Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 284 of 438
Found at i:88815699 original size:15 final size:15
Alignment explanation
Indices: 88815641--88815719 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
88815631 CAAAGATAAC
*
88815641 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
88815655 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
88815670 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
88815684 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
88815699 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
88815714 AAGAAA
1 AAGAAA
88815720 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:88815728 original size:15 final size:15
Alignment explanation
Indices: 88815652--88815728 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
88815642 AGAAAACCGA
88815652 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
88815667 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
88815681 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
88815695 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
88815711 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
88815726 ATA
1 ATA
88815729 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:88818787 original size:93 final size:93
Alignment explanation
Indices: 88818675--88818846 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
88818665 GCCCATAAGT
* **
88818675 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88818740 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
88818768 GAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88818833 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
88818847 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:88818842 original size:46 final size:45
Alignment explanation
Indices: 88818667--88818842 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 45
88818657 TGTAACCCGC
* * *
88818667 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-CTCGCAT
*
88818713 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTCG---CAT
* *
88818763 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-CTCGCAT
88818806 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
88818843 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 67 0.60
47 31 0.28
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTCGCAT
Found at i:88818861 original size:46 final size:46
Alignment explanation
Indices: 88818718--88818861 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 46
88818708 CGCATCCATA
* * *
88818718 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--AACATCCC
* * *** *
88818766 A-CGAACTCGGACTCAACTCAACGAGTTCGGA--CACTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCC--C
*
88818811 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCC
88818857 AGTGA
1 AGTGA
88818862 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 34 0.45
47 29 0.38
48 7 0.09
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCC
Found at i:88821454 original size:52 final size:52
Alignment explanation
Indices: 88821391--88821495 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
88821381 ACTAACGTAC
88821391 AATGAAAAATTTTTAATAACAGAAATGAATGAAATTTTTAACAGAAGAACTA
1 AATGAAAAATTTTTAATAACAGAAATGAATGAAATTTTTAACAGAAGAACTA
* * *
88821443 AATGACAAATTTTTAATAGCAGAAATGAATGAAATTTTTAATAGAAGAACTA
1 AATGAAAAATTTTTAATAACAGAAATGAATGAAATTTTTAACAGAAGAACTA
88821495 A
1 A
88821496 TTTACTCATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (52 bp):
AATGAAAAATTTTTAATAACAGAAATGAATGAAATTTTTAACAGAAGAACTA
Found at i:88821486 original size:25 final size:25
Alignment explanation
Indices: 88821397--88821491 Score: 120
Period size: 25 Copynumber: 3.7 Consensus size: 25
88821387 GTACAATGAA
88821397 AAATTTTTAATA-ACAGAAATGAATG
1 AAATTTTTAATAGA-AGAAATGAATG
* * *
88821422 AAATTTTTAACAGAAGAACTAAATG
1 AAATTTTTAATAGAAGAAATGAATG
*
88821447 ACAAATTTTTAATAGCAGAAATGAATG
1 --AAATTTTTAATAGAAGAAATGAATG
88821474 AAATTTTTAATAGAAGAA
1 AAATTTTTAATAGAAGAA
88821492 CTAATTTACT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 37 0.63
26 1 0.02
27 21 0.36
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.31
Consensus pattern (25 bp):
AAATTTTTAATAGAAGAAATGAATG
Found at i:88826999 original size:69 final size:69
Alignment explanation
Indices: 88826895--88827025 Score: 210
Period size: 69 Copynumber: 1.9 Consensus size: 69
88826885 ACTGTAATAG
*
88826895 CCCAATTTTGGTGAAATCAGAACAGTGGTTCGGGACCACAAATCCGAGCCAAAAATAAAATTGTA
1 CCCAATTTCGGTGAAATCAGAACAGTGGTTCGGGACCACAAATCCGAGCCAAAAATAAAATTGTA
88826960 ACAA
66 ACAA
* * *
88826964 CCCAATTTCGGTGAAATC-GAAACAGTGGTTTGGGACCACAAATTCGAGCCGAAAATAAAATT
1 CCCAATTTCGGTGAAATCAG-AACAGTGGTTCGGGACCACAAATCCGAGCCAAAAATAAAATT
88827026 TATTTTTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
68 1 0.02
69 56 0.98
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (69 bp):
CCCAATTTCGGTGAAATCAGAACAGTGGTTCGGGACCACAAATCCGAGCCAAAAATAAAATTGTA
ACAA
Found at i:88827344 original size:18 final size:18
Alignment explanation
Indices: 88827307--88827345 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
88827297 TTGGAAATTA
*
88827307 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
88827325 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
88827343 AAA
1 AAA
88827346 AAATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:88831817 original size:42 final size:43
Alignment explanation
Indices: 88831724--88831817 Score: 115
Period size: 42 Copynumber: 2.2 Consensus size: 43
88831714 TATACCTGCT
* *
88831724 AATAATTTT-AAAAATTATTTTTAAATGTTTTTTTATATTTTTA
1 AATAATTTTAAAAAATAAATTTTAAATG-TTTTTTATATTTTTA
*
88831767 AA-ATTTTTAAAAAATAAATTTT-AATG-TTTTTATACTTTTTA
1 AATAATTTTAAAAAATAAATTTTAAATGTTTTTTATA-TTTTTA
88831808 AATAATTTTA
1 AATAATTTTA
88831818 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
40 8 0.18
41 8 0.18
42 15 0.34
43 13 0.30
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (43 bp):
AATAATTTTAAAAAATAAATTTTAAATGTTTTTTATATTTTTA
Found at i:88835096 original size:21 final size:20
Alignment explanation
Indices: 88835072--88835123 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
88835062 TTATGCCACA
88835072 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
*
88835093 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
*
88835113 TTAGTATTTTA
1 TCAGTATTTTA
88835124 ATCTGGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:88841101 original size:43 final size:43
Alignment explanation
Indices: 88841040--88841126 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
88841030 GTTAAGTGAA
88841040 TCATAATTCATACAAGTTGAAATTATAGTCTGAATGGTAGTTT
1 TCATAATTCATACAAGTTGAAATTATAGTCTGAATGGTAGTTT
88841083 TCATAATTCATACAAGTTGAAATTATAGTCTGAATGGTAGTTT
1 TCATAATTCATACAAGTTGAAATTATAGTCTGAATGGTAGTTT
88841126 T
1 T
88841127 TCTAAGTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.40
Consensus pattern (43 bp):
TCATAATTCATACAAGTTGAAATTATAGTCTGAATGGTAGTTT
Found at i:88847472 original size:43 final size:42
Alignment explanation
Indices: 88847424--88847562 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 42
88847414 TCCCTGATGT
* * *
88847424 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAA-ATCGATGCCTATGTCCCAGACAC
* * *
88847467 GGTCTTACACG-AAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATTCAAAT-CGATGCCTATGTCCCAGACAC
* * *
88847509 GGTCTTATACGTAAATATC-AATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAAATCGATGCCTATGTCCCAGACAC
88847552 GGTCTTACACG
1 GGTCTTACACG
88847563 ATATCTCAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.03
42 34 0.43
43 37 0.46
44 5 0.06
45 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATTCAAATCGATGCCTATGTCCCAGACAC
Found at i:88852241 original size:29 final size:29
Alignment explanation
Indices: 88852207--88852309 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
88852197 TAATCAGCCG
** *
88852207 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
88852236 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
88852265 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
88852294 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
88852310 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:88860320 original size:29 final size:29
Alignment explanation
Indices: 88860286--88860388 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
88860276 TAATCAGCCG
** *
88860286 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
88860315 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
88860344 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
88860373 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
88860389 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:88862518 original size:54 final size:53
Alignment explanation
Indices: 88862411--88862519 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 53
88862401 CATGGCTGCT
* *
88862411 AGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCGGAGCCACC
1 AGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACC
* * * *
88862464 AGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGTCACC
1 AGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACC
88862518 AG
1 AG
88862520 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 10 0.20
54 39 0.80
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (53 bp):
AGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCACC
Found at i:88862519 original size:27 final size:27
Alignment explanation
Indices: 88862411--88862509 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
88862401 CATGGCTGCT
* *
88862411 AGAACAGATAA-TGTGACAGTGTCACC
1 AGAACAGATAATTGTGGCAGTGCCACC
* *
88862437 AGAACAGATAATTGTGGCGGAGCCACC
1 AGAACAGATAATTGTGGCAGTGCCACC
88862464 AGAACAGAT-ATATGTGGCAGTGCCACC
1 AGAACAGATAAT-TGTGGCAGTGCCACC
*
88862491 AGATCAGATAATTGTGGCA
1 AGAACAGATAATTGTGGCA
88862510 TAGTCACCAG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 13 0.21
27 48 0.76
28 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGTGCCACC
