Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 382 of 425
Found at i:117454100 original size:16 final size:17
Alignment explanation
Indices: 117454065--117454108 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
117454055 TAAAACAATC
*
117454065 AAAAACCCTAACCTTAA
1 AAAAACCCTAACCCTAA
*
117454082 AAAAACTCTAACCCT-A
1 AAAAACCCTAACCCTAA
117454098 AAAAACCCTAA
1 AAAAACCCTAA
117454109 ATCCTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAACCCTAACCCTAA
Found at i:117454257 original size:17 final size:16
Alignment explanation
Indices: 117454236--117454270 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
117454226 CCTAAAACAA
117454236 TAAAAAACC-TAACACC
1 TAAAAAACCATAAC-CC
117454252 TAAAAAACCATAACCC
1 TAAAAAACCATAACCC
117454268 TAA
1 TAA
117454271 TTTAATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (16 bp):
TAAAAAACCATAACCC
Found at i:117454301 original size:156 final size:152
Alignment explanation
Indices: 117454081--117454720 Score: 864
Period size: 154 Copynumber: 4.1 Consensus size: 152
117454071 CCTAACCTTA
* * **
117454081 AAAAAACTCTAACCCTAAAAAACCCTAAATCCTAATTTAATT-AAATTTTTTAATTTCATAGTTA
1 AAAAAAC-CTAACCCTAAAAAACCATAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTA
*
117454145 ATTTAATTAATTAACCCTCAACTCTAATTAAATT-ATTTTTCCATTAAAAACACTAAAACCCTAA
65 A--T--TTAA-TAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAA
*
117454209 ACCACTAAAATCCTAATCCTAAAACAAT
125 ACCACTAAAACCCTAATCCTAAAACAAT
117454237 AAAAAACCTAACACCTAAAAAACCAT-AACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTA
1 AAAAAACCTAAC-CCTAAAAAACCATAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTA
**
117454301 ATTTAATAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAATGCTAAAACCCTAAACCAC
65 ATTTAATAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCAC
*
117454366 TAAAACCCTAATCCTAAAAGAAT
130 TAAAACCCTAATCCTAAAACAAT
* *
117454389 AAAAAACCTTAACCTTAAAAAATCATAAACCCTAATTTAATTGATTTTTTTTTAATTTCATAGTT
1 AAAAAACC-TAACCCTAAAAAACCATAAACCCTAATTTAATTGA-TTTTTTTTAATTTCATAGTT
* * *
117454454 AATTTAATAACCCTTAACTCTAATTAAATTAAATTTTCCCTTAAAAACACTAAAACCTTAAACCA
64 AATTTAATAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCA
117454519 CTAAAACCCTAATCCTAAAACAAT
129 CTAAAACCCTAATCCTAAAACAAT
* *
117454543 AAAAAACCTTAACTCT-AAAAA-CACTAAACCTTAATTTAATTGA-TTTTTTTAATTTCATAGTT
1 AAAAAACC-TAACCCTAAAAAACCA-TAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTT
*
117454605 AATTTAATTAATTAACCCTTAACTCTAATTAAATTAATTTTT-CCTTAAAAAACACTAAAACCCT
64 AA--T--TTAA-TAACCCTCAACTCTAATTAAATTAATTTTTCCCTT-AAAAACACTAAAACCCT
* * *
117454669 AAACC-TTAAAACCCTAACCCTAAAATAATT
123 AAACCACTAAAACCCTAATCCTAAAACAA-T
* *
117454699 AAAAACCCTAACCTTAAAAAAC
1 AAAAAACCTAACCCTAAAAAAC
117454721 GGGGCAAAAC
Statistics
Matches: 440, Mismatches: 28, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
151 44 0.10
152 78 0.18
153 45 0.10
154 118 0.27
155 52 0.12
156 103 0.23
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.33
Consensus pattern (152 bp):
AAAAAACCTAACCCTAAAAAACCATAAACCCTAATTTAATTGATTTTTTTTAATTTCATAGTTAA
TTTAATAACCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAACACTAAAACCCTAAACCACT
AAAACCCTAATCCTAAAACAAT
Found at i:117454394 original size:24 final size:24
Alignment explanation
Indices: 117454367--117454424 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
117454357 CTAAACCACT
117454367 AAAACCCTAATCC-TAAAAGAATAA
1 AAAACCCTAATCCTTAAAA-AATAA
* *
117454391 AAAACCTTAA-CCTTAAAAAATCA
1 AAAACCCTAATCCTTAAAAAATAA
*
117454414 TAAACCCTAAT
1 AAAACCCTAAT
117454425 TTAATTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.55, C:0.22, G:0.02, T:0.21
Consensus pattern (24 bp):
AAAACCCTAATCCTTAAAAAATAA
Found at i:117454692 original size:14 final size:15
Alignment explanation
Indices: 117454654--117454693 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
117454644 TTTCCTTAAA
*
117454654 AAACACTAAAACCCT
1 AAACCCTAAAACCCT
*
117454669 AAACCTTAAAACCCT
1 AAACCCTAAAACCCT
117454684 -AACCCTAAAA
1 AAACCCTAAAA
117454694 TAATTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCCTAAAACCCT
Found at i:117454718 original size:15 final size:14
Alignment explanation
Indices: 117454660--117454717 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
117454650 TAAAAAACAC
117454660 TAAAACCCTAAACCT
1 TAAAACCCT-AACCT
*
117454675 TAAAACCCTAACCC
1 TAAAACCCTAACCT
117454689 TAAAA---TAA--T
1 TAAAACCCTAACCT
117454698 TAAAAACCCTAACCT
1 T-AAAACCCTAACCT
117454713 TAAAA
1 TAAAA
117454718 AACGGGGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
9 1 0.03
10 4 0.11
11 3 0.09
13 3 0.09
14 13 0.37
15 11 0.31
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAACCCTAACCT
Found at i:117454988 original size:22 final size:22
Alignment explanation
Indices: 117454962--117455017 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
117454952 ATATTTAAAT
*
117454962 AATAACAATAAAATAGTAGCAA
1 AATAACAACAAAATAGTAGCAA
* * * *
117454984 TATAATAGCAAAATGGTAGCAA
1 AATAACAACAAAATAGTAGCAA
117455006 AATAACAACAAA
1 AATAACAACAAA
117455018 CATCAACATA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAGTAGCAA
Found at i:117455567 original size:9 final size:9
Alignment explanation
Indices: 117455537--117455616 Score: 69
Period size: 8 Copynumber: 8.7 Consensus size: 9
117455527 AAGCCCTTTT
117455537 AAAATT-TA
1 AAAATTATA
117455545 AAAATTATTAA
1 AAAATTA-T-A
117455556 AAAATTATA
1 AAAATTATA
117455565 AAAATTATAAA
1 AAAATTAT--A
117455576 CAAAATT-TAA
1 -AAAATTAT-A
*
117455586 AAAACTAT-
1 AAAATTATA
117455594 AAAATTAT-
1 AAAATTATA
117455602 AAAATTATA
1 AAAATTATA
117455611 AAAATT
1 AAAATT
117455617 TTATTAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
8 21 0.34
9 20 0.32
10 5 0.08
11 10 0.16
12 6 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:117455582 original size:40 final size:37
Alignment explanation
Indices: 117455537--117455612 Score: 107
Period size: 40 Copynumber: 2.0 Consensus size: 37
117455527 AAGCCCTTTT
*
117455537 AAAATTTAAAAATTATTAAAAAATTATAAAAATTATAAAC
1 AAAATTTAAAAA--ACTAAAAAATTAT-AAAATTATAAAC
*
117455577 AAAATTTAAAAAACTATAAAATTATAAAATTATAAA
1 AAAATTTAAAAAACTAAAAAATTATAAAATTATAAA
117455613 AATTTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 11 0.32
38 11 0.32
40 12 0.35
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (37 bp):
AAAATTTAAAAAACTAAAAAATTATAAAATTATAAAC
Found at i:117458798 original size:30 final size:30
Alignment explanation
Indices: 117458764--117458823 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
117458754 ACTTAACAAG
*
117458764 TAAATGCCTCTAAAATAATAACAAAATTAA
1 TAAATGCATCTAAAATAATAACAAAATTAA
117458794 TAAATGCATCTAAAATAATAACAAAATTAA
1 TAAATGCATCTAAAATAATAACAAAATTAA
117458824 CAATAAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
TAAATGCATCTAAAATAATAACAAAATTAA
Found at i:117463492 original size:51 final size:51
Alignment explanation
Indices: 117463432--117463534 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
117463422 TCTCATATTC
117463432 CTCCATAAATCATCAAAACACAAACATCTCATGCATGGGTAAATTCTTTAA
1 CTCCATAAATCATCAAAACACAAACATCTCATGCATGGGTAAATTCTTTAA
*
117463483 CTCCATAAATCATCAAAACACAAACATCTCATGCATGGGTAAATTTTTTAA
1 CTCCATAAATCATCAAAACACAAACATCTCATGCATGGGTAAATTCTTTAA
117463534 C
1 C
117463535 ATGAACCCTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (51 bp):
CTCCATAAATCATCAAAACACAAACATCTCATGCATGGGTAAATTCTTTAA
Found at i:117465537 original size:26 final size:26
Alignment explanation
Indices: 117465508--117465560 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
117465498 TTTAAACACA
117465508 TAGAATATTATAAATCAACACAACAT
1 TAGAATATTATAAATCAACACAACAT
117465534 TAGAATATTATAAATCAACACAACAT
1 TAGAATATTATAAATCAACACAACAT
117465560 T
1 T
117465561 CTTGAGTGAA
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:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (26 bp):
TAGAATATTATAAATCAACACAACAT
Found at i:117465923 original size:48 final size:48
Alignment explanation
Indices: 117465850--117466224 Score: 184
Period size: 48 Copynumber: 7.8 Consensus size: 48
117465840 GTAAATTGCT
* *
117465850 GATGCCATGTCCCAGACATGGTCTTACACT-GTCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACATCTCAAGGCC
* * * *
117465898 GATGCCATGTCCCAGACATGATCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGGCC
* ** * * ** ****
117465946 GATGACATGTCCCAGACATGGTCTTACTTTGGCTCTCATAACATTTTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGGCC
* * * * * * **
117465994 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-CTCAAGGCC
* * ** ** *** *
