Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 81 of 216
Found at i:24784729 original size:29 final size:28
Alignment explanation
Indices: 24784658--24784730 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
24784648 TAAAAGTTAT
* * *
24784658 AAAAATTATTAAACTTTAATAAAAATAT
1 AAAAAATATTAAAATTTAATAAAAATAG
*
24784686 AAAAAATATTTAAAATTTATTAAAAATAG
1 AAAAAATA-TTAAAATTTAATAAAAATAG
*
24784715 AAAAAATCATAAAAAT
1 AAAAAAT-ATTAAAAT
24784731 CATAAAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 7 0.18
29 30 0.79
30 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAAAATATTAAAATTTAATAAAAATAG
Found at i:24784939 original size:21 final size:20
Alignment explanation
Indices: 24784896--24784959 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
24784886 TAAATAAAAA
* * *
24784896 TTACAAAATTCT-TCTTTTG
1 TTACAAAATTTTATATTTTT
*
24784915 TTACAATAATTTTATTTTTTT
1 TTACAA-AATTTTATATTTTT
*
24784936 TTAC-AAATTTTATATTTCT
1 TTACAAAATTTTATATTTTT
24784955 TTACA
1 TTACA
24784960 TTTTATCATT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 22 0.59
20 6 0.16
21 9 0.24
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.58
Consensus pattern (20 bp):
TTACAAAATTTTATATTTTT
Found at i:24785067 original size:31 final size:31
Alignment explanation
Indices: 24784980--24785094 Score: 101
Period size: 31 Copynumber: 3.7 Consensus size: 31
24784970 TTCTTATGAC
* *
24784980 TTTATAAAATTTTATAATTTTTTTTCTATATT
1 TTTATAAAATTTTATAATTTTTTTACAAT-TT
* * * *
24785012 TCTA-CATATTTTATAATTGTTTTTACGATTT
1 TTTATAAAATTTTATAATT-TTTTTACAATTT
* *
24785043 TTTATAAAATTTTAGAATTTTTTTATAATTT
1 TTTATAAAATTTTATAATTTTTTTACAATTT
*
24785074 TTTACT--ATTTTTATAATTTTT
1 TTTA-TAAAATTTTATAATTTTT
24785095 AATAAATTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
30 13 0.19
31 31 0.46
32 23 0.34
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (31 bp):
TTTATAAAATTTTATAATTTTTTTACAATTT
Found at i:24785074 original size:9 final size:9
Alignment explanation
Indices: 24785062--24785159 Score: 55
Period size: 9 Copynumber: 10.8 Consensus size: 9
24785052 TTTTAGAATT
24785062 TTTTTATAA
1 TTTTTATAA
24785071 TTTTT-TACTA
1 TTTTTATA--A
24785081 TTTTTATAA
1 TTTTTATAA
24785090 TTTTTAATAAA
1 TTTTT-AT-AA
24785101 TTTTTA-ATA
1 TTTTTATA-A
24785110 TTTTTAT--
1 TTTTTATAA
24785117 TTTTTAT--
1 TTTTTATAA
24785124 TTTTTATTAAA
1 TTTTTA-T-AA
* *
24785135 ATTTAATAA
1 TTTTTATAA
*
24785144 ATTTTATAA
1 TTTTTATAA
*
24785153 ATTTTAT
1 TTTTTAT
24785160 TGATTTTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 22
0.75 0.03 0.22
Matches are distributed among these distances:
7 13 0.17
8 4 0.05
9 35 0.47
10 10 0.13
11 13 0.17
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:24785077 original size:10 final size:10
Alignment explanation
Indices: 24785020--24785106 Score: 63
Period size: 10 Copynumber: 8.5 Consensus size: 10
24785010 TTTCTACATA
24785020 TTTTATAATT
1 TTTTATAATT
24785030 GTTTT-TACGATT
1 -TTTTATA--ATT
**
24785042 TTTTATAAAA
1 TTTTATAATT
*
24785052 TTTTAGAATTT
1 TTTTATAA-TT
24785063 TTTTATAATT
1 TTTTATAATT
24785073 TTTTACT-A-T
1 TTTTA-TAATT
24785082 TTTTATAATT
1 TTTTATAATT
* *
24785092 TTTAATAAAT
1 TTTTATAATT
24785102 TTTTA
1 TTTTA
24785107 ATATTTTTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
8 1 0.02
9 7 0.12
10 31 0.52
11 16 0.27
12 5 0.08
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:24785083 original size:29 final size:28
Alignment explanation
Indices: 24785042--24785113 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
24785032 TTTTACGATT
* * *
24785042 TTTTATAAAATTTTAGAATTTTTTTATAAT
1 TTTT-TAATATTTTAGAA-TTTTTAATAAA
* *
24785072 TTTTTACTATTTTTATAATTTTTAATAAA
1 TTTTTAATA-TTTTAGAATTTTTAATAAA
24785101 TTTTTAATATTTT
1 TTTTTAATATTTT
24785114 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 4 0.11
29 20 0.57
30 11 0.31
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTTTAATATTTTAGAATTTTTAATAAA
Found at i:24785105 original size:21 final size:20
Alignment explanation
Indices: 24785020--24785116 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 20
24785010 TTTCTACATA
* *
24785020 TTTTATAATTGTTTTTACGATT
1 TTTTATAATT-TTTATA-AATT
* * *
24785042 TTTTATAAAATTTTAGAATTT
1 TTTTAT-AATTTTTATAAATT
*
24785063 TTTTATAATTTTT-T-ACTAT
1 TTTTATAATTTTTATAAAT-T
24785082 TTTTATAATTTTTAATAAATT
1 TTTTATAATTTTT-ATAAATT
*
24785103 TTTAAT-ATTTTTAT
1 TTTTATAATTTTTAT
24785117 TTTTTATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
18 2 0.03
19 16 0.27
20 12 0.20
21 15 0.25
22 12 0.20
23 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTATAAATT
Found at i:24785114 original size:29 final size:30
Alignment explanation
Indices: 24785052--24785116 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
24785042 TTTTATAAAA
* * * *
24785052 TTTTAGAATTTTTTTATAATTTTTTACTAT
1 TTTTATAATTTTTTAATAAATTTTTAATAT
24785082 TTTTATAA-TTTTTAATAAATTTTTAATAT
1 TTTTATAATTTTTTAATAAATTTTTAATAT
24785111 TTTTAT
1 TTTTAT
24785117 TTTTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (30 bp):
TTTTATAATTTTTTAATAAATTTTTAATAT
Found at i:24785140 original size:44 final size:45
Alignment explanation
Indices: 24785070--24785157 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 45
24785060 TTTTTTTATA
**
24785070 ATTTTTTACTATTTTTATAATTTTTAATAAATTTT-TAATATTTTT
1 ATTTTTTACTATTTTTATAAAATTTAATAAATTTTATAA-ATTTTT
24785115 ATTTTTTA-T-TTTTTATTAAAATTTAATAAATTTTATAAATTTT
1 ATTTTTTACTATTTTTA-TAAAATTTAATAAATTTTATAAATTTT
24785158 ATTGATTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 6 0.15
44 22 0.56
45 11 0.28
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (45 bp):
ATTTTTTACTATTTTTATAAAATTTAATAAATTTTATAAATTTTT
Found at i:24785525 original size:90 final size:91
Alignment explanation
Indices: 24785269--24785543 Score: 234
Period size: 90 Copynumber: 3.1 Consensus size: 91
24785259 GTCAAAGGGT
* * * *
24785269 TTTTTTTGATGCATTTTGACAG-TACAAGTATTC-AATTGAGTG-TAAAAAAA-ATCAAGGGCTT
1 TTTTTTT-ATGCATTTT-AAAGATTCAAGTACTCTAATTGAGTGAAAAAAAAAGAT-AAGGGCTT
** *
24785330 AATTGCTTGATTTGAAAAAGTTTGAGAGTC
63 AATTG-TTTTTTTGAAAAAGTTTAAGAGTC
* * *
24785360 TTTTTTTATGCATTTTAAATATTCAAGTACTCT-ATTGAGTGCAAAAAAAAAG---GGGGTTTAA
1 TTTTTTTATGCATTTTAAAGATTCAAGTACTCTAATTGAGTG-AAAAAAAAAGATAAGGGCTTAA
*
24785421 TTTCTTTTTTTTGAAAAAGTTTAAG-GTC
65 -TT-GTTTTTTTGAAAAAGTTTAAGAGTC
* *
24785449 TTTTTTGT-TGCATTTTGAAAGCTT-AAGTAC-CTAATTGAGTGAAAAAAAAAGATAAAGGCTTA
1 TTTTTT-TATGCATTTT-AAAGATTCAAGTACTCTAATTGAGTGAAAAAAAAAGATAAGGGCTTA
* *
24785511 ATTGTTTTTCTTGAAAAACTTTGAGAGT-
64 ATTGTTTTT-TTGAAAAAGTTTAAGAGTC
24785539 TTTTT
1 TTTTT
24785544 ATACTCTTAA
Statistics
Matches: 150, Mismatches: 19, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
88 12 0.08
89 45 0.30
90 71 0.47
91 15 0.10
92 7 0.05
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (91 bp):
TTTTTTTATGCATTTTAAAGATTCAAGTACTCTAATTGAGTGAAAAAAAAAGATAAGGGCTTAAT
TGTTTTTTTGAAAAAGTTTAAGAGTC
Found at i:24785934 original size:1 final size:1
Alignment explanation
Indices: 24785928--24785966 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
24785918 TACCTTTTCC
* *
24785928 TTTTTTTTCTTTTTTTTTCTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24785967 GAATTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:24785939 original size:9 final size:9
Alignment explanation
Indices: 24785922--24785966 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
24785912 TATTGTTACC
*
24785922 TTTTCCTTT
1 TTTTTCTTT
24785931 TTTTTCTTTT
1 TTTTTC-TTT
24785941 TTTTTCTTT
1 TTTTTCTTT
24785950 TTTTT-TTT
1 TTTTTCTTT
24785958 TTTTT-TTT
1 TTTTTCTTT
24785966 T
1 T
24785967 GAATTAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
8 12 0.35
9 13 0.38
10 9 0.26
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:24785964 original size:19 final size:19
Alignment explanation
Indices: 24785922--24785963 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
24785912 TATTGTTACC
*
24785922 TTTTCCTTTTTTTTCTTTT
1 TTTTTCTTTTTTTTCTTTT
24785941 TTTTTCTTTTTTTT-TTTT
1 TTTTTCTTTTTTTTCTTTT
24785959 TTTTT
1 TTTTT
24785964 TTTGAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (19 bp):
TTTTTCTTTTTTTTCTTTT
Found at i:24785965 original size:20 final size:20
Alignment explanation
Indices: 24785922--24785963 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
24785912 TATTGTTACC
24785922 TTTTCCTTTTTTTTCTTTTT
1 TTTTCCTTTTTTTTCTTTTT
24785942 TTTT-CTTTTTTTT-TTTTT
1 TTTTCCTTTTTTTTCTTTTT
24785960 TTTT
1 TTTT
24785964 TTTGAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
19 9 0.41
20 4 0.18
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (20 bp):
TTTTCCTTTTTTTTCTTTTT
Found at i:24785966 original size:10 final size:10
Alignment explanation
Indices: 24785922--24785964 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
24785912 TATTGTTACC
*
24785922 TTTTCCTTTT
1 TTTTCTTTTT
24785932 TTTTCTTTTT
1 TTTTCTTTTT
24785942 TTTTCTTTTT
1 TTTTCTTTTT
24785952 TTTT-TTTTT
1 TTTTCTTTTT
24785961 TTTT
1 TTTT
24785965 TTGAATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 9 0.28
