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTATGATGATA
Found at i:24513971 original size:44 final size:47
Alignment explanation
Indices: 24513810--24513978 Score: 179
Period size: 48 Copynumber: 3.7 Consensus size: 47
24513800 TTTCTTGTAT
* * * * *
24513810 GCCAGTGTAAGACGTGTCTGGGACATGCATCGACC-ACATTATGAGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGATCA-TA
* *
24513856 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTTGATGATGATA
1 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTAGATGATCATA
*
24513904 GCCAGTGTAAGACGTGTCTGGGACATGCATCGG-CTA-A-GAGTCAT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGA-TCATA
* *
24513948 GCTAGTGTAAGACATGTCCGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
24513979 AGCACGTATA
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
44 30 0.28
45 4 0.04
46 27 0.25
47 16 0.15
48 31 0.29
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGATCATA
Found at i:24514972 original size:55 final size:55
Alignment explanation
Indices: 24514838--24514960 Score: 167
Period size: 55 Copynumber: 2.3 Consensus size: 55
24514828 TGTACTTAAA
*
24514838 ATTTT-AAGTCAGTTTAGTACATGGGTAGGCCACACGAGCGTGTGTCATGGCCGT
1 ATTTTAAAGTCAGTTTAGTACATGGGTAGGCCACACGAGCGTATGTCATGGCCGT
* * * * **
24514892 ATTTTAAAGTTAATTTAGTACATGGGTAGGCCACATGGGCGTATGTCATGGTTGT
1 ATTTTAAAGTCAGTTTAGTACATGGGTAGGCCACACGAGCGTATGTCATGGCCGT
*
24514947 GTTTTAAAGTCAGT
1 ATTTTAAAGTCAGT
24514961 GTTGCACATG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
54 5 0.09
55 53 0.91
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (55 bp):
ATTTTAAAGTCAGTTTAGTACATGGGTAGGCCACACGAGCGTATGTCATGGCCGT
Found at i:24515530 original size:50 final size:50
Alignment explanation
Indices: 24515298--24515634 Score: 252
Period size: 50 Copynumber: 6.9 Consensus size: 50
24515288 GTAGGTATAT
* *
24515298 ATGAGAGCTAATGTAAGACCATGT-TGGGACATGGCATC-G-ACCTCGAAAT
1 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCAGCA-C-CGATAG
* * * * * ** *
24515347 ATGAGAGCTACTGTAAGACTATGTTTGGGGCATGGCATCGGC-TTGATAT
1 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACCGATAG
* * * **
24515396 AT--G-TC-AGTGTAAGACCATGTCTGGGATATGGCATTGGCACCGATAG
1 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACCGATAG
*
24515442 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATAG
1 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACCGATAG
* * *
24515492 ATGAGAGCTAATGTAAGACCGTGTCTAGGACATGGCATCAGC-CTCGATAT
1 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCAGCAC-CGATAG
* * ** * * *
24515542 ACGAGAG-TCAATGTAAGACCATGTTTGACACATAGCATC-G-A-C-TTTG
1 ATGAGAGCT-AATGTAAGACCATGTCTGGGACATGGCATCAGCACCGATAG
* * * *
24515588 ATGGGTAAGCCATTGTAAGACCATGTCTGGGACATGACATCAGCACC
1 ATGAG--AGCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACC
24515635 TTACCCTATG
Statistics
Matches: 228, Mismatches: 43, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
45 27 0.12
46 11 0.05
47 2 0.01
48 27 0.12
49 33 0.14
50 126 0.55
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (50 bp):
ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACCGATAG
Found at i:24515540 original size:100 final size:98
Alignment explanation
Indices: 24515298--24515565 Score: 271
Period size: 95 Copynumber: 2.7 Consensus size: 98
24515288 GTAGGTATAT
* *
24515298 ATGAGAGCTAATGTAAGACCATGT-TGGGACATGGCATCGACCTCGAAATATGAGAGCTACTGTA
1 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCG-CCTCGATATATGAGAGCTAATGTA
* * * * ** *
24515362 AGACTATGTTTGGGGCATGGCATCGGCTTGATAT
65 AGACCATGTCTGGGACATGGCATCAGCCCGATAG
* * * * * *
24515396 AT--G-TC-AGTGTAAGACCATGTCTGGGATATGGCATTGGCAC-CGATAGATGAGAGCTAGTGT
1 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCA-TCGC-CTCGATATATGAGAGCTAATGT
24515456 AAGACCATGTCTGGGACATGGCATCAGCACCGATAG
64 AAGACCATGTCTGGGACATGGCATCAGC-CCGATAG
* * *
24515492 ATGAGAGCTAATGTAAGACCGTGTCTAGGACATGGCATCAGCCTCGATATACGAGAG-TCAATGT
1 ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATC-GCCTCGATATATGAGAGCT-AATGT
24515556 AAGACCATGT
64 AAGACCATGT
24515566 TTGACACATA
Statistics
Matches: 136, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
94 14 0.10
95 54 0.40
96 10 0.07
98 3 0.02
99 4 0.03
100 51 0.38
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (98 bp):
ATGAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCGCCTCGATATATGAGAGCTAATGTAA
GACCATGTCTGGGACATGGCATCAGCCCGATAG
Found at i:24519577 original size:119 final size:120
Alignment explanation
Indices: 24519365--24519588 Score: 317
Period size: 119 Copynumber: 1.9 Consensus size: 120
24519355 CGGATGATAA
* * *
24519365 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
* * * *
24519430 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGAGAGCTATTACAT
66 TGCAAGCTACTATAACCGAGCTAAGTCCCGAAGGCATTTGTGAGAGCTATTACAT
* * * *
24519485 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTC
*
24519548 GTGCAAGTTACTATAACCGAGCTAAGTCCCGAAGGCATTTG
65 GTGCAAGCTACTATAACCGAGCTAAGTCCCGAAGGCATTTG
24519589 AGCTAGTGGC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 63 0.69
120 28 0.31
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAACCGAGCTAAGTCCCGAAGGCATTTGTGAGAGCTATTACAT
Found at i:24519602 original size:40 final size:40
Alignment explanation
Indices: 24519361--24519611 Score: 244
Period size: 40 Copynumber: 6.3 Consensus size: 40
24519351 TGTTCGGATG
* * *
24519361 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTGACT
* *
24519401 A-ATTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * * *
24519441 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGAGAGCT-ATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * * *
24519481 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
24519521 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * * *
24519560 ATAACCGAGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
24519600 ATATCC-GGCTAA
1 ATAACCGGGCTAA
24519612 ACTCCGAAGG
Statistics
Matches: 182, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
39 43 0.24
40 135 0.74
41 4 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:24519621 original size:79 final size:79
Alignment explanation
Indices: 24519409--24519611 Score: 250
Period size: 79 Copynumber: 2.6 Consensus size: 79
24519399 CTAATTCCGG
* *
24519409 GCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGAG
* * *
24519474 AGCTATTACATCCGG
65 AGCTACTACAACCGA
*
24519489 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCA
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG-A
* *
24519553 -AGTTACTATAACCGA
64 GAGCTACTACAACCGA
* * *
24519568 GCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
24519612 ACTCCGAAGG
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 71 0.66
80 35 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGA
GCTACTACAACCGA
Found at i:24521905 original size:22 final size:23
Alignment explanation
Indices: 24521880--24521922 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
24521870 AAAGCCGAGG
24521880 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
24521902 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
24521923 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:24527576 original size:40 final size:40
Alignment explanation
Indices: 24527493--24527716 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
24527483 CGGATGATAA
* * *
24527493 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-T
* **
24527533 CCGGGCTAAGTCCCGAAGTCATTCATGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * * *
24527573 CCGGGCTAAGCCCCGAAGGCGTTTGTGAGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
24527613 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
24527652 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
*
24527692 CCGGGCTAAGTCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24527717 AGCTAGTGGC
Statistics
Matches: 160, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 119 0.74
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:24527678 original size:79 final size:80
Alignment explanation
Indices: 24527532--24527716 Score: 248
Period size: 79 Copynumber: 2.3 Consensus size: 80
24527522 AGTGGCTAAT
* ** *
24527532 TCCGGGCTAAGTCCCGAAGTCATTCATGCGAGCTACTATATCCGGGCTAAGCCCCGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGCCCCGAAGGCATTT
*
24527597 GTG-AGAGCTATTATA
66 GTGCA-AGCTACTATA
* * *
24527612 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGCCCCGAAGGCATTT
*
24527676 GTGCAAGTTACTATA
66 GTGCAAGCTACTATA
* *
24527691 ACCGGGCTAAGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24527717 AGCTAGTGGC