Found at i:88863863 original size:24 final size:24
Alignment explanation
Indices: 88863828--88863903 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
88863818 GCCACACCGT
*
88863828 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
88863852 TCTCCCTTATCAGCTCCGAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
88863876 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
88863900 TCTC
1 TCTC
88863904 TTGATAGACT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.24, C:0.41, G:0.04, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:88868154 original size:44 final size:43
Alignment explanation
Indices: 88868056--88868178 Score: 185
Period size: 44 Copynumber: 2.8 Consensus size: 43
88868046 CTAAACTCAT
* *
88868056 TCACCGGTATTA-CGCCTGCTAGGCTTGAAGCCTGATATTAAC
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
*
88868098 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCTTGATATTAAC
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGCC-TGATATTAAC
*
88868142 TCACCGGTATTATAGCCTGTTAGGCTCGAAGGCCTGA
1 TCACCGGTATTATAGCCTGCTAGGCTCGAA-GCCTGA
88868179 ATAGTACCGT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
42 11 0.15
43 18 0.25
44 41 0.56
45 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (43 bp):
TCACCGGTATTATAGCCTGCTAGGCTCGAAGCCTGATATTAAC
Found at i:88870303 original size:46 final size:45
Alignment explanation
Indices: 88870248--88870420 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
88870238 GTTGAGCATC
*
88870248 CGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTT
* * * * *
88870294 CAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TT
88870341 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-T
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTT
* *
88870386 CTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTAGG
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
88870421 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 21
0.75 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 54 0.52
47 27 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTT
Found at i:88870402 original size:93 final size:93
Alignment explanation
Indices: 88870243--88870413 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
88870233 GGATGGTTGA
*
88870243 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAATGTTCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCAAACTCGTTGAGT
88870308 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
88870336 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTC-AAACTCGTTGAG
*
88870400 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
88870414 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88876791 original size:16 final size:18
Alignment explanation
Indices: 88876772--88876804 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
88876762 CATACAAATT
88876772 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
88876788 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
88876805 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:88877431 original size:43 final size:43
Alignment explanation
Indices: 88877383--88877489 Score: 187
Period size: 43 Copynumber: 2.5 Consensus size: 43
88877373 AGCATTACGG
*
88877383 CTGCTAGGCTCGAAGCCCGATATTAACTCACCGGTATTATAGC
1 CTGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATAGC
*
88877426 CTGCTAGGCTCGAAGCCCGATATTAACTCACTGGCATTATAGC
1 CTGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATAGC
88877469 CTGCTAGGCTCGAAGGCCCGA
1 CTGCTAGGCTCGAA-GCCCGA
88877490 ATAGTACTGT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
43 55 0.90
44 6 0.10
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (43 bp):
CTGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATAGC
Found at i:88887955 original size:6 final size:6
Alignment explanation
Indices: 88887919--88888049 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
88887909 AAGAAACATT
* * * *
88887919 ATCAGA A-CTAGA ATCAAA ATGAGA TTCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * * *
88887968 ATCAAA ATTAGA ATTAGA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
88888017 ATCAGGTA A-CAGA ATCAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA AT
88888050 GTGAATGTAA
Statistics
Matches: 94, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
5 5 0.05
6 77 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:88887969 original size:19 final size:19
Alignment explanation
Indices: 88887945--88888015 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
88887935 AAATGAGATT
*
88887945 CAGAATCAGAATCAGGTGA
1 CAGAATCAAAATCAGGTGA
* *
88887964 CAGAATCAAAATTA-G-AA
1 CAGAATCAAAATCAGGTGA
* *
88887981 TTAGAATCAAAATTAGGTGA
1 -CAGAATCAAAATCAGGTGA
*
88888001 CAGAATCAGAATCAG
1 CAGAATCAAAATCAG
88888016 TATCAGGTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
17 1 0.02
18 14 0.34
19 25 0.61
20 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.20
Consensus pattern (19 bp):
CAGAATCAAAATCAGGTGA
Found at i:88887969 original size:37 final size:37
Alignment explanation
Indices: 88887928--88888008 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
88887918 TATCAGAACT
*
88887928 AGAATCAAAATGAG-ATTCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATGAGAATT-AGAATCAAAATCAGGTGAC
* *
88887965 AGAATCAAAATTAGAATTAGAATCAAAATTAGGTGAC
1 AGAATCAAAATGAGAATTAGAATCAAAATCAGGTGAC
88888002 AGAATCA
1 AGAATCA
88888009 GAATCAGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 37 0.93
38 3 0.08
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (37 bp):
AGAATCAAAATGAGAATTAGAATCAAAATCAGGTGAC
Found at i:88888005 original size:25 final size:25
Alignment explanation
Indices: 88887977--88888046 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
88887967 AATCAAAATT
* * *
88887977 AGAATTAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAAAATCAGGTAAC
**
88888002 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAAAATCAGGTAAC
*
88888027 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAAAATCAG
88888047 AATGTGAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAAAATCAGGTAAC
Found at i:88888368 original size:22 final size:22
Alignment explanation
Indices: 88888334--88888396 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
88888324 CCACAATAAC
88888334 GGCACACAA-CCATAATCAGGTT
1 GGCACA-AAGCCATAATCAGGTT
*
88888356 GGCACAAAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
*
88888378 GGCGCAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
88888397 AATAATTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 4 0.11
22 29 0.83
23 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:88888886 original size:25 final size:25
Alignment explanation
Indices: 88888856--88888930 Score: 71
Period size: 27 Copynumber: 2.9 Consensus size: 25
88888846 CAGTCCAAGT
*
88888856 CAGTCACTTGCCCACAAGGGCAAAA
1 CAGTCATTTGCCCACAAGGGCAAAA
88888881 CAGTCATTTGACACC-CTAAGGGCAAAA
1 CAGTCATTTG-C-CCAC-AAGGGCAAAA
* * *
88888908 TAGTAATTTTACCCACAAGGGCA
1 CAGTCA-TTTGCCCACAAGGGCA
88888931 TCTCGGTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
25 9 0.22
26 11 0.27
27 18 0.44
28 3 0.07
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGTCATTTGCCCACAAGGGCAAAA
Found at i:88888954 original size:26 final size:27
Alignment explanation
Indices: 88888910--88889024 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
88888900 GGGCAAAATA
* * *
88888910 GTAATTTTACCC-ACAAGGGCATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
88888936 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
88888963 ATATTTCTTCCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
88888990 GAAATTCTACCCTACAAGGTTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
88889017 GTAATTCT
1 GTAATTCT
88889025 GTGACAGCCC
Statistics
Matches: 73, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 11 0.15
27 62 0.85
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:88891182 original size:40 final size:40
Alignment explanation
Indices: 88891127--88891345 Score: 381
Period size: 40 Copynumber: 5.5 Consensus size: 40
88891117 TTCGGATGAC
88891127 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
88891167 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
88891207 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
88891246 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
88891286 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
88891326 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
88891346 TACTTGGGTT
Statistics
Matches: 173, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
39 54 0.31
40 117 0.68
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:88891259 original size:79 final size:80
Alignment explanation
Indices: 88891127--88891345 Score: 381
Period size: 79 Copynumber: 2.8 Consensus size: 80
88891117 TTCGGATGAC
88891127 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
88891192 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAT
88891207 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
88891271 TGTGCTATTGACTAT
66 TGTGCTAGTGACTAT
* *
88891286 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
88891346 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
79 93 0.69
80 39 0.29
81 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTAT
Found at i:88898513 original size:40 final size:40
Alignment explanation
Indices: 88898458--88898676 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
88898448 TTCGGATGAC
*
88898458 ATCCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
88898498 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
88898538 ATCCTGGCTAAGTCCCGAAAGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
88898577 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* * *
88898617 ATCCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTG-CTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
88898657 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
88898677 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 51 0.31
