Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 67 of 295
Found at i:20265402 original size:23 final size:23
Alignment explanation
Indices: 20265374--20265418 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20265364 ATAAAATTAA
*
20265374 TTTAAATTTTGATTCAA-TCAATT
1 TTTAAA-TTTAATTCAACTCAATT
20265397 TTTAAATTTAATTCAACTCAAT
1 TTTAAATTTAATTCAACTCAAT
20265419 ATCTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAAATTTAATTCAACTCAATT
Found at i:20269169 original size:26 final size:26
Alignment explanation
Indices: 20269133--20269184 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
20269123 CATGATATAA
20269133 CACAATGTTGGTGTTTGTAAAATTGG
1 CACAATGTTGGTGTTTGTAAAATTGG
20269159 CACAATGTTGGTGTTTGTAAAATTGG
1 CACAATGTTGGTGTTTGTAAAATTGG
20269185 AATACGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (26 bp):
CACAATGTTGGTGTTTGTAAAATTGG
Found at i:20280200 original size:68 final size:67
Alignment explanation
Indices: 20280128--20280277 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
20280118 CATCATGTGT
* * * *
20280128 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
20280190 ATGTAG
62 ATGTAG
** * *
20280196 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
20280261 AG
66 AG
20280263 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
20280278 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:20280233 original size:64 final size:64
Alignment explanation
Indices: 20280152--20280335 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
20280142 AGACATTATG
* *
20280152 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
20280216 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
20280281 AA
63 AA
* * * *
20280283 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
20280336 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:20283240 original size:42 final size:43
Alignment explanation
Indices: 20283165--20283290 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
20283155 ACAAGCCTCG
* *
20283165 ATTGAGATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-T
1 ATTGA-ATTT-CGTGTAAGACCATGTCTAGGACATCGGCATCGAT
* * **
20283209 ATCT-AATTTCGTGTAAGACCCTTTCTAGGACAGAGGCATCGAT
1 AT-TGAATTTCGTGTAAGACCATGTCTAGGACATCGGCATCGAT
* * * *
20283252 ATTGAATTACATGTAAGACCATGTCCAGGACGTCGGCAT
1 ATTGAATTTCGTGTAAGACCATGTCTAGGACATCGGCAT
20283291 TGTACTTGGT
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
42 27 0.42
43 34 0.52
44 3 0.05
45 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
ATTGAATTTCGTGTAAGACCATGTCTAGGACATCGGCATCGAT
Found at i:20285766 original size:30 final size:30
Alignment explanation
Indices: 20285732--20285792 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
20285722 TCCTTAACTC
20285732 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
20285762 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
20285792 A
1 A
20285793 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:20296779 original size:27 final size:27
Alignment explanation
Indices: 20296745--20296918 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
20296735 TAAATTGTAC
20296745 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
20296772 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20296798 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20296826 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20296854 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20296881 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20296908 AGCACTGAGTG
1 AGCACTAAGTG
20296919 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20296859 original size:82 final size:81
Alignment explanation
Indices: 20296746--20296901 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20296736 AAATTGTACA
* *
20296746 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
20296810 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
20296827 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
20296892 TGCGAGTTGA
65 TGCGAATTGA
20296902 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20306298 original size:34 final size:34
Alignment explanation
Indices: 20306260--20306326 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
20306250 TTGGATACTG
20306260 TACTGAAATAGGCTAAGGCCCACACTGATATTGT
1 TACTGAAATAGGCTAAGGCCCACACTGATATTGT
* * * *
20306294 TACTGTATTGGGCTAAGGCCCACATTGATATTG
1 TACTGAAATAGGCTAAGGCCCACACTGATATTG
20306327 CGACTGATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (34 bp):
TACTGAAATAGGCTAAGGCCCACACTGATATTGT
Found at i:20306347 original size:34 final size:34
Alignment explanation
Indices: 20306272--20306354 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
20306262 CTGAAATAGG
** *
20306272 CTAAGGCCCACACTGATATTGTTACTGTATTGGG
1 CTAAGGCCCACACTGATATTGCGACTGTATTGGA
*
20306306 CTAAGGCCCACATTGATATTGCGACTG-ATATGGA
1 CTAAGGCCCACACTGATATTGCGACTGTAT-TGGA
* *
20306340 CTTAGGCCCAGACTG
1 CTAAGGCCCACACTG
20306355 TTCAACACTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 2 0.05
34 39 0.95
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (34 bp):
CTAAGGCCCACACTGATATTGCGACTGTATTGGA
Found at i:20308219 original size:40 final size:40
Alignment explanation
Indices: 20308160--20308390 Score: 279
Period size: 40 Copynumber: 5.8 Consensus size: 40
20308150 CATTTGAATG
20308160 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * * * *
20308200 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* *
20308240 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * * *
20308280 A-ACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* * *
20308319 TTATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
20308359 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
20308391 TTGTGGTTAT
Statistics
Matches: 156, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.20
40 119 0.76
41 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:20308320 original size:79 final size:80
Alignment explanation
Indices: 20308161--20308391 Score: 392
Period size: 79 Copynumber: 2.9 Consensus size: 80
20308151 ATTTGAATGA
*
20308161 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
20308226 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
*
20308241 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTA-ACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
20308305 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * * * *
20308320 TATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
20308385 TTGTGCT
66 TTGTGCT
20308392 TGTGGTTATA
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
79 75 0.53
80 67 0.47
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
TTGTGCTAGTGATTT
Found at i:20308375 original size:119 final size:119
Alignment explanation
Indices: 20308164--20308390 Score: 314
Period size: 119 Copynumber: 1.9 Consensus size: 119
20308154 TGAATGATAT
* * *
20308164 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGTAATTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTG
* *
20308229 TGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTAAC
66 TGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTAAC
* * * * * * *
20308283 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCTGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTG-CTATACCCGGGCTAAGACCCGAAGGCAATT
20308347 GTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGC
65 GTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
20308391 TTGTGGTTAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
118 2 0.02
119 89 0.95
120 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTAAC
Found at i:20315238 original size:43 final size:40
Alignment explanation
Indices: 20315175--20315374 Score: 176
Period size: 41 Copynumber: 4.9 Consensus size: 40
20315165 TACCGTACCA
* * *
20315175 ATGCCATATCCCAGATATGGTCTTTCATGTAATCTCGTATCG
1 ATGCCA-ATACCAGATATGGTCTTTCACG-AATCTCATATCG
* * *
20315217 ATGCCAATAGCCTAGCTATGGTCTTACACGGAATCTCTTATCG
1 ATGCCAATA-CC-AGATATGGTCTTTCAC-GAATCTCATATCG
*
20315260 ATGCCATATACCAGATATGGT-TTTACACGAATCTCATATCA
1 ATGCCA-ATACCAGATATGGTCTTT-CACGAATCTCATATCG
* *
20315301 ATGCCATATCCCAGATATGGTC--TGA--AATCTCATATCG
1 ATGCCA-ATACCAGATATGGTCTTTCACGAATCTCATATCG
* *
20315338 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCA-ATACCAGATATGGTCTTTCACG-AATCTCA
20315375 GTAACCTAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
37 33 0.25
39 2 0.02
40 1 0.01
41 35 0.26
42 26 0.20
43 32 0.24
44 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (40 bp):
ATGCCAATACCAGATATGGTCTTTCACGAATCTCATATCG
Found at i:20315342 original size:37 final size:39
Alignment explanation
Indices: 20315175--20315374 Score: 179
Period size: 43 Copynumber: 4.9 Consensus size: 39
20315165 TACCGTACCA
* * *
20315175 ATGCCATATCCCAGATATGGTCTTTCATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTC-TACA--CAATCTCATATCG
* * * *
20315217 ATGCCAATAGCCTAGCTATGGTCTTACACGGAATCTCTTATCG
1 ATGCC-ATATCCCAGATATGGTC-TACAC--AATCTCATATCG
* * *
20315260 ATGCCATATACCAGATATGGTTTTACACGAATCTCATATCA
1 ATGCCATATCCCAGATATGG-TCTACAC-AATCTCATATCG
*
20315301 ATGCCATATCCCAGATATGGTCT-GA-AATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTACACAATCTCATATCG
20315338 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTC-TACAC--AATCTCA
20315375 GTAACCTAAT
Statistics
Matches: 131, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
37 33 0.25
38 1 0.01
39 2 0.02
40 2 0.02
41 30 0.23
42 28 0.21
43 35 0.27
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (39 bp):
ATGCCATATCCCAGATATGGTCTACACAATCTCATATCG
Found at i:20317189 original size:9 final size:9
Alignment explanation
Indices: 20317175--20317199 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20317165 TCATATTTAT
20317175 TTTAATTAA
1 TTTAATTAA
20317184 TTTAATTAA
1 TTTAATTAA
20317193 TTTAATT
1 TTTAATT
20317200 TTTCTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAATTAA
Found at i:20321999 original size:48 final size:47
Alignment explanation
Indices: 20321928--20322111 Score: 242
Period size: 48 Copynumber: 3.9 Consensus size: 47
20321918 CATTAGGGTT
20321928 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-G