10 23 0.72
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:24788764 original size:2 final size:2
Alignment explanation
Indices: 24788757--24788789 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24788747 TTAGTCATCA
24788757 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
24788790 TGTGTGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24790427 original size:16 final size:16
Alignment explanation
Indices: 24790406--24790457 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
24790396 TTTGGTTCGC
*
24790406 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
24790422 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
24790438 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
24790454 TGTA
1 TGTA
24790458 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24790715 original size:18 final size:17
Alignment explanation
Indices: 24790693--24790727 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24790683 TTATTATTAA
*
24790693 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24790711 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24790728 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24790786 original size:61 final size:61
Alignment explanation
Indices: 24790708--24791027 Score: 238
Period size: 61 Copynumber: 5.3 Consensus size: 61
24790698 TTTTAATTAA
* * *
24790708 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTGATATGAATTTACTCAAATAAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATAAT
* * * * * *
24790769 AATATATGATACTATAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTA-T-AATTAA-
1 AATATATAATACTATAAAATTCTTAA-TAA-TTAA-TATTATTATATGAAT-TTACTCAAATAAT
* *
24790828 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATAAT
* ** * * * *
24790889 AATATATGATACTATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATCTTAATTAA-
1 AATATATAATACTATAAAATTCTTAATAATT-A-AT-ATTATTATATGAATTTA-CTCAAATAAT
* * *
24790948 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATAAT
*
24791009 AATATATTATACTATAAAA
1 AATATATAATACTATAAAA
24791028 GATAATTTGA
Statistics
Matches: 196, Mismatches: 38, Indels: 50
0.69 0.13 0.18
Matches are distributed among these distances:
57 12 0.06
58 9 0.05
59 48 0.24
60 44 0.22
61 63 0.32
62 10 0.05
63 10 0.05
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATACTATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATAAT
Found at i:24790841 original size:14 final size:15
Alignment explanation
Indices: 24790792--24790843 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24790782 ATAAAATATA
24790792 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24790807 TATTAAATATATTAT
1 AATTAAATATATTAT
24790822 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24790835 AATTTAATA
1 AATTAAATA
24790844 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:24791099 original size:120 final size:120
Alignment explanation
Indices: 24790679--24791088 Score: 714
Period size: 120 Copynumber: 3.4 Consensus size: 120
24790669 ATATTTAAAT
24790679 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* * * *
24790744 TCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
24790799 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
24790864 TATTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
24790919 ATAATTATTATTAAATATATCTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
24790984 TCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTGAA-
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT-AAC
* *
24791039 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
24791089 TAAAATAATT
Statistics
Matches: 276, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 274 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
Found at i:24791192 original size:35 final size:37
Alignment explanation
Indices: 24791127--24791206 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
24791117 TAAGTGAGTA
24791127 AGAATTGAACTCTAAAAATAAAAAAAAACATAACCATAT
1 AGAATTGAACTCT--AAATAAAAAAAAACATAACCATAT
24791166 AGAATTGAACTCT-AA-AAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAATAAAAAAAAACATAACCATAT
*
24791201 TGAATT
1 AGAATT
24791207 ATCATCAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 25 0.62
36 2 0.05
39 13 0.32
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.23
Consensus pattern (37 bp):
AGAATTGAACTCTAAATAAAAAAAAACATAACCATAT
Found at i:24795456 original size:18 final size:18
Alignment explanation
Indices: 24795420--24795458 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24795410 GAAAAAGTTA
*
24795420 TTAGGCTAAAAAATGAGC
1 TTAGGCTAAAAAATAAGC
24795438 TTAGG-TAAAAAATTAAGC
1 TTAGGCTAAAAAA-TAAGC
24795456 TTA
1 TTA
24795459 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (18 bp):
TTAGGCTAAAAAATAAGC
Found at i:24798957 original size:26 final size:26
Alignment explanation
Indices: 24798927--24798992 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
24798917 TCAATAATGC
*
24798927 TCACACGAGTTGTGAAATAAGCCTAT
1 TCACACGAGCTGTGAAATAAGCCTAT
* *
24798953 TCACACGAGCTGTGGAATAAGCCTAC
1 TCACACGAGCTGTGAAATAAGCCTAT
* *
24798979 TCATACCAGCTGTG
1 TCACACGAGCTGTG
24798993 GGTCGGAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (26 bp):
TCACACGAGCTGTGAAATAAGCCTAT
Found at i:24812799 original size:11 final size:11
Alignment explanation
Indices: 24812783--24812815 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
24812773 AGTCCCGAAT
24812783 TGTTTCTAAAG
1 TGTTTCTAAAG
24812794 TGTTTCTAAAG
1 TGTTTCTAAAG
24812805 TGTTTCTAAAG
1 TGTTTCTAAAG
24812816 CCTTGAGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (11 bp):
TGTTTCTAAAG
Found at i:24814102 original size:19 final size:19
Alignment explanation
Indices: 24814078--24814117 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24814068 TAAACAAAAA
24814078 TGCTCCAACACACTAAAGG
1 TGCTCCAACACACTAAAGG
24814097 TGCTCCAACACACTAAAGG
1 TGCTCCAACACACTAAAGG
24814116 TG
1 TG
24814118 TTGGTAGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (19 bp):
TGCTCCAACACACTAAAGG
Found at i:24816847 original size:22 final size:23
Alignment explanation
Indices: 24816816--24816858 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24816806 TTATAAGTAT
*
24816816 AAAAAGTTAATAAAT-TTTTTAA
1 AAAAAATTAATAAATCTTTTTAA
*
24816838 AAAAAATTAATTAATCTTTTT
1 AAAAAATTAATAAATCTTTTT
24816859 CACTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
AAAAAATTAATAAATCTTTTTAA
Found at i:24817063 original size:18 final size:20
Alignment explanation
Indices: 24817036--24817074 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
24817026 TTTTTTACTA
24817036 AAAAATATAAAT-AAATTAT
1 AAAAATATAAATAAAATTAT
24817055 AAAAA-ATAAATAAAATTAT
1 AAAAATATAAATAAAATTAT
24817074 A
1 A
24817075 TTGAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAATATAAATAAAATTAT
Found at i:24817236 original size:21 final size:21
Alignment explanation
Indices: 24817182--24817236 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
24817172 ATAAATTATG
*
24817182 AAAATTTTATAAAAATAATAA
1 AAAATTATATAAAAATAATAA
* *
24817203 AAAA-CATATTAAAAATATTAA
1 AAAATTATA-TAAAAATAATAA
24817224 AAAATTATATAAA
1 AAAATTATATAAA
24817237 CTTACAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.82
22 3 0.11
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATTATATAAAAATAATAA
Found at i:24817367 original size:27 final size:25
Alignment explanation
Indices: 24817301--24817368 Score: 64
Period size: 27 Copynumber: 2.6 Consensus size: 25
24817291 AATATAATTT
*
24817301 TTTAAAAATTATACATTATTAAAAA
1 TTTAAAAATTAAACATTATTAAAAA
** *
24817326 AATAAAATCAGTAAACATTTATTACAAAA
1 TTTAAAA--ATTAAACA-TTATTA-AAAA
24817355 TTTAAAAATTAAAC
1 TTTAAAAATTAAAC
24817369 CCTTAAAATC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
25 5 0.16
27 12 0.38
28 6 0.19
29 9 0.28
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.34
Consensus pattern (25 bp):
TTTAAAAATTAAACATTATTAAAAA
Found at i:24817736 original size:17 final size:17
Alignment explanation
Indices: 24817714--24817748 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24817704 AATACATATG
24817714 TATATATAT-GTTGAGTA
1 TATATATATAG-TGAGTA
24817731 TATATATATAGTGAGTA
1 TATATATATAGTGAGTA
24817748 T
1 T
24817749 TTGGTAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (17 bp):
TATATATATAGTGAGTA
Found at i:24830767 original size:27 final size:27
Alignment explanation
Indices: 24830717--24830819 Score: 89
Period size: 28 Copynumber: 3.7 Consensus size: 27
24830707 TATTCTTGGT
* ** *
24830717 AGATACCCTCATTGATAATACTTTTGC
1 AGATACCCTTATTGATCTTGCTTTTGC
*
24830744 ATATACCCTTATTGATCTTGCTTTTGGC
1 AGATACCCTTATTGATCTTGCTTTT-GC
* * *
24830772 GGATACCCTTACTAATCTTGCTTTTGGC
1 AGATACCCTTATTGATCTTGCTTTT-GC
* **
24830800 GGATACCCTTAACGATCTTG
1 AGATACCCTTATTGATCTTG
24830820 ATAAATTGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 20 0.32
28 43 0.68
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (27 bp):
AGATACCCTTATTGATCTTGCTTTTGC
Found at i:24830789 original size:28 final size:28