40 112 0.68
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:88898595 original size:79 final size:80
Alignment explanation
Indices: 88898458--88898676 Score: 336
Period size: 79 Copynumber: 2.8 Consensus size: 80
88898448 TTCGGATGAC
*
88898458 ATCCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
88898523 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAT
* *
88898538 ATCCTGGCTAAGTCCCGAAAGCA-TTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
88898602 TGTGCTATTGACTAT
66 TGTGCTAGTGACTAT
* * * *
88898617 ATCCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTG-CTACATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
88898677 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
79 90 0.71
80 35 0.28
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTAT
Found at i:88900170 original size:27 final size:27
Alignment explanation
Indices: 88900059--88900162 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
88900049 AGGCGTTACA
*
88900059 AATTCTACCCTACAGGGATATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * * * *
88900086 ATTTCTTCCCTACAAGAGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
88900113 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
88900140 AATTCTACCCTACAGGGGTATTT
1 AATTCTACCCTACAGGGGTATTT
88900163 TAATAATTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCAGT
Found at i:88900185 original size:27 final size:27
Alignment explanation
Indices: 88900155--88900258 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 27
88900145 TACCCTACAG
*
88900155 GGGTATTTTAATAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTGTAAATCGA
***** * *
88900182 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTATTTTAGTAATTTTGTAAATCGA
* * ** *
88900209 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTAGTAATTTTGTAAATCGA
*
88900236 GGGTATTTTAGTAATTTGGTAAA
1 GGGTATTTTAGTAATTTTGTAAA
88900259 CTAAATTATT
Statistics
Matches: 54, Mismatches: 23, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTGTAAATCGA
Found at i:88902844 original size:44 final size:44
Alignment explanation
Indices: 88902781--88902865 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
88902771 ACATGTATCA
* *
88902781 CATCCATTATGAACTCGGACCAA-TTCAACGAGTTCAGATGCTCG
1 CATCCATAATGAACTCGGACCAACTT-AACGAGCTCAGATGCTCG
*
88902825 CATCCATAATGAACTCGGACCAACTTAATGAGCTCAGATGC
1 CATCCATAATGAACTCGGACCAACTTAACGAGCTCAGATGC
88902866 CTAATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.95
45 2 0.05
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
CATCCATAATGAACTCGGACCAACTTAACGAGCTCAGATGCTCG
Found at i:88909617 original size:37 final size:36
Alignment explanation
Indices: 88909567--88909653 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
88909557 TGCGAAGTCT
*
88909567 TACCCTGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
88909603 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
88909640 TCACCCGGAACATA
1 T-ACCCGG-ACATA
88909654 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:88909792 original size:49 final size:49
Alignment explanation
Indices: 88909722--88910423 Score: 1217
Period size: 49 Copynumber: 14.2 Consensus size: 49
88909712 TTTGCCACAT
* * *
88909722 ATATATATACACTTTCGCATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
88909771 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
88909820 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
88909869 ACATATACACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
88909918 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
88909967 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
88910016 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
88910065 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
88910114 ATATATACACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
88910162 ATATATAAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
88910211 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
88910260 ATATATACACACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 --ATAT------ATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
88910317 AGATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
88910366 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
88910415 ATATATACA
1 ATATATACA
88910424 TCTCATACAT
Statistics
Matches: 629, Mismatches: 15, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
48 47 0.07
49 531 0.84
51 3 0.00
55 3 0.00
57 45 0.07
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:88910261 original size:31 final size:31
Alignment explanation
Indices: 88910225--88910317 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 31
88910215 ATACACACTT
88910225 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
* **
88910256 TCACATAT-AT-ACA-C--ACA-TACACACTT-
1 TCACAT-TCATCACATCGGCCATTAGGC-CTTA
88910282 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
88910313 TCACA
1 TCACA
88910318 GATATACACA
Statistics
Matches: 47, Mismatches: 6, Indels: 18
0.66 0.08 0.25
Matches are distributed among these distances:
25 1 0.02
26 11 0.23
27 8 0.17
28 1 0.02
29 1 0.02
30 8 0.17
31 16 0.34
32 1 0.02
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (31 bp):
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:88915188 original size:31 final size:31
Alignment explanation
Indices: 88915152--88915244 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
88915142 TCAATTAAGC
88915152 TTTTTTATATTTTAATGTGTATAGTTCTTTA
1 TTTTTTATATTTTAATGTGTATAGTTCTTTA
* *
88915183 TTTTTT-TAATTT-A--T-T-TAG--CATTA
1 TTTTTTATATTTTAATGTGTATAGTTCTTTA
88915206 GCTTTTTTATATTTTAATGTGTATAGTTCTTTA
1 --TTTTTTATATTTTAATGTGTATAGTTCTTTA
88915239 TTTTTT
1 TTTTTT
88915245 TAATTTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 20
0.67 0.06 0.28
Matches are distributed among these distances:
23 4 0.08
25 9 0.19
26 6 0.12
27 2 0.04
29 2 0.04
30 6 0.12
31 15 0.31
33 4 0.08
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.66
Consensus pattern (31 bp):
TTTTTTATATTTTAATGTGTATAGTTCTTTA
Found at i:88915268 original size:56 final size:56
Alignment explanation
Indices: 88915149--88915260 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
88915139 ATTTCAATTA
88915149 AGCTTTTTTATATTTTAATGTGTATAGTTCTTTATTTTTTTAATTTATTTAGCATT
1 AGCTTTTTTATATTTTAATGTGTATAGTTCTTTATTTTTTTAATTTATTTAGCATT
88915205 AGCTTTTTTATATTTTAATGTGTATAGTTCTTTATTTTTTTAATTTATTTAGCATT
1 AGCTTTTTTATATTTTAATGTGTATAGTTCTTTATTTTTTTAATTTATTTAGCATT
88915261 CATTTTTTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.62
Consensus pattern (56 bp):
AGCTTTTTTATATTTTAATGTGTATAGTTCTTTATTTTTTTAATTTATTTAGCATT
Found at i:88915957 original size:18 final size:18
Alignment explanation
Indices: 88915908--88915958 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
88915898 TTGGCTCCTA
*
88915908 GTTTCCATATTGTTTTGT
1 GTTTTCATATTGTTTTGT
* * *
88915926 ATGTT-ATATGTGTTTTTT
1 GTTTTCATAT-TGTTTTGT
88915944 GTTTTCATATTGTTT
1 GTTTTCATATTGTTT
88915959 CATATATTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.14, C:0.06, G:0.16, T:0.65
Consensus pattern (18 bp):
GTTTTCATATTGTTTTGT
Found at i:88929250 original size:43 final size:43
Alignment explanation
Indices: 88929105--88929253 Score: 128
Period size: 42 Copynumber: 3.5 Consensus size: 43
88929095 TAAATTATCG
* * *
88929105 TGTAAGACCGTGTTTGGGACACAGGCATCGAT-TTGAAATTTA-A
1 TGTAAGACCATGTCTGGGACACAGGCATCGATACTG-AA-TTACA
* * *
88929148 GTGTAAGACCATGTCTGGGACATC-GACATC-ATATCTG-TTTTCA
1 -TGTAAGACCATGTCTGGGACA-CAGGCATCGATA-CTGAATTACA
* * *
88929191 TATAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATACTGAATTACA
*
88929234 TGTAAGACCATATCTGGGAC
1 TGTAAGACCATGTCTGGGAC
88929254 GTCGGCATTA
Statistics
Matches: 83, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
42 29 0.35
43 27 0.33
44 24 0.29
45 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATACTGAATTACA
Found at i:88929261 original size:43 final size:42
Alignment explanation
Indices: 88929149--88929261 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
88929139 GAAATTTAAG
* * * *
88929149 TGTAAGACCATGTCTGGGACATCGACATCATATCTGTTTTCA
1 TGTAAGACCATGTCTGGGACGTCGGCATCATATCTGATTACA
* * *
88929191 TATAAGACCCTGTCTGGGACAG-AGGCATCGATA-CTGAATTACA
1 TGTAAGACCATGTCTGGGAC-GTCGGCATC-ATATCTG-ATTACA
*
88929234 TGTAAGACCATATCTGGGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACGTCGGCAT
88929262 TATACTTGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTCGGCATCATATCTGATTACA
Found at i:88930680 original size:37 final size:37
Alignment explanation
Indices: 88930630--88930703 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
88930620 TTACTAATTC
* *
88930630 GAAATCTTTTCTTTTCCTCGATCTAACCTTGAATTAG
1 GAAATCTTTTCTTTTCCTCAATCTAACCTCGAATTAG
88930667 GAAATCTTTTCTTTTCCTCAATCTAACCTCGAATTAG
1 GAAATCTTTTCTTTTCCTCAATCTAACCTCGAATTAG
88930704 TGTTGTCTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (37 bp):
GAAATCTTTTCTTTTCCTCAATCTAACCTCGAATTAG
Found at i:88930959 original size:20 final size:20
Alignment explanation
Indices: 88930918--88930962 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
88930908 AGCACATGTA
*
88930918 TTCATAAAATTTCAGAATTT
1 TTCATAAAATTTCAGAACTT
*
88930938 TTCATAAAATTTTACG-ACTT
1 TTCATAAAATTTCA-GAACTT
88930958 TTCAT
1 TTCAT
88930963 TTTAGTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTCAGAACTT
Found at i:88936321 original size:2 final size:2
Alignment explanation
Indices: 88936314--88936350 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
88936304 ACCATTTCAG
88936314 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88936351 GGTAAATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88945152 original size:46 final size:46
Alignment explanation
Indices: 88945099--88945316 Score: 248
Period size: 46 Copynumber: 4.7 Consensus size: 46
88945089 AGATTTGTGT
*
88945099 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
88945145 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGA-GACGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGA-GA