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 57 0.61
80 36 0.39
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGCCCCGAAGGCATTT
GTGCAAGCTACTATA
Found at i:24527732 original size:119 final size:120
Alignment explanation
Indices: 24527493--24527718 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 120
24527483 CGGATGATAA
* * * *
24527493 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGTCATTCA
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCA
* * * * *
24527558 TGCGAGCTACTATATCCGGGCTAAGCCCCGAAGGCGTTTGTGAGAGCTATTATAT
66 TGCAAGCTACTATAACCGGGCTAAGCCCCGAAGGCATTTGAGAGAGCTACTATAT
* * * *
24527613 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTC
* * * *
24527676 GTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGTATTTGAG
65 ATGCAAGCTACTATAACCGGGCTAAGCCCCGAAGGCATTTGAG
24527719 CTAGTGGCTA
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
119 61 0.69
120 28 0.31
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCA
TGCAAGCTACTATAACCGGGCTAAGCCCCGAAGGCATTTGAGAGAGCTACTATAT
Found at i:24527738 original size:79 final size:79
Alignment explanation
Indices: 24527533--24527749 Score: 224
Period size: 79 Copynumber: 2.7 Consensus size: 79
24527523 GTGGCTAATT
* * *
24527533 CCGGGCTAAGTCCCGAAGTCA-TTCATGCGAGCT-ACTATATCCGGGCTAAGCCCCGAAGGCGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAG-TGACTATAT-CGGGCTAAGCCCCGAAGGCATT
* *
24527596 TGTGAGAGCTATTATAT
63 TGTGAGAGCTACTATAA
* * * * *
24527613 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCGGGCTAAGCCCCGAAGGCATTTGT
*
24527678 GCA-AGTTACTATAA
66 G-AGAGCTACTATAA
* * * * * *
24527692 CCGGGCTAAGTCCCGAAGGTATTTGAGCTAGTGGCTATATCTGGCTAAACTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCGGGCTAAGCCCCGAAGG
24527750 TACTTGGTTT
Statistics
Matches: 113, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
79 80 0.71
80 31 0.27
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATATCGGGCTAAGCCCCGAAGGCATTTGT
GAGAGCTACTATAA
Found at i:24538854 original size:15 final size:15
Alignment explanation
Indices: 24538836--24538872 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
24538826 GTATCTTGGG
24538836 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
24538851 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
24538866 TTTCTTT
1 TTTCTTT
24538873 GCTTGGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.19, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:24540273 original size:39 final size:40
Alignment explanation
Indices: 24540230--24540308 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
24540220 TGGTATGGTT
24540230 TGGTATTT-ATGACAAAAGAAAATACTAATAAAATAAAAC
1 TGGTATTTGATGACAAAAGAAAATACTAATAAAATAAAAC
*
24540269 TGGTATTTGATGACAAAAGCAAATACTAATAAAATAAAAC
1 TGGTATTTGATGACAAAAGAAAATACTAATAAAATAAAAC
24540309 AAGTGGCCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.25
Consensus pattern (40 bp):
TGGTATTTGATGACAAAAGAAAATACTAATAAAATAAAAC
Found at i:24540803 original size:31 final size:30
Alignment explanation
Indices: 24540760--24540840 Score: 114
Period size: 31 Copynumber: 2.8 Consensus size: 30
24540750 CACCAGATAC
24540760 AGATATTGTGGCAGAGCCACCAGAACAGAT
1 AGATATTGTGGCAGAGCCACCAGAACAGAT
*
24540790 AGATATATGTGGCAGAGCCACCAGATCAGAT
1 AGATAT-TGTGGCAGAGCCACCAGAACAGAT
*
24540821 --A-ATTGTGGCATAGCCACCAG
1 AGATATTGTGGCAGAGCCACCAG
24540841 GACACTTCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
27 16 0.33
28 2 0.04
29 1 0.02
30 6 0.12
31 23 0.48
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (30 bp):
AGATATTGTGGCAGAGCCACCAGAACAGAT
Found at i:24540827 original size:27 final size:27
Alignment explanation
Indices: 24540750--24540840 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 27
24540740 TGATAAAAGT
24540750 CACCAGATACAGAT-ATTGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAGAGC
*
24540777 CACCAGAACAGATAGATATATGTGGCAGAGC
1 CACCAGATCAGAT--A-AT-TGTGGCAGAGC
*
24540808 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAGAGC
24540835 CACCAG
1 CACCAG
24540841 GACACTTCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
26 5 0.09
27 23 0.41
28 2 0.04
29 1 0.02
30 2 0.04
31 23 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAGAGC
Found at i:24542471 original size:26 final size:26
Alignment explanation
Indices: 24542440--24542547 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
24542430 TGAAATGCCC
*
24542440 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAATCCATT
24542466 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
24542492 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
24542518 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
24542544 ATCA
1 ATCA
24542548 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:24548497 original size:27 final size:27
Alignment explanation
Indices: 24548427--24548585 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
24548417 GCGAGGCTGC
* * *
24548427 CAGATAT-TGTGACAAAGTCACCAGATA
1 CAGATATATGTGGCAGAGCCACCAGA-A
*
24548454 CAGATAT-TGTGGCAGAGCCACTAGAA
1 CAGATATATGTGGCAGAGCCACCAGAA
* * *
24548480 CAGATATATGTGGTAGAGCCACTAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* *
24548507 CAGATA-ATTGTGGCATAGCCACCAGGA
1 CAGATATA-TGTGGCAGAGCCACCAGAA
* *
24548534 CAGATATATGCGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
*
24548561 CAGATA-ATTGTGGCATAGCCACCAG
1 CAGATATA-TGTGGCAGAGCCACCAG
24548586 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 10 0.09
27 100 0.90
28 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATATGTGGCAGAGCCACCAGAA
Found at i:24548573 original size:81 final size:80
Alignment explanation
Indices: 24548427--24548582 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 80
24548417 GCGAGGCTGC
* * * *
24548427 CAGATATTGTGACAAAGTCACCAGATACAGATATTGTGGCAGAGCCACTAGAACAGATATATGTG
1 CAGATATTGTGACAAAGCCACCAGAGACAGATATTGCGGCAGAGCCACCAGAACAGATATATGTG
*
24548492 GTAGAGCCACTAGAT
66 GCAGAGCCACTAGAT
* * *
24548507 CAGATAATTGTGGCATAGCCACCAG-GACAGATATATGCGGCAGAGCCACCAGATCAGATA-ATT
1 CAGAT-ATTGTGACAAAGCCACCAGAGACAGATAT-TGCGGCAGAGCCACCAGAACAGATATA-T
*
24548570 GTGGCATAGCCAC
63 GTGGCAGAGCCAC
24548583 CAGGACGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 14 0.22
81 50 0.78
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (80 bp):
CAGATATTGTGACAAAGCCACCAGAGACAGATATTGCGGCAGAGCCACCAGAACAGATATATGTG
GCAGAGCCACTAGAT
Found at i:24548586 original size:54 final size:54
Alignment explanation
Indices: 24548445--24548588 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
24548435 GTGACAAAGT
* * * * *
24548445 CACCAGATACAGAT-ATTGTGGCAGAGCCACTAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGC
*
24548499 CACTAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGC
24548553 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
24548589 GCTTCCTCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAGAGC
Found at i:24549761 original size:26 final size:26
Alignment explanation
Indices: 24549730--24549837 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
24549720 TGAAATGCCC
*
24549730 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
24549756 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
24549782 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
24549808 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24549834 ATCA
1 ATCA
24549838 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24550682 original size:18 final size:19
Alignment explanation
Indices: 24550645--24550682 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
24550635 GACTTTTGGG
*
24550645 GACTTTTTTTTTAAAGTTTT
1 GACTTTATTTTT-AAGTTTT
24550665 GACTTTATTTTT-AGTTTT
1 GACTTTATTTTTAAGTTTT
24550683 AAATTCGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (19 bp):
GACTTTATTTTTAAGTTTT
Found at i:24559303 original size:31 final size:31
Alignment explanation
Indices: 24559265--24559334 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
24559255 ACGGTTATTG
24559265 GGCCGAAGCCTTATCATAAATCATATCACTA
1 GGCCGAAGCCTTATCATAAATCATATCACTA
*
24559296 GGCCGAAGCCTTATCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTA
24559327 GGCCGAAG
1 GGCCGAAG
24559335 TCTTTACTGT
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:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (31 bp):
GGCCGAAGCCTTATCATAAATCATATCACTA
Found at i:24559412 original size:42 final size:42
Alignment explanation
Indices: 24559365--24559454 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
24559355 GCCCTTAGGT
* *
24559365 CCATTTAAATATCACATGTAATGTCAATGGATGTATGCAAGC
1 CCATTTAAATATCACATGTAATGTCAATGAATGTACGCAAGC
*