117466042 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTTATAACATTACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGGCC
* * * * * * **
117466090 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-CTCAAGGCC
* * * * * ** *
117466138 GATGCAATGTCCCAGACATGGCCTTACACTGGCTCTCATAAT-GTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-CTCAAGGCC
* * *
117466186 AATGTCATGTCCCAG-CTATGGTCTTACACTAGCACACAT
1 GATGCCATGTCCCAGAC-ATGGTCTTACACTAGCTCACAT
117466225 ATCACCCAAA
Statistics
Matches: 263, Mismatches: 59, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
47 2 0.01
48 258 0.98
49 3 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGGCC
Found at i:117466019 original size:96 final size:93
Alignment explanation
Indices: 117465850--117466178 Score: 365
Period size: 96 Copynumber: 3.4 Consensus size: 93
117465840 GTAAATTGCT
* * * ** *** * *
117465850 GATGCCATGTCCCAGACATGGTCTTACACTGTCTCACATGTCGAGGCCGATGCCATGTCCCAGAC
1 GATG-CATGTCCCAGACATGGTCTTACTCTGGCTCTCATAAC-ATTACGATGCCATGTTCCAAAC
* * * *
117465915 ATGATCTTACACTAGCTCTCGTCTCAA-T-GCC
64 ATGGTCTTACATTGGCTCTC--AT-AAGTGGCC
* *
117465946 GATGACATGTCCCAGACATGGTCTTACTTTGGCTCTCATAACATTTTCGATGCCATGTTCCAAAC
1 GATG-CATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACA-TTACGATGCCATGTTCCAAAC
117466011 ATGGTCTTACATTGGCTCTCATAATGTGGCC
64 ATGGTCTTACATTGGCTCTCATAA-GTGGCC
*
117466042 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTTATAACATTACTGATGCCATGTTCCAAAC
1 GATG-CATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACATTAC-GATGCCATGTTCCAAAC
117466107 ATGGTCTTACATTGGCTCTCATAATGTGGCC
64 ATGGTCTTACATTGGCTCTCATAA-GTGGCC
* *
117466138 GATGCAATGTCCCAGACATGGCCTTACACTGGCTCTCATAA
1 GATGC-ATGTCCCAGACATGGTCTTACTCTGGCTCTCATAA
117466179 TGTGGTCAAT
Statistics
Matches: 204, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
93 2 0.01
94 1 0.00
95 6 0.03
96 195 0.96
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (93 bp):
GATGCATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACATTACGATGCCATGTTCCAAACAT
GGTCTTACATTGGCTCTCATAAGTGGCC
Found at i:117466110 original size:144 final size:144
Alignment explanation
Indices: 117465850--117466218 Score: 427
Period size: 144 Copynumber: 2.6 Consensus size: 144
117465840 GTAAATTGCT
* * * *
117465850 GATGCCATGTCCCAGACATGGTCTTACACTGTCTCACAT-GTCGAGGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCCAGA
* * ** * * *
117465914 CATGATCTTACACTAGCTCTCGTCTCAATGCCGATGACATGTCCCAGACATGGTCTTACTTTGGC
65 CATGGTCTTACACTAGCTCTCATAACAATACCGATGACATGTCCCAAACATGGTCTTACATTGGC
***
117465979 TCTCATAACATTTTC
130 TCTCATAACATGGCC
* * *
117465994 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
* * * * * * *
117466059 ATGGTCTTACTCTGGCTCTTATAACATTACTGATGCCATGTTCCAAACATGGTCTTACATTGGCT
66 ATGGTCTTACACTAGCTCTCATAACAATACCGATGACATGTCCCAAACATGGTCTTACATTGGCT
**
117466124 CTCATAATGTGGCC
131 CTCATAACATGGCC
* * * * *
117466138 GATGCAATGTCCCAGACATGGCCTTACACTGGCTCTCATAATGTGGTCAATGTCATGTCCCAG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
117466202 TATGGTCTTACACTAGC
66 -ATGGTCTTACACTAGC
117466219 ACACATATCA
Statistics
Matches: 187, Mismatches: 36, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
143 1 0.01
144 185 0.99
145 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATAACAATACCGATGACATGTCCCAAACATGGTCTTACATTGGCT
CTCATAACATGGCC
Found at i:117466213 original size:96 final size:94
Alignment explanation
Indices: 117465943--117466178 Score: 375
Period size: 96 Copynumber: 2.5 Consensus size: 94
117465933 TCGTCTCAAT
*
117465943 GCCGATG-ACATGTCCCAGACATGGTCTTACTTTGGCTCTCATAACATTTTCGATGCCATGTTCC
1 GCCGATGCA-ATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACA--TTCGATGCCATGTTCC
117466007 AAACATGGTCTTACATTGGCTCTCATAATGTG
63 AAACATGGTCTTACATTGGCTCTCATAATGTG
* *
117466039 GCCGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTTATAACATTACTGATGCCATGTTCCA
1 GCCGATGCAATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACATT-C-GATGCCATGTTCCA
117466104 AACATGGTCTTACATTGGCTCTCATAATGTG
64 AACATGGTCTTACATTGGCTCTCATAATGTG
* *
117466135 GCCGATGCAATGTCCCAGACATGGCCTTACACTGGCTCTCATAA
1 GCCGATGCAATGTCCCAGACATGGTCTTACTCTGGCTCTCATAA
117466179 TGTGGTCAAT
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
94 2 0.02
95 1 0.01
96 127 0.98
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (94 bp):
GCCGATGCAATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACATTCGATGCCATGTTCCAAA
CATGGTCTTACATTGGCTCTCATAATGTG
Found at i:117467720 original size:11 final size:11
Alignment explanation
Indices: 117467686--117467726 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
117467676 AATACTTCAT
117467686 AATTATAAAAA
1 AATTATAAAAA
* *
117467697 AATTAGAATAA
1 AATTATAAAAA
*
117467708 AATAATAAAAA
1 AATTATAAAAA
117467719 AATTATAA
1 AATTATAA
117467727 GAGGTGATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
AATTATAAAAA
Found at i:117469223 original size:78 final size:78
Alignment explanation
Indices: 117469090--117469309 Score: 343
Period size: 78 Copynumber: 2.8 Consensus size: 78
117469080 GATTATTCTC
* *
117469090 TTATTAATAGAAAAGACAAATGGAAAGTTAGAAAAAAATAATTATATTCTTTTCAAAAGAATATA
1 TTATTAATAGAGAAGACAAATGGAAAGTTAG-AAAAAAGAATTATATTCTTTTCAAAAGAATATA
*
117469155 GGATTTTTCCCTTA
65 GGATTATTCCCTTA
*
117469169 TTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTTCAAAAGAATATAT
1 TTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTTCAAAAGAATATAG
117469234 GATTATTCCCTTA
66 GATTATTCCCTTA
* * * *
117469247 TTATTAATAGAGAAGAAAAATAGG-AAGTTAGACAAATGAATTATATTCTTTCCAAAAGAATAT
1 TTATTAATAGAGAAGACAAAT-GGAAAGTTAGAAAAAAGAATTATATTCTTTTCAAAAGAATAT
117469310 TAATTTTCAT
Statistics
Matches: 132, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
78 100 0.76
79 32 0.24
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (78 bp):
TTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTTCAAAAGAATATAG
GATTATTCCCTTA
Found at i:117469540 original size:138 final size:138
Alignment explanation
Indices: 117469285--117469841 Score: 844
Period size: 138 Copynumber: 4.0 Consensus size: 138
117469275 TAGACAAATG
* *
117469285 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTTTTTTATATTTTGACCGAAATTAAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATT-AATTA
* *** *
117469350 ATATAATTGTTTATATTAATAAATTCAACAAAATATATACAATTAATATTTTGTATGAATTAAAT
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
**
117469415 TCATATGCT
130 TCATATATT
* * * * *
117469424 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCATATATGTTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
117469489 TATAACTATTTATATTAATAAATTCGGTAAAATGTATACAATTAATTTTTTGTATAAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
117469554 CATATATT
131 CATATATT
* ** * *
117469562 AATTATATTCCTTCCAAAAGAATATTAATTTTTATGTCTTTTATATTTTGACAGGAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
117469627 TATAACTGTTTATATTAATAAATTCGGTAAAATATATATAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
117469692 CATATATT
131 CATATATT
* * * *
117469700 AATTATATTCTTTCCAAAAAAATCTTAATTTCCATGTCTTTTATATTTTGACCAAAATCAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
117469765 TATAACTGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
117469830 CATATATT
131 CATATATT
117469838 AATT
1 AATT
117469842 TTATCTATGT
Statistics
Matches: 376, Mismatches: 42, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
138 324 0.86
139 52 0.14
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:117471189 original size:26 final size:27
Alignment explanation
Indices: 117471154--117471221 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
117471144 TTTTATTTTA
**
117471154 ATTTTATTTTAATTAATTT-TTTTCATC
1 ATTTT-TTTTAATTAATTTACATTCATC
*
117471181 ATTTTTTTTAGATTCATTTCACATTCATC
1 ATTTTTTTTA-ATTAATTT-ACATTCATC
117471210 -TTTTTTTTAATT
1 ATTTTTTTTAATT
117471222 CTTGTTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 5 0.14
27 15 0.43
28 9 0.26
29 6 0.17
ACGTcount: A:0.24, C:0.10, G:0.01, T:0.65
Consensus pattern (27 bp):
ATTTTTTTTAATTAATTTACATTCATC
Found at i:117487319 original size:13 final size:13
Alignment explanation
Indices: 117487301--117487333 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
117487291 GCCCAAACGT
117487301 CGAAATTTTCACA
1 CGAAATTTTCACA
117487314 CGAAATTTTCACA
1 CGAAATTTTCACA
*
117487327 CGGAATT
1 CGAAATT
117487334 CTCTGGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (13 bp):
CGAAATTTTCACA
Found at i:117487490 original size:21 final size:20
Alignment explanation
Indices: 117487464--117487505 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
117487454 CTGCTAGAAG
117487464 AATAACA-AAAACAATAATGCC