Alignment explanation
Indices: 24830746--24830810 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
24830736 ACTTTTGCAT
* *
24830746 ATACCCTTATTGATCTTGCTTTTGGCGG
1 ATACCCTTACTAATCTTGCTTTTGGCGG
24830774 ATACCCTTACTAATCTTGCTTTTGGCGG
1 ATACCCTTACTAATCTTGCTTTTGGCGG
24830802 ATACCCTTA
1 ATACCCTTA
24830811 ACGATCTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (28 bp):
ATACCCTTACTAATCTTGCTTTTGGCGG
Found at i:24830817 original size:28 final size:28
Alignment explanation
Indices: 24830746--24830819 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
24830736 ACTTTTGCAT
**
24830746 ATACCCTTATTGATCTTGCTTTTGGCGG
1 ATACCCTTAACGATCTTGCTTTTGGCGG
*
24830774 ATACCCTT-ACTAATCTTGCTTTTGGCGG
1 ATACCCTTAAC-GATCTTGCTTTTGGCGG
24830802 ATACCCTTAACGATCTTG
1 ATACCCTTAACGATCTTG
24830820 ATAAATTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (28 bp):
ATACCCTTAACGATCTTGCTTTTGGCGG
Found at i:24831397 original size:24 final size:24
Alignment explanation
Indices: 24831361--24831411 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
24831351 AGAATGTCGA
*
24831361 AAAGACCATATCA-AGATAAGCCAT
1 AAAGACCAAATCAGAG-TAAGCCAT
* *
24831385 AAAGGCCAAATCAGAGTACGCCAT
1 AAAGACCAAATCAGAGTAAGCCAT
24831409 AAA
1 AAA
24831412 AGCTAGCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.14
Consensus pattern (24 bp):
AAAGACCAAATCAGAGTAAGCCAT
Found at i:24834199 original size:61 final size:61
Alignment explanation
Indices: 24834117--24834277 Score: 207
Period size: 61 Copynumber: 2.6 Consensus size: 61
24834107 ACAAAGGTTA
* * * * * *
24834117 CCATGAAGGCTTACCCT-TCCAGAGTTCTGCCACAAAGGCGTTTCTTTACATTTAGTACTTG
1 CCATAAAGGCTT-TCCTGTCCAGAGTTTTGCCACAAAGGCGTTGCTTTACATTTAATACTCG
* *
24834178 CCATAAAGGCTTTCCTGTCCAGAGTTTTGGCACAAAGGTGTTGCTTTACATTTAATACTCG
1 CCATAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAGGCGTTGCTTTACATTTAATACTCG
* * *
24834239 CCTTAAAGGCTTTCTTGTCTAGAGTTTTGCCACAAAGGC
1 CCATAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAGGC
24834278 ATTCTTTTAC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 3 0.03
61 83 0.97
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (61 bp):
CCATAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAGGCGTTGCTTTACATTTAATACTCG
Found at i:24834976 original size:28 final size:28
Alignment explanation
Indices: 24834928--24835060 Score: 140
Period size: 28 Copynumber: 4.8 Consensus size: 28
24834918 AACACTATTC
* *
24834928 TTGGCAGATACCTTTATTGATCATACTT
1 TTGGCAGATACCCTTACTGATCATACTT
* *
24834956 TTGGCGGATACCCTTACTGATCAAACTT
1 TTGGCAGATACCCTTACTGATCATACTT
* * * *
24834984 TTGACAGATACCCTTACTGGTCTTGCTT
1 TTGGCAGATACCCTTACTGATCATACTT
* * * * *
24835012 TTGGTAGATGCCCTTATTGATCTTGCTT
1 TTGGCAGATACCCTTACTGATCATACTT
*
24835040 TTGGCGGATACCCTTACTGAT
1 TTGGCAGATACCCTTACTGAT
24835061 ATTAATAAAT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (28 bp):
TTGGCAGATACCCTTACTGATCATACTT
Found at i:24835564 original size:32 final size:33
Alignment explanation
Indices: 24835522--24835598 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
24835512 AGAGCATGCC
* * *
24835522 ACAAAGGCCATATCAGAAT-ACCATAGAGGCTA
1 ACAAATGCCATATCAAAATAACCATAAAGGCTA
24835554 ACAAATGCCATATCAAAATACACCATAAAGGCTA
1 ACAAATGCCATATCAAAATA-ACCATAAAGGCTA
*
24835588 GCAAAATGCCA
1 AC-AAATGCCA
24835599 CCCAGGAGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 17 0.45
34 13 0.34
35 8 0.21
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.16
Consensus pattern (33 bp):
ACAAATGCCATATCAAAATAACCATAAAGGCTA
Found at i:24840945 original size:18 final size:19
Alignment explanation
Indices: 24840900--24840950 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
24840890 CTTTTAAAAA
24840900 TATATCGATACC-TATTGAAT
1 TATATCGATACCATATT--AT
*
24840920 TTTATCGATACCATATT-T
1 TATATCGATACCATATTAT
24840938 TATATCGATACCA
1 TATATCGATACCA
24840951 GTTTTGTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.46
20 11 0.39
21 4 0.14
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (19 bp):
TATATCGATACCATATTAT
Found at i:24844144 original size:50 final size:50
Alignment explanation
Indices: 24844037--24844251 Score: 260
Period size: 50 Copynumber: 4.4 Consensus size: 50
24844027 GTGCCTAGAA
* * * * *
24844037 ATGGTCTTACACTGGCACTCATC--TC-GAGTCGATGCCATGTCCCATAC
1 ATGGTCTTACACTAGCACTCCTCAGTCTGTGCCGATGCCATGTCCCAGAC
* * * * *
24844084 ATGGTCTTACACT-G-ACTCTTCTCTGTCCGTGCCAATGTCATGCCCCAGAC
1 ATGGTCTTACACTAGCACTC--CTCAGTCTGTGCCGATGCCATGTCCCAGAC
*
24844134 ATGGTCTTACACTAGCACTCCTCAGTCTGTGCTGATGCCATGTCCCAGAC
1 ATGGTCTTACACTAGCACTCCTCAGTCTGTGCCGATGCCATGTCCCAGAC
*
24844184 ATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTAGCACTCCTCAGTCTGTGCCGATGCCATGTCCCAGAC
*
24844234 ATGGTCTTACACTGGCAC
1 ATGGTCTTACACTAGCAC
24844252 ACTTATTGCC
Statistics
Matches: 145, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
45 4 0.03
46 1 0.01
47 15 0.10
49 2 0.01
50 118 0.81
51 1 0.01
52 4 0.03
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACACTAGCACTCCTCAGTCTGTGCCGATGCCATGTCCCAGAC
Found at i:24847177 original size:23 final size:24
Alignment explanation
Indices: 24847151--24847202 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
24847141 ATTTCAAATG
* *
24847151 TTTTGACTTTGTTTTTGAGTCAC-
1 TTTTGACTTTGCTTTTGAGTAACA
*
24847174 TTTTCACTTTGCTTTTGAGTAACA
1 TTTTGACTTTGCTTTTGAGTAACA
24847198 TTTTG
1 TTTTG
24847203 CTACACCTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (24 bp):
TTTTGACTTTGCTTTTGAGTAACA
Found at i:24848051 original size:48 final size:49
Alignment explanation
Indices: 24847987--24848082 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 49
24847977 AAAATAGAAC
24847987 ACACATATATATAAATCTATTGTTAATCTTACTCCT-AAAAGAAAAAAA
1 ACACATATATATAAATCTATTGTTAATCTTACTCCTAAAAAGAAAAAAA
24848035 ACACATATATATAAATCTATTGTTAATCTTACTCCTAAAAAGAAAAAA
1 ACACATATATATAAATCTATTGTTAATCTTACTCCTAAAAAGAAAAAA
24848083 TAAAAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 36 0.77
49 11 0.23
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (49 bp):
ACACATATATATAAATCTATTGTTAATCTTACTCCTAAAAAGAAAAAAA
Found at i:24854452 original size:64 final size:62
Alignment explanation
Indices: 24854333--24854452 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 62
24854323 CTTACCATAA
* *
24854333 ATCCTTTTCAATAAACCTTTTCATATGTTAACCTTTTTAAGGAAACAACCTTTTCATTTGAT
1 ATCCGTTTCAATAAACCTTTTCATATGTTAACCTTTTTAAGGAAACAACCGTTTCATTTGAT
* * *
24854395 ATCCGTTTCGAATATAACCTTTTCATATGTTAA-CTCTTTTAGGGTAACAATCGTTTCA
1 ATCCGTTTC-AATA-AACCTTTTCATATGTTAACCT-TTTTAAGGAAACAACCGTTTCA
24854453 ACCTTTTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 8 0.16
63 6 0.12
64 36 0.72
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.42
Consensus pattern (62 bp):
ATCCGTTTCAATAAACCTTTTCATATGTTAACCTTTTTAAGGAAACAACCGTTTCATTTGAT
Found at i:24854855 original size:31 final size:31
Alignment explanation
Indices: 24854820--24854879 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
24854810 TTTCTATTAA
*
24854820 TTACAAATTT-ACCCTTAACATTATAACTTTT
1 TTAC-AATTTAACCCTTAACATCATAACTTTT
* *
24854851 TTACAATTTAATCCTTAAGATCATAACTT
1 TTACAATTTAACCCTTAACATCATAACTT
24854880 GCAAATTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.37, C:0.18, G:0.02, T:0.43
Consensus pattern (31 bp):
TTACAATTTAACCCTTAACATCATAACTTTT
Found at i:24856802 original size:20 final size:20
Alignment explanation
Indices: 24856761--24856845 Score: 82
Period size: 20 Copynumber: 4.3 Consensus size: 20
24856751 AGGCACGATT
* **
24856761 GTGCAATCAGAGGTGCCGAA
1 GTGCAAACAGAGGCACCGAA
* *
24856781 GTGCAAACAGAGACACCCAA
1 GTGCAAACAGAGGCACCGAA
* *
24856801 GTG-TAATAGAGGCACCGAA
1 GTGCAAACAGAGGCACCGAA
* *
24856820 GTGTAAACAGAGGCATCGAA
1 GTGCAAACAGAGGCACCGAA
24856840 GTGCAA
1 GTGCAA
24856846 TCCCCTACAA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 15 0.29
20 36 0.71
ACGTcount: A:0.38, C:0.20, G:0.29, T:0.13
Consensus pattern (20 bp):
GTGCAAACAGAGGCACCGAA
Found at i:24856816 original size:19 final size:19
Alignment explanation
Indices: 24856789--24856825 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24856779 AAGTGCAAAC
24856789 AGAGACACCCAAGTGTAAT
1 AGAGACACCCAAGTGTAAT
* *
24856808 AGAGGCACCGAAGTGTAA
1 AGAGACACCCAAGTGTAA
24856826 ACAGAGGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (19 bp):
AGAGACACCCAAGTGTAAT
Found at i:24862891 original size:20 final size:20
Alignment explanation
Indices: 24862866--24862971 Score: 99
Period size: 20 Copynumber: 5.3 Consensus size: 20
24862856 GATGAGTAAT
*
24862866 AGAGGCACCGAAGTTCAAAC
1 AGAGGCACCGAAGTGCAAAC
* *
24862886 AGAGGCA-CGATTGTGCAATC
1 AGAGGCACCGA-AGTGCAAAC
* * *
24862906 AGAGGTATCGAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAC
* * *
24862926 AAAGGCACCAAAGTG-TAAC
1 AGAGGCACCGAAGTGCAAAC
*
24862945 AGAGGCACCGAAATGCAAAC
1 AGAGGCACCGAAGTGCAAAC
24862965 AGAGGCA
1 AGAGGCA
24862972 TGAAAGTGCA
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
19 17 0.26
20 46 0.70
21 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.12