24559407 CCATTTCAATATCACATGTAATGTCAATGAATGTACGCAAGC
1 CCATTTAAATATCACATGTAATGTCAATGAATGTACGCAAGC
24559449 CCATTT
1 CCATTT
24559455 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (42 bp):
CCATTTAAATATCACATGTAATGTCAATGAATGTACGCAAGC
Found at i:24560493 original size:27 final size:27
Alignment explanation
Indices: 24560431--24560495 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
24560421 GGGCATATTC
24560431 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
24560458 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
24560485 GTCTTTTTACC
1 GTCATTTTACC
24560496 TAATAGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:24560651 original size:27 final size:27
Alignment explanation
Indices: 24560611--24560843 Score: 222
Period size: 27 Copynumber: 8.7 Consensus size: 27
24560601 AAAAAGTCAA
** *
24560611 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
24560638 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
24560664 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
24560692 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
24560719 GGATATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
24560746 GGGTATTTAAGCAATTTTACAGACTA-
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
24560772 GGGTATTTTGGTAATTTTACTAA-TCG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
24560798 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
24560826 TGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
24560844 GTAAATTAAG
Statistics
Matches: 168, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.01
26 21 0.12
27 145 0.86
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:24560844 original size:27 final size:27
Alignment explanation
Indices: 24560525--24560857 Score: 183
Period size: 27 Copynumber: 12.3 Consensus size: 27
24560515 TTTCACCCTA
* * * * *
24560525 CAAGGGTGTTTTTGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
24560552 CAAGGGAATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
24560579 CAATGGTATTTCT-ATAATTTTTAAAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* *
24560608 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * * *
24560635 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
24560662 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
24560689 C-AGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* *
24560715 CTAGGGATATTTTGGTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTATAAAC
* * ** * * *
24560743 TAGGGGTATTTAAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
24560769 CTAGGGTATTTTGGTAATTTTACT-AAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
24560796 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
24560823 CAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
24560850 TAAGGGTA
1 CAAGGGTA
24560858 AAACAGTAAT
Statistics
Matches: 242, Mismatches: 53, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
26 24 0.10
27 185 0.76
28 18 0.07
29 15 0.06
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:24560867 original size:54 final size:54
Alignment explanation
Indices: 24560809--24560958 Score: 147
Period size: 54 Copynumber: 2.8 Consensus size: 54
24560799 GGGTATTTTG
* * *** * * *
24560809 GTAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAATTAAGGGTAAAACA
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
* * **
24560863 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
* * * * *
24560917 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATC
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATC
24560959 GGGGGTACTT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (54 bp):
GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
Found at i:24560959 original size:27 final size:27
Alignment explanation
Indices: 24560835--24560965 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
24560825 ATGGTATTTT
* **
24560835 AGTAATTTTGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
24560862 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
24560889 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
24560916 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
24560943 AGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
24560966 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:24566605 original size:53 final size:53
Alignment explanation
Indices: 24566410--24566717 Score: 342
Period size: 53 Copynumber: 5.8 Consensus size: 53
24566400 ATTAGGGTTT
* * *
24566410 AAGGATACCGTGTAAGACCATGCCAAGTCATGGCACTTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA-TTGGTAA-G-TTCATAAGGC
* * * *
24566465 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAATGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
24566520 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
*
24566573 AAGGCTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
24566626 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
24566675 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
24566718 GTACCCGTGT
Statistics
Matches: 223, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
49 39 0.17
51 1 0.00
52 8 0.04
53 96 0.43
54 7 0.03
55 68 0.30
56 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:24566614 original size:27 final size:26
Alignment explanation
Indices: 24566584--24566668 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
24566574 AGGCTACCAT
24566584 GTAAGACCATGTCAAGACATGGCATTG
1 GTAAGACCATGTCAAGACATGGCA-TG
** * * **
24566611 GTAAGTTCATAAGGCAAGGC-TACCAT-
1 GTAAGACCAT--GTCAAGACATGGCATG
24566637 GTAAGACCATGTCAAGACATGGCAATG
1 GTAAGACCATGTCAAGACATGGC-ATG
24566664 GTAAG
1 GTAAG
24566669 TTTCAAAAGG
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 6 0.15
25 2 0.05
26 10 0.24
27 14 0.34
28 3 0.07
29 6 0.15
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (26 bp):
GTAAGACCATGTCAAGACATGGCATG
Found at i:24570825 original size:12 final size:13
Alignment explanation
Indices: 24570808--24570845 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
24570798 ATCTTGGAAT
24570808 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
24570820 ATTAAGAACACATA
1 ATTAAGAACA-AGA
24570834 ATTAAGAACAAG
1 ATTAAGAACAAG
24570846 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:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:24573364 original size:43 final size:42
Alignment explanation
Indices: 24573290--24573420 Score: 158
Period size: 43 Copynumber: 3.1 Consensus size: 42
24573280 GCGTTTTTCC
*
24573290 CATGACCTTTAGCGGCGC-ATTCCCACAAACGCCGCTAAATGT
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA-GT
* * *
24573332 CATGACCTTTAGCAGCGCTTTTCCCACAAACGCCACTAAAGAA
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG-T
* *
24573375 CATGACCTTTA-CTGGCACTTTTCCCATAAACGCCGCTAAAGGT
1 CATGACCTTTAGC-GGCGCTTTTCCCACAAACGCCGCTAAA-GT
24573418 CAT
1 CAT
24573421 CAAATTTTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
42 19 0.25
43 56 0.74
44 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (42 bp):
CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGT
Found at i:24573558 original size:11 final size:11
Alignment explanation
Indices: 24573542--24573570 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24573532 TATAAAAATT
24573542 TTCTATTAAAA
1 TTCTATTAAAA
24573553 TTCTATTAAAA
1 TTCTATTAAAA
24573564 TTC-ATTA
1 TTCTATTA
24573571 TCAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTATTAAAA
Found at i:24577512 original size:18 final size:18
Alignment explanation
Indices: 24577489--24577532 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24577479 AGTGATTTCG
* *
24577489 GGGGAAATTTAG-GGATT
1 GGGGAAATATAGAGAATT
24577506 AGGGGAAATATAGAGAATT
1 -GGGGAAATATAGAGAATT
24577525 GGGGAAAT
1 GGGGAAAT
24577533 CTGTTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.23
Consensus pattern (18 bp):
GGGGAAATATAGAGAATT
Found at i:24578060 original size:21 final size:21
Alignment explanation
Indices: 24578019--24578069 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
24578009 AATCCCATCC
* *
24578019 CCTTAACCCCCAACTTCTAAA
1 CCTTAAACCCCAACCTCTAAA
24578040 CCTTAAACCCCAACC-CTTAAA
1 CCTTAAACCCCAACCTC-TAAA
*
24578061 CCATAAACC
1 CCTTAAACC
24578070 ATAATCCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTTAAACCCCAACCTCTAAA
Found at i:24578086 original size:15 final size:14
Alignment explanation
Indices: 24578064--24578102 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
24578054 CCTTAAACCA
24578064 TAAACCATAATCCC
1 TAAACCATAATCCC
*
24578078 TAAACCCATAATCCA
1 TAAA-CCATAATCCC
*
24578093 TAATCCATAA
1 TAAACCATAA