20321976 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAATG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC-ATG
* * * * * *
20322024 ATATGGGATCCCATATAAGACCATATCTGGGATATGACATTGGCATAA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-G
** ** *
20322072 ATATGTTATTTCGTGTAAGACCATGTCTGGGACATGGCAT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCAT
20322112 CGATATGAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.02
48 115 0.97
49 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (47 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATG
Found at i:20329053 original size:42 final size:42
Alignment explanation
Indices: 20328974--20329055 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
20328964 TTAATTATGG
* *
20328974 GCACTTAGTGTGCGAAATCGAGATAGGTTCGATTATATATTT
1 GCACTTAGTGTGCGAAATCGAGATAGCTTCGACTATATATTT
* * * * *
20329016 GCACTTAGTGTGCGAGATTGAGATATCTTTGGCTATATAT
1 GCACTTAGTGTGCGAAATCGAGATAGCTTCGACTATATAT
20329056 GGATATATAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (42 bp):
GCACTTAGTGTGCGAAATCGAGATAGCTTCGACTATATATTT
Found at i:20335054 original size:43 final size:42
Alignment explanation
Indices: 20334979--20335092 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
20334969 GAAATTTACG
* * * * *
20334979 TGTAAGACCATATCTGAGATATGGCATCGATATGAGA-CTTCA
1 TGTATGACCATAGCTGGGATATGGCATTGATATGAGATC-ACA
*
20335021 TGTATGACCATAGCTGGGCTATTGGCATTGATATGAGATCACA
1 TGTATGACCATAGCTGGGATA-TGGCATTGATATGAGATCACA
*
20335064 TGTATGACCATATCTGGGATATGGCATTG
1 TGTATGACCATAGCTGGGATATGGCATTG
20335093 GTACGATACT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 25 0.40
43 36 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTATGACCATAGCTGGGATATGGCATTGATATGAGATCACA
Found at i:20335288 original size:15 final size:16
Alignment explanation
Indices: 20335262--20335291 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20335252 ATGAACCCTC
20335262 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
20335278 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
20335292 ATAAGACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:20337675 original size:54 final size:54
Alignment explanation
Indices: 20337590--20337699 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 54
20337580 AAAATGAGAG
* *
20337590 CACATGGTCGTGTCCCAACCCATGTCTTACCCCGTGTAACTCTCTGACTTGGGT
1 CACATGGCCGTGTCCCAACCCATGTCCTACCCCGTGTAACTCTCTGACTTGGGT
* * *
20337644 CACATGGCCGTGTCCCAGCCCGTGTCCTACCCCGTGTAACTCTTTGACTTGGGT
1 CACATGGCCGTGTCCCAACCCATGTCCTACCCCGTGTAACTCTCTGACTTGGGT
20337698 CA
1 CA
20337700 TACGGCCAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.15, C:0.35, G:0.22, T:0.28
Consensus pattern (54 bp):
CACATGGCCGTGTCCCAACCCATGTCCTACCCCGTGTAACTCTCTGACTTGGGT
Found at i:20342697 original size:19 final size:19
Alignment explanation
Indices: 20342675--20342713 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
20342665 TGACAATAAC
20342675 CAAATCTCAAATCAATCTT
1 CAAATCTCAAATCAATCTT
20342694 CAAATCTCAAATCAATCTT
1 CAAATCTCAAATCAATCTT
20342713 C
1 C
20342714 GAAACACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (19 bp):
CAAATCTCAAATCAATCTT
Found at i:20344754 original size:18 final size:19
Alignment explanation
Indices: 20344717--20344756 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
20344707 TATTTTAAAT
*
20344717 TAATAAAGTAAATAATAAG
1 TAATAAAGTAAATAAAAAG
*
20344736 TAATAAA-TTAATAAAAAG
1 TAATAAAGTAAATAAAAAG
20344754 TAA
1 TAA
20344757 AGTAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
TAATAAAGTAAATAAAAAG
Found at i:20345185 original size:44 final size:45
Alignment explanation
Indices: 20345128--20345251 Score: 182
Period size: 44 Copynumber: 2.8 Consensus size: 45
20345118 ATACCAGAAA
*
20345128 CGAGTAAAACCATGACTGAAAGACGTTAT-GCATCATGATGT-TAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCATGAT-TCTAT
*
20345172 CGAGTAAGACCATGACTGAAAGACTTTATGGCATCATGATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTAT
* *
20345217 TGAG-AAGACCATGACTGAAAAACGTTATGGCATCA
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCA
20345252 CAAATCAAAC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 57 0.78
45 16 0.22
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTAT
Found at i:20346441 original size:40 final size:40
Alignment explanation
Indices: 20346397--20346583 Score: 284
Period size: 40 Copynumber: 4.7 Consensus size: 40
20346387 CCAACCCAAT
* * * * *
20346397 TGCCTTCGGGATTTAGCCCGAATATAACAACCAACACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
20346437 TGCCTTCGGGACTGAACCCGGATATAAAAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
*
20346477 TGCCTTCGGGACTTAACCCGGACATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
20346517 TGCCTTCGGGACTTAACCCGAATATAACAACTAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
20346557 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
20346584 TCTTCAATTT
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:20358474 original size:42 final size:43
Alignment explanation
Indices: 20358366--20358533 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
20358356 AGCTAGTACA
** * *
20358366 ATGCCAACATCCCAGACATGGTCTTACATGTAATCACATACCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATACCG
* * *
20358409 ATGCCACTGTCCCAAACAAGGTCTTACACG-AACTCATATA-CG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAA-TCACATACCG
* * * * *
20358451 ATGCCAATGTGCCAGACATGGTCTTGCACGTAAATCACAAATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGT-AATCACATACCG
** *
20358495 ATGCCAA-GTCCCAAATGTGGTCTTACACGAAATCACATA
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATA
20358534 TCGGAATCCT
Statistics
Matches: 100, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
42 37 0.37
43 52 0.52
44 11 0.11
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAATCACATACCG
Found at i:20360309 original size:56 final size:55
Alignment explanation
Indices: 20360171--20360326 Score: 179
Period size: 56 Copynumber: 2.8 Consensus size: 55
20360161 TTTGATGACA
*
20360171 TGATACATGCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTAATTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCCGTTGAGAGG-ATGTAATTATG
** * * **
20360227 TGGCACACGCTAGGTCTGGGAGCTTATGTAGCCCCGTTGAGAGG-TGTGGTTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCCGTTGAGAGGATGTAATTATG
* * **
20360281 TGATGCATGCTAGGTCCGGGTGCTCTTATGTAGCCCTATTGAGAGG
1 TGATACATGCTAGGTCCGGGAG--CTTATGTAGCCCCGTTGAGAGG
20360327 CGTGCTATGT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 24 0.29
56 59 0.71
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (55 bp):
TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCCGTTGAGAGGATGTAATTATG
Found at i:20364644 original size:43 final size:43
Alignment explanation
Indices: 20364539--20364653 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
20364529 ATGTGTTCTT
* * * * *
20364539 ATGTAAGCCCACGTCAGGGATTTTGGCATCGATAAGTGATTAT
1 ATGTAAGACCACGTCTGGGACTGTGGCATCGATAAGTGATTAC
* * * *
20364582 GTGTAAAACC-CTGTTTGGGACTGTGGCATCGATATGTGATTAC
1 ATGTAAGACCAC-GTCTGGGACTGTGGCATCGATAAGTGATTAC
20364625 ATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 ATGTAAGACCACGTCTGGGACTG-TGGCAT
20364654 TGTACGATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
42 2 0.04
43 54 0.95
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
ATGTAAGACCACGTCTGGGACTGTGGCATCGATAAGTGATTAC
Found at i:20370288 original size:46 final size:46
Alignment explanation
Indices: 20370221--20370395 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
20370211 TGTAACCCGC
*
20370221 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
20370267 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
20370317 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
20370360 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
20370396 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:20370341 original size:93 final size:93
Alignment explanation
Indices: 20370228--20370399 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
20370218 CGCCCATAAG
* * *
20370228 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCA
20370293 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
20370321 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCA
20370386 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
20370400 TCAACCATCC
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:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:20370851 original size:30 final size:30
Alignment explanation
Indices: 20370817--20370876 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20370807 ATTTAATATG
20370817 AACTTTGGAAAAATTACACTTTAGCCCCTA
1 AACTTTGGAAAAATTACACTTTAGCCCCTA
* * * *
20370847 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTAGCCCCTA
20370877 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTAGCCCCTA
Found at i:20379119 original size:28 final size:29
Alignment explanation
Indices: 20379088--20379146 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
20379078 ATTTTTGACT
*
20379088 AAAATGTCAATT-AAGGATTAAATTGAGA
1 AAAATGTAAATTGAAGGATTAAATTGAGA
* * *
20379116 AAAATGTAAATTGAGGGGTTAAATTGTGA
1 AAAATGTAAATTGAAGGATTAAATTGAGA
20379145 AA
1 AA
20379147 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (29 bp):
AAAATGTAAATTGAAGGATTAAATTGAGA
Found at i:20379753 original size:47 final size:47
Alignment explanation
Indices: 20379693--20379820 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 47
20379683 GCGAATAATG
* * **
20379693 CCTTGATTTGGCTATGGGTCATGATATAGGTATTTTGAGAGGA-GTTA
1 CCTTGATTTGGCTATGGGCCATGATATAGGTACTCCGAGA-GATGTTA
* * *
20379740 CCTTGATTTGGCTACGGGCCAT-AGTATAGGTACTCCGGGATATGTTA
1 CCTTGATTTGGCTATGGGCCATGA-TATAGGTACTCCGAGAGATGTTA
*
20379787 CCTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 CCTTGATTTGGCTATGGGCCATGATATAGGTACT
20379821 TATCTATTGC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 2 0.03
47 67 0.97
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (47 bp):
CCTTGATTTGGCTATGGGCCATGATATAGGTACTCCGAGAGATGTTA
Found at i:20389802 original size:29 final size:28