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:24872570 original size:27 final size:27
Alignment explanation
Indices: 24872540--24872598 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
24872530 AAATGAATTC
*
24872540 CTTTTAGAGTTTGCCAAAAAGGCTATT
1 CTTTCAGAGTTTGCCAAAAAGGCTATT
*
24872567 CTTTCAGAGTTTGCCACAAAGGCTATT
1 CTTTCAGAGTTTGCCAAAAAGGCTATT
24872594 CTTTC
1 CTTTC
24872599 CTTACGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
CTTTCAGAGTTTGCCAAAAAGGCTATT
Found at i:24876649 original size:24 final size:24
Alignment explanation
Indices: 24876604--24876649 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
24876594 AATTCGTGAC
* ** *
24876604 TTAATTAGTTTAGTAATTATTTTT
1 TTAATTACTTTAACAATAATTTTT
24876628 TTAATTACTTTAACAATAATTT
1 TTAATTACTTTAACAATAATTT
24876650 ATTCAATTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TTAATTACTTTAACAATAATTTTT
Found at i:24879004 original size:21 final size:21
Alignment explanation
Indices: 24878978--24879020 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24878968 GATGGTTGTT
*
24878978 ATATACTTATAACAACACTTG
1 ATATACTTATAAAAACACTTG
* *
24878999 ATATACTTCTAAAAACATTTG
1 ATATACTTATAAAAACACTTG
24879020 A
1 A
24879021 GATTTAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (21 bp):
ATATACTTATAAAAACACTTG
Found at i:24880890 original size:29 final size:29
Alignment explanation
Indices: 24880851--24880908 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
24880841 ATTGAAGGCA
24880851 ACATTTTTCAGACAGCAATGACCAAAAAC
1 ACATTTTTCAGACAGCAATGACCAAAAAC
24880880 ACATTTTTCAGACAGCAATGACCAAAAAC
1 ACATTTTTCAGACAGCAATGACCAAAAAC
24880909 TGTGAGATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (29 bp):
ACATTTTTCAGACAGCAATGACCAAAAAC
Found at i:24908594 original size:21 final size:21
Alignment explanation
Indices: 24908570--24908614 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24908560 GTCATAATTC
*
24908570 CCACCCA-ATCCAACCAATACA
1 CCACCCATA-CCAACCAACACA
*
24908591 CCACCCGTACCAACCAACACA
1 CCACCCATACCAACCAACACA
24908612 CCA
1 CCA
24908615 TGTGGGGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.51, G:0.02, T:0.07
Consensus pattern (21 bp):
CCACCCATACCAACCAACACA
Found at i:24910578 original size:49 final size:49
Alignment explanation
Indices: 24910404--24911041 Score: 974
Period size: 49 Copynumber: 13.4 Consensus size: 49
24910394 CCCTTTGGGA
* * * * *
24910404 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24910451 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24910498 CTTA-C-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24910545 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24910594 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24910641 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24910690 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24910739 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24910788 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24910835 CTTATCACTTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24910884 CTTATCACATATATATACACTTTCACATTCAT--C-T----CATT-GGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24910925 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24910974 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24911021 CTTATCACATATATATACACT
1 CTTATCACATATATATACACT
24911042 CACATCACAA
Statistics
Matches: 548, Mismatches: 23, Indels: 38
0.90 0.04 0.06
Matches are distributed among these distances:
41 35 0.06
42 4 0.01
43 1 0.00
44 1 0.00
45 1 0.00
46 3 0.01
47 217 0.40
48 5 0.01
49 281 0.51
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24910603 original size:96 final size:96
Alignment explanation
Indices: 24910404--24911041 Score: 999
Period size: 96 Copynumber: 6.7 Consensus size: 96
24910394 CCCTTTGGGA
* * * * * * * *
24910404 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
24910467 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
24910498 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
24910563 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
24910594 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
24910659 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
24910690 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
24910755 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
24910788 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
24910853 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
24910884 CTTATCACATATATATACACTTTCACATTCAT--C-T----CATT-GGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
24910941 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
24910974 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
24911039 ACT
66 ACT
24911042 CACATCACAA
Statistics
Matches: 502, Mismatches: 28, Indels: 26
0.90 0.05 0.05
Matches are distributed among these distances:
88 22 0.04
90 58 0.12
91 5 0.01
94 46 0.09
95 5 0.01
96 253 0.50
98 113 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24910911 original size:18 final size:18
Alignment explanation
Indices: 24910888--24910952 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
24910878 TTAGGCCTTA
24910888 TCACATATATATACACTT
1 TCACATATATATACACTT
* *
24910906 TCACATTCATCTCATTGGC-CTT
1 TCACA-T-ATAT-A-T-ACACTT
24910928 ATCACATATATATACACTT
1 -TCACATATATATACACTT
24910947 TCACAT
1 TCACAT
24910953 TCATCACATT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
18 12 0.33
19 5 0.14
20 4 0.11
21 4 0.11
22 5 0.14
23 6 0.17
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (18 bp):
TCACATATATATACACTT
Found at i:24911097 original size:194 final size:189
Alignment explanation
Indices: 24910535--24911100 Score: 703
Period size: 194 Copynumber: 3.0 Consensus size: 189
24910525 CATCACATCG
24910535 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
*
24910600 ACATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATATACACTTTC
66 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC--TC
*** *
24910665 ACATTCATCACATCGGCCAT-TA-GGCCTTATCACATATA-TATACACTT-T-CACATTCATCAC
129 ACA-TCA-CA-ATTATCCATATACGGCCATATCACATATACTAT-CA-TTATACAC-TT--TCAC
*
24910725 ATTG
186 ATTA
*
24910729 GCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
*
24910794 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTATATATACACT---
66 ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTCAC
* * * *
24910856 TTCAC-ATTCAT-CACAT-CGGCCATTAGGC-CTTATCAC-AT-ATATATACACTTTCACATTCA
131 ATCACAATT-ATCCATATACGGCCA-TA-TCACATAT-ACTATCAT-TATACACTTTCACATT-A
*
24910915 TCTCATT-GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 GC-CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT
24910979 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTCA
65 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTCA
**
24911044 CATCACAATTATCCAAATATACTTCACATATCACATATACTATCATGTATACACTTT
130 CATCACAATTATCC--ATATACGGC-CATATCACATATACTATCAT-TATACACTTT
24911101 GTCTTGGCAG
Statistics
Matches: 327, Mismatches: 21, Indels: 48
0.83 0.05 0.12
Matches are distributed among these distances:
185 12 0.04
186 127 0.39
187 14 0.04
188 10 0.03
189 6 0.02
190 4 0.01
192 7 0.02
193 10 0.03
194 137 0.42
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (189 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTCAC
ATCACAATTATCCATATACGGCCATATCACATATACTATCATTATACACTTTCACATTA
Found at i:24914266 original size:27 final size:27
Alignment explanation
Indices: 24913861--24914266 Score: 392
Period size: 27 Copynumber: 15.1 Consensus size: 27
24913851 AGGGGCATAA
24913861 CAGTCATTTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
* * * *
24913888 CAATCATTTTCCCCTTTAAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
24913915 CGGTTATTCTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
** * *
24913942 TGGTTATTCTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
24913969 C-GCTCATTCTACCCTATGAGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
*
24913996 TAGTCATTTTACCCTATTG-GGGTATTT
1 CAGTCATTTTACCCTA-TGAGGGTATTT
** *
24914023 TGGTTATTTTACCCTAT-AGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
**
24914050 TGGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
**
24914077 TGGTCATTTTACCCTATTG-GGGTATTT
1 CAGTCATTTTACCCTA-TGAGGGTATTT
* * *
24914104 CAGTCATGTTAACCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* ** *
24914131 CGGTCATTTTACCCTACAAGGATATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
** *
24914158 CAGTCATTTTACCCTACAAGAGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
** * *
24914185 TGGTCATTTTACTCTACG-GGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
24914211 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
24914238 CAGCCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
24914265 CA
1 CA
24914267 TGTTAGAGTA
Statistics
Matches: 325, Mismatches: 44, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
26 25 0.08
27 293 0.90
28 7 0.02
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:24915825 original size:27 final size:27