24578103 ATCTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:24578086 original size:22 final size:21
Alignment explanation
Indices: 24578057--24578103 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
24578047 CCCCAACCCT
*
24578057 TAAACCATAAACCATAATCCC
1 TAAACCATAAACCATAATCCA
*
24578078 TAAACCCATAATCCATAATCCA
1 TAAA-CCATAAACCATAATCCA
24578100 TAAA
1 TAAA
24578104 TCTTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCATAAACCATAATCCA
Found at i:24578105 original size:15 final size:14
Alignment explanation
Indices: 24578061--24578102 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
24578051 AACCCTTAAA
24578061 CCATAAACCATAAT
1 CCATAAACCATAAT
*
24578075 CCCTAAACCCATAAT
1 CCATAAA-CCATAAT
*
24578090 CCATAATCCATAA
1 CCATAAACCATAA
24578103 ATCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:24578283 original size:7 final size:7
Alignment explanation
Indices: 24578253--24578367 Score: 63
Period size: 7 Copynumber: 16.1 Consensus size: 7
24578243 ACTAATTAAT
24578253 CTAAACC
1 CTAAACC
*
24578260 CTTAACTC
1 CTAAAC-C
*
24578268 CTAATCC
1 CTAAACC
24578275 CTAAACC
1 CTAAACC
*
24578282 CTAAATC
1 CTAAACC
* * *
24578289 ATAGATC
1 CTAAACC
*
24578296 CTAAAAC
1 CTAAACC
*
24578303 ATAAACC
1 CTAAACC
* *
24578310 TTGAACC
1 CTAAACC
24578317 CTAAACCC
1 CTAAA-CC
24578325 CT-AACC
1 CTAAACC
*
24578331 CTTAACC
1 CTAAACC
*
24578338 CTTAACCC
1 C-TAAACC
24578346 CT-AACAC
1 CTAAAC-C
24578353 CTAAACC
1 CTAAACC
*
24578360 TTAAACC
1 CTAAACC
24578367 C
1 C
24578368 CAACCATTAA
Statistics
Matches: 81, Mismatches: 21, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
6 6 0.07
7 58 0.72
8 17 0.21
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:24578330 original size:21 final size:20
Alignment explanation
Indices: 24578306--24578377 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 20
24578296 CTAAAACATA
24578306 AACCTTGAACCCTAAACCCCT
1 AACCTT-AACCCTAAACCCCT
*
24578327 AACCCTTAACCCTTAACCCCT
1 AA-CCTTAACCCTAAACCCCT
* *
24578348 AACACCTAAACCTTAAACCCC-
1 -A-ACCTTAACCCTAAACCCCT
24578369 AACCATTAA
1 AACC-TTAA
24578378 ACCATAATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 3 0.07
20 4 0.10
21 15 0.36
22 19 0.45
23 1 0.02
ACGTcount: A:0.38, C:0.42, G:0.01, T:0.19
Consensus pattern (20 bp):
AACCTTAACCCTAAACCCCT
Found at i:24578378 original size:21 final size:22
Alignment explanation
Indices: 24578313--24578380 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
24578303 ATAAACCTTG
* *
24578313 AACCCTAAACCCCTAACCCTTA
1 AACCTTAAACCCCTAACCATTA
* *
24578335 ACCCTT-AACCCCTAA-CACCTA
1 AACCTTAAACCCCTAACCA-TTA
24578356 AACCTTAAACCCC-AACCATTA
1 AACCTTAAACCCCTAACCATTA
24578377 AACC
1 AACC
24578381 ATAATTCCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.65
22 12 0.32
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCTTAAACCCCTAACCATTA
Found at i:24578863 original size:40 final size:39
Alignment explanation
Indices: 24578819--24578906 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
24578809 TACATATAGA
24578819 GGCGTTTTTAAAAAAGCGCCGCTAAAACTCAATCTTTAGC
1 GGCGTTTTT-AAAAAGCGCCGCTAAAACTCAATCTTTAGC
** **
24578859 GGCGTTTTTAAAAAGCGCCGCTAATGCTCGTTCTTTAGC
1 GGCGTTTTTAAAAAGCGCCGCTAAAACTCAATCTTTAGC
*
24578898 GGCATTTTT
1 GGCGTTTTT
24578907 CATTCAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 34 0.79
40 9 0.21
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (39 bp):
GGCGTTTTTAAAAAGCGCCGCTAAAACTCAATCTTTAGC
Found at i:24578894 original size:39 final size:39
Alignment explanation
Indices: 24578774--24578906 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 39
24578764 AGATCAAGCA
* * * *
24578774 TTAGCGGCGTTTTCTAAAATGCGCCTCTAAAGGT-GTACAT
1 TTAGCGGCGTTTT-TAAAAAGCGCCGCTAAAGCTCGTTC-T
* * * **
24578814 ATAGAGGCGTTTTTAAAAAAGCGCCGCTAAAACTCAATCT
1 TTAGCGGCGTTTTT-AAAAAGCGCCGCTAAAGCTCGTTCT
*
24578854 TTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCGTTCT
1 TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCTCGTTCT
*
24578893 TTAGCGGCATTTTT
1 TTAGCGGCGTTTTT
24578907 CATTCAAACG
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
39 35 0.47
40 39 0.52
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCTCGTTCT
Found at i:24578929 original size:12 final size:12
Alignment explanation
Indices: 24578912--24578937 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24578902 TTTTTCATTC
24578912 AAACGCCGCTAA
1 AAACGCCGCTAA
24578924 AAACGCCGCTAA
1 AAACGCCGCTAA
24578936 AA
1 AA
24578938 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:24579611 original size:42 final size:42
Alignment explanation
Indices: 24579564--24579706 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 42
24579554 TACCACACCA
* * *
24579564 ATGCCATATCCCAGATATGGTCTTACA-TAGGATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGA-AATCTCATATTG
* * *
24579606 ATGCCAATAGCCCA-ACTATGATCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACACGAAATCTCATATTG
* * *
24579649 ATGCCATATTCTAGATATGGTCTTACACGAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
24579691 ATGCCATATCCCAGAT
1 ATGCCATATCCCAGAT
24579707 TTGTATCCTA
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 49 0.59
43 33 0.40
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:24585104 original size:119 final size:120
Alignment explanation
Indices: 24584922--24585144 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
24584912 TCCTCGTTCA
*
24584922 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
24584987 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
24585042 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
24585104 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
24585145 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:24585144 original size:40 final size:40
Alignment explanation
Indices: 24584920--24585144 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
24584910 GCTCCTCGTT
* *
24584920 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24584960 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24585000 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24585040 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
24585079 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
24585120 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24585145 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:24590000 original size:40 final size:40
Alignment explanation
Indices: 24589945--24590114 Score: 254
Period size: 40 Copynumber: 4.3 Consensus size: 40
24589935 CTGGCATCGT
* *
24589945 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
24589985 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
24590025 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
24590065 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
24590104 CAAATGCCTTC
1 CAAATGCCTTC
24590115 AGATCTTAGT
Statistics
Matches: 120, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 32 0.27
40 86 0.72
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24590129 original size:79 final size:80
Alignment explanation
Indices: 24589945--24590169 Score: 260
Period size: 80 Copynumber: 2.8 Consensus size: 80
24589935 CTGGCATCGT
* * *
24589945 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGAGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
24590009 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* *
24590025 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
24590089 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
** * * * * * *
24590104 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGCCC
1 CAAATGCCTTCGAGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
24590167 GGA
64 GGA
24590170 CATCATTCAA
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.02
79 56 0.44
80 65 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:24590161 original size:119 final size:120
Alignment explanation
Indices: 24589947--24590169 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
24589937 GGCATCGTCA
* *
24589947 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
* *
24590012 TTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
* * **
24590067 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* * * * *
24590129 ATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGAGACTTAACCCGGA
24590170 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 64 0.74
120 20 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:24594318 original size:29 final size:29
Alignment explanation
Indices: 24594255--24594322 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
24594245 TAATCAACCA