* * *
88945191 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAACATTATGAGA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
* ** **
88945239 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
*
88945285 GCTAGTGTCAA-ACATGTCTGGGACATGCATCG
1 GCCAGTGT-AAGACATGTCTGGGACATGCATCG
88945317 ACTACGAGAT
Statistics
Matches: 149, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
45 6 0.04
46 86 0.58
47 30 0.20
48 21 0.14
49 6 0.04
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:88945220 original size:94 final size:92
Alignment explanation
Indices: 88945102--88945316 Score: 306
Period size: 94 Copynumber: 2.3 Consensus size: 92
88945092 TTTGTGTGCC
* *
88945102 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAACATTATGAGAGCCAGTGTAAGA-CATGTCTGG
** *
88945167 GACATGGCATCGGCATTGAGACGAGGGCT
65 GACAT-GCATCGGCATCAAGACGAGAGCT
*
88945196 AGTGTAAGACATGTCTGGGACATGCATCAGCAACATTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAACATTATGAGAGCCAGTGTAAGACATGTCTGGG
* * **
88945261 ACATGCATCGGCCTCAAGATGTTAGCT
66 ACATGCATCGGCATCAAGACGAGAGCT
88945288 AGTGTCAA-ACATGTCTGGGACATGCATCG
1 AGTGT-AAGACATGTCTGGGACATGCATCG
88945317 ACTACGAGAT
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
92 41 0.38
93 16 0.15
94 52 0.48
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCAACATTATGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCATCAAGACGAGAGCT
Found at i:88945327 original size:46 final size:45
Alignment explanation
Indices: 88945102--88945362 Score: 226
Period size: 46 Copynumber: 5.7 Consensus size: 45
88945092 TTTGTGTGCC
* * * *
88945102 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACTACA-GATGATAGCT
* ** * **
88945148 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TACAGATGATAGCT
* * * *
88945196 AGTGTAAGACATGTCTGGGACATGCATC-AGCAACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CTACA-GATGATAGCT
* *
88945242 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTTAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTAC-AGATGATAGCT
88945288 AGTGTCAA-ACATGTCTGGGACATGCATCGACTACGAGATG-T-GCT
1 AGTGT-AAGACATGTCTGGGACATGCATCGACTAC-AGATGATAGCT
* * *
88945332 AATGTAAGACATGTTTGGGACATGCTTCGAC
1 AGTGTAAGACATGTCTGGGACATGCATCGAC
88945363 ATGGTTACAT
Statistics
Matches: 177, Mismatches: 27, Indels: 24
0.78 0.12 0.11
Matches are distributed among these distances:
43 2 0.01
44 28 0.16
45 5 0.03
46 87 0.49
47 32 0.18
48 22 0.12
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTACAGATGATAGCT
Found at i:88945399 original size:136 final size:141
Alignment explanation
Indices: 88945096--88945399 Score: 340
Period size: 136 Copynumber: 2.2 Consensus size: 141
88945086 ATGAGATTTG
**
88945096 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCAT
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGTAAGACCAT
* *
88945161 GTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAG
66 GTCTGGGACATGGCATCGGCACTGAGACGAGGGCTAATGTAAGACATGTCTGGGACATGCATCAG
*
88945226 CAACATTATGA
131 CAACATTATCA
* * * *
88945237 -GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTTAGCTAGTGTCAA-A-CA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGT-AAGACCA
* * *
88945299 TGTCTGGGACAT-GCATC-G-ACT-ACGA-GATGTGCTAATGTAAGACATGTTTGGGACATGCTT
65 TGTCTGGGACATGGCATCGGCACTGA-GACGA-GGGCTAATGTAAGACATGTCTGGGACATGCAT
***
88945359 C-GACATGGTTA-CA
128 CAG-CAACATTATCA
* * *
88945372 TGTGTCAGTGTAAGACCTGTCTAGGACA
1 TGTGCCAGTGTAAGACATGTCTGGGACA
88945400 CGGCATCGAC
Statistics
Matches: 139, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
135 5 0.04
136 61 0.44
137 1 0.01
138 5 0.04
139 14 0.10
140 51 0.37
141 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (141 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCACTGAGACGAGGGCTAATGTAAGACATGTCTGGGACATGCATCAG
CAACATTATCA
Found at i:88951443 original size:50 final size:50
Alignment explanation
Indices: 88951371--88951592 Score: 286
Period size: 50 Copynumber: 4.4 Consensus size: 50
88951361 TAAGATGGTT
*
88951371 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * *
88951421 TTAGGTCACATGTGTAATACTAAGTGCAGGCTACTATGCGTACCCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * *
88951472 TTCA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *
88951522 TTAGGTCACATGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
*
88951572 TT-GGTCGCATGTGTAGTACTA
1 TTAGGTCACATGTGTAGTACTA
88951593 CGTGTACCAT
Statistics
Matches: 146, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
49 19 0.13
50 87 0.60
51 39 0.27
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:88951501 original size:101 final size:101
Alignment explanation
Indices: 88951376--88951557 Score: 328
Period size: 101 Copynumber: 1.8 Consensus size: 101
88951366 TGGTTTTAGG
88951376 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAATAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAATAC
*
88951441 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAACTGCAGGCTACTATGCGTACCCGACAACTTCAA
* * *
88951477 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAATAC
88951542 TAACTGCAGGCTACTA
66 TAACTGCAGGCTACTA
88951558 CGTGTACCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAATAC
TAACTGCAGGCTACTATGCGTACCCGACAACTTCAA
Found at i:88951825 original size:16 final size:15
Alignment explanation
Indices: 88951804--88951833 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88951794 GAATGGAGTA
88951804 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
88951820 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
88951834 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:88953888 original size:22 final size:22
Alignment explanation
Indices: 88953860--88953926 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
88953850 AGAAATTCAG
88953860 ACTTAGATTGAGGCAAAAACAA
1 ACTTAGATTGAGGCAAAAACAA
88953882 ACTTAGATTGAGGCAAAAACAA
1 ACTTAGATTGAGGCAAAAACAA
88953904 ACTTAGATTGAGGCAAAAACAA
1 ACTTAGATTGAGGCAAAAACAA
88953926 A
1 A
88953927 GTGCTCAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.18
Consensus pattern (22 bp):
ACTTAGATTGAGGCAAAAACAA
Found at i:88958903 original size:55 final size:55
Alignment explanation
Indices: 88958831--88958965 Score: 171
Period size: 55 Copynumber: 2.5 Consensus size: 55
88958821 CATGTCCTTA
* * * *
88958831 GCCCGTGTGCAACACTGACTTCAACACACGGCCATGGCACACGCCCGTGTGACTT
1 GCCCATGTACAACACTGACTTCAAAACACGGCCATGGCACACGCCCGTGTGACCT
* * * * * *
88958886 GCCCGTGTACGATACTGACTTTAAAACACGGCTATGGCACACGCCCGTGTGGCCT
1 GCCCATGTACAACACTGACTTCAAAACACGGCCATGGCACACGCCCGTGTGACCT
*
88958941 GCCCATGTACAACAATGACTTCAAA
1 GCCCATGTACAACACTGACTTCAAA
88958966 TTTTAAGTAC
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.25, C:0.33, G:0.22, T:0.20
Consensus pattern (55 bp):
GCCCATGTACAACACTGACTTCAAAACACGGCCATGGCACACGCCCGTGTGACCT
Found at i:88969491 original size:29 final size:27
Alignment explanation
Indices: 88969457--88969559 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
88969447 TACTCAATCA
*
88969457 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
88969486 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
88969515 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
88969544 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
88969560 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:88981009 original size:76 final size:76
Alignment explanation
Indices: 88980869--88981013 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
88980859 GTACTACATT
* * * * * * **
88980869 ATCGAATAAATCGAAAGAAATTTATTGGCACACACTGTGCATCGTTGGACAAGCCAAAGTAATTA
1 ATCGAATAAATCAAAAAAAATATATTGGCACACACTATGCATCATCGGACAAGCCAAAACAATTA
88980934 TACTGTATATC
66 TACTGTATATC
* * *
88980945 ATCGGATAAATCAAAAAAAATATATTGGCACATACTATGCATCATCGGACAAGTCAAAACAATTA
1 ATCGAATAAATCAAAAAAAATATATTGGCACACACTATGCATCATCGGACAAGCCAAAACAATTA
88981010 TACT
66 TACT
88981014 AACATGCGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 58 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (76 bp):
ATCGAATAAATCAAAAAAAATATATTGGCACACACTATGCATCATCGGACAAGCCAAAACAATTA
TACTGTATATC
Found at i:88989850 original size:41 final size:40
Alignment explanation
Indices: 88989723--88989867 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
88989713 CTCGCACAAG
* * * *
88989723 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
88989763 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
88989803 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
88989844 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
88989868 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:88997871 original size:41 final size:40
Alignment explanation
Indices: 88997744--88997888 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
88997734 CTCGCACAAG
* * * *
88997744 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
88997784 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
88997824 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
88997865 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
88997889 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:89000526 original size:154 final size:154
Alignment explanation
Indices: 89000239--89000547 Score: 521
Period size: 154 Copynumber: 2.0 Consensus size: 154
89000229 GTGAAAAACC
* *
89000239 TAGACAGTCATTGGGCTTTATTGTATCCTCAAGGTTCATTTGCCAGTAACTCTTTTGCACACCAT
1 TAGACAGTCATTGGGCTTCATTATATCCTCAAGGTTCATTTGCCAGTAACTCTTTTGCACACCAT
** * * *
89000304 AGTATAGGTGGAGGCGAATAGACACTTAAAAAAAGTGGCAATGTTACATGCCTTGAAGCCATTGT
66 AGTATAGGTGGAGAAGAATAGAAACTTAAAAAAAGTGGCAATGTTACACGCCTTGAAGCCATTAT
89000369 TAATTTCTCATAAATTTATTCTTA
131 TAATTTCTCATAAATTTATTCTTA
89000393 TAGACAGTCATTGGGCTTCATTATATCCTCAAGGTTCATTTGCCAGTAACTCTTTTGCACACCAT
1 TAGACAGTCATTGGGCTTCATTATATCCTCAAGGTTCATTTGCCAGTAACTCTTTTGCACACCAT
* *
89000458 AGTATAGGTGG-GTAAGAATAGAAACTTAAAAAAAGTGGCAATGTTACACGCTTTGAAGCCTTTA
66 AGTATAGGTGGAG-AAGAATAGAAACTTAAAAAAAGTGGCAATGTTACACGCCTTGAAGCCATTA