Alignment explanation
Indices: 24915761--24915827 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
24915751 GCGTTCCAAC
24915761 ATTTCGGTCATTTTACCCTATAGAGGT
1 ATTTCGGTCATTTTACCCTATAGAGGT
** * *
24915788 ATTTCCATCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATAGAGGT
*
24915815 ATTTTGGTCATTT
1 ATTTCGGTCATTT
24915828 GACCTATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTATAGAGGT
Found at i:24917559 original size:21 final size:21
Alignment explanation
Indices: 24917535--24917576 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
24917525 GAAGTTAAAA
24917535 TGTTTTAATTTCACA-TTAATT
1 TGTTTTAATTTC-CATTTAATT
24917556 TGTTTTAATTTCCATTTAATT
1 TGTTTTAATTTCCATTTAATT
24917577 ACAAAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (21 bp):
TGTTTTAATTTCCATTTAATT
Found at i:24923190 original size:21 final size:21
Alignment explanation
Indices: 24923151--24923190 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24923141 ATTATATAGA
*
24923151 TTAAAAATTACAATTATTTTT
1 TTAAAAATTACAATGATTTTT
* *
24923172 TTAAAATTTATAATGATTT
1 TTAAAAATTACAATGATTT
24923191 ATCAAATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
TTAAAAATTACAATGATTTTT
Found at i:24923921 original size:8 final size:8
Alignment explanation
Indices: 24923893--24923927 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
24923883 ATATATACTA
24923893 AATAAAAT
1 AATAAAAT
24923901 AATAATAACT
1 AATAA-AA-T
24923911 AATAAAAT
1 AATAAAAT
24923919 AATAAAAT
1 AATAAAAT
24923927 A
1 A
24923928 TCATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 15 0.60
9 4 0.16
10 6 0.24
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAAAAT
Found at i:24924519 original size:16 final size:18
Alignment explanation
Indices: 24924486--24924526 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
24924476 ACATAAATTC
24924486 AAAA-AACGAAACACCTA
1 AAAATAACGAAACACCTA
24924503 AAAATAACG-AACA-CTA
1 AAAATAACGAAACACCTA
24924519 AAAATAAC
1 AAAATAAC
24924527 AGTCCTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.66, C:0.20, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAATAACGAAACACCTA
Found at i:24929960 original size:46 final size:46
Alignment explanation
Indices: 24929882--24929969 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
24929872 AAAAGTGTAG
* * * *
24929882 TGTGGGCCTTAGCCCATTACAATATTAGAATCAGAAATAGAATAGA
1 TGTGGGCCTAAGCCCAATACAATATCAAAATCAGAAATAGAATAGA
*
24929928 TGTGGGCCTAAGCCCAATACAATGA-CAAAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCAATACAAT-ATCAAAATCAGAAATAGAA
24929970 ATGCAACAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
46 35 0.97
47 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCAATACAATATCAAAATCAGAAATAGAATAGA
Found at i:24930271 original size:32 final size:32
Alignment explanation
Indices: 24930185--24930354 Score: 193
Period size: 32 Copynumber: 5.4 Consensus size: 32
24930175 GAATGACTAC
* * * *
24930185 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
* * **
24930216 AAGCCATCAGTAGCAGTGGTATGATCGACACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
* *
24930248 CAA-CCATCAGTAACGGTAATATGATTGGCACA
1 -AAGCCATCAGTAACGGTAATATGATCGACACA
* * *
24930280 AAGCCATCAGTTACGATAATATGATCG-GACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
24930311 AAGCCATCAGTAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACGGTAATATGATCGACACA
24930343 AAGCCATCAGTA
1 AAGCCATCAGTA
24930355 GCATCACAGT
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
31 40 0.34
32 74 0.64
33 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGACACA
Found at i:24930350 original size:63 final size:64
Alignment explanation
Indices: 24930183--24930357 Score: 218
Period size: 63 Copynumber: 2.8 Consensus size: 64
24930173 CAGAATGACT
* * **
24930183 ACAAGCCATAAGT-ACAGTAATATGATTGGCACAAAGCCATCAG-TAGCAGTGGTATGATCGAC
1 ACAAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTTAGCAGTAATATGATCGAC
*
24930245 ACACAACCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTTA-C-GATAATATGATCGG
1 ACA-AGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTTAGCAG-TAATATGATC-G
24930308 AC
63 AC
* *
24930310 A-AAGCCATCAGTAACGGTAATATGATCGACACAAAGCCATCAG-TAGCA
1 ACAAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTTAGCA
24930358 TCACAGTAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
62 5 0.05
63 48 0.49
64 39 0.40
65 6 0.06
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (64 bp):
ACAAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTTAGCAGTAATATGATCGAC
Found at i:24930427 original size:27 final size:26
Alignment explanation
Indices: 24930392--24930457 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
24930382 TATCGCCGCA
*
24930392 AAGCTACCAGTAATAGT-ATATGTGGCC
1 AAGCCACCAGTAATAGTGAT-TGTGG-C
*
24930419 AAGCCACCAGTAATAGTGATTGTGGT
1 AAGCCACCAGTAATAGTGATTGTGGC
24930445 AGAGCCACCAGTA
1 A-AGCCACCAGTA
24930458 CAATACTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.91
28 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (26 bp):
AAGCCACCAGTAATAGTGATTGTGGC
Found at i:24930610 original size:24 final size:24
Alignment explanation
Indices: 24930526--24930607 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
24930516 CCATGCTCAG
24930526 AATCAGTCATATAAATCACAGACA
1 AATCAGTCATATAAATCACAGACA
** * * *
24930550 AATCAGTCATACCATTCATAAACA
1 AATCAGTCATATAAATCACAGACA
* *
24930574 AATCTGTCATTTAAATCACAGACA
1 AATCAGTCATATAAATCACAGACA
*
24930598 AATCAATCAT
1 AATCAGTCAT
24930608 TTACACTCGA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (24 bp):
AATCAGTCATATAAATCACAGACA
Found at i:24930678 original size:27 final size:27
Alignment explanation
Indices: 24930659--24931098 Score: 405
Period size: 27 Copynumber: 16.4 Consensus size: 27
24930649 TATTACAGTA
* *
24930659 ATTTTACCTTATAGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* * * *
24930686 ATTTAACCCTATAGAGGTA-TTAGATC
1 ATTTTACCCTATAGGGGTATTTCGGTC
*
24930712 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* **
24930739 ATTTTACCCTAT-TGGGTATTTTTGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* * *
24930765 ATTTTATCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* * *
24930792 ATTTTATCCTATGGGGGTATTTCAGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
*
24930819 ATTTTACCTTATAGGGGTATTTCGG-C
1 ATTTTACCCTATAGGGGTATTTCGGTC
* ***
24930845 AATTCTACCCTAT-GAGGGTATTTTTATC
1 -ATTTTACCCTATAG-GGGTATTTCGGTC
*
24930873 ATTTTACCCTAT-GAGGGTATTTCAGTC
1 ATTTTACCCTATAG-GGGTATTTCGGTC
* * *
24930900 ATTTTACCTTATTGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* *
24930927 ATTTTACCCTATGGGGGTA-TTCTAGTC
1 ATTTTACCCTATAGGGGTATTTC-GGTC
* *
24930954 ATTTTATCTTATAGGGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
*
24930981 ATTTTACCCTAT-GGTGGTATTAT-GGTT
1 ATTTTACCCTATAGG-GGTATT-TCGGTC
*
24931008 ATTCTACCCTATCA-GGGTATTTCGGTC
1 ATTTTACCCTAT-AGGGGTATTTCGGTC
* * *
24931035 ATTCTACCCTATAGGGGTATTTTGGTA
1 ATTTTACCCTATAGGGGTATTTCGGTC
* * *
24931062 ATTTTACCCT-TCGGGGGTATTTCGATA
1 ATTTTACCCTAT-AGGGGTATTTCGGTC
24931089 ATTTTACCCT
1 ATTTTACCCT
24931099 TCGGAGGTAT
Statistics
Matches: 345, Mismatches: 53, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
26 52 0.15
27 286 0.83
28 7 0.02
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGGTC
Found at i:24931894 original size:4 final size:4
Alignment explanation
Indices: 24931885--24931945 Score: 63
Period size: 4 Copynumber: 15.2 Consensus size: 4
24931875 TATTGTTAGT
* * *
24931885 TTTA TTTA TTTA TTT- GTTA TTAA TCTTA TTTA TTTA TTT- GTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA
24931933 TTTA TTTA TTTA T
1 TTTA TTTA TTTA T
24931946 GTTTTGTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 4 0.09
4 37 0.79
5 6 0.13
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:24931895 original size:24 final size:21
Alignment explanation
Indices: 24931870--24931948 Score: 81
Period size: 24 Copynumber: 3.5 Consensus size: 21
24931860 TTTTACCCAT
24931870 TTTATTATTGTTAGTTTTATTTA
1 TTTATT-TTGTTA-TTTTATTTA
24931893 TTTA-TTTGTTATTAATCTTATTTA
1 TTTATTTTGTTA-T--T-TTATTTA
24931917 TTTA-TTTGTTATTTTATTTA
1 TTTATTTTGTTATTTTATTTA
24931937 TTTATTTATGTT
1 TTTATTT-TGTT
24931949 TTGTTTTCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 11
0.81 0.02 0.18
Matches are distributed among these distances:
20 11 0.22
21 10 0.20
22 5 0.10
23 6 0.12
24 18 0.36
ACGTcount: A:0.22, C:0.01, G:0.06, T:0.71
Consensus pattern (21 bp):
TTTATTTTGTTATTTTATTTA
Found at i:24931897 original size:20 final size:20
Alignment explanation
Indices: 24931877--24931943 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 20
24931867 CATTTTATTA
24931877 TTGTTAGTTTTATTTATTTAT
1 TTGTTA-TTTTATTTATTTAT
24931898 TTGTTATTAATCTTATTTATTTAT
1 TTGTTA-T--T-TTATTTATTTAT
24931922 TTGTTATTTTATTTATTTAT
1 TTGTTATTTTATTTATTTAT
24931942 TT
1 TT
24931944 ATGTTTTGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
20 14 0.33
21 8 0.19
23 2 0.05
24 18 0.43
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.72