1 AATAACAGAAAA-AATAA-GCC
117487485 AATAACAGAAAAAATAAGCC
1 AATAACAGAAAAAATAAGCC
117487505 A
1 A
117487506 GCAAATGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.64, C:0.17, G:0.07, T:0.12
Consensus pattern (20 bp):
AATAACAGAAAAAATAAGCC
Found at i:117490623 original size:21 final size:21
Alignment explanation
Indices: 117490569--117490628 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
117490559 ATCTAAAATG
*
117490569 TGATAAGTATAATTTGTAATA
1 TGATAAGTATGATTTGTAATA
* * *
117490590 CGATATGTTTGATTTGTAATA
1 TGATAAGTATGATTTGTAATA
*
117490611 TGATAAGCATGATTTGTA
1 TGATAAGTATGATTTGTA
117490629 TTTGTTATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.43
Consensus pattern (21 bp):
TGATAAGTATGATTTGTAATA
Found at i:117501856 original size:2 final size:2
Alignment explanation
Indices: 117501849--117501877 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
117501839 CTGGTTCATT
117501849 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117501878 TCAGTAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117511871 original size:126 final size:125
Alignment explanation
Indices: 117511635--117511897 Score: 384
Period size: 126 Copynumber: 2.1 Consensus size: 125
117511625 ATGGGTCTGT
* * * * * *
117511635 AGTATTTTTGCTGACAGTGCATCCTTCTTGAATTGTTTTTTAGCCTATTTTTTCAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAACTGTTTTTAAACATATTTTTTCAGAACCATCTT
* * * *
117511700 TTCAAAATTATTTTTTCAGAAACTATTGTAGAAAAAGAACGTCCAGCT-GAGAGTTTTTTTC
66 CTCAAAATTATTTTTTCACAAACTACTGTACAAAAAGAACGTCCAGCTAG-GAG-TTTTTTC
117511761 AGTACTTTTGCTGACAGTGCATCCTGCTTGAACTGTTTTTAAACATATTTTTTCAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAACTGTTTTTAAACATATTTTTTCAGAACCATCTT
* * *
117511826 CTCAAAATTATTTTTTCACAAACTACTGTACAAAAATAGCTTCCAGCTAGGAGTTTTTTC
66 CTCAAAATTATTTTTTCACAAACTACTGTACAAAAAGAACGTCCAGCTAGGAGTTTTTTC
117511886 AGTACTTTTGCT
1 AGTACTTTTGCT
117511898 AACTGTACAA
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
125 19 0.15
126 103 0.84
127 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (125 bp):
AGTACTTTTGCTGACAGTGCATCCTGCTTGAACTGTTTTTAAACATATTTTTTCAGAACCATCTT
CTCAAAATTATTTTTTCACAAACTACTGTACAAAAAGAACGTCCAGCTAGGAGTTTTTTC
Found at i:117512985 original size:11 final size:10
Alignment explanation
Indices: 117512972--117513059 Score: 73
Period size: 10 Copynumber: 9.1 Consensus size: 10
117512962 TAATATTTAA
117512972 ATATATTTTT
1 ATATATTTTT
117512982 A-ATAATTTTT
1 ATAT-ATTTTT
117512992 -TAGTA-TTTT
1 ATA-TATTTTT
117513001 ATATATTTTT
1 ATATATTTTT
117513011 ATCA-ATTTTT
1 AT-ATATTTTT
117513021 AATATATTTTT
1 -ATATATTTTT
117513032 -T-TATTTTT
1 ATATATTTTT
*
117513040 -TATGTTTTT
1 ATATATTTTT
*
117513049 ATGTATTTTT
1 ATATATTTTT
117513059 A
1 A
117513060 AATTTTAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
8 8 0.12
9 15 0.23
10 32 0.49
11 10 0.15
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.68
Consensus pattern (10 bp):
ATATATTTTT
Found at i:117513000 original size:19 final size:20
Alignment explanation
Indices: 117512976--117513032 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
117512966 ATTTAAATAT
117512976 ATTTTTAATA-ATTTTTT-A
1 ATTTTTAATATATTTTTTCA
*
117512994 GTATTTT-ATATATTTTTATCA
1 AT-TTTTAATATATTTTT-TCA
117513015 ATTTTTAATATATTTTTT
1 ATTTTTAATATATTTTTT
117513033 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 4 0.12
19 10 0.31
20 6 0.19
21 12 0.38
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTTAATATATTTTTTCA
Found at i:117513037 original size:19 final size:21
Alignment explanation
Indices: 117512975--117513060 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 21
117512965 TATTTAAATA
*
117512975 TATTTTTAATA-ATTTTT-TAG
1 TATTTTTAATATATTTTTAT-C
117512995 TA-TTTT-ATATATTTTTATC
1 TATTTTTAATATATTTTTATC
*
117513014 AATTTTTAATATATTTTT-T-
1 TATTTTTAATATATTTTTATC
* *
117513033 TATTTTT--TATGTTTTTATG
1 TATTTTTAATATATTTTTATC
117513052 TATTTTTAA
1 TATTTTTAA
117513061 ATTTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
17 8 0.15
18 4 0.07
19 24 0.44
20 8 0.15
21 10 0.19
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (21 bp):
TATTTTTAATATATTTTTATC
Found at i:117513048 original size:38 final size:38
Alignment explanation
Indices: 117512976--117513077 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 38
117512966 ATTTAAATAT
117512976 ATTTTTAATAATTTTTTAGTATTTTATATATTTTTATCA
1 ATTTTTAATAATTTTTTA-TATTTTATATATTTTTATCA
* * **
117513015 ATTTTTAATATATTTTTT-TATTTTTTATGTTTTTATGT
1 ATTTTTAATA-ATTTTTTATATTTTATATATTTTTATCA
*
117513053 ATTTTTAA-ATTTTAATTTATATTTT
1 ATTTTTAATAATTT--TTTATATTTT
117513078 CTTAATTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
36 3 0.06
37 1 0.02
38 27 0.50
39 16 0.30
40 7 0.13
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (38 bp):
ATTTTTAATAATTTTTTATATTTTATATATTTTTATCA
Found at i:117524278 original size:3 final size:3
Alignment explanation
Indices: 117524272--117524344 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
117524262 TTGTTGTTCC
117524272 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
117524320 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
117524345 GTTGTTGTTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:117524349 original size:3 final size:3
Alignment explanation
Indices: 117524343--117524386 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
117524333 ATTATTATTA
117524343 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
117524387 TATCTTTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:117528027 original size:2 final size:2
Alignment explanation
Indices: 117528020--117528048 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
117528010 TTTAAAGATC
117528020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117528049 TTTAACACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117528320 original size:2 final size:2
Alignment explanation
Indices: 117528313--117528344 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
117528303 TTAAAATTGC
117528313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117528345 GTTGGTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117538288 original size:80 final size:80
Alignment explanation
Indices: 117538204--117538352 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
117538194 TATGGTAACC
* * * *
117538204 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
117538268 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
117538284 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
117538349 CCGG
66 CCGG
117538353 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:117538294 original size:40 final size:38
Alignment explanation
Indices: 117538245--117538352 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
117538235 ATCACGATTT
*
117538245 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
117538285 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
117538325 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
117538353 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:117546405 original size:80 final size:80
Alignment explanation
Indices: 117546321--117546469 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
117546311 TATGGTAACC
* * * *
117546321 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
117546385 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
117546401 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
117546466 CCGG
66 CCGG
117546470 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:117546411 original size:40 final size:38
Alignment explanation
Indices: 117546362--117546469 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
117546352 ATCACGATTT
*
117546362 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
117546402 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
117546442 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
117546470 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:117556928 original size:12 final size:12
Alignment explanation
Indices: 117556891--117556983 Score: 96
Period size: 12 Copynumber: 7.8 Consensus size: 12
117556881 AATCAACATT
*
117556891 TCCAGGCATGCC
1 TCCAGGCATACC
* * *
117556903 ACCTGGCATGCC
1 TCCAGGCATACC
* *
117556915 TCCAGGAAAACC
1 TCCAGGCATACC
117556927 TCCAGGCATACC
1 TCCAGGCATACC
*
117556939 TCCGGGCATACC
1 TCCAGGCATACC
117556951 TCCAGGCATACC
1 TCCAGGCATACC
* *
117556963 TCCAGGAAAACC
1 TCCAGGCATACC
*
117556975 CCCAGGCAT
1 TCCAGGCAT
117556984 TCCACCTGGA
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.26, C:0.40, G:0.20, T:0.14
Consensus pattern (12 bp):
TCCAGGCATACC