89000522 TTAATTTCTCATAAATTTATTCTTA
130 TTAATTTCTCATAAATTTATTCTTA
89000547 T
1 T
89000548 TCCCACGCAC
Statistics
Matches: 145, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
153 1 0.01
154 144 0.99
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (154 bp):
TAGACAGTCATTGGGCTTCATTATATCCTCAAGGTTCATTTGCCAGTAACTCTTTTGCACACCAT
AGTATAGGTGGAGAAGAATAGAAACTTAAAAAAAGTGGCAATGTTACACGCCTTGAAGCCATTAT
TAATTTCTCATAAATTTATTCTTA
Found at i:89004305 original size:17 final size:17
Alignment explanation
Indices: 89004283--89004315 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
89004273 ATATTAAAAA
*
89004283 TTAATTTTTTATAATTT
1 TTAATTTTTAATAATTT
89004300 TTAATTTTTAATAATT
1 TTAATTTTTAATAATT
89004316 AAAAATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTAATTTTTAATAATTT
Found at i:89004359 original size:16 final size:16
Alignment explanation
Indices: 89004328--89004361 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
89004318 AAATGTTATA
* *
89004328 TATTTTTTATACTTTT
1 TATTTTTTAAAATTTT
89004344 TATTTTTTAAAATTTT
1 TATTTTTTAAAATTTT
89004360 TA
1 TA
89004362 AACAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTTTAAAATTTT
Found at i:89007336 original size:40 final size:40
Alignment explanation
Indices: 89007236--89007457 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
89007226 ACCCAAGTAT
* *
89007236 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
89007275 CTTC-GGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
89007314 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
89007354 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
89007397 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
89007437 CTTC-GGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
89007458 CATCCGAATA
Statistics
Matches: 165, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
38 6 0.04
39 48 0.29
40 75 0.45
43 36 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:89007416 original size:83 final size:79
Alignment explanation
Indices: 89007236--89007457 Score: 306
Period size: 83 Copynumber: 2.8 Consensus size: 79
89007226 ACCCAAGTAT
* * *
89007236 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGACTTAGCCCGGATATAGT
*
89007299 CACTAGCATAAATGC
65 CACTAGCACAAATGC
*
89007314 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC-GGACTTAGCCCGGATATAGT
89007378 CAACTACTCGCACAAATGC
65 C-ACTA---GCACAAATGC
* *
89007397 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGCCCGGATAT
89007458 CATCCGAATA
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
78 12 0.09
79 28 0.22
80 22 0.17
82 16 0.12
83 51 0.40
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:89015404 original size:40 final size:40
Alignment explanation
Indices: 89015331--89015474 Score: 202
Period size: 40 Copynumber: 3.5 Consensus size: 40
89015321 ACCCAAGTAT
* * *
89015331 CTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
89015370 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
89015410 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
89015453 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
89015475 CATCCGAATA
Statistics
Matches: 94, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
39 12 0.13
40 50 0.53
41 1 0.01
43 31 0.33
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:89025652 original size:48 final size:48
Alignment explanation
Indices: 89025571--89025791 Score: 343
Period size: 48 Copynumber: 4.6 Consensus size: 48
89025561 GCCTCATATT
* * **
89025571 GATGCCATGTCCCAGACATGGTCATACACTGGCTCACATGATGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
* * *
89025619 GATGCCATGTCCCAGACATGTTCTTACATTGGCTCACGTAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
*
89025667 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
* *
89025715 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
*
89025763 GATGCCATGTCCCAGACATGTTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
89025792 GGTTACACAT
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 157 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
Found at i:89027917 original size:40 final size:40
Alignment explanation
Indices: 89027872--89028038 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
89027862 CGGAATATAA
89027872 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
89027912 CCGGATAGAATAACTCGCACGAATTCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
89027952 CCGGATATAGCCACTAGCACAATTGCCTT-GGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
89027991 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
89028031 CCGGATAT
1 CCGGATAT
89028039 CATTCAATTT
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 32 0.31
40 71 0.69
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89030602 original size:41 final size:40
Alignment explanation
Indices: 89030513--89030696 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 40
89030503 TGAATATCTT
** * * * * * *
89030513 GCACACTAAGCACTATACATAGCTGAACCTATCTCAAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATATCGAATC
* * * *
89030553 GCACACTAAGTGTCATATATAACCGAAGCTATCTCGATCTC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATATCGA-ATC
** * *
89030594 GCACACTAAGTATCGTATATAGCCGAAGCTATATTGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATATCGAATC
* * *
89030634 GCAGACTAACTGCCATATATAGCCGAAGCTATGTCGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATATCGAATC
89030674 GCACACTAAGTGCCATATATAGC
1 GCACACTAAGTGCCATATATAGC
89030697 TGATTTGTCG
Statistics
Matches: 118, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
40 84 0.71
41 34 0.29
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATATCGAATC
Found at i:89038464 original size:48 final size:47
Alignment explanation
Indices: 89038393--89038616 Score: 177
Period size: 48 Copynumber: 4.7 Consensus size: 47
89038383 GGGTAAATTA
* * * **
89038393 CTGATGCCAT-ATCCTAGATATGGTCTTACACTGGCTCACATGTCGAGG
1 CTGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACAT-TAAAGG
* ** *
89038441 CTGATGCCATGTTCCAGACATGGTTTTACACTAGCTCTTATCTAAATG
1 CTGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACAT-TAAAGG
* * * * *
89038489 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACA-TAAATG
1 CTGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATTAAAGG
* * * *
89038535 CCGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCA-TAATGTG
1 CTGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATTAAAG-G
* * *
89038582 GTCGATGCCATGTCCCAAACATGGTCTTACACTAG
1 CT-GATGCCATGTTCCAGACATGGTCTTACACTAG
89038617 TACACATATC
Statistics
Matches: 142, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
45 2 0.01
46 41 0.29
47 1 0.01
48 93 0.65
49 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (47 bp):
CTGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATTAAAGG
Found at i:89038548 original size:46 final size:46
Alignment explanation
Indices: 89038443--89038624 Score: 204
Period size: 48 Copynumber: 3.9 Consensus size: 46
89038433 TGTCGAGGCT
* * * *
89038443 GATGCCATGTTCCAGACATGGTTTTACACTAGCTCTTATC-TAAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCAC--A-CATAAATGCC
89038491 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATAAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATAAATGCC
* * * * * * *
89038537 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATAA-AT-GCC
*
89038585 GATGCCATGTCCCAAACATGGTCTTACACTAGTACACATA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATA
89038625 TCACCCAATC
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
45 1 0.01
46 45 0.39
47 1 0.01
48 67 0.59
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATAAATGCC
Found at i:89038566 original size:94 final size:94
Alignment explanation
Indices: 89038443--89038624 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 94
89038433 TGTCGAGGCT
* *
89038443 GATGCCATGTTCCAGACATGGTTTTACACTAGCTCTTATCTAA-AT-GCCGATGCCATGTCCCAA
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCA--TAATATGGCCGATGCCATGTCCCAA
89038506 ACATGGTCTTACACTAGCACACATAAATGCC
64 ACATGGTCTTACACTAGCACACATAAATGCC
* * *
89038537 GATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCCATGTCCCAAA
1 GATGCCATGTTCC-AGACATGGTCTTACACTAGCTCTCATAATATGGCCGATGCCATGTCCCAAA
*
89038601 CATGGTCTTACACTAGTACACATA
65 CATGGTCTTACACTAGCACACATA
89038625 TCACCCAATC
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
92 3 0.04
93 4 0.05
94 72 0.91
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (94 bp):
GATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAATATGGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCACACATAAATGCC
Found at i:89044711 original size:40 final size:40
Alignment explanation
Indices: 89044646--89044721 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
89044636 TATATATATA
*
89044646 TAGCCGAAGCTATCTTAAATTGCACACCAAGTGCCACGTT
1 TAGCCGAAGCTATCTTAAATCGCACACCAAGTGCCACGTT
* *
89044686 TAGCCGAAGCTAAT-TTGAATCGCACACTAAGTGCCA
1 TAGCCGAAGCT-ATCTTAAATCGCACACCAAGTGCCA
89044722 TTTTAGTCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
TAGCCGAAGCTATCTTAAATCGCACACCAAGTGCCACGTT
Found at i:89046909 original size:46 final size:46
Alignment explanation
Indices: 89046826--89046953 Score: 123
Period size: 46 Copynumber: 2.8 Consensus size: 46
89046816 CATTGGGTGG
* * * * *
89046826 TATGTGAGCCAGTGTAAGACATAT-TTGGCACAAGCATCAGCCATGT
1 TATGAGAGCCAGTGTAAGACATGTCTAGG-ACATGCATCAGCCATGA
* **
89046872 TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCTGCTTTGA
1 TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCATGA
* * * * *
89046918 GACGAGAGCTAGTGTAAGATATGTCTGGGACATGCA
1 TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCA
89046954 ATGACCTCGG
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 65 0.96
47 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (46 bp):
TATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCATGA
Found at i:89047086 original size:49 final size:47
Alignment explanation
Indices: 89047023--89047190 Score: 153
Period size: 49 Copynumber: 3.5 Consensus size: 47