Alignment explanation
Indices: 20389714--20389825 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 28
20389704 TACCTATATC
* *
20389714 TGGCCCATTAAGCCCAATCATA-TTCATA
1 TGGCCCATTAGGCCCAATCACATTTC-TA
* * * * *
20389742 TGGCCCCTTTAGGTCCAAATCACCTGTATA
1 TGG-CCCATTAGG-CCCAATCACATTTCTA
20389772 TGGCCCATTAGGCCCGAATCACATTTCTA
1 TGGCCCATTAGGCCC-AATCACATTTCTA
** *
20389801 TGGCCTGTTAGGCCCAGTCACATTT
1 TGGCCCATTAGGCCCAATCACATTT
20389826 ATATTCATGC
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
28 14 0.22
29 38 0.58
30 12 0.18
31 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTCTA
Found at i:20397183 original size:28 final size:28
Alignment explanation
Indices: 20397120--20397270 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
20397110 ATATTAAGTC
*
20397120 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20397147 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
20397175 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
20397203 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
20397231 CACACACTTAGTGCAATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20397260 CGCACACTTAG
1 CGCACACTTAG
20397271 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 22 0.20
28 74 0.67
29 15 0.14
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20399317 original size:42 final size:43
Alignment explanation
Indices: 20399240--20399331 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 43
20399230 TCCCGGACAT
* * **
20399240 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTACACGGAATTCAATATCGATGCCGATGTCCCAAACAG
* *
20399283 GGTCTTACACGGAA-TC-ATATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGGAATTCAATAT-CGATGCCGATGTCCCAAACAG
20399325 GGTCTTA
1 GGTCTTA
20399332 TACGTAAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 4 0.10
42 26 0.62
43 12 0.29
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGGAATTCAATATCGATGCCGATGTCCCAAACAG
Found at i:20409063 original size:28 final size:28
Alignment explanation
Indices: 20409030--20409099 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
20409020 TATTAAGTCT
* *
20409030 GCACACTCAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTC
*
20409058 GCACACTTAGTGCTACATAATCAAGCTC
1 GCACACTTAGTGCTACATAATCAAACTC
20409086 GCACACTTAGTGCT
1 GCACACTTAGTGCT
20409100 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
GCACACTTAGTGCTACATAATCAAACTC
Found at i:20416991 original size:28 final size:28
Alignment explanation
Indices: 20416958--20417026 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
20416948 ATATTAAGTC
* *
20416958 CGCACACTCAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
20416986 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
20417014 CGCACACTTAGTG
1 CGCACACTTAGTG
20417027 ATGTACAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:20425169 original size:44 final size:44
Alignment explanation
Indices: 20425025--20425227 Score: 238
Period size: 44 Copynumber: 4.7 Consensus size: 44
20425015 AGCTCGTACA
* * *
20425025 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AAT-CAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATACCAA-ATCG
* **
20425068 ATGCC-ACTGTCCCAGACAGGGTCTTACAC--AAA-ATTAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATACCAAAT-CG
*
20425110 ATGTCAACGTCCCAGACATGGTCTTACACGTAAATACCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATACCAAATCG
* *
20425154 ATGCCAACGTCCCAGACGTGGTCTTACACATAAATACCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATACCAAATCG
* *
20425198 ATGCCAACGTCCTAGACATAGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
20425228 ATTTCACATA
Statistics
Matches: 136, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.01
42 32 0.24
43 25 0.18
44 72 0.53
45 5 0.04
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATACCAAATCG
Found at i:20425177 original size:86 final size:86
Alignment explanation
Indices: 20425025--20425227 Score: 254
Period size: 86 Copynumber: 2.3 Consensus size: 86
20425015 AGCTCGTACA
* *
20425025 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
*
20425090 CTTACACA-AAAT-TAAATACG
66 CTTACACATAAATACAAAT-CG
* *
20425110 ATGTCAACGTCCCAGACATGGTCTTACACGTAAATACCAA-ATCGATGCCAAC-GTCCCAGAC-G
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AAT-CAAATATCGATGCC-ACTGTCCCAGACAG
20425172 TGGTCTTACACATAAATACCAAATCG
63 -GGTCTTACACATAAATA-CAAATCG
* *
20425198 ATGCCAACGTCCTAGACATAGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
20425228 ATTTCACATA
Statistics
Matches: 103, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
85 29 0.28
86 32 0.31
87 9 0.09
88 29 0.28
89 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
CTTACACATAAATACAAATCG
Found at i:20428510 original size:40 final size:40
Alignment explanation
Indices: 20428319--20428503 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
20428309 TTGAATGATG
* * * *
20428319 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
20428359 TCCGGACTAAGAT-CGGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20428399 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20428438 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20428479 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20428504 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20428525 original size:79 final size:79
Alignment explanation
Indices: 20428374--20428536 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
20428364 ACTAAGATCG
* * **
20428374 GAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCAATTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
*
20428439 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* * *
20428453 GAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCAATTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
* *
20428516 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
20428532 GAAGG
1 GAAGG
20428537 TACGTGATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.62
80 25 0.35
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
GAAGGCAATTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:20430483 original size:23 final size:23
Alignment explanation
Indices: 20430445--20430518 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
20430435 CTCCTGAGCT
20430445 GCTG-AACAGTAAGCTCTATTGA
1 GCTGAAACAGTAAGCTCTATTGA
* **
20430467 GCTGAAACGGTAAGCTCTATCAA
1 GCTGAAACAGTAAGCTCTATTGA
*
20430490 GCTGAAAATAGTAAGCTCT-TTCGA
1 GCTG-AAACAGTAAGCTCTATT-GA
20430514 GCTGA
1 GCTGA
20430519 TATATTGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 4 0.10
23 21 0.50
24 17 0.40
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (23 bp):
GCTGAAACAGTAAGCTCTATTGA
Found at i:20430508 original size:24 final size:24
Alignment explanation
Indices: 20430449--20430518 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
20430439 TGAGCTGCTG
*
20430449 AACAGTAAGCTCTATTGAGCTG-A
1 AACAGTAAGCTCTATCGAGCTGAA
* *
20430472 AACGGTAAGCTCTATCAAGCTGAA
1 AACAGTAAGCTCTATCGAGCTGAA
* *
20430496 AATAGTAAGCTCTTTCGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
20430519 TATATTGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
AACAGTAAGCTCTATCGAGCTGAA
Found at i:20430532 original size:26 final size:24
Alignment explanation
Indices: 20430453--20430542 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
20430443 CTGCTGAACA
*
20430453 GTAAGCTCTATT-GAGCTG-AAACG
1 GTAAGCTCT-TTCGAGCTGAAAATG
* * *
20430476 GTAAGCTCTATCAAGCTGAAAATA
1 GTAAGCTCTTTCGAGCTGAAAATG
*
20430500 GTAAGCTCTTTCGAGCTGATATATTG
1 GTAAGCTCTTTCGAGCTGA-A-AATG
* *
20430526 GTAAGCTCATACGAGCT
1 GTAAGCTCTTTCGAGCT
20430543 ATGGTGAGTC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
22 1 0.02
23 14 0.26
24 20 0.38
25 1 0.02
26 17 0.32
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (24 bp):
GTAAGCTCTTTCGAGCTGAAAATG
Found at i:20432768 original size:21 final size:21
Alignment explanation
Indices: 20432744--20432785 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20432734 TATATGCTTA
20432744 GTAAGTTCGTATAACAGGAAT
1 GTAAGTTCGTATAACAGGAAT
*
20432765 GTAAGTTCGTATAATAGGAAT
1 GTAAGTTCGTATAACAGGAAT
20432786 TAAAACTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (21 bp):
GTAAGTTCGTATAACAGGAAT
Found at i:20436110 original size:37 final size:35
Alignment explanation
Indices: 20436059--20436129 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
20436049 TCAGATTAAA
*
20436059 TAATATTATTTTAATAGT-TTAATATTAAATTTAATT
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATT
*
20436095 TAATACTTATCTTAATAGTATTTTATTAATTTAAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAAT
20436130 GCTAAAGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.42
37 16 0.52
38 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATT
Found at i:20444478 original size:49 final size:50
Alignment explanation
Indices: 20444412--20444541 Score: 167
Period size: 49 Copynumber: 2.6 Consensus size: 50
20444402 ATTGAAGTTT
*
20444412 ATGACGTGTCCCAGACAGGTCTTACACTGACAT-TCATATATCGAG-GCCA
1 ATGACATGTCCCAGACAGGTCTTACACTGACATCTCATATATCG-GTGCCA
* * * * * *
20444461 ATGCCATGTCCCAGACAGGTCTTAGACTGGC-TCTCATCTATTGGTGTCA
1 ATGACATGTCCCAGACAGGTCTTACACTGACATCTCATATATCGGTGCCA
20444510 ATGACATGTCCCAGACAGGTCTTACACTGACA
1 ATGACATGTCCCAGACAGGTCTTACACTGACA
20444542 CACAACAAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.03
49 66 0.97
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (50 bp):
ATGACATGTCCCAGACAGGTCTTACACTGACATCTCATATATCGGTGCCA
Found at i:20446271 original size:48 final size:47
Alignment explanation
Indices: 20446212--20446480 Score: 268
Period size: 48 Copynumber: 5.6 Consensus size: 47
20446202 TATGTGTGCT
* *
20446212 AGTGTAAGACCATGTCTGGGACATAGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACGATATGAGAGCC
* ***
20446260 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATTTAATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGAT-ATGAGAGCC
* * * * * *
20446308 AGAGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCA-CGATATGAGAGCC
* * * * * *
20446356 AGTGTAAGACCATGTTTGGGACATGACATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCA-CGATATGAGAGCC