Found at i:117556934 original size:24 final size:24
Alignment explanation
Indices: 117556907--117557016 Score: 121
Period size: 24 Copynumber: 4.6 Consensus size: 24
117556897 CATGCCACCT
*
117556907 GGCATGCCTCCAGGAAAACCTCCA
1 GGCATACCTCCAGGAAAACCTCCA
* * *
117556931 GGCATACCTCCGGGCATACCTCCA
1 GGCATACCTCCAGGAAAACCTCCA
*
117556955 GGCATACCTCCAGGAAAACCCCCA
1 GGCATACCTCCAGGAAAACCTCCA
* * * * *
117556979 GGCATTCCACCTGGAAACCCACCA
1 GGCATACCTCCAGGAAAACCTCCA
*
117557003 GGCATGCCTCCAGG
1 GGCATACCTCCAGG
117557017 TTTTCTACTG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.26, C:0.40, G:0.21, T:0.13
Consensus pattern (24 bp):
GGCATACCTCCAGGAAAACCTCCA
Found at i:117557004 original size:48 final size:48
Alignment explanation
Indices: 117556901--117557016 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 48
117556891 TCCAGGCATG
* * * *
117556901 CCACCTGGCATGCCTCCAGGAAAACCTCCAGGCATACCTCCGGGCATA
1 CCACCAGGCATGCCTCCAGGAAAACCCCCAGGCATACCACCGGGCAAA
* * * *
117556949 CCTCCAGGCATACCTCCAGGAAAACCCCCAGGCATTCCACCTGG-AAA
1 CCACCAGGCATGCCTCCAGGAAAACCCCCAGGCATACCACCGGGCAAA
117556996 CCCACCAGGCATGCCTCCAGG
1 -CCACCAGGCATGCCTCCAGG
117557017 TTTTCTACTG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 2 0.04
48 55 0.96
ACGTcount: A:0.26, C:0.41, G:0.20, T:0.13
Consensus pattern (48 bp):
CCACCAGGCATGCCTCCAGGAAAACCCCCAGGCATACCACCGGGCAAA
Found at i:117558125 original size:3 final size:3
Alignment explanation
Indices: 117558117--117558155 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
117558107 GAATGCATGT
117558117 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
117558156 AAAAAATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:117559470 original size:11 final size:11
Alignment explanation
Indices: 117559456--117559500 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
117559446 CGTAAAATTA
117559456 AATATTATAAT
1 AATATTATAAT
*
117559467 AATATTGTAATAT
1 AATATTAT-A-AT
117559480 GAATATTATAAT
1 -AATATTATAAT
117559492 AATATTATA
1 AATATTATA
117559501 GTATGAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 16 0.55
12 3 0.10
13 3 0.10
14 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (11 bp):
AATATTATAAT
Found at i:117559484 original size:25 final size:25
Alignment explanation
Indices: 117559456--117559506 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
117559446 CGTAAAATTA
*
117559456 AATATTATAATAATATTGTAATATG
1 AATATTATAATAATATTATAATATG
*
117559481 AATATTATAATAATATTATAGTATG
1 AATATTATAATAATATTATAATATG
117559506 A
1 A
117559507 GATAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (25 bp):
AATATTATAATAATATTATAATATG
Found at i:117563382 original size:26 final size:25
Alignment explanation
Indices: 117563338--117563390 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
117563328 AATACGGTGA
*
117563338 TTATTCAGCTAAGTGCCTAGCAGGC
1 TTATTCAGCTAAGTACCTAGCAGGC
*
117563363 TTATTCAGGTTAAGTACCTAGCAGGC
1 TTATTCA-GCTAAGTACCTAGCAGGC
117563389 TT
1 TT
117563391 TGTGTCGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (25 bp):
TTATTCAGCTAAGTACCTAGCAGGC
Found at i:117563422 original size:39 final size:39
Alignment explanation
Indices: 117563363--117563485 Score: 201
Period size: 39 Copynumber: 3.2 Consensus size: 39
117563353 CCTAGCAGGC
* *
117563363 TTATTCAGGTTAAGTACCTAGCAGGCTTTGTGTCGGTGA
1 TTATTCAGGTTAAGTGCCTAGCAGGCTTTGTGCCGGTGA
*
117563402 TTATTCAGGTTAAGTGCCTAGCAAGCTTTGTGCCGGTGA
1 TTATTCAGGTTAAGTGCCTAGCAGGCTTTGTGCCGGTGA
* *
117563441 TTATTCAGGCTAAGTGCCTAGCAGGCTTTGTGCCAGTGA
1 TTATTCAGGTTAAGTGCCTAGCAGGCTTTGTGCCGGTGA
117563480 TTATTC
1 TTATTC
117563486 GGGCTTTGTG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (39 bp):
TTATTCAGGTTAAGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:117563512 original size:39 final size:39
Alignment explanation
Indices: 117563363--117563517 Score: 186
Period size: 39 Copynumber: 4.0 Consensus size: 39
117563353 CCTAGCAGGC
* * * *
117563363 TTATTCAGGTTAAGTACCTAGCAGGCTTTGTGTCGGTGA
1 TTATTCAGGCTAAGTGCCTAGCAGGCTTTGTGCCAGTGA
* * *
117563402 TTATTCAGGTTAAGTGCCTAGCAAGCTTTGTGCCGGTGA
1 TTATTCAGGCTAAGTGCCTAGCAGGCTTTGTGCCAGTGA
117563441 TTATTCAGGCTAAGTGCCTAGCAGGCTTTGTGCCAGTGA
1 TTATTCAGGCTAAGTGCCTAGCAGGCTTTGTGCCAGTGA
* ** * *
117563480 TTATTCGGGCTTTGTGCTTAGTAGG-TTGTGTGCCAGTG
1 TTATTCAGGCTAAGTGCCTAGCAGGCTT-TGTGCCAGTG
117563518 TATTGGAAGT
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.02
39 102 0.98
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (39 bp):
TTATTCAGGCTAAGTGCCTAGCAGGCTTTGTGCCAGTGA
Found at i:117566521 original size:39 final size:39
Alignment explanation
Indices: 117566478--117566556 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
117566468 TTCGTCTACT
117566478 AATATAAGTTATCTTTATGTATTATAATCCGACCACGTA
1 AATATAAGTTATCTTTATGTATTATAATCCGACCACGTA
* * *
117566517 AATATAAGTTATCTTTTTGTATTATGATCTGACCACGTA
1 AATATAAGTTATCTTTATGTATTATAATCCGACCACGTA
117566556 A
1 A
117566557 TACTACTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (39 bp):
AATATAAGTTATCTTTATGTATTATAATCCGACCACGTA
Found at i:117570712 original size:46 final size:45
Alignment explanation
Indices: 117570645--117570819 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
117570635 ATGTAACTCG
* *
117570645 CCATAAGCAAACTCGGACTCAACTCAATGAGCTCGGGCATTGGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATT-GCAT
* * *
117570691 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTGCAT
* *
117570741 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATT-GCAT
* * *
117570784 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
117570820 ATACCTAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 57 0.54
47 26 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTGCAT
Found at i:117570770 original size:93 final size:93
Alignment explanation
Indices: 117570654--117570826 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
117570644 GCCATAAGCA
* * * *
117570654 AACTCGGACTCAACTCAATGAGCTCGGGCATTGGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
117570719 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATACCTAGTTACATCTCACG
117570747 AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
117570812 GAGTTCGGATACCTA
66 GAGTTCGGATACCTA
117570827 AATATCTGAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGGATACCTAGTTACATCTCACG
Found at i:117588227 original size:12 final size:12
Alignment explanation
Indices: 117588210--117588235 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
117588200 TGAATGACAC
117588210 ATATAAATATAT
1 ATATAAATATAT
117588222 ATATAAATATAT
1 ATATAAATATAT
117588234 AT
1 AT
117588236 GTTAGTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:117592030 original size:76 final size:77
Alignment explanation
Indices: 117591945--117592104 Score: 214
Period size: 76 Copynumber: 2.1 Consensus size: 77
117591935 GTTACATTTG
** * ** * * *
117591945 TGTGCAAGTGTGAGACCATAGCTAAGTTATGGCAAAGTGGTAAAGTTTGTGATCATGGCAAGGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
*
117592010 ATGGT-AAAATA
66 ATGATAAAAATA
* *
117592021 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAATGTAATAAAGTGTGTGAACATGGTAAAGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
117592086 ATGATAAAAATA
66 ATGATAAAAATA
117592098 TGTGCAA
1 TGTGCAA
117592105 AACCAAAGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
76 59 0.82
77 13 0.18
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (77 bp):
TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTAATAAAGTGTGTGAACATGGCAAAGCC
ATGATAAAAATA
Found at i:117599130 original size:76 final size:77
Alignment explanation
Indices: 117599048--117599207 Score: 250
Period size: 76 Copynumber: 2.1 Consensus size: 77
117599038 GTTACATTTG
** * *
117599048 TGTGCAAGTGTGAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAGGCG
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
*
117599113 ATGGT-AAAATA
66 ATGATAAAAATA
* *
117599124 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAATGTGATAAAGTGTGTGATCATGGTAAAGCC
1 TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
117599189 ATGATAAAAATA
66 ATGATAAAAATA
117599201 TGTGCAA
1 TGTGCAA
117599208 AACCAAAGTG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
76 63 0.83
77 13 0.17
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (77 bp):
TGTGCAAGTGCAAGACCATAGCTAAGCTATGGCAAAGTGATAAAGTGTGTGATCATGGCAAAGCC
ATGATAAAAATA
Found at i:117601491 original size:27 final size:26
Alignment explanation
Indices: 117601461--117601524 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 26
117601451 TTTATCGAGG
117601461 TTATTAATTTATCGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