89047013 TGTGTCAGCA
*
89047023 TAAGACCTGTCTGGGACATGGCATCGACACCAATAGATGAGAGCTAGTG
1 TAAGACCTGTCTGGGACATGGCATC-AC-CCAATAGATGAAAGCTAGTG
* *
89047072 TAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGAAAG-TCAGTG
1 TAAGACCTGTCTGGGACATGGCATCA-CC-CAATAGATGAAAGCT-AGTG
* * ** ** *
89047121 TAAGACCTGTTTGGGACACGGCATCAACTTTAAT-G-TGCTAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATC-AC-CCAATAGATGAAAGCTAGTG
89047168 TAAGACCATGTCTGGGACATGGC
1 TAAGACC-TGTCTGGGACATGGC
89047191 CTTGACATCT
Statistics
Matches: 98, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
47 15 0.15
48 16 0.16
49 66 0.67
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (47 bp):
TAAGACCTGTCTGGGACATGGCATCACCCAATAGATGAAAGCTAGTG
Found at i:89048238 original size:13 final size:13
Alignment explanation
Indices: 89048220--89048244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89048210 TGGCCGTGTG
89048220 ATGGACACGGGCC
1 ATGGACACGGGCC
89048233 ATGGACACGGGC
1 ATGGACACGGGC
89048245 GAGTGTCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.40, T:0.08
Consensus pattern (13 bp):
ATGGACACGGGCC
Found at i:89055623 original size:50 final size:49
Alignment explanation
Indices: 89055397--89055624 Score: 219
Period size: 50 Copynumber: 4.6 Consensus size: 49
89055387 CTGATACAAA
* * *
89055397 TAGTAGCCTGTACTTAGTACTACACATGCGAC-CAAAAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTC-AAAGTATGGTACACG
* ** * * *
89055446 TAGTAGCCTGCACTTAGTACTACACACGTAACGTCACCA-TCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGAC-TCA-AAGTATGGTACACG
* * * * * * *
89055496 CAGTAGCCTACACTTAGTACTACACACGTGA-TCGAAGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAAAGT-A-TG-GTACACG
*
89055547 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAATAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAA-AGTATGGTACACG
89055597 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
89055625 TGTATTCACA
Statistics
Matches: 147, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 28 0.19
50 74 0.50
51 35 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACTCAAAGTATGGTACACG
Found at i:89059731 original size:27 final size:26
Alignment explanation
Indices: 89059645--89059732 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
89059635 CAGCAAAGCT
* *
89059645 ACCAGAAACAGTAAATGTGACAAAGCC
1 ACCAGTAACAGT-AATGTGACATAGCC
* * * *
89059672 ACCAATATCAGTAATTGTGGCATGGCC
1 ACCAGTAACAGTAA-TGTGACATAGCC
*
89059699 ACCAGTAACAGTGAATGTGACATAGTC
1 ACCAGTAACAGT-AATGTGACATAGCC
89059726 ACCAGTA
1 ACCAGTA
89059733 TAGTACTTCC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
26 2 0.04
27 44 0.92
28 2 0.04
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
ACCAGTAACAGTAATGTGACATAGCC
Found at i:89059901 original size:27 final size:27
Alignment explanation
Indices: 89059870--89060040 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
89059860 TAAAGGCATA
* *
89059870 ATGGTCATTTTACCATACAGTGGTATT
1 ATGGTCATTTTACCCTACAGGGGTATT
* *
89059897 ATGGTTATTTTACCCTACAGGGGTAGT
1 ATGGTCATTTTACCCTACAGGGGTATT
*** *
89059924 ACAATCATTTTACCCTACAGGGGCATT
1 ATGGTCATTTTACCCTACAGGGGTATT
* *
89059951 ATGGTCATTTTACCCTATAGAGGTATT
1 ATGGTCATTTTACCCTACAGGGGTATT
89059978 ATGGTCATTTTACCCTACAGGGGTATT
1 ATGGTCATTTTACCCTACAGGGGTATT
* ** * * *
89060005 ACGACCATTTTACCTTATAGGGATATT
1 ATGGTCATTTTACCCTACAGGGGTATT
*
89060032 ACGGTCATT
1 ATGGTCATT
89060041 CTACAAACTG
Statistics
Matches: 118, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
ATGGTCATTTTACCCTACAGGGGTATT
Found at i:89059999 original size:81 final size:81
Alignment explanation
Indices: 89059864--89060018 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
89059854 GGAACATAAA
* * *
89059864 GGCATAATGGTCATTTTACCATACAGTGGTATTATGGTTATTTTACCCTACAGGGGTAGTACAAT
1 GGCATAATGGTCATTTTACCATACAGAGGTATTATGGTCATTTTACCCTACAGGGGTAGTACAAC
89059929 CATTTTACCCTACAGG
66 CATTTTACCCTACAGG
* * * * *
89059945 GGCATTATGGTCATTTTACCCTATAGAGGTATTATGGTCATTTTACCCTACAGGGGTATTACGAC
1 GGCATAATGGTCATTTTACCATACAGAGGTATTATGGTCATTTTACCCTACAGGGGTAGTACAAC
89060010 CATTTTACC
66 CATTTTACC
89060019 TTATAGGGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (81 bp):
GGCATAATGGTCATTTTACCATACAGAGGTATTATGGTCATTTTACCCTACAGGGGTAGTACAAC
CATTTTACCCTACAGG
Found at i:89060038 original size:81 final size:81
Alignment explanation
Indices: 89059872--89060040 Score: 230
Period size: 81 Copynumber: 2.1 Consensus size: 81
89059862 AAGGCATAAT
* * *
89059872 GGTCATTTTACCATACAGTGGTATTATGGTTATTTTACCCTACAGGGGTAGTACAATCATTTTAC
1 GGTCATTTTACCATACAGAGGTATTATGGTCATTTTACCCTACAGGGGTAGTACAACCATTTTAC
* *
89059937 CCTACAGGGGCATTAT
66 CCTACAGGGACATTAC
* * * *
89059953 GGTCATTTTACCCTATAGAGGTATTATGGTCATTTTACCCTACAGGGGTATTACGACCATTTTAC
1 GGTCATTTTACCATACAGAGGTATTATGGTCATTTTACCCTACAGGGGTAGTACAACCATTTTAC
* * *
89060018 CTTATAGGGATATTAC
66 CCTACAGGGACATTAC
89060034 GGTCATT
1 GGTCATT
89060041 CTACAAACTG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTCATTTTACCATACAGAGGTATTATGGTCATTTTACCCTACAGGGGTAGTACAACCATTTTAC
CCTACAGGGACATTAC
Found at i:89067221 original size:42 final size:42
Alignment explanation
Indices: 89067119--89067227 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
89067109 ATGTTTCAAT
*
89067119 GCCATATCCCTGATATGGTCTTACATGAAATATCATATCGAC
1 GCCATATCCCTGATATGGTCTTATATGAAATATCATATCGAC
* * *
89067161 GCCATGTCCCTGACATGGTCTTATATGAAATCA-CATATCGAG
1 GCCATATCCCTGATATGGTCTTATATGAAAT-ATCATATCGAC
* *
89067203 GCTATATCCC-GAATATGGTTTTATA
1 GCCATATCCCTG-ATATGGTCTTATA
89067228 CGGAATCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 55 0.96
43 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
GCCATATCCCTGATATGGTCTTATATGAAATATCATATCGAC
Found at i:89067277 original size:30 final size:30
Alignment explanation
Indices: 89067243--89067304 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
89067233 TCTTAATAAC
*
89067243 CTTATTGTTTGACATTTGTCCCCTATTCAT
1 CTTATTGTTTGACATTTGTACCCTATTCAT
89067273 CTTATTGTTTGACATTTGTACCCTATTCAT
1 CTTATTGTTTGACATTTGTACCCTATTCAT
89067303 CT
1 CT
89067305 CAAATATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.18, C:0.23, G:0.10, T:0.50
Consensus pattern (30 bp):
CTTATTGTTTGACATTTGTACCCTATTCAT
Found at i:89071427 original size:8 final size:8
Alignment explanation
Indices: 89071410--89071449 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
89071400 TACCAAAGTG
*
89071410 GGCCCATT
1 GGCCCGTT
89071418 GGCCCGTT
1 GGCCCGTT
89071426 GGCCCGTT
1 GGCCCGTT
*
89071434 GGCCCATT
1 GGCCCGTT
*
89071442 GTCCCGTT
1 GGCCCGTT
89071450 TTCAGCCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.05, C:0.38, G:0.30, T:0.28
Consensus pattern (8 bp):
GGCCCGTT
Found at i:89071765 original size:26 final size:27
Alignment explanation
Indices: 89071736--89071789 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
89071726 TCACACAAGT
*
89071736 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
89071762 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
89071789 T
1 T
89071790 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:89071821 original size:27 final size:27
Alignment explanation
Indices: 89071790--89071908 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
89071780 GGGGCAAAAT
* * *
89071790 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
89071817 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
89071844 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
89071871 GGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
89071898 GGTAATTCTAC
1 GGTAATTCTAC
89071909 AACTTATCCA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:89077633 original size:50 final size:50
Alignment explanation
Indices: 89077547--89077762 Score: 220
Period size: 50 Copynumber: 4.3 Consensus size: 50
89077537 GCTAAATGAC
* * * * * *
89077547 CTTGTATATTCGGCCACATAGGTATGTACATTTGTGATGTTGTATTGGGT
1 CTTGAATATTCGGCCATATAGGTATGCACATATGTGATATTGTATTGGAT
* * *
89077597 CTTGAATATTCGGCCATGAT-GGTATGCACAAATGTGATATTTTATTTGAT
1 CTTGAATATTCGGCCAT-ATAGGTATGCACATATGTGATATTGTATTGGAT
* * ** *
89077647 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGAT
1 CTTGAATATTCGGCCATATAGGTATGCACATATGTGATATTGTATTGGAT
* * * *
89077697 CTT-ACATATTCGGCCATACAGGTAAGCACATATGTGATATTATATTTGAT
1 CTTGA-ATATTCGGCCATATAGGTATGCACATATGTGATATTGTATTGGAT
* *
89077747 CTTGTATATTTGGCCA
1 CTTGAATATTCGGCCA
89077763 AATGAGTGAT
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.01
50 139 0.97
51 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (50 bp):
CTTGAATATTCGGCCATATAGGTATGCACATATGTGATATTGTATTGGAT
Found at i:89077726 original size:100 final size:100
Alignment explanation
Indices: 89077547--89077762 Score: 265
Period size: 100 Copynumber: 2.2 Consensus size: 100
89077537 GCTAAATGAC
* * * * ** *
89077547 CTTGTATATTCGGCCACATAGGTATGTACATTTGTGATGTTGTATTGGGTCTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAGGTAAGCACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
* * *
89077612 ATGATGGTATGCACAAATGTGATATTTTATTTGAT
66 ATGAAGGTAAGCACAAATGTGATATTATATTTGAT
* * *
89077647 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTTGATCTT-ACATATTCGGC
1 CTTGTATATTCGGCCACATAGGTAAGCACATATGTGATATTAAATTGGATCTTGA-ATATTCGGC
*
89077711 CAT-ACAGGTAAGCACATATGTGATATTATATTTGAT
65 CATGA-AGGTAAGCACAAATGTGATATTATATTTGAT
*
89077747 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
89077763 AATGAGTGAT
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 2 0.02
100 96 0.98
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAGGTAAGCACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
ATGAAGGTAAGCACAAATGTGATATTATATTTGAT
Found at i:89081949 original size:42 final size:42
Alignment explanation
Indices: 89081829--89081957 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 42
89081819 TGTTGACATT
* * ** *
89081829 GATTTGAGATATCGTGTAAGACCGTGTCTGGGACACAAACCTC
1 GATTT-AGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC
* ** *
89081872 GATTTGAGATTTACGTGTAATACCATGTCCAGGACATAGGCATC