24594255 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
24594284 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
24594313 CGCACACTTA
1 CGCACACTTA
24594323 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:24594463 original size:29 final size:29
Alignment explanation
Indices: 24594424--24594501 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
24594414 CTTAATAATC
24594424 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCC-TGTACATTTA
*
24594454 AACTCGCACACTTAGTG-CTGTACAATTTA
1 AACCCGCACACTTAGTGCCTGTAC-ATTTA
24594483 AACCCGCACACTTAGTGCC
1 AACCCGCACACTTAGTGCC
24594502 GAAAACCAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCTGTACATTTA
Found at i:24601468 original size:118 final size:119
Alignment explanation
Indices: 24601287--24601508 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
24601277 TCCTCGTTCA
*
24601287 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
24601352 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
24601406 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
24601468 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
24601509 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:24601508 original size:40 final size:40
Alignment explanation
Indices: 24601285--24601508 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
24601275 GCTCCTCGTT
* *
24601285 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24601325 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24601365 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
24601405 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
24601443 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
24601484 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24601509 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:24615900 original size:42 final size:42
Alignment explanation
Indices: 24615780--24615934 Score: 170
Period size: 42 Copynumber: 3.7 Consensus size: 42
24615770 TACCACACCA
* ** *
24615780 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
24615822 ATGCTAGTAGCCCA-ACTATGATTTTACACGAAATCTCATATCG
1 ATGCCA-TATCCCAGA-TATGGTCTTACACGAAATCTCATATCG
*
24615865 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCG
* *
24615907 ATGTCATATCCCAGTTATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
24615935 ATAGCCTCAC
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 58 0.62
43 35 0.38
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:24619040 original size:13 final size:13
Alignment explanation
Indices: 24619022--24619046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24619012 CCTGACACAC
24619022 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
24619035 GCCCGTGTCCTT
1 GCCCGTGTCCTT
24619047 CACACGGCCA
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:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:24620155 original size:49 final size:47
Alignment explanation
Indices: 24620086--24620259 Score: 160
Period size: 49 Copynumber: 3.6 Consensus size: 47
24620076 ATGCCGACGC
* *
24620086 CATGTCCTAGACATGGTCTTACACTAGCTTCCATATAGCGAGGTCGATG
1 CATGTCCCAGACA-GGTCTTACACTAGCTTCCATCTAGC-AGGTCGATG
* *
24620135 TCATGTCCCAGATAGGTCTTACACTTA-C-TCTCATCTATCAGTGTCGATG
1 -CATGTCCCAGACAGGTCTTACAC-TAGCTTC-CATCTAGCAG-GTCGATG
*
24620184 CCATGTCCCAGACAGATCTTACACTAGCTT--ATCTACCGCAAGG-CTGATG
1 -CATGTCCCAGACAGGTCTTACACTAGCTTCCATCTA--GC-AGGTC-GATG
*
24620233 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACAGGTCTTACACTAGC
24620260 ATACATATCA
Statistics
Matches: 105, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
47 5 0.05
48 32 0.30
49 52 0.50
50 16 0.15
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTCCATCTAGCAGGTCGATG
Found at i:24626475 original size:20 final size:21
Alignment explanation
Indices: 24626450--24626489 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24626440 CGCTTAAAGC
24626450 AGGGC-ACATGCCAGTGTGGA
1 AGGGCAACATGCCAGTGTGGA
*
24626470 AGGGCAACATGCCCGTGTGG
1 AGGGCAACATGCCAGTGTGG
24626490 CCACTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCAGTGTGGA
Found at i:24627756 original size:49 final size:49
Alignment explanation
Indices: 24627677--24627844 Score: 161
Period size: 49 Copynumber: 3.5 Consensus size: 49
24627667 AGATATCGAC
* *
24627677 GCCATGTCCCAGACATGGTCTTACACTGGCTTTGATATAGCGAG-GCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGC-AGTGCCGAT
* * * * *
24627727 GCCATGTCCTAGACAGGTCTTATACTGGCTCTCATCTATCAGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGCCGAT
* * * *
24627776 GTCATGTCCCAGACAGGTCTTACACTGACACACGATA-AGC--T---GAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTC-ATATAGCAGTGCCGAT
24627820 GCCATGTCCCAGACAGGTCTTACAC
1 GCCATGTCCCAGACAGGTCTTACAC
24627845 AAGCTTGTCT
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
44 27 0.27
47 1 0.01
48 2 0.02
49 54 0.54
50 16 0.16
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGCCGAT
Found at i:24643599 original size:21 final size:21
Alignment explanation
Indices: 24643573--24643614 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24643563 GTAATGAGTG
24643573 AGGTTCGCAAGAGTAGGTACT
1 AGGTTCGCAAGAGTAGGTACT
*
24643594 AGGTTCGCAAGAGTGGGTACT
1 AGGTTCGCAAGAGTAGGTACT
24643615 TGAAATGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.36, T:0.24
Consensus pattern (21 bp):
AGGTTCGCAAGAGTAGGTACT
Found at i:24654789 original size:48 final size:48
Alignment explanation
Indices: 24654718--24654950 Score: 219
Period size: 48 Copynumber: 4.9 Consensus size: 48
24654708 TAAGGATATG
*
24654718 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAAA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* * *
24654766 TGTGATCCCATGTAAGACAATGTCTTGGACATGGCATTGGCATTAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* * * * * * * * *
24654814 TGAGA-CATCGTGTAAGACGATAAT-TGGG-C-T---ATCGACTTCGATA
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCAATA
* *
24654857 TGCATAATCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCAATA
1 TG--TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
* * *
24654907 TGTGATCCCATGTAAGACCATTTTTGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
24654951 CTACTATGTA
Statistics
Matches: 143, Mismatches: 31, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
43 10 0.07
44 1 0.01
45 15 0.10
46 3 0.02
47 3 0.02
48 99 0.69
49 1 0.01
50 11 0.08
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
Found at i:24658293 original size:42 final size:42
Alignment explanation
Indices: 24658215--24658294 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
24658205 GTATAGGTTT
*
24658215 CACACGGCCAAGACACACGCCCGTGTTCTAAGCCGTGTAGCA
1 CACACGGCCAAGACACACGCCCGTGTTCTAACCCGTGTAGCA
**
24658257 CACACGGCTGAGACACACGCCCGTGTCTCT-ACCCGTGT
1 CACACGGCCAAGACACACGCCCGTGT-TCTAACCCGTGT
24658295 GCTCAATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.23, C:0.38, G:0.24, T:0.16
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCGTGTTCTAACCCGTGTAGCA
Found at i:24662368 original size:26 final size:26
Alignment explanation
Indices: 24662320--24662369 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
24662310 ACATATTTTC
*
24662320 TCAAAATTTTACAATGGGCAAAATTA
1 TCAAAATTTTACAAGGGGCAAAATTA
* * *
24662346 TCAAAATTTTGCTAGGGGTAAAAT
1 TCAAAATTTTACAAGGGGCAAAAT
24662370 AGGGATGAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACAAGGGGCAAAATTA
Found at i:24664460 original size:33 final size:30
Alignment explanation
Indices: 24664421--24664504 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 30
24664411 CTATTACTAG
24664421 GTCTAATTTGGTACCTAAACTTGATACTTTTTT
1 GTCTAATTTGGTACCTAAACTTG-T--TTTTTT
* *
24664454 TTCTAATTTGGTACGTAAAC---TTTTTTT
1 GTCTAATTTGGTACCTAAACTTGTTTTTTT
24664481 GTCTAATTTGGTACCTAAACTTGT
1 GTCTAATTTGGTACCTAAACTTGT
24664505 CAAATATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
27 24 0.55
29 1 0.02
30 1 0.02
33 18 0.41
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (30 bp):
GTCTAATTTGGTACCTAAACTTGTTTTTTT
Found at i:24665262 original size:6 final size:6
Alignment explanation
Indices: 24665251--24665277 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24665241 ACTTAATCCT
24665251 TAATTC TAATTC TAATTC TAATTC TAA
1 TAATTC TAATTC TAATTC TAATTC TAA
24665278 AGTAGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTC
Found at i:24665640 original size:25 final size:25
Alignment explanation
Indices: 24665610--24665696 Score: 120
Period size: 25 Copynumber: 3.5 Consensus size: 25
24665600 TAGGGATTTT
* *
24665610 ATATGCGAGCCTGTATGCTAGTATA
1 ATATGCGAGCCTGTATGTTAGTGTA
* *
24665635 ATATGCAAGCATGTATGTTAGTGTA