Consensus pattern (20 bp):
TTGTTATTTTATTTATTTAT
Found at i:24931955 original size:24 final size:25
Alignment explanation
Indices: 24931886--24931964 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 25
24931876 ATTGTTAGTT
24931886 TTATTTATTTA--TTTGTTATTAATC
1 TTATTTATTTATTTTTGTT-TTAATC
*
24931910 TTATTTATTTATTTGTTATTTT-AT-
1 TTATTTATTTATTT-TTGTTTTAATC
**
24931934 TTATTTATTTATGTTTTGTTTTCTTC
1 TTATTTATTTAT-TTTTGTTTTAATC
24931960 TTATT
1 TTATT
24931965 CTTTTTAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 29 0.63
25 5 0.11
26 8 0.17
27 4 0.09
ACGTcount: A:0.19, C:0.04, G:0.05, T:0.72
Consensus pattern (25 bp):
TTATTTATTTATTTTTGTTTTAATC
Found at i:24933664 original size:6 final size:6
Alignment explanation
Indices: 24933653--24933708 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
24933643 TAAGTTTATT
* * * * *
24933653 TTTTTA TTTTTA TTTGTTC TTTTTA -TTTTA TGTTTA TGTTTA TTGTTC
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
24933701 TTTTTA TT
1 TTTTTA TT
24933709 AATTTCTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 5 0.12
6 30 0.75
7 5 0.12
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:24934671 original size:17 final size:18
Alignment explanation
Indices: 24934649--24934682 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24934639 AAATAGAAAA
24934649 AAAAG-AAAAAATATATC
1 AAAAGAAAAAAATATATC
24934666 AAAAGAAAAAAATATAT
1 AAAAGAAAAAAATATAT
24934683 TGATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (18 bp):
AAAAGAAAAAAATATATC
Found at i:24940979 original size:42 final size:41
Alignment explanation
Indices: 24940885--24940980 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
24940875 CTAACACATG
* *
24940885 GCCTAGCACACGGGCGTGTGGGGCTACTTTGAGAGTTACAC
1 GCCTAGCACACGAGCGGGTGGGGCTACTTTGAGAGTTACAC
* *
24940926 GGCTAGGCACACGAGCGGGTGGGTCTA-TTTCGAGAGTTACAC
1 GCCTA-GCACACGAGCGGGTGGGGCTACTTT-GAGAGTTACAC
*
24940968 GACCTAACACACG
1 G-CCTAGCACACG
24940981 GGCGTGTGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
41 7 0.15
42 36 0.78
43 3 0.07
ACGTcount: A:0.23, C:0.25, G:0.32, T:0.20
Consensus pattern (41 bp):
GCCTAGCACACGAGCGGGTGGGGCTACTTTGAGAGTTACAC
Found at i:24945542 original size:23 final size:23
Alignment explanation
Indices: 24945516--24945562 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
24945506 AAAAGATGCA
24945516 AATTTTGATCACTACATAATCTG
1 AATTTTGATCACTACATAATCTG
24945539 AATTTTGATCACTACATAATCTG
1 AATTTTGATCACTACATAATCTG
24945562 A
1 A
24945563 GTGATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (23 bp):
AATTTTGATCACTACATAATCTG
Found at i:24946641 original size:25 final size:25
Alignment explanation
Indices: 24946597--24946673 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 25
24946587 CATTAAGGAT
* *
24946597 TACCGATT-GCAACTCGTGAGAGCT
1 TACCGATTCTCAACTCGTGAGAGCA
* *
24946621 TACTGATTCTCAGCTCGTGAGAGCA
1 TACCGATTCTCAACTCGTGAGAGCA
24946646 TACCGATTCTCAACTCGT-ATGAGCA
1 TACCGATTCTCAACTCGTGA-GAGCA
24946671 TAC
1 TAC
24946674 ATGTACAGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 8 0.18
25 37 0.82
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (25 bp):
TACCGATTCTCAACTCGTGAGAGCA
Found at i:24955674 original size:30 final size:31
Alignment explanation
Indices: 24955619--24955686 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
24955609 ACCCTTAAAA
** * **
24955619 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
24955650 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
24955680 TATTTAC
1 TATTTAC
24955687 CCTTGGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:24956059 original size:17 final size:17
Alignment explanation
Indices: 24956039--24956072 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24956029 ATTAATGAAG
24956039 TTAACTAAATTAATTTC
1 TTAACTAAATTAATTTC
* *
24956056 TTAATTAAATTATTTTC
1 TTAACTAAATTAATTTC
24956073 CCAACCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAACTAAATTAATTTC
Found at i:24962496 original size:32 final size:32
Alignment explanation
Indices: 24962454--24962515 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
24962444 CCATTGTTTT
24962454 TTAATATGTGTGCCATCCATA-CACTTGAACAC
1 TTAATATGTGTGCCATCCATATC-CTTGAACAC
*
24962486 TTAATGTGTGTGCCATCCATATCCTTGAAC
1 TTAATATGTGTGCCATCCATATCCTTGAAC
24962516 CCTCAGTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (32 bp):
TTAATATGTGTGCCATCCATATCCTTGAACAC
Found at i:24967921 original size:45 final size:45
Alignment explanation
Indices: 24967868--24968021 Score: 166
Period size: 45 Copynumber: 3.4 Consensus size: 45
24967858 TGTAGGTGAA
* * ** *
24967868 TGCTATGTGCTGATTCCACCCGATATTAATGAAAATAAAGGTGGT
1 TGCTATGTGCTGATTTCACCAGATACCAATGAATATAAAGGTGGT
* * * ** *
24967913 TGCCATGTGTTGATTTCACCAAATACCAATGGTTATATAGGTGGT
1 TGCTATGTGCTGATTTCACCAGATACCAATGAATATAAAGGTGGT
* * * *
24967958 TGCTATGTGCTGATTTCACCTGGTACCATTGAGTAT-AAGGTGGT
1 TGCTATGTGCTGATTTCACCAGATACCAATGAATATAAAGGTGGT
24968002 TGCTATGTGCTGATTTCACC
1 TGCTATGTGCTGATTTCACC
24968022 GAGTACTATT
Statistics
Matches: 89, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 27 0.30
45 62 0.70
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (45 bp):
TGCTATGTGCTGATTTCACCAGATACCAATGAATATAAAGGTGGT
Found at i:24968011 original size:44 final size:43
Alignment explanation
Indices: 24967905--24968059 Score: 161
Period size: 44 Copynumber: 3.5 Consensus size: 43
24967895 AATGAAAATA
* * ** *
24967905 AAGGTGGTTGCCATGTGTTGATTTCACCAAATACCAATG-GTTAT
1 AAGGTGGTTGCTATGTGCTGATTTCACC-GGTACCATTGAG-TAT
24967949 ATAGGTGGTTGCTATGTGCTGATTTCACCTGGTACCATTGAGTAT
1 A-AGGTGGTTGCTATGTGCTGATTTCACC-GGTACCATTGAGTAT
* * *
24967994 AAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACTAC
1 AAGGTGGTTGCTATGTGCTGATTTCACCG-GTACCATTGAGTAT
*
24968038 AAGGGTGG-TGCTGTGTGCTGAT
1 AA-GGTGGTTGCTATGTGCTGAT
24968060 CCACCGTGTA
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.01
44 54 0.56
45 41 0.42
46 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (43 bp):
AAGGTGGTTGCTATGTGCTGATTTCACCGGTACCATTGAGTAT
Found at i:24969793 original size:28 final size:28
Alignment explanation
Indices: 24969753--24969808 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
24969743 ATGGCATTTT
24969753 TCTTAGTAGGAGGTTTCTAAATTGTATG
1 TCTTAGTAGGAGGTTTCTAAATTGTATG
*
24969781 TCTTAGTAGGAGGTTTCTAAATTTTATG
1 TCTTAGTAGGAGGTTTCTAAATTGTATG
24969809 GCAATTAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (28 bp):
TCTTAGTAGGAGGTTTCTAAATTGTATG
Found at i:24972975 original size:25 final size:26
Alignment explanation
Indices: 24972947--24973000 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
24972937 TAATTAGTAT
*
24972947 AAAATATT-AATAATTTAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
24972972 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
24972998 AAA
1 AAA
24973001 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:24977427 original size:25 final size:25
Alignment explanation
Indices: 24977399--24977495 Score: 106
Period size: 25 Copynumber: 3.9 Consensus size: 25
24977389 ATGAGTTGTG
*
24977399 AATCAGGAAGCTCATACGAGCTACA
1 AATCAGGAAGCTCATACGAGCTATA
* * *
24977424 AATCAGAAAGCTCAAACGAGCTGTA
1 AATCAGGAAGCTCATACGAGCTATA
* *
24977449 AA-CTGGAAAGTTCATACGAGCTATA
1 AATCAGG-AAGCTCATACGAGCTATA
* *
24977474 CATCGGGAAGCTCATACGAGCT
1 AATCAGGAAGCTCATACGAGCT
24977496 GGGGTTTGAA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
24 2 0.03
25 53 0.91
26 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (25 bp):
AATCAGGAAGCTCATACGAGCTATA
Found at i:24983968 original size:25 final size:25
Alignment explanation
Indices: 24983940--24983988 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
24983930 ACAAGATGCA
24983940 AATTGGAAAGCTCATAGGAGCTGTC
1 AATTGGAAAGCTCATAGGAGCTGTC
* *
24983965 AATTGGGAAGCTCATATGAGCTGT
1 AATTGGAAAGCTCATAGGAGCTGT
24983989 GCTGTGTCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (25 bp):
AATTGGAAAGCTCATAGGAGCTGTC
Found at i:24987161 original size:10 final size:10
Alignment explanation
Indices: 24987146--24987185 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
24987136 AAATATGATA
24987146 AAAATTAATT
1 AAAATTAATT
24987156 AAAATTAATTCT
1 AAAATTAA-T-T
*
24987168 AAAAGTAATT
1 AAAATTAATT
24987178 AAAATTAA
1 AAAATTAA
24987186 ACATGTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:24999336 original size:14 final size:14
Alignment explanation
Indices: 24999317--24999343 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24999307 CATTTCTTGG
24999317 TCGATTCAGTTCAC
1 TCGATTCAGTTCAC
24999331 TCGATTCAGTTCA
1 TCGATTCAGTTCA
24999344 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (14 bp):
TCGATTCAGTTCAC
Found at i:25005720 original size:13 final size:13
Alignment explanation
Indices: 25005702--25005726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25005692 TAGGGTTTTG
25005702 TTTTCTATTATTC
1 TTTTCTATTATTC
25005715 TTTTCTATTATT
1 TTTTCTATTATT
25005727 TTCTTGCTGC
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCTATTATTC
Found at i:25013837 original size:16 final size:16