* *
117601488 TTATTAATTTATTGATAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
117601514 TTATTAATTTA
1 TTATTAATTTA
117601525 GAGAATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 12 0.34
27 23 0.66
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:117616362 original size:21 final size:22
Alignment explanation
Indices: 117616329--117616376 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
117616319 TTTTCATTGA
**
117616329 AAACCCTTCTTAAAAT-AAAAG
1 AAACCCTAATTAAAATAAAAAG
**
117616350 AAACCCTAATTAACTTAAAAAG
1 AAACCCTAATTAAAATAAAAAG
117616372 AAACC
1 AAACC
117616377 TTGCAGTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.54, C:0.21, G:0.04, T:0.21
Consensus pattern (22 bp):
AAACCCTAATTAAAATAAAAAG
Found at i:117617447 original size:29 final size:29
Alignment explanation
Indices: 117617386--117617487 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 29
117617376 TACTTGTATC
* * **
117617386 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATGAATA
* *
117617414 AGGCCCATTAGGCCCAAATCACCTGAATA
1 TGGCCCATTAGGCCCAAATCACATGAATA
* **
117617443 TGGCCCATTAGGCCCAAATCTCATTTATA
1 TGGCCCATTAGGCCCAAATCACATGAATA
*
117617472 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
117617488 GTCACATTCA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 13 0.21
29 48 0.79
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATGAATA
Found at i:117618853 original size:16 final size:16
Alignment explanation
Indices: 117618829--117618860 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
117618819 AAGTTCGGGA
117618829 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
117618845 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
117618861 GCATTACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:117620063 original size:6 final size:6
Alignment explanation
Indices: 117620052--117620077 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
117620042 ACACTGTAGG
117620052 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
117620078 CATAGTCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:117634206 original size:63 final size:63
Alignment explanation
Indices: 117634087--117634206 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 63
117634077 GTAGTTTTAA
* * *
117634087 TGTACAAATAGTGTGTTACACGGCCTGGACACACCCTCGTCTCCTTGGCCCGTGTGGCTCTAG
1 TGTACAAACAGTGTGTTACACGGCCTGGACACACCCTCGTCTCCTTAGCCCATGTGGCTCTAG
* ** * * *
117634150 TGTACAAACAGTGTGTTACATGGCCTGGACACACGTTTGTGTCCTTAGCCTATGTGG
1 TGTACAAACAGTGTGTTACACGGCCTGGACACACCCTCGTCTCCTTAGCCCATGTGG
117634207 ACCCTACACA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 48 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (63 bp):
TGTACAAACAGTGTGTTACACGGCCTGGACACACCCTCGTCTCCTTAGCCCATGTGGCTCTAG
Found at i:117634864 original size:18 final size:17
Alignment explanation
Indices: 117634843--117634882 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
117634833 AGAGAAAATC
*
117634843 AAAAGAATAAGGAAGAAG
1 AAAAGAAAAAGGAA-AAG
117634861 AAAAGAAAAAGGAAAAG
1 AAAAGAAAAAGGAAAAG
117634878 AAAAG
1 AAAAG
117634883 GGAACATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGGAAAAG
Found at i:117644391 original size:13 final size:13
Alignment explanation
Indices: 117644373--117644397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117644363 CTCGGCAGGG
117644373 ACACGCCCGTGTA
1 ACACGCCCGTGTA
117644386 ACACGCCCGTGT
1 ACACGCCCGTGT
117644398 GCGATTACTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:117658023 original size:21 final size:22
Alignment explanation
Indices: 117657999--117658050 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
117657989 TAATAATAAT
*
117657999 AATAATAATA-AAATA-CTAAAA
1 AATAA-AATAGAAATAGCAAAAA
117658020 AATAAAATAGAAATAGCAAAAA
1 AATAAAATAGAAATAGCAAAAA
117658042 AATTAAAAT
1 AA-TAAAAT
117658051 GAATTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 7 0.26
23 6 0.22
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (22 bp):
AATAAAATAGAAATAGCAAAAA
Found at i:117658086 original size:4 final size:4
Alignment explanation
Indices: 117658077--117658157 Score: 51
Period size: 4 Copynumber: 19.5 Consensus size: 4
117658067 GTATAAGAAT
* * *
117658077 AATA AATA AATA AATA AATAA AATA AATT AGTAA AATA AA-A AAAA TAATA
1 AATA AATA AATA AATA AAT-A AATA AATA AAT-A AATA AATA AATA -AATA
*
117658127 TAACA AAT- AAT- AATA AATAA AATA GAATA AA
1 -AATA AATA AATA AATA AAT-A AATA -AATA AA
117658158 AGGGGGTGGC
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
3 9 0.14
4 33 0.52
5 21 0.33
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:117658100 original size:17 final size:16
Alignment explanation
Indices: 117658080--117658156 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 16
117658070 TAAGAATAAT
117658080 AAATAAATAAATAAATA
1 AAATAAAT-AATAAATA
*
117658097 AAATAAATTAGTAAAATA
1 AAATAAA-TAAT-AAATA
* *
117658115 AAAAAAATAATATAA-C
1 AAATAAATAATA-AATA
117658131 AAAT-AATAATAAATA
1 AAATAAATAATAAATA
117658146 AAATAGAATAA
1 AAATA-AATAA
117658157 AAGGGGGTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
14 2 0.04
15 11 0.23
16 4 0.08
17 19 0.40
18 12 0.25
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATAAATAATAAATA
Found at i:117658144 original size:22 final size:20
Alignment explanation
Indices: 117658077--117658146 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
117658067 GTATAAGAAT
117658077 AATAAATAA-ATAAATAAATAA
1 AATAAATAATAT-AA-AAATAA
117658098 AATAAAT--TAGT-AAAATAA
1 AATAAATAATA-TAAAAATAA
*
117658116 AAAAAATAATATAACAAATAA
1 AATAAATAATATAA-AAATAA
117658137 TAATAAATAA
1 -AATAAATAA
117658147 AATAGAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
18 12 0.30
19 2 0.05
20 4 0.10
21 14 0.35
22 8 0.20
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (20 bp):
AATAAATAATATAAAAATAA
Found at i:117658157 original size:10 final size:9
Alignment explanation
Indices: 117658077--117658158 Score: 64
Period size: 9 Copynumber: 9.2 Consensus size: 9
117658067 GTATAAGAAT
117658077 AATAAAT-A
1 AATAAATAA
117658085 AATAAAT-A
1 AATAAATAA
117658093 AATAAA-ATA
1 AATAAATA-A
* *
117658102 AATTAGTAA
1 AATAAATAA
*
117658111 AATAAAAAA
1 AATAAATAA
*
117658120 AAT-AATAT
1 AATAAATAA
*
117658128 AACAAATAA
1 AATAAATAA
117658137 TAATAAATAA
1 -AATAAATAA
117658147 AATAGAATAA
1 AATA-AATAA
117658157 AA
1 AA
117658159 GGGGGTGGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
8 19 0.33
9 23 0.40
10 16 0.28
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (9 bp):
AATAAATAA
Found at i:117663398 original size:68 final size:64
Alignment explanation
Indices: 117663282--117663538 Score: 224
Period size: 68 Copynumber: 3.9 Consensus size: 64
117663272 TGGATGATAC
** * * *
117663282 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
117663346 AAG
64 --G
* *
117663349 ACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAA-AGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTA
117663412 CG
63 CG
* * *
117663414 -GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
117663476 TACG
61 TACG
* * *
117663480 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGC
117663539 CGAACTATAT
Statistics
Matches: 157, Mismatches: 18, Indels: 34
0.75 0.09 0.16
Matches are distributed among these distances:
61 2 0.01
62 24 0.15
63 23 0.15
64 1 0.01
65 18 0.11
66 28 0.18
67 19 0.12
68 41 0.26
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:117667828 original size:68 final size:66
Alignment explanation
Indices: 117667756--117667927 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
117667746 CATCATGTGT
* * * *
117667756 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
117667819 TGTAG
62 TGTAG
** * *
117667824 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
117667889 AG
65 AG
* * * *
117667891 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
117667928 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:117667861 original size:64 final size:64
Alignment explanation
Indices: 117667780--117667963 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
117667770 AGACATTATG
* * *
117667780 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
117667844 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
117667909 AA
63 AA
* * *
117667911 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
117667964 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:117672953 original size:26 final size:26
Alignment explanation
Indices: 117672917--117673000 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
117672907 CATGAAATTC