1 ATATGCGAGCCTGTATGTTAGTGTA
* *
24665660 ATATGCGAGCCTATCTGTTAGTGTA
1 ATATGCGAGCCTGTATGTTAGTGTA
24665685 ATATGCGAGCCT
1 ATATGCGAGCCT
24665697 ATTTGTAGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (25 bp):
ATATGCGAGCCTGTATGTTAGTGTA
Found at i:24665998 original size:14 final size:14
Alignment explanation
Indices: 24665981--24666010 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24665971 GCCCCTATGA
24665981 GCGAACACCTTAGT
1 GCGAACACCTTAGT
*
24665995 GCGAACTCCTTAGT
1 GCGAACACCTTAGT
24666009 GC
1 GC
24666011 AAGCCTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (14 bp):
GCGAACACCTTAGT
Found at i:24666181 original size:16 final size:17
Alignment explanation
Indices: 24666162--24666194 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24666152 CTTGTAGGTA
*
24666162 CGAACCATCT-TGTATG
1 CGAACCACCTGTGTATG
24666178 CGAACCACCTGTGTATG
1 CGAACCACCTGTGTATG
24666195 AGAGCCTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (17 bp):
CGAACCACCTGTGTATG
Found at i:24671830 original size:47 final size:47
Alignment explanation
Indices: 24671759--24671926 Score: 159
Period size: 47 Copynumber: 3.6 Consensus size: 47
24671749 TAAGGTGCCA
* *
24671759 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGATG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGACT-ATCATCTCGAAGACG
* *
24671806 ATGCCATGTCCCAGACATGATCTTACACTGACTATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATG-TCTTACACTGACTATCATCTCGAAGACG
* ** ** *
24671854 ATG-CATGTCCCAGACATGTCTTACATTCG-CT-TACGCCTCGGGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACT-GACTAT-CATCTCGAAGACG
24671900 ATG-CATGTCCCAGACATGTCTTACACT
1 ATGCCATGTCCCAGACATGTCTTACACT
24671927 AGCCTCATTT
Statistics
Matches: 106, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 48 0.45
47 51 0.48
48 6 0.06
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAAGACG
Found at i:24672014 original size:139 final size:140
Alignment explanation
Indices: 24671763--24672017 Score: 331
Period size: 139 Copynumber: 1.8 Consensus size: 140
24671753 GTGCCAATGC
*
24671763 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGATGATGCCATGTCCCAGACATGATC
1 CATGTCCCAGACATGGTCTTACACTGCCTCATATCTCAAGATGATGCCATGTCCCAGACATGATC
* * *
24671828 TTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACATTCGCTTACGCCTC
66 TTACACTGACTATCATATCATAGCCGATGCATGTCCCAAACATGTCTTACATTCGCTTACGCCTC
24671893 GGGGCCGATG
131 GGGGCCGATG
* * *
24671903 CATGTCCCAGACAT-GTCTTACACTAGCCTCAT-T-TCAATG-TAGTTGCCATGTGCTAGACATG
1 CATGTCCCAGACATGGTCTTACACT-GCCTCATATCTCAA-GAT-GATGCCATGTCCCAGACATG
* * * * *
24671964 GTCTTACACTGGCTCTCATAAT-ATGGCTGATGCATGTCCCAAACATGTCTTACA
63 ATCTTACACTGACTATCAT-ATCATAGCCGATGCATGTCCCAAACATGTCTTACA
24672018 GTAGCTCACA
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
138 5 0.05
139 73 0.74
140 21 0.21
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTGCCTCATATCTCAAGATGATGCCATGTCCCAGACATGATC
TTACACTGACTATCATATCATAGCCGATGCATGTCCCAAACATGTCTTACATTCGCTTACGCCTC
GGGGCCGATG
Found at i:24679456 original size:45 final size:45
Alignment explanation
Indices: 24679403--24679621 Score: 237
Period size: 45 Copynumber: 4.8 Consensus size: 45
24679393 TCTTGTAGCT
*
24679403 GATGCATGTCCCAAACATATCTTACACTGGCTTACGCTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTTACGCTCGAGGCC
24679448 GATGCATGTCCCAAACATGTCTTACACTGGCTTACGCTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTTACGCTCGAGGCC
* * * *
24679493 GATGCATGTCCCAAACATGTCTTACACTAGCCCT-CGTCTCAATGCC
1 GATGCATGTCCCAAACATGTCTTACACT-GGCTTACG-CTCGAGGCC
* * * ** *
24679539 GATGCCATGTCTCAAACATGGTCTTACACTAG-TT-CTCATAATATGGCT
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACGC-T-CGA-GGCC
* *
24679587 GATGCATGTCCCAGACATGTCTTACACTAGCTTAC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTTAC
24679622 ACAAGTGACC
Statistics
Matches: 149, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
45 75 0.50
46 29 0.19
47 28 0.19
48 17 0.11
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTTACGCTCGAGGCC
Found at i:24679605 original size:94 final size:91
Alignment explanation
Indices: 24679400--24679617 Score: 246
Period size: 94 Copynumber: 2.4 Consensus size: 91
24679390 TTATCTTGTA
* * * *
24679400 GCTGATGCATGTCCCAAACATATCTTACACT-GGCTTACGCTCGAGGCCGATGCATGTCCCAAAC
1 GCTGATGCATGTCCCAAACATGTCTTACACTAGCCCTACGCTCAAGGCCGATGCATGTCCCAAAC
* *
24679464 ATGTCTTACACTGGCTTACGCTCGAG
66 ATGTCTTACACTAGCTTACGCTAGAG
* * *
24679490 GCCGATGCATGTCCCAAACATGTCTTACACTAGCCCT-CGTCTCAATGCCGATGCCATGTCTCAA
1 GCTGATGCATGTCCCAAACATGTCTTACACTAGCCCTACG-CTCAAGGCCGATG-CATGTCCCAA
* *
24679554 ACATGGTCTTACACTAG-TT-CTCATAATATG
64 ACAT-GTCTTACACTAGCTTACGC-T-AGA-G
*
24679584 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAAACATGTCTTACACTAGC
24679618 TTACACAAGT
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
90 31 0.29
91 16 0.15
92 16 0.15
93 12 0.11
94 33 0.31
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GCTGATGCATGTCCCAAACATGTCTTACACTAGCCCTACGCTCAAGGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCTTACGCTAGAG
Found at i:24685505 original size:17 final size:17
Alignment explanation
Indices: 24685483--24685519 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
24685473 AATCGAAATT
24685483 TATTTTATAATAATAAA
1 TATTTTATAATAATAAA
*
24685500 TATTTTGTAATAATAAA
1 TATTTTATAATAATAAA
24685517 TAT
1 TAT
24685520 CATATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAATAAA
Found at i:24686078 original size:15 final size:15
Alignment explanation
Indices: 24686058--24686109 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
24686048 ACTACAAAAC
24686058 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
24686073 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
24686092 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
24686107 ATT
1 ATT
24686110 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:24686173 original size:16 final size:16
Alignment explanation
Indices: 24686142--24686175 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
24686132 ATATAAAGAA
24686142 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
24686158 TATT-TTTAAAACTTAT
1 TATTATTTAAAA-TTAT
24686174 TA
1 TA
24686176 ATCAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:24686240 original size:16 final size:16
Alignment explanation
Indices: 24686211--24686241 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24686201 AATTTATTAA
24686211 AATAATTAATTATATC
1 AATAATTAATTATATC
24686227 AATAATTAATTATAT
1 AATAATTAATTATAT
24686242 GATTAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATAATTAATTATATC
Found at i:24686852 original size:18 final size:17
Alignment explanation
Indices: 24686829--24686870 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
24686819 TCAAAAATAT
24686829 ATTTTT-ATAATTCTTATA
1 ATTTTTAATAATT-TT-TA
24686847 ATTTTTTAATAATTTTTA
1 A-TTTTTAATAATTTTTA
24686865 ATTTTT
1 ATTTTT
24686871 TGAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 7 0.32
20 6 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTTAATAATTTTTA
Found at i:24686871 original size:18 final size:19
Alignment explanation
Indices: 24686830--24686871 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
24686820 CAAAAATATA
24686830 TTTTTATAATTCTTATAAT
1 TTTTTATAATTCTTATAAT
24686849 TTTTTAATAATT-TT-TAAT
1 TTTTT-ATAATTCTTATAAT
24686867 TTTTT
1 TTTTT
24686872 GAAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTATAATTCTTATAAT
Found at i:24687016 original size:17 final size:19
Alignment explanation
Indices: 24686994--24687037 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
24686984 TAATATAAGT
24686994 TTAAAAGTTAAA-AAA-AA
1 TTAAAAGTTAAATAAAGAA
* *
24687011 TTAAAAATTAAATAAAGAG
1 TTAAAAGTTAAATAAAGAA
24687030 TTAAAAGT
1 TTAAAAGT
24687038 GATTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (19 bp):
TTAAAAGTTAAATAAAGAA
Found at i:24689464 original size:24 final size:24
Alignment explanation
Indices: 24689437--24689492 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
24689427 ATTACGAGTA
24689437 AAAATTTA-TTTTTCTTTTATTTTT
1 AAAATTTAGTTTTT-TTTTATTTTT
**
24689461 AAAAAATAGTTTTTTTTTATTTTT
1 AAAATTTAGTTTTTTTTTATTTTT
*
24689485 TAAATTTA
1 AAAATTTA
24689493 AAAATGCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
AAAATTTAGTTTTTTTTTATTTTT
Found at i:24691438 original size:17 final size:15
Alignment explanation
Indices: 24691404--24691447 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
24691394 TTTAATTTAT
24691404 AATA-TAAATTTAAA
1 AATATTAAATTTAAA
24691418 AATATTAAATTGTATAA
1 AATATTAAATT-TA-AA
24691435 AATATTCAAATTT
1 AATATT-AAATTT