* * * * *
20446404 AGTGTAAGACTATGTTTGGGACATGGCATCAGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATC-GGCACGATATGAGAGCC
* *
20446452 AGTGTAAGACCATATTTGGAACATGGCAT
1 AGTGTAAGACCATGTTTGGGACATGGCAT
20446481 TGACAATTCA
Statistics
Matches: 182, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
47 3 0.02
48 177 0.97
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGATATGAGAGCC
Found at i:20446380 original size:96 final size:96
Alignment explanation
Indices: 20446215--20446480 Score: 338
Period size: 96 Copynumber: 2.8 Consensus size: 96
20446205 GTGTGCTAGT
* *
20446215 GTAAGACCATGTCTGGGACATAGCATCGGCCA-CGATATGAGAGCCAGTGTAAGACCATGTTTGG
1 GTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATGTGAGCCAGTGTAAGACCATGTTTGG
* * *
20446279 AACATGGCATCGGCAATTTA-ATGAGAGCCAGA
65 AACATGGCATCAGC-ATTGAGACGAGAGCCAGA
* * * *
20446311 GTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGTAAGACCATGTTTGGG
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTTGGA
* * *
20446376 ACATGACATCAGCATTGAGACGAGAGCTAGT
66 ACATGGCATCAGCATTGAGACGAGAGCCAGA
* * * * * *
20446407 GTAAGACTATGTTTGGGACATGGCATCAGCCTCGACATGTGAGCCAGTGTAAGACCATATTTGGA
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTTGGA
20446472 ACATGGCAT
66 ACATGGCAT
20446481 TGACAATTCA
Statistics
Matches: 145, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
95 6 0.04
96 139 0.96
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTTGGA
ACATGGCATCAGCATTGAGACGAGAGCCAGA
Found at i:20446459 original size:144 final size:144
Alignment explanation
Indices: 20446199--20446480 Score: 363
Period size: 144 Copynumber: 2.0 Consensus size: 144
20446189 TGACATTTAG
* * *
20446199 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCACGATATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCCACGAGACGAGAGCCAGTG
* ** * *
20446264 TAAGACCATGTTTGGAACATGGCATCGGCAATTTAATGAGAGCCAGAGTAAGACCATGTCTGGGA
66 TAAGACCATGTTTGGAACATGGCATCAGCAATCGAATGAGAGCCAGAGTAAGACCATATCTGGAA
20446329 CATGGCATCGGCAT
131 CATGGCATCGGCAT
* * *
20446343 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACAT-GACATCAG-CATTGAGACGAGAGCTAG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAG-CATCAGCCA-CGAGACGAGAGCCAG
* * * * * *
20446406 TGTAAGACTATGTTTGGGACATGGCATCAGC-CTCGACATGTGAGCCAGTGTAAGACCATATTTG
64 TGTAAGACCATGTTTGGAACATGGCATCAGCAATCGA-ATGAGAGCCAGAGTAAGACCATATCTG
20446470 GAACATGGCAT
128 GAACATGGCAT
20446481 TGACAATTCA
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
143 5 0.04
144 113 0.96
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCCACGAGACGAGAGCCAGTG
TAAGACCATGTTTGGAACATGGCATCAGCAATCGAATGAGAGCCAGAGTAAGACCATATCTGGAA
CATGGCATCGGCAT
Found at i:20452221 original size:40 final size:40
Alignment explanation
Indices: 20452168--20452523 Score: 568
Period size: 40 Copynumber: 8.9 Consensus size: 40
20452158 GAATACACAT
*
20452168 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
20452208 CACCAGTACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
20452248 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
20452288 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
20452328 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
20452368 CTCCAGCACGAATTCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
20452408 CACTAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* **
20452448 CTCTTGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
20452488 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
20452524 CATCGGCAAG
Statistics
Matches: 290, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 290 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:20459348 original size:21 final size:21
Alignment explanation
Indices: 20459300--20459349 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
20459290 TTTTCACTCA
*
20459300 TTTTTCACCCAAATTGAGAGT
1 TTTTTCTCCCAAATTGAGAGT
*
20459321 TTTTTCTCCCGAATTGAGAGT
1 TTTTTCTCCCAAATTGAGAGT
20459342 TTTTTCTC
1 TTTTTCTC
20459350 TCTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (21 bp):
TTTTTCTCCCAAATTGAGAGT
Found at i:20463284 original size:28 final size:28
Alignment explanation
Indices: 20463221--20463371 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
20463211 ATATTAAGTC
*
20463221 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20463248 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
20463276 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
20463304 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
20463332 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20463361 CGCACACTTAG
1 CGCACACTTAG
20463372 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20467442 original size:25 final size:25
Alignment explanation
Indices: 20467409--20467462 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
20467399 ATTAAACTAG
*
20467409 TTTTCTTT-ATTTTTTTAAATATTTA
1 TTTTATTTAATTTTTTTAAA-ATTTA
*
20467434 TTTTATTTACATTTTTTTATAATTTA
1 TTTTATTTA-ATTTTTTTAAAATTTA
20467460 TTT
1 TTT
20467463 GATCGAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 8 0.32
27 10 0.40
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTATTTAATTTTTTTAAAATTTA
Found at i:20472382 original size:21 final size:21
Alignment explanation
Indices: 20472356--20472396 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20472346 ATCTGCTCAA
* *
20472356 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
20472377 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
20472397 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:20476734 original size:6 final size:6
Alignment explanation
Indices: 20476720--20476755 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
20476710 CCAAAATCTG
*
20476720 CTATTC CTATGC CTATGC CTATGC CTATGC CTATGC
1 CTATGC CTATGC CTATGC CTATGC CTATGC CTATGC
20476756 ATTTGACCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.33, G:0.14, T:0.36
Consensus pattern (6 bp):
CTATGC
Found at i:20485493 original size:39 final size:39
Alignment explanation
Indices: 20485439--20485516 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
20485429 CATCTCCTTA
20485439 AGTATTTTAGACTTGAAAGGATGCAAAATCAACATCGAC
1 AGTATTTTAGACTTGAAAGGATGCAAAATCAACATCGAC
20485478 AGTATTTTAGACTTGAAAGGATGCAAAATCAACATCGAC
1 AGTATTTTAGACTTGAAAGGATGCAAAATCAACATCGAC
20485517 TCGAGCGGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (39 bp):
AGTATTTTAGACTTGAAAGGATGCAAAATCAACATCGAC
Found at i:20486618 original size:21 final size:21
Alignment explanation
Indices: 20486592--20486634 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20486582 TTTGCTATTT
*
20486592 TCATTTTTGTTAGTTTCAGAG
1 TCATTTTTGTTAGTGTCAGAG
*
20486613 TCATTTTTGTTCGTGTCAGAG
1 TCATTTTTGTTAGTGTCAGAG
20486634 T
1 T
20486635 TGAAAGAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.12, G:0.21, T:0.51
Consensus pattern (21 bp):
TCATTTTTGTTAGTGTCAGAG
Found at i:20487008 original size:3 final size:3
Alignment explanation
Indices: 20487002--20487035 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
20486992 CAGCAACAGC
*
20487002 AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
20487036 TTCAACCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20508490 original size:79 final size:82
Alignment explanation
Indices: 20508373--20508557 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20508363 GCTCCTCGTT
* *
20508373 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20508436 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20508453 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20508516 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20508533 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20508558 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.58
80 36 0.39
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20508557 original size:40 final size:40
Alignment explanation
Indices: 20508373--20508557 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
20508363 GCTCCTCGTT
*
20508373 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCA
* *
20508413 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
20508453 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
20508492 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
20508533 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20508558 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 78 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:20517654 original size:44 final size:44
Alignment explanation
Indices: 20517606--20517939 Score: 228
Period size: 44 Copynumber: 7.4 Consensus size: 44
20517596 TTTAGTCTGT
* * * *
20517606 TCCACTGCAA-TTTCAGGGAGATAAGACTTGTAACTTTAACCTAC
1 TCCACTACAACTTT-AGGGAGATAAGATTTGTAACTTCAACCTGC
* * **
20517650 TCCACTACAACTTTAGGGA-AAAAGATTTGCTATCTTCAGTCTGC
1 TCCACTACAACTTTAGGGAGATAAGATTTG-TAACTTCAACCTGC
* *
20517694 TCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAACATGC
1 TCCACTACAACTTTAGGGAGATAAGATTTGTAACTTCAACCTGC
* * * ** *
20517738 TCCACTACAACTTCAGGGAGAGAAGGTTTGTGGCCTT-AATCTGC
1 TCCACTACAACTTTAGGGAGATAAGATTTGT-AACTTCAACCTGC
* * * *
20517782 -CTCACTGCAACTTTAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGT
1 TC-CACTACAACTTTAGGGAGATAA-G------ATTTGTAACTTCAACCTGC
* * * * * **
20517833 TCCGCTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTACAACTTTAGGGAGATAAGATTTG-TAACTTCAACCTGC
* * *
20517878 TCCACTACAA-TTTCAAGGAGATAAGACTTGTAACTTCAACCTGT
1 TCCACTACAACTTT-AGGGAGATAAGATTTGTAACTTCAACCTGC
* *
20517922 TCAACTACAACTTCAGGG
1 TCCACTACAACTTTAGGG
20517940 GAAGAAGGTT
Statistics
Matches: 225, Mismatches: 48, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
43 9 0.04
44 131 0.58
45 50 0.22
50 4 0.02
51 30 0.13
52 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
TCCACTACAACTTTAGGGAGATAAGATTTGTAACTTCAACCTGC
Found at i:20517741 original size:88 final size:88
Alignment explanation
Indices: 20517583--20517993 Score: 366
Period size: 88 Copynumber: 4.6 Consensus size: 88
20517573 TTTGTAAAAT
* * * *
20517583 AAGATTTGCTATCTTTAGTCTGTTCCACTGCAA-TTTCAGGGAGATAAGACTTGTAACTTTAACC