1 GATTT-AGATTT-CGTGTAAGACCATGTCTGGGACACAGGCATC
* *
89081916 GTATTT-GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATC
1 G-ATTTAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC
89081958 AACACTGAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
42 26 0.37
43 16 0.23
44 24 0.34
45 4 0.06
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
GATTTAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC
Found at i:89084355 original size:40 final size:40
Alignment explanation
Indices: 89084281--89084499 Score: 345
Period size: 40 Copynumber: 5.5 Consensus size: 40
89084271 AACCCAAGTA
* *
89084281 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
89084320 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
89084360 CTTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
89084400 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
89084440 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89084479 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
89084500 GTCATCCGAA
Statistics
Matches: 167, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.21
40 131 0.78
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:89097401 original size:16 final size:16
Alignment explanation
Indices: 89097380--89097410 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89097370 AAGTTTAGGG
*
89097380 CAAAATGTGATTTTGC
1 CAAAATATGATTTTGC
89097396 CAAAATATGATTTTG
1 CAAAATATGATTTTG
89097411 GGTCAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (16 bp):
CAAAATATGATTTTGC
Found at i:89097874 original size:46 final size:46
Alignment explanation
Indices: 89097821--89097996 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
89097811 TATTTGGGCA
*
89097821 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
89097867 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
89097912 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
89097960 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89097997 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 62 0.56
47 29 0.26
48 4 0.04
50 6 0.05
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:89097976 original size:93 final size:93
Alignment explanation
Indices: 89097817--89097989 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
89097807 AGGATATTTG
* * * *
89097817 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
89097882 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
89097910 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
89097975 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
89097990 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:89099532 original size:41 final size:41
Alignment explanation
Indices: 89099457--89099534 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
89099447 ATAGTGGTAT
*
89099457 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
* *
89099498 TCGGGCTTT-ATGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTGA-GCCTAGCAAGCCTT-GTGCCGGTGAAT
89099535 AAAAAAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.19
41 26 0.81
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
Found at i:89099775 original size:50 final size:50
Alignment explanation
Indices: 89099690--89099855 Score: 163
Period size: 50 Copynumber: 3.3 Consensus size: 50
89099680 GCTAAATGAC
* * * * * *
89099690 CTTGTATATTCGACCACATAGGTATGTACATATGTGATGTTGCATTGGAT
1 CTTGAATATTCGGCCATATAGGTATGCACATATGTGATATTACATTGGAT
* * * *
89099740 CTTGAATATTCTGCCATGA-AGGTATGCACAAATGTGATATTATATTTGAT
1 CTTGAATATTCGGCCAT-ATAGGTATGCACATATGTGATATTACATTGGAT
* * * **
89099790 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTTAT
1 CTTGAATATTCGGCCATATAGGTATGCACATATGTGATATTACATTGGAT
* *
89099840 CTTAAATATTTGGCCA
1 CTTGAATATTCGGCCA
89099856 AACGGGTGAT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
49 1 0.01
50 94 0.98
51 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (50 bp):
CTTGAATATTCGGCCATATAGGTATGCACATATGTGATATTACATTGGAT
Found at i:89107520 original size:51 final size:51
Alignment explanation
Indices: 89107443--89107582 Score: 174
Period size: 51 Copynumber: 2.7 Consensus size: 51
89107433 CGGATGCCTG
* * * *
89107443 GTGGCCTGCATATAATACCACCCTTGTGGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTT-TTACACAAA
* * * *
89107494 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
* *
89107545 GTGGCCTGCACTTAGTACCACACATGTGATCAAAGCTA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTA
89107583 TCAGGTACGC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
50 2 0.03
51 74 0.97
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
Found at i:89107583 original size:51 final size:51
Alignment explanation
Indices: 89107488--89107669 Score: 186
Period size: 51 Copynumber: 3.6 Consensus size: 51
89107478 CTACCTTCTT
* * * * **
89107488 CACAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGGTA
* *
89107539 CACATAGTGGCCTGCACTTAGTACCACACATGTGATCAAAGCTATCAGGTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGGTA
* * * * * * * *
89107590 CGCATAGTAGCCTGTACTTAGTACTACAAATGCGACCTAA-CCATCTGGTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGGTA
* * *
89107640 CACATAGTAGCCTACACTTAGTACTACACA
1 CACATAGTGGCCTGCACTTAGTACCACACA
89107670 CATGACCTAA
Statistics
Matches: 109, Mismatches: 22, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
50 34 0.31
51 75 0.69
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTGGCCTGCACTTAGTACCACACATGTGACCAAAGCTATCTGGTA
Found at i:89107677 original size:50 final size:50
Alignment explanation
Indices: 89107537--89107679 Score: 146
Period size: 50 Copynumber: 2.8 Consensus size: 50
89107527 AGCTATCTTT
* * * * * *
89107537 TACACATAGTGGCCTGCACTTAGTACCACACATGTGATCAAAGCTATCAGG
1 TACACATAGTAGCCTGCACTTAGTACTACACA-ATGACCTAAGCCATCAGG
* * *
89107588 TACGCATAGTAGCCTGTACTTAGTACTACA-AATGCGACCTAA-CCATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACAAT--GACCTAAGCCATCAGG
*
89107638 TACACATAGTAGCCTACACTTAGTACTACACACATGACCTAA
1 TACACATAGTAGCCTGCACTTAGTACTACACA-ATGACCTAA
89107680 AACCACTTTA
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
49 1 0.01
50 41 0.54
51 32 0.42
52 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACAATGACCTAAGCCATCAGG
Found at i:89112010 original size:28 final size:30
Alignment explanation
Indices: 89111936--89112013 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
89111926 CTGTAAAAGT
89111936 GATTGGGCCTAGTGGGCCATATAGATATGA
1 GATTGGGCCTAGTGGGCCATATAGATATGA
* *
89111966 -TTTGGGCCTAATGGGCCATATA-A-ATGA
1 GATTGGGCCTAGTGGGCCATATAGATATGA
* *
89111993 GATTGGGGCTAGTCGGCCATA
1 GATTGGGCCTAGTGGGCCATA
89112014 AGCATGTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.10
28 17 0.41
29 20 0.49
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (30 bp):
GATTGGGCCTAGTGGGCCATATAGATATGA
Found at i:89114052 original size:15 final size:15
Alignment explanation
Indices: 89114034--89114073 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
89114024 TCCATAACGG
*
89114034 AGAAATCCAGA-ATAT
1 AGAAATCCA-ACATAA
89114049 AGAAATCCAACATAA
1 AGAAATCCAACATAA
89114064 AGAAATCCAA
1 AGAAATCCAA
89114074 AACAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.15
Consensus pattern (15 bp):
AGAAATCCAACATAA
Found at i:89117582 original size:51 final size:51
Alignment explanation
Indices: 89117475--89117617 Score: 132
Period size: 51 Copynumber: 2.8 Consensus size: 51
89117465 AACGGATGCC
* *
89117475 CAGTGGCC-TGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACA
1 CAGTGGCCGT-CACATAGTACCACACTTGTGA-TCAAAGCTATCTTCTTCACA
* * * *
89117526 AAGTGGCCGTCACATAGTACTACACTTGTGACCAAAGCTATCTT-TTACGCA
1 CAGTGGCCGTCACATAGTACCACACTTGTGATCAAAGCTATCTTCTT-CACA
* * * *
89117577 CAGTGGTCAG-CACTTAGTACCACACATGTGATCGAAGCTAT
1 CAGTGG-CCGTCACATAGTACCACACTTGTGATCAAAGCTAT
89117618 TGGATATGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
50 2 0.03
51 69 0.92
52 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (51 bp):
CAGTGGCCGTCACATAGTACCACACTTGTGATCAAAGCTATCTTCTTCACA
Found at i:89117711 original size:50 final size:51
Alignment explanation
Indices: 89117627--89117755 Score: 134
Period size: 52 Copynumber: 2.5 Consensus size: 51
89117617 TTGGATATGT
* * * * **
89117627 ATAGTAACCTACACTTAGTACAACACATGCGACCT-AACCATCTGGCACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAACCATCTGAAACAC
* * * * *
89117677 ATAGTAGCCTGCACTTAGTACTATACACGTGACCTAAAATCATTTTAAACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AAACCATCTGAAACAC
*
89117729 ATAGTAGCCTGCACATAGTACTACACA
1 ATAGTAGCCTGCACTTAGTACTACACA
89117756 TGTGTTCTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 29 0.45
52 35 0.55
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.24
Consensus pattern (51 bp):
ATAGTAGCCTGCACTTAGTACTACACACGCGACCTAAACCATCTGAAACAC
Found at i:89120869 original size:45 final size:45
Alignment explanation
Indices: 89120819--89120906 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
89120809 AAACATGTGT
* *
89120819 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACAACAACTCAATGAGTTCAGATGC
*
89120864 CACATATATCATGAACTCAGACAACAACTCAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACAACAACTCAATGAGTTCAGAT
89120907 CACATAGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACAACAACTCAATGAGTTCAGATGC
Found at i:89125456 original size:43 final size:43
Alignment explanation
Indices: 89125400--89125527 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
89125390 ATATCGTACA
** *
89125400 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGAAGTGGTCTTACATGTAATCACATATCG
* * *
89125443 ATGCCACTGTCCCAGACAG-GGTCTTACACGTAATCACATAACG
1 ATGCCAATGTCCCAGA-AGTGGTCTTACATGTAATCACATATCG
*
89125486 ATGCCAATGTCCCAGACGTGGTCTTACATG-AATACACATATC
1 ATGCCAATGTCCCAGAAGTGGTCTTACATGTAAT-CACATATC
89125528 AGAATCCTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 4 0.06
43 67 0.93
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAGTGGTCTTACATGTAATCACATATCG
Found at i:89126349 original size:23 final size:23
Alignment explanation