24691448 TTTATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.15
15 6 0.23
16 2 0.08
17 9 0.35
18 5 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
AATATTAAATTTAAA
Found at i:24693153 original size:42 final size:42
Alignment explanation
Indices: 24693106--24693190 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
24693096 TTGATAACCT
24693106 CTGTTAGCATTGTTTTCTTCCCCCTTAGTTGCTTGTCTTGAC
1 CTGTTAGCATTGTTTTCTTCCCCCTTAGTTGCTTGTCTTGAC
*
24693148 CTGTTAGCATTGTTTTCTTCCTCCTTAGTTGCTTGTCTTGAC
1 CTGTTAGCATTGTTTTCTTCCCCCTTAGTTGCTTGTCTTGAC
24693190 C
1 C
24693191 AGGGGCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.09, C:0.26, G:0.16, T:0.48
Consensus pattern (42 bp):
CTGTTAGCATTGTTTTCTTCCCCCTTAGTTGCTTGTCTTGAC
Found at i:24696591 original size:30 final size:29
Alignment explanation
Indices: 24696527--24696592 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
24696517 AATTGAATCA
**
24696527 TCCATCAAAATACAAACATAAATAAAGTG
1 TCCATCAAAATACAAACATAAATAAACCG
*
24696556 TCCATCAAAATAC-AACTATCAATTAAACCG
1 TCCATCAAAATACAAAC-AT-AAATAAACCG
24696586 TCCATCA
1 TCCATCA
24696593 TTGAAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 15 0.47
30 14 0.44
ACGTcount: A:0.48, C:0.24, G:0.05, T:0.23
Consensus pattern (29 bp):
TCCATCAAAATACAAACATAAATAAACCG
Found at i:24697518 original size:13 final size:13
Alignment explanation
Indices: 24697500--24697526 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24697490 ATAGTGCTAA
24697500 ACATAACATACAT
1 ACATAACATACAT
24697513 ACATAACATACAT
1 ACATAACATACAT
24697526 A
1 A
24697527 AACATTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (13 bp):
ACATAACATACAT
Found at i:24697588 original size:20 final size:19
Alignment explanation
Indices: 24697523--24697597 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 19
24697513 ACATAACATA
24697523 CATAAACATTAATAAACAGT
1 CATAAACA-TAATAAACAGT
* *
24697543 GATATACCACATAATATACA-T
1 CATA-A--ACATAATAAACAGT
24697564 ACATAAACATTAATAAACAGT
1 -CATAAACA-TAATAAACAGT
*
24697585 CATACACATAATA
1 CATAAACATAATA
24697598 GTAATATACA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 18 0.41
21 4 0.09
22 11 0.25
23 3 0.07
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.25
Consensus pattern (19 bp):
CATAAACATAATAAACAGT
Found at i:24697616 original size:12 final size:13
Alignment explanation
Indices: 24697599--24697965 Score: 163
Period size: 12 Copynumber: 27.8 Consensus size: 13
24697589 CACATAATAG
24697599 TAATATACA-ACA
1 TAATATACATACA
24697611 TAATATACATACA
1 TAATATACATACA
* *
24697624 TTAAACATGCCATACA
1 -T-AATAT-ACATACA
* *
24697640 TAGTATACAAACA
1 TAATATACATACA
* *
24697653 TAACAGTAAATAACACA
1 TAATA-TACAT---ACA
* *
24697670 TAACAAACATACA
1 TAATATACATACA
24697683 -AATATACATACA
1 TAATATACATACA
*
24697695 TAATATACAGAACA
1 TAATATACA-TACA
*
24697709 T--TATATA-ACA
1 TAATATACATACA
*
24697719 TAACATACATACA
1 TAATATACATACA
*
24697732 -AATATACAAACA
1 TAATATACATACA
*
24697744 TAACAGTA-A-ACA
1 TAATA-TACATACA
* *
24697756 TAACATACATATA
1 TAATATACATACA
* *
24697769 TAACAAAACATAACA
1 TAA-TATACAT-ACA
*
24697784 TAACATACATACA
1 TAATATACATACA
*
24697797 -AATATACAAACA
1 TAATATACATACA
*
24697809 TAAAAGTA-A-ACA
1 TAATA-TACATACA
*
24697821 TAACATACATACA
1 TAATATACATACA
*
24697834 TAACAGTACATAACA
1 TAATA-TACAT-ACA
*
24697849 TAACATACATACA
1 TAATATACATACA
*
24697862 -AATATACAAACA
1 TAATATACATACA
* *
24697874 TAACATACATGCA
1 TAATATACATACA
*
24697887 TAACAGTACATAACA
1 TAATA-TACAT-ACA
24697902 TACATA-ACATA-A
1 TA-ATATACATACA
* *
24697914 TAGTAAACATAACA
1 TAATATACAT-ACA
*
24697928 T-ACATACATAACAA
1 TAATATACAT-AC-A
24697942 TACATA-ACATACA
1 TA-ATATACATACA
24697955 TAATATACATA
1 TAATATACATA
24697966 ACAGTTTAAA
Statistics
Matches: 276, Mismatches: 43, Indels: 71
0.71 0.11 0.18
Matches are distributed among these distances:
10 4 0.01
11 6 0.02
12 85 0.31
13 84 0.30
14 50 0.18
15 26 0.09
16 13 0.05
17 8 0.03
ACGTcount: A:0.57, C:0.18, G:0.03, T:0.22
Consensus pattern (13 bp):
TAATATACATACA
Found at i:24697692 original size:51 final size:49
Alignment explanation
Indices: 24697654--24697992 Score: 149
Period size: 53 Copynumber: 6.6 Consensus size: 49
24697644 ATACAAACAT
24697654 AACAGTAAATAACACATAACAAACATACAAATATACATACATAATATACAG
1 AACAGTAAAT-A-ACATAACAAACATACAAATATACATACATAATATACAG
* * * * * *
24697705 AACATTATATAACATAACATACATACAAATATACAAACATAACAGTAAACAT
1 AACAGTAAATAACATAACAAACATACAAATATACATACAT-A-A-TATACAG
* * *
24697757 AACA-TACAT-ATATAACAAAACATAACATAACATACATACA-AATATACA-
1 AACAGTAAATAACATAAC-AAACAT-ACA-AATATACATACATAATATACAG
* * *
24697805 AACA-TAAAAGTAAACATAACATACATACATAACAGTACATAACATAACATACA-
1 AACAGT-AAA-T-AACATAACAAACATACA-AATA-TACAT-ACATAATATACAG
* * * * * *
24697858 TACAAATATACA-AACATAACATACATGCATAACAGTACATAACATACATA-ACAT
1 AAC-AGTA-A-ATAACATAACAAACATACA-AATA-TACAT-ACATA-ATATACAG
* * * *
24697912 AATAGTAAACATAACAT-ACATACATAACAATACATAACATACATAATATACAT
1 AACAGT-AA-ATAACATAACAAACAT-ACAA-ATAT-ACATACATAATATACAG
*
24697965 AACAGTTTAAA-AACATAACATACATACA
1 AACAG--TAAATAACATAACAAACATACA
24697993 TAAACAGTAA
Statistics
Matches: 236, Mismatches: 24, Indels: 55
0.75 0.08 0.17
Matches are distributed among these distances:
48 5 0.02
49 34 0.14
50 18 0.08
51 29 0.12
52 32 0.14
53 92 0.39
54 22 0.09
55 3 0.01
56 1 0.00
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.22
Consensus pattern (49 bp):
AACAGTAAATAACATAACAAACATACAAATATACATACATAATATACAG
Found at i:24697729 original size:49 final size:51
Alignment explanation
Indices: 24697667--24697995 Score: 222
Period size: 49 Copynumber: 6.4 Consensus size: 51
24697657 AGTAAATAAC
* *
24697667 ACATAACAAACATACA-AATATACATACATAATATACAGAACATTATA-TA
1 ACATAACATACATACATAATATACATACATAATATACATAACATTATAGTA
* *
24697716 ACATAACATACATACA-AATATACAAACATAACAGTAAACATAACATACATATA-TA
1 ACATAACATACATACATAATATACATACAT-A-A-TATACATAACAT---TATAGTA
* * * *
24697771 ACAAAACAT--A-ACATAACATACATACA-AATATACA-AACATAAAAGTAA
1 ACATAACATACATACATAATATACATACATAATATACATAACATTATAGT-A
* * *
24697818 ACATAACATACATACATAACAGTACATAACATAACATACAT-ACA-AATA-T-
1 ACATAACATACATACATAATA-TACAT-ACATAATATACATAACATTATAGTA
* * *
24697867 ACA-AACATAACATACATGCATA-ACAGTACATAACATACATAACATAATAGTAA
1 ACATAACAT-ACATACAT-AATATACA-TACATAATATACATAACATTATAGT-A
**
24697920 ACATAACATACATACATAACAATACATAACATACATAATATACATAACAGTT-TAAAA
1 ACATAACATACATACAT---AAT--AT-ACATACATAATATACATAACA-TTATAGTA
24697977 ACATAACATACATACATAA
1 ACATAACATACATACATAA
24697996 ACAGTAAAGA
Statistics
Matches: 227, Mismatches: 21, Indels: 59
0.74 0.07 0.19
Matches are distributed among these distances:
45 2 0.01
46 1 0.00
47 9 0.04
48 26 0.11
49 48 0.21
50 16 0.07
51 9 0.04
52 19 0.08
53 32 0.14
54 7 0.03
55 16 0.07
57 19 0.08
58 19 0.08
59 4 0.02
ACGTcount: A:0.57, C:0.18, G:0.02, T:0.22
Consensus pattern (51 bp):
ACATAACATACATACATAATATACATACATAATATACATAACATTATAGTA
Found at i:24697745 original size:65 final size:66
Alignment explanation
Indices: 24697721--24697965 Score: 241
Period size: 65 Copynumber: 3.6 Consensus size: 66
24697711 ATATAACATA
* * * * *
24697721 ACATACATACAAATATACAAACATA-ACAGTAAACATAACAT-ACATATATAACAAAACATAACA
1 ACATACATACAAATATACAAACATACATAATATACAT-ACATAACATACATAACATAACATAACA
24697784 TA
65 TA
*
24697786 ACATACATACAAATATACAAACATA-A-AAGTAAACATAACAT-ACATACATAACAGT-ACATAA
1 ACATACATACAAATATACAAACATACATAA-TATACAT-ACATAACATACATAACA-TAACATAA
24697847 CATA
63 CATA
*
24697851 ACATACATACAAATATACAAACATAACATACATGCATAACAGTACATAACATACATAACATAATA
1 ACATACATACAAATATACAAACAT-ACATA-AT--AT-ACA-TACATAACATACATAACATAACA
24697916 GTAAACATA
60 -T-AACATA
*
24697925 ACATACATACATAACAATACATAACATACATAATATACATA
1 ACATACATACA-AA-TATACA-AACATACATAATATACATA
24697966 ACAGTTTAAA
Statistics
Matches: 157, Mismatches: 6, Indels: 28
0.82 0.03 0.15
Matches are distributed among these distances:
64 1 0.01
65 83 0.53
66 1 0.01
67 1 0.01
68 2 0.01
69 1 0.01
70 1 0.01
71 10 0.06
72 18 0.11
73 3 0.02
74 17 0.11
75 4 0.03
76 10 0.06
77 5 0.03
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (66 bp):
ACATACATACAAATATACAAACATACATAATATACATACATAACATACATAACATAACATAACAT
A
Found at i:24697756 original size:28 final size:28
Alignment explanation
Indices: 24697725--24697822 Score: 90
Period size: 35 Copynumber: 3.2 Consensus size: 28
24697715 AACATAACAT
24697725 ACATACAAATATACAAACATAACAGTAA
1 ACATACAAATATACAAACATAACAGTAA
24697753 ACATAACATACATATATAACAAAACATAACA-TAACA
1 ACAT-AC--A-A-ATAT-AC-AAACATAACAGT-A-A
*
24697789 TACATACAAATATACAAACATAAAAGTAA
1 -ACATACAAATATACAAACATAACAGTAA
24697818 ACATA
1 ACATA
24697823 ACATACATAC
Statistics
Matches: 58, Mismatches: 1, Indels: 22