1 AAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTT-AGGGAGATAAGATTTGTAACTTCAACC
* *
20517647 TACTCCACTACAACTTTAGGGAAA
65 TGCTCCACTACAACTTCAGGGAAA
*
20517671 AAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAACAT
1 AAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAACCT
*
20517736 GCTCCACTACAACTTCAGGGAGAG
66 GCTCCACTACAACTTCAGGGA-AA
* ** * *
20517760 AAGGTTTG-TGGCCTT-AATCTGC-CTCACTGCAACTTTAGGGAGATAATGTTTATAATTTGTAG
1 AAGATTTGCT-ATCTTCAGTCTGCTC-CACTGCAACTTTAGGGAGATAA-G------ATTTGTAA
* * * *
20517822 CTTCAATCTGTTCCGCTGCAACTTCAGGGAAA
57 CTTCAACCTGCTCCACTACAACTTCAGGGAAA
* * *
20517854 TAAGATTTGCTATCTTCAGTCTGCTCCACTACAA-TTTCAAGGAGATAAGACTTGTAACTTCAAC
1 -AAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTT-AGGGAGATAAGATTTGTAACTTCAAC
* * *
20517918 CTGTTCAACTACAACTTCAGGGGAAG
64 CTGCTCCACTACAACTTCA-GGGAAA
* ** * * * * * *
20517944 AAGGTTTG-TGGCTTTAATTTGCTCTACTGCAACTTCAAGGAGATAAGATT
1 AAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATT
20517994 CGTCATGGTA
Statistics
Matches: 263, Mismatches: 42, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
87 1 0.00
88 134 0.51
89 52 0.20
90 5 0.02
94 1 0.00
95 46 0.17
96 23 0.09
97 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (88 bp):
AAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTCAACCT
GCTCCACTACAACTTCAGGGAAA
Found at i:20517911 original size:184 final size:183
Alignment explanation
Indices: 20517657--20517989 Score: 510
Period size: 184 Copynumber: 1.8 Consensus size: 183
20517647 TACTCCACTA
* * * *
20517657 CAACTTTAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGATT
1 CAACTTCAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTTAAGGAGATAAGACT
*
20517722 TGTAACTTCAACATGCTCCACTACAACTTCA-GGGAGAGAAGGTTTGTGGCCTTAATCTGC-CTC
66 TGTAACTTCAACATGCTCAACTACAACTTCAGGGGA-AGAAGGTTTGTGGCCTTAATCTGCTCT-
* *
20517785 ACTGCAACTTTAGGGAGATAATGTTTATAATTTGTAGCTTCAATCTGTTCCGCTG
129 ACTGCAACTTCAAGGAGATAATGTTTATAATTTGTAGCTTCAATCTGTTCCGCTG
20517840 CAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAA-TTTCAAGGAGATAAGA
1 CAACTTCAGGGAAA-AAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTT-AAGGAGATAAGA
* * * *
20517904 CTTGTAACTTCAACCTGTTCAACTACAACTTCAGGGGAAGAAGGTTTGTGGCTTTAATTTGCTCT
64 CTTGTAACTTCAACATGCTCAACTACAACTTCAGGGGAAGAAGGTTTGTGGCCTTAATCTGCTCT
20517969 ACTGCAACTTCAAGGAGATAA
129 ACTGCAACTTCAAGGAGATAA
20517990 GATTCGTCAT
Statistics
Matches: 135, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
183 16 0.12
184 113 0.84
185 6 0.04
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (183 bp):
CAACTTCAGGGAAAAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTTAAGGAGATAAGACT
TGTAACTTCAACATGCTCAACTACAACTTCAGGGGAAGAAGGTTTGTGGCCTTAATCTGCTCTAC
TGCAACTTCAAGGAGATAATGTTTATAATTTGTAGCTTCAATCTGTTCCGCTG
Found at i:20524163 original size:24 final size:25
Alignment explanation
Indices: 20524150--20524289 Score: 82
Period size: 24 Copynumber: 5.6 Consensus size: 25
20524140 TAATTAAAAT
20524150 AATAA-ATAAAAAATTTAAAAAATA
1 AATAATATAAAAAATTTAAAAAATA
*
20524174 AATAATAT-AAAAATGTT-TAAAATA
1 AATAATATAAAAAAT-TTAAAAAATA
* *
20524198 AATAATAAATGAAACAATTTAAAGTAA-A
1 AATAAT--AT-AAAAAATTTAAA-AAATA
*
20524226 AA-AATATAAAAAGTTTTAAAAAA-A
1 AATAATATAAAAA-ATTTAAAAAATA
20524250 TAAT-ATATGAAAAAAATTT--AAAATA
1 -AATAATAT--AAAAAATTTAAAAAATA
* *
20524275 AGTAATATATAAAAT
1 AATAATATAAAAAAT
20524290 GGTTCAGAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
23 6 0.07
24 36 0.40
25 23 0.25
26 5 0.05
27 10 0.11
28 9 0.10
29 2 0.02
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (25 bp):
AATAATATAAAAAATTTAAAAAATA
Found at i:20524174 original size:16 final size:16
Alignment explanation
Indices: 20524148--20524186 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20524138 ATTAATTAAA
*
20524148 ATAATAAATAAAAAAT
1 ATAAAAAATAAAAAAT
* *
20524164 TTAAAAAATAAATAAT
1 ATAAAAAATAAAAAAT
20524180 ATAAAAA
1 ATAAAAA
20524187 TGTTTAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAAATAAAAAAT
Found at i:20524176 original size:27 final size:27
Alignment explanation
Indices: 20524146--20524220 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 27
20524136 AAATTAATTA
20524146 AAATAATAAATAAAAAATTTAAAAAAT
1 AAATAATAAATAAAAAATTTAAAAAAT
*
20524173 AAATAAT--AT-AAAAATGTT-TAAAAT
1 AAATAATAAATAAAAAAT-TTAAAAAAT
*
20524197 AAATAATAAATGAAACAATTTAAA
1 AAATAATAAAT-AAAAAATTTAAA
20524221 GTAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
24 18 0.46
25 4 0.10
26 2 0.05
27 9 0.23
28 6 0.15
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (27 bp):
AAATAATAAATAAAAAATTTAAAAAAT
Found at i:20524204 original size:51 final size:49
Alignment explanation
Indices: 20524146--20524566 Score: 257
Period size: 51 Copynumber: 8.3 Consensus size: 49
20524136 AAATTAATTA
20524146 AAATAATAAATAAAAAATTTAAAAAATAAATAATATAAAAATGTTTAAAAT
1 AAATAATAAATAAAAAATTT--AAAATAAATAATATAAAAATGTTTAAAAT
* * *
20524197 AAATAATAAATGAAACAATTTAAAGTAAAAAAATATAAAAA-GTTTTAAAA-
1 AAATAATAAAT-AAAAAATTTAAAAT-AAATAATATAAAAATG-TTTAAAAT
* * * *
20524247 AAATAATATATGAAAAAAATTTAAAATAAGTAATATATAAAATGGTTCAGAAT
1 AAATAATAAAT--AAAAAATTTAAAATAAATAATATA-AAAAT-GTTTAAAAT
* * * * * * * *
20524300 AGACAATATATACATAAATTTTAACATAAATAAAATACAAAACAGTTTGAAAT
1 AAATAATAAATA-A-AAAATTTAAAATAAATAATATA-AAAA-TGTTTAAAAT
* ** * *
20524353 AAATAGTTTATAAAACAATTTAAAGTAAATAATATATAAACA-ATTTAAAAT
1 AAATAATAAATAAAA-AATTTAAAATAAATAATATA-AAA-ATGTTTAAAAT
* * **
20524404 -AATCATACAA-AATAAA-TTAAAATAAATAATATGATAAAACAATTTAAAAT
1 AAATAATA-AATAAAAAATTTAAAATAAATAATAT-A-AAAA-TGTTTAAAAT
* * * *
20524454 AAATACTACATAAAAAAATTTAAAATAAATAATAATAAAACTGTTCAAAAT
1 AAATAATAAAT-AAAAAATTTAAAATAAATAAT-ATAAAAATGTTTAAAAT
* * * * *
20524505 AAATAAT-AA-GAAAGATTTATAATAAATAAAATAAGTAA-GTTTAAAAT
1 AAATAATAAATAAAAAATTTAAAATAAATAATATAA-AAATGTTTAAAAT
* *
20524552 AAATAACATATAAAA
1 AAATAATAAATAAAA
20524567 GTACCTAAAG
Statistics
Matches: 286, Mismatches: 59, Indels: 52
0.72 0.15 0.13
Matches are distributed among these distances:
47 18 0.06
48 35 0.12
49 10 0.03
50 41 0.14
51 76 0.27
52 42 0.15
53 62 0.22
54 2 0.01
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (49 bp):
AAATAATAAATAAAAAATTTAAAATAAATAATATAAAAATGTTTAAAAT
Found at i:20524231 original size:27 final size:24
Alignment explanation
Indices: 20524139--20524231 Score: 64
Period size: 27 Copynumber: 3.6 Consensus size: 24
20524129 CAAAGACAAA
* *
20524139 TTAATTAAAATAATAAATAAAAAAT
1 TTAAATAAAAAAATAAAT-AAAAAT
*
20524164 TTAAA-AAATAAATAATATAAAAATGT
1 TTAAATAAAAAAATAA-ATAAAAA--T
*
20524190 TTAAA-ATAAATAATAAATGAAACAAT
1 TTAAATA-AAAAAATAAAT-AAA-AAT
20524216 TTAAAGTAAAAAAATA
1 TTAAA-TAAAAAAATA
20524232 TAAAAAGTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
24 13 0.24
25 6 0.11
26 15 0.28
27 17 0.31
28 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (24 bp):
TTAAATAAAAAAATAAATAAAAAT
Found at i:20524280 original size:27 final size:26
Alignment explanation
Indices: 20524146--20524566 Score: 260
Period size: 26 Copynumber: 16.6 Consensus size: 26
20524136 AAATTAATTA
*
20524146 AAATAATAAAT-AAAAAATTT-AAA-
1 AAATAATATATAAAAAAATTTAAAAT
**
20524169 AAATAAATAATATAAAAATGTTTAAAAT
1 AAAT-AAT-ATATAAAAAAATTTAAAAT
* * * *
20524197 AAATAATAAATGAAACAATTTAAAGT
1 AAATAATATATAAAAAAATTTAAAAT
* **
20524223 AAA-AAAATATAAAAAGTTTTAAAA-
1 AAATAATATATAAAAAAATTTAAAAT
20524247 AAATAATATATGAAAAAAATTTAAAAT
1 AAATAATATAT-AAAAAAATTTAAAAT
* *** * *
20524274 AAGTAATATATAAAATGGTTCAGAAT
1 AAATAATATATAAAAAAATTTAAAAT
* * * * *
20524300 AGACAATATATACATAAATTTTAACAT
1 AAATAATATATA-AAAAAATTTAAAAT
* * * * *
20524327 AAATAAAATACAAAACAGTTTGAAAT
1 AAATAATATATAAAAAAATTTAAAAT
* * * *
20524353 AAATAGTTTATAAAACAATTTAAAGT
1 AAATAATATATAAAAAAATTTAAAAT
*
20524379 AAATAATATAT-AAACAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
* * *
20524404 -AATCATACA-AAATAAA-TTAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
*
20524427 AAATAATATGATAAAACAATTTAAAAT
1 AAATAATAT-ATAAAAAAATTTAAAAT
* *
20524454 AAATACTACATAAAAAAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
*** *
20524480 AAATAATA-ATAAAACTGTTCAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
* * *
20524505 AAAT-A-ATA-AGAAAGATTTATAAT
1 AAATAATATATAAAAAAATTTAAAAT
** *
20524528 AAATAA-A-ATAAGTAAGTTTAAAAT
1 AAATAATATATAAAAAAATTTAAAAT
*
20524552 AAATAACATATAAAA
1 AAATAATATATAAAA
20524567 GTACCTAAAG
Statistics
Matches: 295, Mismatches: 84, Indels: 35
0.71 0.20 0.08
Matches are distributed among these distances:
23 26 0.09
24 42 0.14
25 55 0.19
26 123 0.42
27 45 0.15
28 4 0.01
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (26 bp):
AAATAATATATAAAAAAATTTAAAAT
Found at i:20524529 original size:101 final size:102
Alignment explanation
Indices: 20524146--20524566 Score: 329
Period size: 101 Copynumber: 4.1 Consensus size: 102
20524136 AAATTAATTA
* * *
20524146 AAATAATAAAT-AAAAAATTT-AAA-AAATAAATAATATAAAAATGTTTAAAATAAATAATAAAT
1 AAATAATATATAAAAAAATTTAAAATAAAT-AAT-ATATAAAAATGTTCAAAATAAATAATACA-
*
20524208 GAAACAATTTAAAGTAAA-AAAATATAAAA-AGTTTTAAAA-
63 GAAACAATTTAAA-TAAATAAAATATAAAACA-ATTTAAAAT
* *
20524247 AAATAATATATGAAAAAAATTTAAAATAAGTAATATAT-AAAATGGTTCAGAATAGACAATATAT
1 AAATAATATAT-AAAAAAATTTAAAATAAATAATATATAAAAAT-GTTCA-AA-ATA-AATA-AT
* * * * *
20524311 ACA-TAA-ATTTTAACATAAATAAAATACAAAACAGTTTGAAAT
60 ACAGAAACAATTTAA-ATAAATAAAATATAAAACAATTTAAAAT
* * * * *
20524353 AAATAGTTTATAAAACAATTTAAAGTAAATAATATATAAACAAT-TT-AAAAT-AATCATACA-A
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAA-AATGTTCAAAATAAATAATACAGA
* * *
20524414 AATAAATTAAAATAAATAATATGATAAAACAATTTAAAAT
65 AA-CAATTTAAATAAATAAAAT-ATAAAACAATTTAAAAT
* * *
20524454 AAATACTACATAAAAAAATTTAAAATAAATAATA-ATAAAACTGTTCAAAATAAATAATA-AGAA
1 AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAAATGTTCAAAATAAATAATACAGAA
* ** *
20524517 A-GATTTATAATAAATAAAATA-AGTA-AGTTTAAAAT
66 ACAATTTA-AATAAATAAAATATAAAACAATTTAAAAT
*
20524552 AAATAACATATAAAA
1 AAATAATATATAAAA
20524567 GTACCTAAAG
Statistics
Matches: 257, Mismatches: 40, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
98 21 0.08
99 11 0.04
100 25 0.10
101 75 0.29
102 15 0.06
103 19 0.07
104 19 0.07
105 49 0.19
106 16 0.06