Indices: 89126321--89126366 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
89126311 CAATGGCCAA
89126321 ACCTTAAAGCTTTATTTTTCTTT
1 ACCTTAAAGCTTTATTTTTCTTT
89126344 ACCTTAAAGCTTTATTTTTCTTT
1 ACCTTAAAGCTTTATTTTTCTTT
89126367 GTTTCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.04, T:0.57
Consensus pattern (23 bp):
ACCTTAAAGCTTTATTTTTCTTT
Found at i:89128837 original size:79 final size:82
Alignment explanation
Indices: 89128697--89128881 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
89128687 TCGAATGATG
* * *
89128697 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
89128761 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
89128777 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
89128839 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
89128857 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89128882 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:89128889 original size:40 final size:40
Alignment explanation
Indices: 89128698--89128889 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
89128688 CGAATGATGT
* * * * *
89128698 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
89128738 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
89128778 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
89128817 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
89128857 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
89128890 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:89128912 original size:79 final size:79
Alignment explanation
Indices: 89128697--89128914 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
89128687 TCGAATGATG
* * * * ** *
89128697 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
89128760 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
89128777 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
89128842 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
89128857 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
89128915 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:89136862 original size:79 final size:82
Alignment explanation
Indices: 89136722--89136906 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
89136712 TCGAATGATG
* * *
89136722 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
89136786 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
89136802 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
89136864 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
89136882 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89136907 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:89136914 original size:40 final size:40
Alignment explanation
Indices: 89136723--89136914 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
89136713 CGAATGATGT
* * * * *
89136723 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
89136763 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
89136803 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
89136842 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
89136882 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
89136915 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:89136937 original size:79 final size:79
Alignment explanation
Indices: 89136722--89136939 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
89136712 TCGAATGATG
* * * * ** *
89136722 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
89136785 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
89136802 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
89136867 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
89136882 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
89136940 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:89145040 original size:55 final size:53
Alignment explanation
Indices: 89144953--89145207 Score: 243
Period size: 55 Copynumber: 4.8 Consensus size: 53
89144943 ATTAGGGTTT
* *
89144953 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGATTTCTAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAG-TTTATAAGAC
* * *
89145008 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TATAAGAC
* * * * * *
89145063 GAAGG-TCCCATGTAAGACCAAGCCAAGGCATGGCATTGGTGAGTTGATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGAC
* * *
89145116 AAGGATACCATGTAAGACCATGTCGAGACATGGCCA-TGGTAAG-TT-TCA-A-
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAAGTTTATAAGAC
* * * * *
89145165 AAGGATACCACGTAAGACCATGACAAGTCATAGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
89145208 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
48 2 0.01
49 35 0.21
51 2 0.01
52 5 0.03
53 38 0.23
54 10 0.06
55 72 0.43
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGAC
Found at i:89147831 original size:43 final size:43
Alignment explanation
Indices: 89147747--89147834 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
89147737 ATATTGTACA
** *
89147747 ATGCCAATGTCCAAGACATGGTCTTACATGTATTCACATAACG
1 ATGCCAATGTCCAAGACATGGTCTTACACATAATCACATAACG
* * *
89147790 ATGCCACTGTCCCAGACA-GGCTCTTACACATAATCATATAACG
1 ATGCCAATGTCCAAGACATGG-TCTTACACATAATCACATAACG
89147833 AT
1 AT
89147835 TCTATGAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCAAGACATGGTCTTACACATAATCACATAACG
Found at i:89152793 original size:40 final size:40
Alignment explanation
Indices: 89152769--89152915 Score: 231
Period size: 40 Copynumber: 3.7 Consensus size: 40
89152759 ATAATTCACG
*
89152769 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
89152809 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
89152849 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCCCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
89152889 CAAAAGCCTTCGGGACTTTGCCCGGAT
1 CAAATGCCTTCGGGACTTAACCCGGAT
89152916 ACCATTTGAA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:89152822 original size:80 final size:80
Alignment explanation
Indices: 89152736--89152915 Score: 247
Period size: 80 Copynumber: 2.2 Consensus size: 80
89152726 GCTCTATTGT
* *
89152736 CTTCGGGACATAGCCCGG-TTATAATAATTCACGCAAATGCCTTCGGGACTTAACCCGGATTTGG
1 CTTCGGGACATAGCCCGGATT-TAATAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTGG
* *
89152800 TAACTCGCACAAATGC
65 TAACTCCCACAAAAGC
* * *
89152816 CTTCGGGA-ATTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGG
1 CTTCGGGACA-TAGCCCGGATTTAATAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTGG
89152880 TAACTCCCACAAAAGC
65 TAACTCCCACAAAAGC
* *
89152896 CTTCGGGACTTTGCCCGGAT
1 CTTCGGGACATAGCCCGGAT
89152916 ACCATTTGAA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACATAGCCCGGATTTAATAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTGGT
AACTCCCACAAAAGC
Found at i:89167805 original size:22 final size:22
Alignment explanation
Indices: 89167773--89167835 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
89167763 AAATACGTTC
*
89167773 GGCACACAGCCATAATCAGGTT
1 GGCACAAAGCCATAATCAGGTT
* * *
89167795 GGCATAGAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
89167817 GGCACAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
89167836 AACAATTAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:89168053 original size:40 final size:40
Alignment explanation
Indices: 89167979--89168058 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
89167969 AAAGCCACCG
** *
89167979 ATGGATCCACAGTCGTCAAGCAACCATGTGATCCTTAATT
1 ATGGATCCACAGTCGTCAAGCAACCATGCAATCCTCAATT
*
89168019 ATGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAATT
1 ATGGATCCACAGTCGTCAAGCAACCATGCAATCCTCAATT
89168059 TCTTCCTCCG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (40 bp):
ATGGATCCACAGTCGTCAAGCAACCATGCAATCCTCAATT
Found at i:89168411 original size:27 final size:27
Alignment explanation
Indices: 89168317--89168611 Score: 139
Period size: 27 Copynumber: 11.0 Consensus size: 27
89168307 GGTAAATCTA
* ** *
89168317 CAAACCAAGGGTATTTTAGT-ATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * * **
89168343 CAAACCCATGGTATTTCTATAATTTTT
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * *
89168370 GAAAGTGAAGGGTATTTCGGAAATTTTT
1 CAAA-TCAAGGGTATTTCGGTAATTTTT
* * *
89168398 CAAATCAAGAGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTT
** *
89168425 CAAATTGAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * ** ** *
89168452 GAAGTTGAGGGTATTTTAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * * * *
89168479 CAAGTCAAGGGTTTTTTGATAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * * *
89168506 CAAATCAGGGGTATTTTGGGAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * * *
89168533 CAAA-CTAGGGGTATTTTGATAATTTTG
1 CAAATC-AAGGGTATTTCGGTAATTTTT
* * *
89168560 CTAATCGAGGGTATTTTGGT-ATTTTT
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * *
89168586 CTAGACCAAGGGTA-TTCGATAATTTT
1 C-AAATCAAGGGTATTTCGGTAATTTT
89168612 ATAAACCCAG
Statistics
Matches: 210, Mismatches: 53, Indels: 11
0.77 0.19 0.04
Matches are distributed among these distances:
26 26 0.12
27 164 0.78
28 20 0.10
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTT
Found at i:89168437 original size:54 final size:54
Alignment explanation
Indices: 89168378--89168585 Score: 190
Period size: 54 Copynumber: 3.9 Consensus size: 54
89168368 TTGAAAGTGA
* *
89168378 AGGGTATTTCGGA-AATTTTTCAAATCAAGAGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATT
* * ** * * *
89168431 GAGGGTATTTCGG-TAATTTTAGAAGTTGAGGGTATTTTAGTAATTTTACAAGTCA
1 -AGGGTATTTCGGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAAT-T
** * * *
89168486 AGGGT-TTTTTGATAATTTTACAAATCAGGGGTATTTTGGGAATTTTACAAACT
1 AGGGTATTTCGGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATT
* * * * *
89168539 AGGGGTATTT-TGATAATTTTGCTAATCGAGGGTATTTTGGTATTTTT
1 A-GGGTATTTCGGATAATTTTACAAATCAAGGGTATTTTGGTAATTTT
89168586 CTAGACCAAG
Statistics
Matches: 122, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
53 5 0.04
54 114 0.93
55 3 0.02
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCGGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATT
Done.