0.72 0.01 0.27
Matches are distributed among these distances:
28 9 0.16
29 3 0.05
30 10 0.17
31 4 0.07
32 5 0.09
33 5 0.09
34 4 0.07
35 11 0.19
36 3 0.05
37 4 0.07
ACGTcount: A:0.61, C:0.17, G:0.02, T:0.19
Consensus pattern (28 bp):
ACATACAAATATACAAACATAACAGTAA
Found at i:24698009 original size:30 final size:29
Alignment explanation
Indices: 24697816--24698024 Score: 148
Period size: 28 Copynumber: 7.7 Consensus size: 29
24697806 ACATAAAAGT
*
24697816 AAACATAACAT-ACATACATAACAGTACA
1 AAACATAACATAACATACATAACAGTAAA
* * *
24697844 TAACATAACAT-ACATACA-AATA-T-AC
1 AAACATAACATAACATACATAACAGTAAA
* *
24697869 AAACATAACAT-ACATGCATAACAGTACA
1 AAACATAACATAACATACATAACAGTAAA
*
24697897 TAACAT-ACATAACATA-AT---AGT---
1 AAACATAACATAACATACATAACAGTAAA
* *
24697918 AAACATAACAT-ACATACATAACAATACA
1 AAACATAACATAACATACATAACAGTAAA
* * *
24697946 TAACAT-ACATAATATACATAACAGTTTAA
1 AAACATAACATAACATACATAACAG-TAAA
24697975 AAACATAACAT-ACATACATAAACAGTAAA
1 AAACATAACATAACATACAT-AACAGTAAA
*
24698004 GAAACATAA-ATAACAGACATA
1 -AAACATAACATAACATACATA
24698025 CCTTTCAGCC
Statistics
Matches: 141, Mismatches: 22, Indels: 35
0.71 0.11 0.18
Matches are distributed among these distances:
21 10 0.07
22 6 0.04
24 3 0.02
25 18 0.13
26 4 0.03
27 14 0.10
28 42 0.30
29 20 0.14
30 24 0.17
ACGTcount: A:0.57, C:0.18, G:0.04, T:0.21
Consensus pattern (29 bp):
AAACATAACATAACATACATAACAGTAAA
Found at i:24699135 original size:22 final size:22
Alignment explanation
Indices: 24699110--24699152 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
24699100 TAACATAGTC
24699110 AAATTACTTGTAATTTATTTTT
1 AAATTACTTGTAATTTATTTTT
24699132 AAATTACTTGTAATTTATTTT
1 AAATTACTTGTAATTTATTTT
24699153 GTGACTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (22 bp):
AAATTACTTGTAATTTATTTTT
Found at i:24701534 original size:43 final size:41
Alignment explanation
Indices: 24701404--24701557 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 41
24701394 TGCATTATTG
* *
24701404 TGTAAGACCACATCTGGGACGTTGGCAT-TTACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACG-TGGCATCGTA-TT-TGA-TTACA
* * * *
24701448 TGTAAGACCACGTATGGGACGT--CATCGTGTTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTGGCATCGTATTTGATTACA
24701487 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTGGCATCG-TATTTGATTACA
24701530 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACG-TGGCAT
24701558 TGTACGAGAT
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
38 1 0.01
39 20 0.22
40 5 0.05
41 5 0.05
42 7 0.08
43 34 0.37
44 20 0.22
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTGGCATCGTATTTGATTACA
Found at i:24703810 original size:28 final size:28
Alignment explanation
Indices: 24703742--24703895 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
24703732 CATGAGATTG
* * * *
24703742 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
24703771 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
24703799 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24703827 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24703855 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24703882 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
24703896 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.64
29 18 0.16
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24705822 original size:30 final size:30
Alignment explanation
Indices: 24705788--24705848 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24705778 TTCCCGAGCC
*
24705788 TAGGGGTAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
24705818 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
24705848 T
1 T
24705849 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:24706430 original size:68 final size:67
Alignment explanation
Indices: 24706357--24706528 Score: 176
Period size: 67 Copynumber: 2.6 Consensus size: 67
24706347 CATCATATGT
* ** * * *
24706357 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCACATGCATGATACCAGTGAAGGACACCA
24706420 TGTAG
63 TGTAG
* *
24706425 ACAAGAGAGCTACGAG-ATATATGTAGCTAGGTCACATGCATGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCACATGCATGATACCA-GTGAAGGACACCATG
24706489 TAG
65 TAG
*
24706492 ACAAGAGAGCTACGAG-ATAAACTG--GCTAGGTCACATG
1 ACAAGAGAGCTACGAGAATATA-TGTAGCTAGGTCACATG
24706529 GATGGTACTA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
64 22 0.24
65 3 0.03
66 16 0.18
67 32 0.35
68 18 0.20
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCACATGCATGATACCAGTGAAGGACACCATGT
AG
Found at i:24708572 original size:40 final size:40
Alignment explanation
Indices: 24708452--24708602 Score: 176
Period size: 41 Copynumber: 3.7 Consensus size: 40
24708442 ATTGTGAAAT
** ** *
24708452 ACAGAGCAATAGCGGCATTTTTAGTAAAACGCCGCTAAAA
1 ACAGAGCAATAGCGGCGCTTTCGGTAAAATGCCGCTAAAA
* *
24708492 ACAGAGCAATAGCGGCGCTTTTTGCTAAAATGCCGCTAAAA
1 ACAGAGCAATAGCGGCGC-TTTCGGTAAAATGCCGCTAAAA
* *
24708533 ACAGAGCAATAGCAGCGCTTTCGGTAAAATGCTGCTAAAA
1 ACAGAGCAATAGCGGCGCTTTCGGTAAAATGCCGCTAAAA
* * *
24708573 ACCACAGCATTAGCGGTGCTTTCGGTAAAA
1 A-CAGAGCAATAGCGGCGCTTTCGGTAAAA
24708603 CGTCGCTGAA
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
40 36 0.38
41 60 0.62
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (40 bp):
ACAGAGCAATAGCGGCGCTTTCGGTAAAATGCCGCTAAAA
Found at i:24708602 original size:81 final size:81
Alignment explanation
Indices: 24708452--24708602 Score: 178
Period size: 81 Copynumber: 1.9 Consensus size: 81
24708442 ATTGTGAAAT
* * * * *
24708452 ACAGAGCAATAGCGGCATTTTTAGTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTTTGC
1 ACAGAGCAATAGCAGCACTTTCAGTAAAACGCCGCTAAAAACACAGCAATAGCGGCGCTTTTCGC
24708517 TAAAATGCCGCTAAAA
66 TAAAATGCCGCTAAAA
* * * * * *
24708533 ACAGAGCAATAGCAGCGCTTTCGGTAAAATGCTGCTAAAAACCACAGCATTAGCGGTGC-TTTCG
1 ACAGAGCAATAGCAGCACTTTCAGTAAAACGCCGCTAAAAA-CACAGCAATAGCGGCGCTTTTCG
*
24708597 GTAAAA
65 CTAAAA
24708603 CGTCGCTGAA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 43 0.75
82 14 0.25
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (81 bp):
ACAGAGCAATAGCAGCACTTTCAGTAAAACGCCGCTAAAAACACAGCAATAGCGGCGCTTTTCGC
TAAAATGCCGCTAAAA
Found at i:24708802 original size:7 final size:7
Alignment explanation
Indices: 24708786--24708832 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
24708776 TATCATTATA
24708786 GTTTAAG
1 GTTTAAG
*
24708793 GTTTATG
1 GTTTAAG
24708800 GTTTAAG
1 GTTTAAG
* * *
24708807 ATATATG
1 GTTTAAG
24708814 GTTTAAG
1 GTTTAAG
24708821 GTTTAAG
1 GTTTAAG
24708828 GTTTA
1 GTTTA
24708833 GGAGTTAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (7 bp):
GTTTAAG
Found at i:24708803 original size:14 final size:14
Alignment explanation
Indices: 24708781--24708832 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
24708771 TTAATTATCA
*
24708781 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
24708795 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
*
24708809 ATATGGTTTAAGGT
1 TTATGGTTTAAGGT
*
24708823 TTAAGGTTTA
1 TTATGGTTTA
24708833 GGAGTTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:24708897 original size:7 final size:7
Alignment explanation
Indices: 24708870--24709005 Score: 80
Period size: 7 Copynumber: 19.1 Consensus size: 7
24708860 GATGAATTAT
24708870 GGGTTTA
1 GGGTTTA
* *
24708877 GAGATTA
1 GGGTTTA
*
24708884 TGGTTTA
1 GGGTTTA
24708891 GGGTTTA
1 GGGTTTA
24708898 GGG-TT-
1 GGGTTTA
24708903 GGAGTTTA
1 GG-GTTTA
*
24708911 AGGTGTTA
1 GGGT-TTA
24708919 GGGTTTA
1 GGGTTTA
*
24708926 GGGTTAA
1 GGGTTTA
*
24708933 GGGTTAA
1 GGGTTTA
* *
24708940 AGATTTA
1 GGGTTTA
*
24708947 AGGTTTA
1 GGGTTTA
*
24708954 GGGTTAA
1 GGGTTTA
*
24708961 GTGTTTA
1 GGGTTTA
*
24708968 GTGTTTA
1 GGGTTTA
*
24708975 TGGG-ATA
1 -GGGTTTA
*
24708982 GGGGTTAA
1 -GGGTTTA
24708990 GAGGTTTA
1 G-GGTTTA
24708998 GGGTTTA
1 GGGTTTA
24709005 G
1 G
24709006 ATTAATTAGT
Statistics
Matches: 99, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 78 0.79
8 16 0.16
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:24708974 original size:28 final size:27
Alignment explanation
Indices: 24708885--24708974 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
24708875 TAGAGATTAT
*
24708885 GGTTTAGGGTTTAGGGTTGGAGT-TTAA
1 GGTTTAGGGTTTAGGGTT-AAGTGTTAA
*
24708912 GGTGTTAGGGTTTAGGGTTAAGGGTTAAA
1 GGT-TTAGGGTTTAGGGTTAAGTGTT-AA
* * *
24708941 GATTTAAGGTTTAGGGTTAAGTGTTTA
1 GGTTTAGGGTTTAGGGTTAAGTGTTAA
24708968 GTGTTTA
1 G-GTTTA
24708975 TGGGATAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
27 7 0.13
28 41 0.79
29 4 0.08
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (27 bp):
GGTTTAGGGTTTAGGGTTAAGTGTTAA
Done.