107 7 0.03
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (102 bp):
AAATAATATATAAAAAAATTTAAAATAAATAATATATAAAAATGTTCAAAATAAATAATACAGAA
ACAATTTAAATAAATAAAATATAAAACAATTTAAAAT
Found at i:20526407 original size:19 final size:19
Alignment explanation
Indices: 20526370--20526428 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
20526360 TGTAATTTTT
*
20526370 TTTAAAAAAATACTT-AAAA
1 TTTAAAAAAA-ATTTAAAAA
20526389 TTTAAAAAAAATTTAAAAA
1 TTTAAAAAAAATTTAAAAA
**
20526408 TCCAAAAAAAAGTTATAAAAA
1 TTTAAAAAAAA-TT-TAAAAA
20526429 ATCTCAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.09
19 23 0.68
20 2 0.06
21 6 0.18
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (19 bp):
TTTAAAAAAAATTTAAAAA
Found at i:20526428 original size:22 final size:20
Alignment explanation
Indices: 20526392--20526437 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
20526382 CTTAAAATTT
20526392 AAAAAAAATTTAAAAATC-C
1 AAAAAAAATTTAAAAATCTC
20526411 AAAAAAAAGTTATAAAAAATCTC
1 AAAAAAAA-TT-T-AAAAATCTC
20526434 AAAA
1 AAAA
20526438 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 1 0.04
22 7 0.30
23 5 0.22
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAAAAATTTAAAAATCTC
Found at i:20533429 original size:22 final size:22
Alignment explanation
Indices: 20533404--20533466 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
20533394 ATTTCATCTT
*
20533404 TTTTTTGTCCATGTAATTTTAA
1 TTTTTTGTCCATATAATTTTAA
* *
20533426 TTTTTGGTCCCTATAATTTTAA
1 TTTTTTGTCCATATAATTTTAA
*
20533448 TTTTTTATTCCA-ATAATTT
1 TTTTTT-GTCCATATAATTT
20533467 CACCTAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 31 0.91
23 3 0.09
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTTTTGTCCATATAATTTTAA
Found at i:20533609 original size:13 final size:13
Alignment explanation
Indices: 20533591--20533631 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
20533581 TTTAAATAAA
20533591 CAGTTAATAGAAT
1 CAGTTAATAGAAT
*
20533604 CAGTTAGTCA-AAT
1 CAGTTAAT-AGAAT
20533617 CAGTTAATAGAAT
1 CAGTTAATAGAAT
20533630 CA
1 CA
20533632 ATTGGTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (13 bp):
CAGTTAATAGAAT
Found at i:20533621 original size:26 final size:26
Alignment explanation
Indices: 20533591--20533641 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
20533581 TTTAAATAAA
*
20533591 CAGTTAATAGAATCAGTTAGTCAAAT
1 CAGTTAATAGAATCAATTAGTCAAAT
*
20533617 CAGTTAATAGAATCAATTGGTCAAA
1 CAGTTAATAGAATCAATTAGTCAAA
20533642 CCATCCACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (26 bp):
CAGTTAATAGAATCAATTAGTCAAAT
Found at i:20539517 original size:31 final size:30
Alignment explanation
Indices: 20539482--20539540 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
20539472 AATTCAATTT
* **
20539482 TGTTTTTTCCTTTTTGTCTGTTTTTATTTTA
1 TGTTTTGT-CTTTTTGTCTACTTTTATTTTA
*
20539513 TGTTTTGTCTTTTTTTCTACTTTTATTT
1 TGTTTTGTCTTTTTGTCTACTTTTATTT
20539541 ACAACGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.07, C:0.10, G:0.08, T:0.75
Consensus pattern (30 bp):
TGTTTTGTCTTTTTGTCTACTTTTATTTTA
Found at i:20543346 original size:48 final size:48
Alignment explanation
Indices: 20543291--20543472 Score: 171
Period size: 48 Copynumber: 3.9 Consensus size: 48
20543281 ATGTGAGTAT
* **
20543291 TGAGATCCCATGTAAGACCATATCTGGGATATGAAATTGGCATCGATA
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* * * * *
20543339 TGAGATCCCGTATAAGACCATGTCTGGGACATGGCATTAGCA-CTGTTA
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC-GATA
* * * *
20543387 TGAGA-CTTCGTGTAAGACCATAGCT-GGAC-T---ATTGGCATCGATG
1 TGAGATC-CCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* *
20543430 TGAGATCCCATGTAAGACTATGTCTGGGACATGGCATTGGCAT
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCAT
20543473 TTTTTCATGT
Statistics
Matches: 105, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
43 26 0.25
44 6 0.06
45 1 0.01
46 1 0.01
47 6 0.06
48 65 0.62
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
Found at i:20543695 original size:101 final size:100
Alignment explanation
Indices: 20543565--20543763 Score: 362
Period size: 101 Copynumber: 2.0 Consensus size: 100
20543555 TGATAATGTA
20543565 TGATTACGTTACGAAGTGATACAGGTATGTACGCAAAACTCACGAGAAATGATTTCGGTTTATGA
1 TGATTACGTTACGAAGTGATACAGGTATGTACGCAAAACTCACGAGAAATGATTTCGGTTTATGA
* *
20543630 TGTACCTTTGTCAAGGATGCAAATAAGTAAGTCACG
66 TGCA-CTTTGGCAAGGATGCAAATAAGTAAGTCACG
*
20543666 TGATTACGTTACGAAGTGATATAGGTATGTACGCAAAACTCACGAGAAATGATTTCGGTTTATGA
1 TGATTACGTTACGAAGTGATACAGGTATGTACGCAAAACTCACGAGAAATGATTTCGGTTTATGA
20543731 TGCACTTTGGCAAGGATGCAAATAAGTAAGTCA
66 TGCACTTTGGCAAGGATGCAAATAAGTAAGTCA
20543764 TGCTTATGAG
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
100 28 0.29
101 67 0.71
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (100 bp):
TGATTACGTTACGAAGTGATACAGGTATGTACGCAAAACTCACGAGAAATGATTTCGGTTTATGA
TGCACTTTGGCAAGGATGCAAATAAGTAAGTCACG
Found at i:20546921 original size:16 final size:16
Alignment explanation
Indices: 20546902--20546937 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
20546892 TAATTTTTTA
*
20546902 TTTTTTAAATTTGAAT
1 TTTTTTAAATTTAAAT
20546918 TTTTTTAAATTTAAAT
1 TTTTTTAAATTTAAAT
20546934 TTTT
1 TTTT
20546938 AACTTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTAAATTTAAAT
Found at i:20548695 original size:15 final size:15
Alignment explanation
Indices: 20548675--20548705 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20548665 CTCTGGAAGA
20548675 CTTAGTCTCTTCTCT
1 CTTAGTCTCTTCTCT
20548690 CTTAGTCTCTTCTCT
1 CTTAGTCTCTTCTCT
20548705 C
1 C
20548706 GAAATAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.35, G:0.06, T:0.52
Consensus pattern (15 bp):
CTTAGTCTCTTCTCT
Found at i:20550998 original size:18 final size:19
Alignment explanation
Indices: 20550975--20551012 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
20550965 CAAAAATATT
*
20550975 AATAT-AAATAATTTAAAA
1 AATATAAAAAAATTTAAAA
20550993 AATATAAAAAAATTTAAAA
1 AATATAAAAAAATTTAAAA
20551012 A
1 A
20551013 TTTAATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATATAAAAAAATTTAAAA
Found at i:20551982 original size:27 final size:25
Alignment explanation
Indices: 20551943--20552019 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 25
20551933 ACAATATTGA
20551943 ATTTTTGAATTTTTATATTTTTAAAAT
1 ATTTTT-AATTTTTATATTTTT-AAAT
*
20551970 CATTTTTAATTTTTTTATTTTTAAAT
1 -ATTTTTAATTTTTATATTTTTAAAT
*
20551996 AGTTTTTATCTTTTTCATATTTTT
1 A-TTTTTA-ATTTTT-ATATTTTT
20552020 TTAAAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
25 1 0.02
26 10 0.23
27 19 0.44
28 13 0.30
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (25 bp):
ATTTTTAATTTTTATATTTTTAAAT
Found at i:20552009 original size:26 final size:28
Alignment explanation
Indices: 20551943--20552019 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
20551933 ACAATATTGA
20551943 ATTTTTGAA-TTTTTATATTTTTAAAATC
1 ATTTTT-AATTTTTTATATTTTTAAAATC
20551971 ATTTTTAATTTTTT-TATTTTT-AAAT-
1 ATTTTTAATTTTTTATATTTTTAAAATC
20551996 AGTTTTT-ATCTTTTTCATATTTTT
1 A-TTTTTAAT-TTTTT-ATATTTTT
20552020 TTAAAATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
25 3 0.07
26 14 0.32
27 9 0.20
28 18 0.41
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (28 bp):
ATTTTTAATTTTTTATATTTTTAAAATC
Found at i:20552019 original size:18 final size:17
Alignment explanation
Indices: 20551971--20552020 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
20551961 TTTTAAAATC
20551971 ATTTTT-AAT-TTTTTT
1 ATTTTTAAATATTTTTT
*
20551986 ATTTTTAAATAGTTTTT
1 ATTTTTAAATATTTTTT
**
20552003 ATCTTTTTCATATTTTTT
1 AT-TTTTAAATATTTTTT
20552021 TAAAATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 6 0.21
16 3 0.11
17 7 0.25
18 12 0.43
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (17 bp):
ATTTTTAAATATTTTTT
Found at i:20552632 original size:25 final size:24
Alignment explanation
Indices: 20552598--20552645 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
20552588 AATAATAAAT
*
20552598 TTAAATATTTCTAAATAATTAATTG
1 TTAAATATTTATAAA-AATTAATTG
* *
20552623 TTAATTATTTATAAAATTTAATT
1 TTAAATATTTATAAAAATTAATT
20552646 AGATATTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTAAATATTTATAAAAATTAATTG
Found at i:20555599 original size:25 final size:25
Alignment explanation
Indices: 20555571--20555618 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
20555561 AACACCCTAG
* *
20555571 TTTTTTTTTTTTTTTCATTTGTTGC
1 TTTTTTTTATTCTTTCATTTGTTGC
20555596 TTTTTTTTATTCTTTCATTTGTT
1 TTTTTTTTATTCTTTCATTTGTT
20555619 TGTACTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.06, C:0.08, G:0.06, T:0.79
Consensus pattern (25 bp):
TTTTTTTTATTCTTTCATTTGTTGC
Found at i:20555649 original size:20 final size:20
Alignment explanation
Indices: 20555624--20555662 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20555614 TTGTTTGTAC
*
20555624 TTTTTCGTTTTTTTA-TTTTG
1 TTTTTC-TTTATTTACTTTTG
20555644 TTTTTCTTTATTTACTTTT
1 TTTTTCTTTATTTACTTTT
20555663 TTAGCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTCTTTATTTACTTTTG
Found at i:20555690 original size:20 final size:19
Alignment explanation
Indices: 20555650--20555695 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
20555640 TTTGTTTTTC
20555650 TTTATTTACTTTTTTAGCTT
1 TTTATTTACTTTTTTAGC-T
20555670 TTTATTTA-TTTATTT-GTCT
1 TTTATTTACTTT-TTTAG-CT
20555689 TTTATTT
1 TTTATTT
20555696 GTTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTATTTACTTTTTTAGCT
Found at i:20555690 original size:29 final size:28
Alignment explanation
Indices: 20555650--20555712 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
20555640 TTTGTTTTTC
20555650 TTTATTTACTTTT-TTAGCTTTTTATTTA
1 TTTATTTACTTTTATTAG-TTTTTATTTA
* * *
20555678 TTTATTTGTCTTTTATTTGTTTTTATTTG
1 TTTATTT-ACTTTTATTAGTTTTTATTTA
20555707 TTTATT
1 TTTATT
20555713 CTTTTTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
29 20 0.67
30 3 0.10
ACGTcount: A:0.14, C:0.05, G:0.06, T:0.75
Consensus pattern (28 bp):
TTTATTTACTTTTATTAGTTTTTATTTA
Found at i:20555703 original size:10 final size:10
Alignment explanation
Indices: 20555678--20555709 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