117672917 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
117672943 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
117672969 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
117672995 TTATCA
1 TTATCA
117673001 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:117678682 original size:26 final size:26
Alignment explanation
Indices: 117678646--117678729 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
117678636 CATGAAATTC
117678646 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
117678672 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
117678698 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
117678724 TTATCA
1 TTATCA
117678730 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:117680063 original size:15 final size:15
Alignment explanation
Indices: 117680024--117680103 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
117680014 GTATCTTGGG
*
117680024 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
* *
117680039 TCTCTTTATTCTGTA
1 TTTCTTTATTCTGGA
* *
117680054 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
117680069 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
117680084 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
117680098 TTTCTT
1 TTTCTT
117680104 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 10 0.20
15 39 0.76
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:117682611 original size:47 final size:47
Alignment explanation
Indices: 117682487--117682705 Score: 199
Period size: 46 Copynumber: 4.7 Consensus size: 47
117682477 GGATGGTTGA
*
117682487 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAG
117682535 GC--CCGAACTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAG
* * * *
117682580 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATG-GATGCAA--AT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATGTAACTAG
* *
117682628 G--TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAG
* *
117682673 GCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA
117682706 CTTATCGGCG
Statistics
Matches: 143, Mismatches: 13, Indels: 31
0.76 0.07 0.17
Matches are distributed among these distances:
42 5 0.03
43 12 0.08
45 4 0.03
46 55 0.38
47 55 0.38
48 4 0.03
50 7 0.05
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAAGAGATGTAACTAG
Found at i:117682646 original size:93 final size:93
Alignment explanation
Indices: 117682487--117682710 Score: 376
Period size: 93 Copynumber: 2.4 Consensus size: 93
117682477 GGATGGTTGA
* *
117682487 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
117682552 TGAGTCCGAGTTCAAGAGATGTAACTAG
66 TGAGTCCGAGTTCAAGAGATGTAACTAG
* * * *
117682580 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
117682645 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCAAGAGATGTAACTAG
*
117682673 GCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
117682711 CGGCGGGTTA
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 122 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCAAGAGATGTAACTAG
Found at i:117692753 original size:21 final size:21
Alignment explanation
Indices: 117692729--117692769 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
117692719 ATCTGCTCAA
* *
117692729 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
117692750 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
117692770 TCGCTCGTCT
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:117696459 original size:6 final size:6
Alignment explanation
Indices: 117696448--117696474 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
117696438 TATAAGTTTT
117696448 GATCAA GATCAA GATCAA GATCAA GAT
1 GATCAA GATCAA GATCAA GATCAA GAT
117696475 AATTTAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GATCAA
Found at i:117699552 original size:64 final size:62
Alignment explanation
Indices: 117699472--117699593 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 62
117699462 ACCTTATATG
* *
117699472 TATATATGTTTATAAATACT-AATTATAT-TTAGTA-ATTTATTATTTTATTTATATTATTTGTA
1 TATATATATTCATAAAT-CTCAA-TATATGTT-GTATATTTATTATTTTA-TTA-ATTATTTGTA
117699534 AA
61 AA
*
117699536 TATATATATTCATAAATTTCAATATATGTTGTATATTTATTATTTTATTAATTATTTG
1 TATATATATTCATAAATCTCAATATATGTTGTATATTTATTATTTTATTAATTATTTG
117699594 ATCATATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
62 8 0.15
63 12 0.23
64 32 0.62
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (62 bp):
TATATATATTCATAAATCTCAATATATGTTGTATATTTATTATTTTATTAATTATTTGTAAA
Found at i:117700679 original size:21 final size:22
Alignment explanation
Indices: 117700628--117700684 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
117700618 GCAGTCCCCC
117700628 TCTCTCCTTTCTCCTCTCCCTTT
1 TCTCT-CTTTCTCCTCTCCCTTT
*
117700651 TCTCTC-TTCTCCTCTCCTTTT
1 TCTCTCTTTCTCCTCTCCCTTT
* *
117700672 TTTTTCTTTCTCC
1 TCTCTCTTTCTCC
117700685 CATTCCCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.60
22 7 0.23
23 5 0.17
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (22 bp):
TCTCTCTTTCTCCTCTCCCTTT
Found at i:117701147 original size:3 final size:3
Alignment explanation
Indices: 117701139--117701232 Score: 154
Period size: 3 Copynumber: 31.0 Consensus size: 3
117701129 TGTATTTTCA
117701139 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
117701187 TAT TAT TAT TAT TAT TAT TAT TAT ATAT TTT TAT ATAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT
117701233 ATGCATATAC
Statistics
Matches: 86, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
2 2 0.02
3 78 0.91
4 6 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:117716945 original size:2 final size:2
Alignment explanation
Indices: 117716938--117716968 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
117716928 TTGATAAGGA
117716938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117716969 GCTTTACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:117718680 original size:22 final size:22
Alignment explanation
Indices: 117718638--117718680 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
117718628 TTTAGAAACA
* *
117718638 AAAATAATAATTATAATTTTAT
1 AAAATAATAATGATAAATTTAT
117718660 AAAATAA-AATGATTAAATTTA
1 AAAATAATAATGA-TAAATTTA
117718681 AAATTATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATAATAATGATAAATTTAT
Found at i:117730701 original size:13 final size:13
Alignment explanation
Indices: 117730683--117730707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117730673 TACAAATTTA
117730683 ATATTTAATTTTT
1 ATATTTAATTTTT
117730696 ATATTTAATTTT
1 ATATTTAATTTT
117730708 AACATAATTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTTAATTTTT
Found at i:117731048 original size:12 final size:12
Alignment explanation
Indices: 117731031--117731074 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
117731021 TTCATTATAT
*
117731031 TTTATTAAATAG
1 TTTATTAAATAA
117731043 TTTATTAAATAA
1 TTTATTAAATAA
* *
117731055 TTTATTTATTAA
1 TTTATTAAATAA
*
117731067 TATATTAA
1 TTTATTAA
117731075 TTATGATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TTTATTAAATAA
Found at i:117731582 original size:2 final size:2
Alignment explanation
Indices: 117731575--117731600 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
117731565 CTGAGGTTTA
117731575 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
117731601 TAATTGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117737694 original size:1 final size:1
Alignment explanation
Indices: 117737688--117737721 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
117737678 CTCCATTTGT
* *
117737688 AAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
117737722 CATGGGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:117746707 original size:1 final size:1
Alignment explanation
Indices: 117746701--117746725 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
117746691 CTGATAAGGG
117746701 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
117746726 CTAACAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:117748662 original size:4 final size:4
Alignment explanation
Indices: 117748653--117748682 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
117748643 AAAACTCAGT
117748653 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
117748683 ACTCAGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:117752264 original size:25 final size:24
Alignment explanation
Indices: 117752236--117752298 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
117752226 TAAATCATAT
117752236 AATATATATTTTTAAAAAGTTCAAA
1 AATATATATTTTTAAAAA-TTCAAA
* *
117752261 AATAT-T-TCTTTATAAAATTCTAA
1 AATATATATTTTTA-AAAATTCAAA
*