Alignment explanation
Indices: 25013805--25013837 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25013795 GAAAGAAAGG
25013805 TGGTTGTTTTATTTAT
1 TGGTTGTTTTATTTAT
25013821 TGGTT-TTTTATTATAT
1 TGGTTGTTTTATT-TAT
25013837 T
1 T
25013838 TTTCCAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (16 bp):
TGGTTGTTTTATTTAT
Found at i:25019474 original size:30 final size:30
Alignment explanation
Indices: 25019438--25019552 Score: 142
Period size: 30 Copynumber: 3.9 Consensus size: 30
25019428 GTGTGCTAAA
*
25019438 CGATGGTCGAAACCATCCCTTTTCCTTAAT
1 CGATGGTCGAAACCATCCCTTTTCATTAAT
* * *
25019468 CGATGGT-AAAACCATCCATCTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCATTAAT
** *
25019497 TAATGGTCGAAATCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCATTAAT
* *
25019527 TGATGGTCGAAAGCATCCCTTTTCAT
1 CGATGGTCGAAACCATCCCTTTTCAT
25019553 AGATGCTCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 23 0.32
30 49 0.68
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (30 bp):
CGATGGTCGAAACCATCCCTTTTCATTAAT
Found at i:25022989 original size:22 final size:21
Alignment explanation
Indices: 25022925--25022989 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
25022915 TGCCAGTAGT
*
25022925 CAGAATGGCTTAGAGTCATAAA
1 CAGAATGGC-TAAAGTCATAAA
* * *
25022947 TAGGATAGCTATAAG-CTATAAA
1 CAGAATGGCTA-AAGTC-ATAAA
25022969 CAGAATGGCTACAAGTCATAA
1 CAGAATGGCTA-AAGTCATAA
25022990 GTATAGTAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
21 3 0.09
22 28 0.88
23 1 0.03
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (21 bp):
CAGAATGGCTAAAGTCATAAA
Found at i:25023042 original size:32 final size:32
Alignment explanation
Indices: 25023001--25023247 Score: 205
Period size: 32 Copynumber: 7.7 Consensus size: 32
25022991 TATAGTAATG
* *
25023001 TGATTGGCACAAAGCCATCAATAACAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * * * *
25023033 TGATTGGCACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* **
25023065 TGATCGACACAAAGCCATCAGTGGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * *
25023097 TGATCGGAACACAA-CCATCAGTAATAGTGAAA
1 TGATCGGCACA-AAGCCATCAGTAACAGTGATA
* * * *
25023129 TGATCGACACACAGCCATCAGTAACGGTAATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * **
25023161 TGATCGGTACAAAGCCATCAATAATGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACAGTGA-TA
* *
25023193 TGATCGGCACAAAGCCATTAATAACTA-T-ACTA
1 TGATCGGCACAAAGCCATCAGTAAC-AGTGA-TA
* *
25023225 TGATAGGCACAAAGCCAGCAGTA
1 TGATCGGCACAAAGCCATCAGTA
25023248 GCATCGCAAC
Statistics
Matches: 172, Mismatches: 39, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
31 2 0.01
32 168 0.98
33 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGATA
Found at i:25023109 original size:64 final size:64
Alignment explanation
Indices: 25023008--25023210 Score: 239
Period size: 64 Copynumber: 3.2 Consensus size: 64
25022998 ATGTGATTGG
* * * *
25023008 CACAAAGCCATCAATAACAGTGATATGATTGGCACACAGCCATCAGTAACGGTAACATGATCGA
1 CACAAAGCCATCAGTAACAGTGATATGATCGGAACACAGCCATCAGTAATGGTAACATGATCGA
** * *
25023072 CACAAAGCCATCAGTGGCAGTGATATGATCGGAACACAACCATCAGTAATAGTGAA-ATGATCGA
1 CACAAAGCCATCAGTAACAGTGATATGATCGGAACACAGCCATCAGTAATGGT-AACATGATCGA
* * * * * * *
25023136 CACACAGCCATCAGTAACGGTAATATGATCGGTACAAAGCCATCAATAATGGT-ACTATGATCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGGAACACAGCCATCAGTAATGGTAAC-ATGATCGA
25023200 CACAAAGCCAT
1 CACAAAGCCAT
25023211 TAATAACTAT
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
62 1 0.01
64 113 0.97
65 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (64 bp):
CACAAAGCCATCAGTAACAGTGATATGATCGGAACACAGCCATCAGTAATGGTAACATGATCGA
Found at i:25023228 original size:96 final size:97
Alignment explanation
Indices: 25023001--25023247 Score: 263
Period size: 96 Copynumber: 2.6 Consensus size: 97
25022991 TATAGTAATG
* *
25023001 TGATTGGCACAAAGCCATCAATAAC-AGTGATATGATTGGCACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAATAACTAGTGATATGATAGGCACACAGCCATCAGTAACGGTAACA
* **
25023065 TGATCGACACAAAGCCATCAGTGGCAGTGATA
66 TGATCGACACAAAGCCATCAATAACAGTGATA
* * * * * *
25023097 TGATCGGAACACAA-CCATCAGTAA-TAGTGAAATGATCGACACACAGCCATCAGTAACGGTAAT
1 TGATCGGCACA-AAGCCATCAATAACTAGTGATATGATAGGCACACAGCCATCAGTAACGGTAAC
** **
25023160 ATGATCGGTACAAAGCCATCAATAATGGT-ACTA
65 ATGATCGACACAAAGCCATCAATAACAGTGA-TA
* * *
25023193 TGATCGGCACAAAGCCATTAATAACTA-T-ACTATGATAGGCACAAAGCCAGCAGTA
1 TGATCGGCACAAAGCCATCAATAACTAGTGA-TATGATAGGCACACAGCCATCAGTA
25023248 GCATCGCAAC
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
95 4 0.03
96 115 0.93
97 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (97 bp):
TGATCGGCACAAAGCCATCAATAACTAGTGATATGATAGGCACACAGCCATCAGTAACGGTAACA
TGATCGACACAAAGCCATCAATAACAGTGATA
Found at i:25023270 original size:26 final size:26
Alignment explanation
Indices: 25023238--25023294 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
25023228 TAGGCACAAA
**
25023238 GCCAGCAGTAGCATCGCAACAAAGCT
1 GCCAGCAACAGCATCGCAACAAAGCT
* * *
25023264 GCCAGCAACGGTATCGCAGCAAAGCT
1 GCCAGCAACAGCATCGCAACAAAGCT
25023290 GCCAG
1 GCCAG
25023295 TAATAGTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.26, T:0.11
Consensus pattern (26 bp):
GCCAGCAACAGCATCGCAACAAAGCT
Found at i:25023446 original size:24 final size:24
Alignment explanation
Indices: 25023419--25023491 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
25023409 CCATGCTCAG
*
25023419 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAACCACAGACA
* *
25023443 AATCAGTCATACCAACCACAGACA
1 AATCAGTCATTCAAACCACAGACA
*
25023467 AATCAGTCATT-TAACCACAGACA
1 AATCAGTCATTCAAACCACAGACA
25023490 AA
1 AA
25023492 ACAACCATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 13 0.30
24 31 0.70
ACGTcount: A:0.47, C:0.27, G:0.08, T:0.18
Consensus pattern (24 bp):
AATCAGTCATTCAAACCACAGACA
Found at i:25023486 original size:23 final size:23
Alignment explanation
Indices: 25023419--25023505 Score: 93
Period size: 24 Copynumber: 3.7 Consensus size: 23
25023409 CCATGCTCAG
* *
25023419 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATT-TAACCACAGACA
**
25023443 AATCAGTCATACCAACCACAGACA
1 AATCAGTCAT-TTAACCACAGACA
25023467 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTTAACCACAGACA
* **
25023490 AAACAACCATTTAACC
1 AATCAGTCATTTAACC
25023506 TCGAGGGGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 24 0.44
24 30 0.56
ACGTcount: A:0.46, C:0.29, G:0.07, T:0.18
Consensus pattern (23 bp):
AATCAGTCATTTAACCACAGACA
Found at i:25023576 original size:27 final size:27
Alignment explanation
Indices: 25023541--25024152 Score: 470
Period size: 27 Copynumber: 22.7 Consensus size: 27
25023531 CCACCAGGGC
* *
25023541 ATTACGGTCATTGTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
25023568 ATTACGGTCATTTTAACCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
25023595 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
25023622 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
25023649 ATTACGATCATTTTACCCTACACGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
25023676 CTTACAGTCATTTTACCATACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
** * *
25023703 ATTATAGTCATTTTACCTTACAGGAGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * * *
25023730 ATTACGATCATTTTACCCGATAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
25023757 ATTACGATTA-TTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
25023783 ATTACGATCATTTTACCTTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
25023810 ATTACGGTCATTTTAGCCTACAGGGGGT
1 ATTACGGTCATTTTACCCTACA-GGGGT
* *
25023838 ATTACAGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * ** *
25023865 ATTATGATTATTTTACAATACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
25023892 ATTACGATCATTTTACCTTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
25023919 ATTACGGTCATTTTACCCTA-TGAGGGT
1 ATTACGGTCATTTTACCCTACAG-GGGT
* * **
25023946 ATTTCGGT-ATTCTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
25023972 ATTTCGGTCATTTTACCCTA-TGGGGCC
1 ATTACGGTCATTTTACCCTACAGGGG-T
* ** * *
25023999 ATTTCAATCATTTTACCC-ATCAAGGTT
1 ATTACGGTCATTTTACCCTA-CAGGGGT
** * *
25024026 ATTTGGGTCATTTTACCC-ATCAAGGAT
1 ATTACGGTCATTTTACCCTA-CAGGGGT
* * **
25024053 ATTTCGATCATTTTACCCT-TTGAGGGT
1 ATTACGGTCATTTTACCCTACAG-GGGT
* * **
25024080 ATTTCGGTCATTTTATCCT-TTGAGGGT
1 ATTACGGTCATTTTACCCTACAG-GGGT
* *
25024107 ATTTCAGTCATTTTACCC-ATC-GAGGGT
1 ATTACGGTCATTTTACCCTA-CAG-GGGT
*
25024134 ATTTCGGTCATTTTACCCT
1 ATTACGGTCATTTTACCCT
25024153 TCGAGGGTAT
Statistics
Matches: 477, Mismatches: 95, Indels: 25
0.80 0.16 0.04
Matches are distributed among these distances:
26 48 0.10
27 404 0.85
28 25 0.05
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:25025881 original size:50 final size:50
Alignment explanation
Indices: 25025792--25026032 Score: 229
Period size: 50 Copynumber: 4.8 Consensus size: 50
25025782 ATTTGGGTAA
* * * *
25025792 AGAGATCCCATGTAAGACCATGTCTAGAACTTGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** *