20555668 TTTTTATTTA
20555678 TTTATTTGTCT
1 TTTATTTGT-T
20555689 TTTATTTGTT
1 TTTATTTGTT
20555699 TTTATTTGTT
1 TTTATTTGTT
20555709 T
1 T
20555710 ATTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.78
Consensus pattern (10 bp):
TTTATTTGTT
Found at i:20556720 original size:21 final size:21
Alignment explanation
Indices: 20556680--20556720 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20556670 AATTGATACT
*
20556680 AAAATAGTTAATTTTCAAATC
1 AAAATAGTTAATTTTAAAATC
20556701 AAAAGTAGTTAA-TTTAAAAT
1 AAAA-TAGTTAATTTTAAAAT
20556721 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAATAGTTAATTTTAAAATC
Found at i:20559526 original size:32 final size:34
Alignment explanation
Indices: 20559490--20559554 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
20559480 TAACAGTGGT
*
20559490 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
20559522 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
20559555 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:20561435 original size:26 final size:26
Alignment explanation
Indices: 20561399--20561506 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
20561389 TAAAATTCCC
*
20561399 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
* *
20561425 ATCATGGAACATTTACCTAGCCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
20561451 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
20561477 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20561503 ATCA
1 ATCA
20561507 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20563118 original size:7 final size:7
Alignment explanation
Indices: 20563108--20563134 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
20563098 TTAAAAACTC
20563108 AAAATTT
1 AAAATTT
20563115 AAAATTT
1 AAAATTT
20563122 AAAATTT
1 AAAATTT
20563129 AAAATT
1 AAAATT
20563135 AGTTAGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:20578734 original size:11 final size:11
Alignment explanation
Indices: 20578720--20578744 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20578710 TTTTTTTCCC
20578720 TTTTTCATTTT
1 TTTTTCATTTT
20578731 TTTTTCATTTT
1 TTTTTCATTTT
20578742 TTT
1 TTT
20578745 CTTTCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCATTTT
Found at i:20581342 original size:26 final size:26
Alignment explanation
Indices: 20581313--20581365 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
20581303 GGTCAGGACT
20581313 AAATTTTGTTTAATTATGAGGAGAAA
1 AAATTTTGTTTAATTATGAGGAGAAA
20581339 AAATTTTGTTTAATTATGAGGAGAAA
1 AAATTTTGTTTAATTATGAGGAGAAA
20581365 A
1 A
20581366 GAAGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (26 bp):
AAATTTTGTTTAATTATGAGGAGAAA
Found at i:20584236 original size:13 final size:14
Alignment explanation
Indices: 20584205--20584242 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
20584195 TTTATTTTTG
*
20584205 TTTTTATTTT-TAA
1 TTTTTGTTTTCTAA
20584218 TTTTTGTTTTCTAA
1 TTTTTGTTTTCTAA
20584232 -TTTTGTTTTCT
1 TTTTTGTTTTCT
20584243 TTTGTTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTTTGTTTTCTAA
Found at i:20584240 original size:19 final size:18
Alignment explanation
Indices: 20584193--20584240 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
20584183 CTTTTATTGC
20584193 ATTTTATTTTTGTTTTTA
1 ATTTTATTTTTGTTTTTA
*
20584211 TTTTTAATTTTTGTTTTCTA
1 ATTTT-ATTTTTGTTTT-TA
*
20584231 ATTTTGTTTT
1 ATTTTATTTT
20584241 CTTTTGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 6 0.24
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (18 bp):
ATTTTATTTTTGTTTTTA
Found at i:20588816 original size:40 final size:40
Alignment explanation
Indices: 20588732--20588956 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
20588722 TTGAATGATG
* * * *
20588732 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20588772 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20588812 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20588851 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20588891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20588932 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20588957 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20588978 original size:119 final size:119
Alignment explanation
Indices: 20588732--20588989 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
20588722 TTGAATGATG
* *
20588732 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
20588797 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
20588851 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
20588914 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
20588971 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20588990 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:20594078 original size:17 final size:19
Alignment explanation
Indices: 20594038--20594079 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
20594028 GCATATGCAT
20594038 ATGT-AAAGAGTTGTGACCA
1 ATGTCAAAGAGTTGTGA-CA
20594057 ATGTCAAAGAGTTG-GA-A
1 ATGTCAAAGAGTTGTGACA
20594074 ATGTCA
1 ATGTCA
20594080 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (19 bp):
ATGTCAAAGAGTTGTGACA
Found at i:20599339 original size:22 final size:24
Alignment explanation
Indices: 20599305--20599348 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
20599295 CGTCATAATA
*
20599305 TCATCTATTTCAT-ATCACAAAAT
1 TCATCTATATCATCATCACAAAAT
*
20599328 TCAT-TATATCATCATCTCAAA
1 TCATCTATATCATCATCACAAA
20599349 CCAAACCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (24 bp):
TCATCTATATCATCATCACAAAAT
Found at i:20600025 original size:48 final size:47
Alignment explanation
Indices: 20599922--20600050 Score: 159
Period size: 48 Copynumber: 2.7 Consensus size: 47
20599912 AACCAATAAG
* * ** *
20599922 TACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGGAG
1 TACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACAAAA
* * * *
20599969 TACCTATACTATAGCCCGTAGCCAAAATCAAGGTAACTCCTCACAAAA
1 TACTTATACCATGGCCCGTAGCC-AAATCAAGGTAACTCATCACAAAA
*
20600017 TACTTATACCATGGCGCGTAGCCAAATCAAGGTA
1 TACTTATACCATGGCCCGTAGCCAAATCAAGGTA
20600051 TTTACTTGCA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 31 0.46
48 37 0.54
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (47 bp):
TACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACAAAA
Found at i:20600636 original size:28 final size:28
Alignment explanation
Indices: 20600605--20600659 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
20600595 ATTTCACATA
*
20600605 TTAACCCCTCATTT-ATATTTTTCTCAAT
1 TTAACCCCT-ATTTGACATTTTTCTCAAT
* *
20600633 TTAATCCCTATTTGACATTTTTGTCAA
1 TTAACCCCTATTTGACATTTTTCTCAA
20600660 AAATCACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.25, C:0.22, G:0.04, T:0.49
Consensus pattern (28 bp):
TTAACCCCTATTTGACATTTTTCTCAAT
Found at i:20601212 original size:13 final size:13
Alignment explanation
Indices: 20601194--20601218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20601184 ACAAATGATA
20601194 AAATTTTCACACC
1 AAATTTTCACACC
20601207 AAATTTTCACAC
1 AAATTTTCACAC
20601219 ATATCACACA
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:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACC
Found at i:20608610 original size:21 final size:21
Alignment explanation
Indices: 20608572--20608611 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20608562 AGCAAGCCGT
*
20608572 TTTAGGATTTTAATTTAGTAG
1 TTTAGGATTTTAACTTAGTAG
*
20608593 TTTAGGATTTTAGCTTAGT
1 TTTAGGATTTTAACTTAGT
20608612 TTTATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.53
Consensus pattern (21 bp):
TTTAGGATTTTAACTTAGTAG
Found at i:20617825 original size:48 final size:48
Alignment explanation
Indices: 20617725--20617965 Score: 163
Period size: 48 Copynumber: 5.0 Consensus size: 48
20617715 CATTTGGGGA
* * * * * *
20617725 ATATGTGTGCCAATGTAAGATCATGTATGGGACATGGCATCGGCCA--C
1 ATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACATTC
*
20617772 GATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTC
1 -ATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTC
* ** * *
20617821 ATATGTGCA-CTAGTGTAAGACCATGTCT-GAGACATGGCATTAACGTTG
1 ATATGTG-AGCCAGTGTAAGACCATGTCTAG-GACATGGCATCGACATTC
* * * * * * * * *
20617869 AGACGAGAGCTAGTGTAAGAACATGTCTAGG-CTTGGCCTCGGC-CTC
1 ATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTC
* *
20617915 GATATGTGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATTGACAATTC
1 -ATATGTGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGAC-ATTC
20617965 A
1 A
20617966 CCCCATTGTG
Statistics
Matches: 149, Mismatches: 33, Indels: 21
0.73 0.16 0.10
Matches are distributed among these distances:
46 4 0.03
47 33 0.22
48 107 0.72
49 3 0.02
50 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
ATATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTC
Found at i:20617953 original size:95 final size:96
Alignment explanation
Indices: 20617784--20617956 Score: 228
Period size: 95 Copynumber: 1.8 Consensus size: 96
20617774 TATGTGTGCC
* * *
20617784 AGTGTAAGACCATGTCTAGGACATGGCATCGACATTCATATGTGCACTAGTGTAAGACCATGTCT
1 AGTGTAAGAACATGTCTAGGACATGGCATCGACACTCATATGTGCACCAGTGTAAGACCATGTCT
20617849 GAGACATGGCATTAACGTTGAGACGAGAGCT
66 GAGACATGGCATTAACGTTGAGACGAGAGCT
* * *
20617880 AGTGTAAGAACATGTCTAGG-CTTGGCCTCGGC-CTCGATATGTG-AGCCAGTGTAAGACCATGT
1 AGTGTAAGAACATGTCTAGGACATGGCATCGACACTC-ATATGTGCA-CCAGTGTAAGACCATGT
*
20617942 TTG-GAACATGGCATT
64 CTGAG-ACATGGCATT
20617957 GACAATTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
94 4 0.06
95 44 0.66
96 19 0.28
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (96 bp):
AGTGTAAGAACATGTCTAGGACATGGCATCGACACTCATATGTGCACCAGTGTAAGACCATGTCT
GAGACATGGCATTAACGTTGAGACGAGAGCT
Found at i:20625005 original size:48 final size:48
Alignment explanation
Indices: 20624934--20625265 Score: 362
Period size: 48 Copynumber: 6.9 Consensus size: 48
20624924 ACATTTGGAG
* *
20624934 GATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCC
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * *
20624982 GATATGTGTGCTAGTGTAAGACCATTTCTGGGACATGACATTGGCCAC
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * *
20625030 GATATGAGAGCCAGTGTAAGACCATGTCTGGTACATGGCATCAGCATT
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
20625078 GATATGTGCA-CTAGTGTAATACCATGTCTGGAACATGGCATCGGCCAC
1 GATATGTG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * *
20625126 -ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTT
1 GA-TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * *
20625174 GAGATGAGAGCTAGTGTAAGAACATGTCTGGGACTTGGCATAGGCCTC
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
20625222 GACATGTGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGG
1 GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
20625266 TAATTCACTC
Statistics
Matches: 233, Mismatches: 47, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 229 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:20627273 original size:43 final size:42
Alignment explanation
Indices: 20627223--20627362 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 42
20627213 TATCCCGGAT
*
20627223 ATGGTCTTACATGTTAACATATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTTAACATAT-TCGATGCCAATGTCCCAGAC
* * * * *
20627266 AGGGTCTTATACG--AATCATATGCGATGCCAATGTCCCAGAG
1 ATGGTCTTACATGTTAA-CATATTCGATGCCAATGTCCCAGAC
* * *
20627307 ATGGTCTTACATGTTTTATCA-CTTCGATGCCAATGCCCCAGAC
1 ATGGTCTTACATG--TTAACATATTCGATGCCAATGTCCCAGAC
20627350 ATGGTCTTACATG
1 ATGGTCTTACATG
20627363 AAATCACATC
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
41 29 0.37
42 5 0.06
43 41 0.53
44 2 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACATGTTAACATATTCGATGCCAATGTCCCAGAC
Found at i:20628875 original size:85 final size:87
Alignment explanation
Indices: 20628771--20628935 Score: 244
Period size: 87 Copynumber: 1.9 Consensus size: 87
20628761 CGTTGCTTGA
* * * *
20628771 GAAATCGGAGCCACCTATT-AAATTA-TTTTTTCTCTCCTTAAATATCCATATTTTTTACGACTA
1 GAAATCGGAGACACCTATTAAAATAATTTTTTTCTCTCCTTAAATATCCATATCTCTTACGACTA
*
20628834 TTTTAAAAAATACATGCGAGAT
66 TTTAAAAAAATACATGCGAGAT
* * *
20628856 GAAATCGGTGACACTTATTAAAATAATTTTTTTCTCTCCTTAAATATTCATATCTCTTACGACTA
1 GAAATCGGAGACACCTATTAAAATAATTTTTTTCTCTCCTTAAATATCCATATCTCTTACGACTA
20628921 TTTAAAAAAATACAT
66 TTTAAAAAAATACAT
20628936 ATTGTCGCAG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
85 16 0.23
86 5 0.07
87 49 0.70
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (87 bp):
GAAATCGGAGACACCTATTAAAATAATTTTTTTCTCTCCTTAAATATCCATATCTCTTACGACTA
TTTAAAAAAATACATGCGAGAT
Found at i:20635310 original size:59 final size:59
Alignment explanation
Indices: 20635211--20635396 Score: 275
Period size: 59 Copynumber: 3.2 Consensus size: 59
20635201 TCATAAACCA
* * *
20635211 ATGAAAAGGGATAGCTTCGACTATCGATTATGGAATGGGATGGTGACAACCATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * * *
20635270 ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGATGGCCATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * *
20635329 ATGTAAAGGGATAACTTCGACTATCGATTATGAAAAGAGATGGTGACGACCATC-AATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
20635387 ATGAAAAGGG
1 ATGAAAAGGG
20635397 GTGGTGACGA
Statistics
Matches: 112, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
58 13 0.12
59 99 0.88
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.25
Consensus pattern (59 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
Found at i:20635418 original size:59 final size:58
Alignment explanation
Indices: 20635355--20635527 Score: 150
Period size: 59 Copynumber: 2.9 Consensus size: 58
20635345 TCGACTATCG
* * * *
20635355 ATTATGAAAAGAGATGGTGACGACCATCAATTATGAAAAGGGGTGGTGACGACCACCGA
1 ATTATGAAAAGAAAAGCT-ACGACCATCAATTATGAAAAGGGATGGTGACGACCACCGA
* * * * * *
20635414 ATTATGAAAAGGAAAAGCTTCGACTATCGATTATGAAAATGGATGGTGACGACCATCGG
1 ATTATGAAAA-GAAAAGCTACGACCATCAATTATGAAAAGGGATGGTGACGACCACCGA
* * * * * * *
20635473 ATTATGAAAAGGGATAGCTTCGGCTATCGATTA-GAAAAAGGGATAGTGACGACCA
1 ATTATGAAAA-GAAAAGCTACGACCATCAATTATG-AAAAGGGATGGTGACGACCA
20635528 TCAACTATAA
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
58 1 0.01
59 91 0.94
60 5 0.05
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (58 bp):
ATTATGAAAAGAAAAGCTACGACCATCAATTATGAAAAGGGATGGTGACGACCACCGA
Found at i:20635478 original size:147 final size:147
Alignment explanation
Indices: 20635228--20635555 Score: 442
Period size: 147 Copynumber: 2.2 Consensus size: 147
20635218 GGGATAGCTT
* * * * * * * * * *
20635228 CGACTATCGATTATGGAATGGGATGGTGACAACCATCGAATTATGAAAAGGGATAGCTTTGGCTA
1 CGACCATCAATTATGAAAAGGGATGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTA
* * *
20635293 TCGATTATGAAAAGGGATGGTGATGGCCATCGAATTATGTAAAGGGATAACTTCGACTATCGATT
66 TCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATAACTTCGACTATCGATT
*
20635358 ATG-AAAAGAGATGGTGA
131 A-GAAAAAGAGATAGTGA
*
20635375 CGACCATCAATTATGAAAAGGGGTGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTA
1 CGACCATCAATTATGAAAAGGGATGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTA
* * * *
20635440 TCGATTATGAAAATGGATGGTGACGACCATCGGATTATGAAAAGGGATAGCTTCGGCTATCGATT
66 TCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATAACTTCGACTATCGATT
*
20635505 AGAAAAAGGGATAGTGA
131 AGAAAAAGAGATAGTGA
* *
20635522 CGACCATCAACTATAAAAAGGGATGGTGACGACC
1 CGACCATCAATTATGAAAAGGGATGGTGACGACC
20635556 TTGTGTCCCT
Statistics
Matches: 157, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
146 1 0.01
147 156 0.99
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (147 bp):
CGACCATCAATTATGAAAAGGGATGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTA
TCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATAACTTCGACTATCGATT
AGAAAAAGAGATAGTGA
Found at i:20635513 original size:88 final size:88
Alignment explanation
Indices: 20635296--20635487 Score: 262
Period size: 88 Copynumber: 2.2 Consensus size: 88
20635286 TTGGCTATCG
* * * * * *
20635296 ATTATGAAAAGGGATGGTGATGGCCATCGAATTATGTAAAGGGATAA-CTTCGACTATCGATTAT
1 ATTATGAAAAGGGATGCTGACGACCACCGAATTATG-AAAAGGAAAAGCTTCGACTATCGATTAT
20635360 GAAAAGAGATGGTGACGACCATCA
65 GAAAAGAGATGGTGACGACCATCA
* *
20635384 ATTATGAAAAGGGGTGGTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTATCGATTATG
1 ATTATGAAAAGGGATGCTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTATCGATTATG
*
20635449 AAAATG-GATGGTGACGACCATCGG
66 AAAA-GAGATGGTGACGACCATC-A
20635473 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
20635488 AGCTTCGGCT
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
87 8 0.09
88 70 0.75
89 15 0.16
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.23
Consensus pattern (88 bp):
ATTATGAAAAGGGATGCTGACGACCACCGAATTATGAAAAGGAAAAGCTTCGACTATCGATTATG
AAAAGAGATGGTGACGACCATCA
Found at i:20635528 original size:59 final size:59
Alignment explanation
Indices: 20635375--20635542 Score: 205
Period size: 59 Copynumber: 2.9 Consensus size: 59
20635365 GAGATGGTGA
* * * *
20635375 CGACCATCAATTATGAAAAGGGGTGGTGACGACCACCGAATTATGAAAAGGAAAAGCTT
1 CGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGAAAAGCTT
* * * *
20635434 CGACTATCGATTATGAAAATGGATGGTGACGACCATCGGATTATGAAAAGGGATAGCTT
1 CGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGAAAAGCTT
* * * *
20635493 CGGCTATCGATTA-GAAAAAGGGATAGTGACGACCATC-AACTATAAAAAGG
1 CGACTATCGATTATG-AAAAGGGATGGTGACGACCATCGAATTATGAAAAGG
20635543 GATGGTGACG
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
58 11 0.12
59 83 0.88
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (59 bp):
CGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGAAAAGCTT
Found at i:20635555 original size:29 final size:29
Alignment explanation
Indices: 20635211--20635555 Score: 198
Period size: 29 Copynumber: 11.8 Consensus size: 29
20635201 TCATAAACCA
* * * *
20635211 ATGAAAAGGGATAGCT-TCGACTATCGATT
1 ATGAAAAGGGAT-GGTGACGACCATCAATT
* * *
20635240 ATGGAATGGGATGGTGACAACCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATC-AATT
* ** * * *
20635270 ATGAAAAGGGATAGCT-TTGGCTATCGATT
1 ATGAAAAGGGAT-GGTGACGACCATCAATT
* *
20635299 ATGAAAAGGGATGGTGATGGCCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATC-AATT
* ** * * *
20635329 ATGTAAAGGGATAACT-TCGACTATCGATT
1 ATGAAAAGGGAT-GGTGACGACCATCAATT
*
20635358 ATGAAAAGAGATGGTGACGACCATCAATT
1 ATGAAAAGGGATGGTGACGACCATCAATT
* *
20635387 ATGAAAAGGGGTGGTGACGACCACCGAATT
1 ATGAAAAGGGATGGTGACGACCATC-AATT
* * * * * *
20635417 ATGAAAAGGAAAAGCT-TCGACTATCGATT
1 ATGAAAAGG-GATGGTGACGACCATCAATT
* *
20635446 ATGAAAATGGATGGTGACGACCATCGGATT
1 ATGAAAAGGGATGGTGACGACCATC-AATT
* * * * *
20635476 ATGAAAAGGGATAGCT-TCGGCTATCGATT
1 ATGAAAAGGGAT-GGTGACGACCATCAATT
* *
20635505 A-GAAAAAGGGATAGTGACGACCATCAACT
1 ATG-AAAAGGGATGGTGACGACCATCAATT
*
20635534 ATAAAAAGGGATGGTGACGACC
1 ATGAAAAGGGATGGTGACGACC
20635556 TTGTGTCCCT
Statistics
Matches: 235, Mismatches: 66, Indels: 30
0.71 0.20 0.09
Matches are distributed among these distances:
28 10 0.04
29 142 0.60
30 76 0.32
31 7 0.03
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAATT
Found at i:20641082 original size:29 final size:29
Alignment explanation
Indices: 20641050--20641313 Score: 169
Period size: 29 Copynumber: 9.0 Consensus size: 29
20641040 TTTGACTATA
20641050 AATTATGAAAAGGGATGGTGACGACCATC
1 AATTATGAAAAGGGATGGTGACGACCATC
* *
20641079 AATTATGAAAAGGGAT-GAGACGACCATTG
1 AATTATGAAAAGGGATGGTGACGACCA-TC
* ** * *
20641108 AATTATGAAAAGGGATAGCT-TTGGCTATC
1 AATTATGAAAAGGGAT-GGTGACGACCATC
* * *
20641137 GATTATGAAAAGGGATGGTGAAGACCATAA
1 AATTATGAAAAGGGATGGTGACGACCAT-C
* * * *** *
20641167 AATTATGGAAAGGGAAAGCTTTTG-CTATC
1 AATTATGAAAAGGG-ATGGTGACGACCATC
* *
20641196 GATTATGAAAAGGGATGGTGATGACCATC
1 AATTATGAAAAGGGATGGTGACGACCATC
* * * * *
20641225 GAATTATGAAAAGGAATAGCT-TCGGCTATC
1 -AATTATGAAAAGGGAT-GGTGACGACCATC
* * *
20641255 GATTATAAAAAGGGATGGTGACGACCATT
1 AATTATGAAAAGGGATGGTGACGACCATC
* *
20641284 AACTATGAAATA-GGATTGTGACGACCATC
1 AATTATGAAA-AGGGATGGTGACGACCATC
20641313 A
1 A
20641314 TGATTCCACT
Statistics
Matches: 172, Mismatches: 52, Indels: 22
0.70 0.21 0.09
Matches are distributed among these distances:
28 18 0.10
29 110 0.64
30 38 0.22
31 6 0.03
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (29 bp):
AATTATGAAAAGGGATGGTGACGACCATC
Done.