117752284 AATATATATTATTAA
1 AATATATATTTTTAA
117752299 TTTTAAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
23 15 0.48
24 7 0.23
25 9 0.29
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (24 bp):
AATATATATTTTTAAAAATTCAAA
Found at i:117756191 original size:12 final size:12
Alignment explanation
Indices: 117756176--117756240 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 12
117756166 CCTTCTTTTC
117756176 TTCTTTCTCTTT
1 TTCTTTCTCTTT
*
117756188 TTCTTTCTTTCTT
1 TTCTTTCTCT-TT
**
117756201 TTCTTTCTAATT
1 TTCTTTCTCTTT
**
117756213 TTCTTTGGCTTT
1 TTCTTTCTCTTT
*
117756225 ATC-TT-TCTTT
1 TTCTTTCTCTTT
117756235 TTCTTT
1 TTCTTT
117756241 TACTAATTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
10 6 0.15
11 4 0.10
12 21 0.51
13 10 0.24
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (12 bp):
TTCTTTCTCTTT
Found at i:117756214 original size:25 final size:24
Alignment explanation
Indices: 117756168--117756218 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
117756158 GTGTGTGTCC
**
117756168 TTCTTTTCTTCTTTCTCTTTTTCT
1 TTCTTTTCTTCTTTCTAATTTTCT
*
117756192 TTCTTTCTTTTCTTTCTAATTTTCT
1 TTCTTT-TCTTCTTTCTAATTTTCT
117756217 TT
1 TT
117756219 GGCTTTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTTCTTCTTTCTAATTTTCT
Found at i:117758200 original size:15 final size:16
Alignment explanation
Indices: 117758180--117758212 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
117758170 TAACATAATG
117758180 AATTGATA-AATTTTA
1 AATTGATAGAATTTTA
*
117758195 AATTGATAGTATTTTA
1 AATTGATAGAATTTTA
117758211 AA
1 AA
117758213 ATATTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
AATTGATAGAATTTTA
Found at i:117758612 original size:2 final size:2
Alignment explanation
Indices: 117758553--117758595 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
117758543 ATTGAGTCTT
117758553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
117758595 T
1 T
117758596 TTTAATTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:117758618 original size:19 final size:21
Alignment explanation
Indices: 117758587--117758625 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
117758577 TATATATATA
117758587 TATATATATTTT-AATTAAAG
1 TATATATATTTTAAATTAAAG
117758607 TATATA-ATTTTAAATTAAA
1 TATATATATTTTAAATTAAA
117758626 AAAGTACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
TATATATATTTTAAATTAAAG
Found at i:117759075 original size:24 final size:25
Alignment explanation
Indices: 117759048--117759094 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
117759038 TTGACTATCA
* *
117759048 ATTTTTTATTAT-TTACATGACATT
1 ATTTTGTATTATACTACATGACATT
*
117759072 ATTTTGTCTTATACTACATGACA
1 ATTTTGTATTATACTACATGACA
117759095 ACAAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (25 bp):
ATTTTGTATTATACTACATGACATT
Found at i:117759137 original size:18 final size:20
Alignment explanation
Indices: 117759097--117759143 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
117759087 ACATGACAAC
*
117759097 AAAAATTATAAAATAAATTTA
1 AAAAATT-TAAAATAAATGTA
117759118 AAAAATTT-AAA-AAATGTA
1 AAAAATTTAAAATAAATGTA
*
117759136 AAGAATTT
1 AAAAATTT
117759144 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
20 1 0.04
21 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
AAAAATTTAAAATAAATGTA
Found at i:117761536 original size:25 final size:25
Alignment explanation
Indices: 117761508--117761586 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
117761498 ACGAGATTCT
117761508 TGATTCAAATAGAAGATGATAGACC
1 TGATTCAAATAGAAGATGATAGACC
* * * ***
117761533 TGATTCATAT-CACGA-GAT--TTT
1 TGATTCAAATAGAAGATGATAGACC
*
117761554 TGATTCAAGTAGAAGATGATAGACC
1 TGATTCAAATAGAAGATGATAGACC
117761579 TGATTCAA
1 TGATTCAA
117761587 GCAAAGTTGA
Statistics
Matches: 37, Mismatches: 13, Indels: 8
0.64 0.22 0.14
Matches are distributed among these distances:
21 8 0.22
22 3 0.08
23 6 0.16
24 3 0.08
25 17 0.46
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (25 bp):
TGATTCAAATAGAAGATGATAGACC
Found at i:117761548 original size:46 final size:46
Alignment explanation
Indices: 117761493--117761585 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
117761483 GCAAAGTTTA
117761493 ATATCACGAGATTCTTGATTCAAATAGAAGATGATAGACCTGATTC
1 ATATCACGAGATTCTTGATTCAAATAGAAGATGATAGACCTGATTC
* *
117761539 ATATCACGAGATTTTTGATTCAAGTAGAAGATGATAGACCTGATTC
1 ATATCACGAGATTCTTGATTCAAATAGAAGATGATAGACCTGATTC
117761585 A
1 A
117761586 AGCAAAGTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (46 bp):
ATATCACGAGATTCTTGATTCAAATAGAAGATGATAGACCTGATTC
Found at i:117763672 original size:2 final size:2
Alignment explanation
Indices: 117763665--117763694 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
117763655 TCACACCCCA
117763665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117763695 GGTTAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117764979 original size:19 final size:21
Alignment explanation
Indices: 117764945--117764985 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
117764935 ATAAATATAC
117764945 AATTAAAATGTGTATAA-TAAA
1 AATTAAAA-GTGTATAACTAAA
117764966 AATTAAAA-TGTATAACTAAA
1 AATTAAAAGTGTATAACTAAA
117764986 TTAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (21 bp):
AATTAAAAGTGTATAACTAAA
Found at i:117766291 original size:2 final size:2
Alignment explanation
Indices: 117766284--117766309 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
117766274 GGCGATACAA
117766284 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
117766310 TAGAATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117767112 original size:20 final size:20
Alignment explanation
Indices: 117767087--117767124 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
117767077 AAAATTTTTT
117767087 AGTTGAATTGATTGATGTGC
1 AGTTGAATTGATTGATGTGC
117767107 AGTTGAATTGATTGATGT
1 AGTTGAATTGATTGATGT
117767125 ACATAGGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (20 bp):
AGTTGAATTGATTGATGTGC
Found at i:117772524 original size:40 final size:40
Alignment explanation
Indices: 117772479--117772556 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
117772469 GTTAAATATG
* *
117772479 TTAAAAATTATTTAATTATTATTTAAAACTTTTCAACATA
1 TTAAAAATGATTTAATTATTATCTAAAACTTTTCAACATA
* *
117772519 TTAAAAATGATTTAATTATTATCTGAAACTTTTGAACA
1 TTAAAAATGATTTAATTATTATCTAAAACTTTTCAACA
117772557 GACTAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (40 bp):
TTAAAAATGATTTAATTATTATCTAAAACTTTTCAACATA
Found at i:117773157 original size:65 final size:65
Alignment explanation
Indices: 117773026--117773157 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 65
117773016 AGTAAAAAAC
* **
117773026 AATTATTATTAAAAATCGATTAAAAATTTAAATATTAAGGGAGGGATCCACTTACATTAATATAA
1 AATTATTATTAAAAACCGATTAAAAATTTAAATATTAAGGGAGGGATCCACTTACACCAATATAA
* * *
117773091 AATTATTATTAAAAACCTATTAAAAATTTAAATATTAAGGGAGTGATCCACTTACACCAATGTAA
1 AATTATTATTAAAAACCGATTAAAAATTTAAATATTAAGGGAGGGATCCACTTACACCAATATAA
117773156 AA
1 AA
117773158 CTAAAATAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (65 bp):
AATTATTATTAAAAACCGATTAAAAATTTAAATATTAAGGGAGGGATCCACTTACACCAATATAA
Found at i:117773680 original size:17 final size:17
Alignment explanation
Indices: 117773658--117773693 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
117773648 AGCCATTTGT
117773658 TTCTTTGATCCGGTCTC
1 TTCTTTGATCCGGTCTC
117773675 TTCTTTGATCCGGTCTC
1 TTCTTTGATCCGGTCTC
117773692 TT
1 TT
117773694 GGTACGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.28, G:0.17, T:0.50
Consensus pattern (17 bp):
TTCTTTGATCCGGTCTC
Found at i:117774107 original size:30 final size:30
Alignment explanation
Indices: 117774073--117774140 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
117774063 TGGCCCAAGA
*
117774073 GTAAATACTCAAAA-TTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTT-AAGGACTAATAGT
*
117774103 GTAAATATGAAAAGTTTAAGGACTAATAGT
1 GTAAATATCAAAAGTTTAAGGACTAATAGT
*
117774133 GAAAATAT
1 GTAAATAT
117774141 TTTAAGGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAAGTTTAAGGACTAATAGT
Found at i:117778378 original size:40 final size:39
Alignment explanation
Indices: 117778218--117778410 Score: 226
Period size: 39 Copynumber: 4.9 Consensus size: 39
117778208 TGTGTATGAA
* *
117778218 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
117778257 TGTGTGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
117778296 TGTGCGAGATATGATATCCGGGCTAAG-CCGAAGGTGAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
117778334 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
117778374 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGC
117778411 GTTTGAACGA
Statistics
Matches: 132, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 33 0.25
39 60 0.45
40 39 0.30
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:117779877 original size:46 final size:46
Alignment explanation
Indices: 117779824--117780054 Score: 329
Period size: 46 Copynumber: 5.0 Consensus size: 46
117779814 GGGTGTTACA
*
117779824 AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
1 AACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
*
117779870 AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
1 AACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
* *
117779916 AACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
1 AACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
* * * *
117779962 AACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGC
1 AACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
* * * * *
117780008 AACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 AACCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGC
117780054 A
1 A
117780055 TCATGTCAAA
Statistics
Matches: 173, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 172 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
AACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGC
Found at i:117782823 original size:25 final size:24
Alignment explanation
Indices: 117782795--117782867 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 24
117782785 AAGCTCTTTC
117782795 GAGCCATATAACGGGAAGCTT-AAGT
1 GAGCCAT-TAACGGGAAG-TTCAAGT
* *
117782820 GAGCCATGTAACGAGAAGTTCATGT
1 GAGCCAT-TAACGGGAAGTTCAAGT
117782845 GAGCC-TTAATCGGGAAGTTCAAG
1 GAGCCATTAA-CGGGAAGTTCAAG
117782868 CTAGCCAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.07
24 14 0.34
25 24 0.59
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGTTCAAGT
Found at i:117782913 original size:26 final size:26
Alignment explanation
Indices: 117782881--117782950 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
117782871 GCCAATATCA
117782881 AGAAGCTCCGAAGAGCCAATTAATCG
1 AGAAGCTCCGAAGAGCCAATTAATCG
** * *
117782907 AGAAGCTCATAAAGAGCC-TTTAGTCG
1 AGAAGCTC-CGAAGAGCCAATTAATCG
* *
117782933 GGAAGCTCCGAGGAGCCA
1 AGAAGCTCCGAAGAGCCA
117782951 TATATCGGGA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
25 6 0.18
26 21 0.62
27 7 0.21
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (26 bp):
AGAAGCTCCGAAGAGCCAATTAATCG
Found at i:117789448 original size:26 final size:26
Alignment explanation
Indices: 117789394--117789503 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
117789384 TGATACTAAT
* *
117789394 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
117789420 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117789446 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117789472 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117789498 TGATAA
1 TGATAA
117789504 GAATTTCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117793088 original size:17 final size:16
Alignment explanation
Indices: 117793066--117793104 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
117793056 TATTTGACAT
117793066 ATAAATATTATATATAA
1 ATAAATA-TATATATAA
*
117793083 ATAAATATATATCTAA
1 ATAAATATATATATAA
117793099 A-AAATA
1 ATAAATA
117793105 GTTGATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 9 0.43
17 7 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAATATATATATAA
Found at i:117796741 original size:2 final size:2
Alignment explanation
Indices: 117796734--117796764 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
117796724 TACGTATACG
117796734 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117796765 CAGTAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117805432 original size:20 final size:20
Alignment explanation
Indices: 117805392--117805439 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
117805382 ATCAGTACAC
117805392 AATTAAAATGTGCATAATAAA
1 AATTAAAATGT-CATAATAAA
*
117805413 AATTAAAATGT-ATAA-ATA
1 AATTAAAATGTCATAATAAA
117805431 AATTAAAAT
1 AATTAAAAT
117805440 AAATTTTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.42
19 4 0.15
21 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (20 bp):
AATTAAAATGTCATAATAAA
Found at i:117806999 original size:26 final size:26
Alignment explanation
Indices: 117806970--117807021 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
117806960 AGGGCTATGG
*
117806970 TAGGCCCGTCCAC-CATACACACCACA
1 TAGGCCCATCCACTCA-ACACACCACA
**
117806996 TAGGTTCATCCACTCAACACACCACA
1 TAGGCCCATCCACTCAACACACCACA
117807022 ATGTGGAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.33, C:0.42, G:0.10, T:0.15
Consensus pattern (26 bp):
TAGGCCCATCCACTCAACACACCACA
Found at i:117818092 original size:43 final size:42
Alignment explanation
Indices: 117817945--117818101 Score: 158
Period size: 43 Copynumber: 3.6 Consensus size: 42
117817935 TGTGTTATCG
* * *
117817945 TGTAAGACCACGTCTGGGGCGTTGGCATCGACT-TATGATTTACG
1 TGTAAGA-CACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * *
117817989 TGTAAGACGACGTCTGGGACGTTGGCACCG-TACTTGATTTCA
1 TGTAAGAC-ACGTCTGGGACGTTGGCATCGATATTTGATTACA
*
117818031 TGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
*
117818074 TGTAAGACAACGTTTGGGACGTTGGCAT
1 TGTAAGAC-ACGTCTGGGACGTTGGCAT
117818102 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.31
43 37 0.39
44 27 0.29
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
TGTAAGACACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:117819751 original size:26 final size:26
Alignment explanation
Indices: 117819722--117819803 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
117819712 TGATACAAAT
117819722 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
117819748 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117819774 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
117819800 TGAT
1 TGAT
117819804 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:117827397 original size:20 final size:20
Alignment explanation
Indices: 117827334--117827399 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
117827324 TTTTTTATAT
*
117827334 TATTTTTTATA-TAATTCTAA
1 TATTTTATATATTAATTC-AA
* **
117827354 -A-TTTATATATTATTTTTA
1 TATTTTATATATTAATTCAA
117827372 TATTTTATATATTAATTCAA
1 TATTTTATATATTAATTCAA
*
117827392 TTTTTTAT
1 TATTTTAT
117827400 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 21 0.60
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTATATATTAATTCAA
Found at i:117827423 original size:27 final size:28
Alignment explanation
Indices: 117827362--117827423 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 28
117827352 AAATTTATAT
**
117827362 ATTATTTTTATATTTTATATATTAATTC
1 ATTATTTTTATATTTTATATATTAAAGC
* * *
117827390 AAT-TTTTTATTTTTTAT-TTTTAAAGC
1 ATTATTTTTATATTTTATATATTAAAGC
117827416 ATTATTTT
1 ATTATTTT
117827424 ACTCTCTCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 8 0.30
27 17 0.63
28 2 0.07
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (28 bp):
ATTATTTTTATATTTTATATATTAAAGC
Found at i:117830618 original size:93 final size:93
Alignment explanation
Indices: 117830506--117830677 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
117830496 GCCCATAAGT
* *
117830506 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
117830571 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
117830599 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
117830664 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
117830678 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:117830673 original size:46 final size:46
Alignment explanation
Indices: 117830498--117830673 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
117830488 TGTAACCCGC
* * *
117830498 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
117830544 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
117830594 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
117830637 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
117830674 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:117838362 original size:27 final size:29
Alignment explanation
Indices: 117838308--117838364 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
117838298 TCAAAATTAA
*
117838308 TCAAAATTTATTATAAAATTAATTAAAAT
1 TCAAAATTTATTATAAAATTAAGTAAAAT
*
117838337 TCAAAATTT-TTAT-AATTTAAGTAAAAT
1 TCAAAATTTATTATAAAATTAAGTAAAAT
117838364 T
1 T
117838365 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 13 0.50
28 4 0.15
29 9 0.35
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (29 bp):
TCAAAATTTATTATAAAATTAAGTAAAAT
Done.