25025842 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
25025892 AGAGGTCTCCCT-TAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGATC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
25025942 AGA-ACTCCCATATAAGACCATATCTAGGATATGGCATTGGCA--GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
25025991 AAACATCCCATGTAAGTCCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25026033 TGTTATTATC
Statistics
Matches: 158, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 40 0.25
50 114 0.72
51 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:25032327 original size:50 final size:50
Alignment explanation
Indices: 25032216--25032562 Score: 376
Period size: 50 Copynumber: 6.8 Consensus size: 50
25032206 ATTTGGGTAA
* *
25032216 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* *
25032272 AGAGGTCCCATGTAAGACCATCTCTGGTACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
25032322 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * **
25032372 AAAAGTCCCATGTAAGACCATGTTTGGGACATGACGTTGGCACTAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
25032422 AGAGGTCTC-TCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
25032472 AGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
25032521 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25032563 TGTTATTATC
Statistics
Matches: 250, Mismatches: 38, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 40 0.16
50 165 0.66
51 1 0.00
53 3 0.01
55 2 0.01
56 38 0.15
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:25034125 original size:24 final size:25
Alignment explanation
Indices: 25034085--25034132 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
25034075 CCAAATCCCA
*
25034085 AAATATTCTCTCCTCAAATCTCTCC
1 AAATATTCCCTCCTCAAATCTCTCC
*
25034110 AAATA-TCCCTCCTCAATTCTCTC
1 AAATATTCCCTCCTCAAATCTCTC
25034133 TATGACTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.35
Consensus pattern (25 bp):
AAATATTCCCTCCTCAAATCTCTCC
Found at i:25035736 original size:27 final size:29
Alignment explanation
Indices: 25035688--25035742 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
25035678 CAAAATTCAT
*
25035688 ACTTTAATTATAAAAATAATT-AATTTTC
1 ACTTAAATTATAAAAATAATTAAATTTTC
* *
25035716 ACTTAAATTATTAACAT-ATTAAATTTT
1 ACTTAAATTATAAAAATAATTAAATTTT
25035743 AATTATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (29 bp):
ACTTAAATTATAAAAATAATTAAATTTTC
Found at i:25047417 original size:75 final size:75
Alignment explanation
Indices: 25047301--25047514 Score: 306
Period size: 76 Copynumber: 2.8 Consensus size: 75
25047291 GACTATTCTT
* *
25047301 TTATTAATTA-AGAAGGC-AATGGAATGTTAGAAAAAGGAATTATATTCTTTCCAAAAGAATATA
1 TTATTAA-TAGAGAAGGCAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTCCAAAAGAATATA
25047364 GGATTATTCCC
65 GGATTATTCCC
* * * * * *
25047375 TTATTAATAGAGAAGACAAATGGAAAATTAGATAAATGAATTATATTCTTTTCAAAAATAATATA
1 TTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAAAGAATTATATTC-TTTCCAAAAGAATATA
*
25047440 TGATTATTCCC
65 GGATTATTCCC
25047451 TTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAAAAGAATTATATTCTTTCCAAAAGAATAT
1 TTATTAATAGAGAAGGCAAATGGAAAGTTAG-AAAAAAGAATTATATTCTTTCCAAAAGAATAT
25047515 TAAATTTCAT
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
73 2 0.02
74 13 0.11
75 26 0.21
76 66 0.54
77 15 0.12
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (75 bp):
TTATTAATAGAGAAGGCAAATGGAAAGTTAGAAAAAAGAATTATATTCTTTCCAAAAGAATATAG
GATTATTCCC
Found at i:25047720 original size:75 final size:75
Alignment explanation
Indices: 25047576--25047720 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 75
25047566 ATGAAAATTA
* * * *
25047576 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCACTGTTAATAATA
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCAATTTGCCTTCACTATTAATAAGA
25047641 GAATAATCCT
66 GAATAATCCT
* * * * *
25047651 ATATTCTTTTGGAAATAATATAATTCATTTTTCTCACTTTTAATTTGCCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCAATTTGCCTTCACTATTAATAAGA
25047716 GAATA
66 GAATA
25047721 CTTATGGTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTCAATTTGCCTTCACTATTAATAAGA
GAATAATCCT
Found at i:25049104 original size:22 final size:22
Alignment explanation
Indices: 25049062--25049121 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
25049052 GCAGTAAAGC
* *
25049062 TGCCAATAACCAGAATGGCTAAGA
1 TGCC-ATAAACAGAATAGCT-AGA
*
25049086 -GCCGTAAACAGAATAGCTAGA
1 TGCCATAAACAGAATAGCTAGA
*
25049107 TGCTATAAACAGAAT
1 TGCCATAAACAGAAT
25049122 GTCTACAAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.10
22 24 0.80
23 3 0.10
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (22 bp):
TGCCATAAACAGAATAGCTAGA
Found at i:25049136 original size:22 final size:20
Alignment explanation
Indices: 25049067--25049136 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 20
25049057 AAAGCTGCCA
*
25049067 ATAACCAGAATGGCTAAGAGCC
1 ATAAACAGAAT-GCTAA-AGCC
* * *
25049089 GTAAACAGAATAGCTAGATGCT
1 ATAAACAGAAT-GCTA-AAGCC
25049111 ATAAACAGAATGTCTACAAGCC
1 ATAAACAGAATG-CTA-AAGCC
25049133 ATAA
1 ATAA
25049137 GTACAGTAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (20 bp):
ATAAACAGAATGCTAAAGCC
Found at i:25049179 original size:32 final size:32
Alignment explanation
Indices: 25049128--25049327 Score: 233
Period size: 32 Copynumber: 6.3 Consensus size: 32
25049118 GAATGTCTAC
* * * *
25049128 AAGCCATAAGT-ACAGTAATATGATTGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
25049159 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
** * * *
25049191 CTGCCATCAGTAATAGTAGTATGATCGGTAGA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
25049223 AAGCCATCAGTAGTAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
25049255 CAGCCATCAGTAAT-GCTAATATGATCGGCACA
1 AAGCCATCAGTAATAG-TAATATGATCGGCACA
* * *
25049287 CAGCCATCAATAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
25049319 AAGCCATCA
1 AAGCCATCA
25049328 TAGCATCACA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
31 11 0.08
32 131 0.92
33 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:25049310 original size:96 final size:95
Alignment explanation
Indices: 25049128--25049327 Score: 276
Period size: 96 Copynumber: 2.1 Consensus size: 95
25049118 GAATGTCTAC
* * *
25049128 AAGCCATAAGTACAGTAATATGATTGACACAAAGCCATCAGTAGTAGTAATATGATCGGCACACT
1 AAGCCATCAGTACAGTAATATGATTGACACAAAGCCATCAGTAATAGTAATATGATCGGCACACA
* * * *
25049193 GCCATCAGTAATAGTAGTATGATCGGTAGA
66 GCCATCAATAATAGTAATATGATCGGCACA
* * *
25049223 AAGCCATCAGTAGTAGTAATATGATTGGCACACAGCCATCAGTAAT-GCTAATATGATCGGCACA
1 AAGCCATCAGTA-CAGTAATATGATTGACACAAAGCCATCAGTAATAG-TAATATGATCGGCACA
*
25049287 CAGCCATCAATAATGGTAATATGATCGGCACA
64 CAGCCATCAATAATAGTAATATGATCGGCACA
25049319 AAGCCATCA
1 AAGCCATCA
25049328 TAGCATCACA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
95 12 0.13
96 80 0.87
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (95 bp):
AAGCCATCAGTACAGTAATATGATTGACACAAAGCCATCAGTAATAGTAATATGATCGGCACACA
GCCATCAATAATAGTAATATGATCGGCACA
Found at i:25049381 original size:26 final size:26
Alignment explanation
Indices: 25049336--25049385 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
25049326 CATAGCATCA
25049336 CAGCAAAGCTACCAACAACAGTATCG
1 CAGCAAAGCTACCAACAACAGTATCG
* **
25049362 CAGCAAAGCTGCCAGTAACAGTAT
1 CAGCAAAGCTACCAACAACAGTAT
25049386 ATGTAGCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.28, G:0.18, T:0.14
Consensus pattern (26 bp):
CAGCAAAGCTACCAACAACAGTATCG
Found at i:25049403 original size:27 final size:27
Alignment explanation
Indices: 25049373--25049432 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
25049363 AGCAAAGCTG
*
25049373 CCAGTAACAGT-ATATGTAGCCA-AGCCA
1 CCAGTAACAGTGAT-TATAG-CAGAGCCA
25049400 CCAGTAACAGTGATTATAGCAGAGCCA
1 CCAGTAACAGTGATTATAGCAGAGCCA
25049427 CCAGTA
1 CCAGTA
25049433 TAGTACTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTGATTATAGCAGAGCCA
Found at i:25049639 original size:27 final size:27
Alignment explanation
Indices: 25049609--25049939 Score: 410
Period size: 27 Copynumber: 12.3 Consensus size: 27
25049599 AAATAGTCAC
*
25049609 TTTACCTTACAGGGGCATTACGATCAT
1 TTTACCCTACAGGGGCATTACGATCAT
* *
25049636 TTTACCCTACAGGGGCATTACGGTTAT
1 TTTACCCTACAGGGGCATTACGATCAT
* * *
25049663 TTTACCCAATAGGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGATCAT
* *
25049690 TTTACCTTACAGAGGCATTACGATCAT
1 TTTACCCTACAGGGGCATTACGATCAT
* *
25049717 TTTACCCTACTGGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGATCAT
* *
25049744 TTTACCCTACAAGGGCATTACAATCAT
1 TTTACCCTACAGGGGCATTACGATCAT
* * * * *
25049771 TTTACTCTACAGGGGTATTATGGTAAT
1 TTTACCCTACAGGGGCATTACGATCAT
* *
25049798 TTTACCCTACAGGGGCATTATGGTCAT
1 TTTACCCTACAGGGGCATTACGATCAT
* * * *
25049825 TTTACACTATAGGGGAATTACGACCAT
1 TTTACCCTACAGGGGCATTACGATCAT
25049852 TTTACCCTACAGGGGCATTACGATCAT
1 TTTACCCTACAGGGGCATTACGATCAT
*
25049879 TTTACCCTACAGGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGATCAT
* * *
25049906 TTTACCATACAGGGGAATTACGACCAT
1 TTTACCCTACAGGGGCATTACGATCAT
*
25049933 CTTACCC
1 TTTACCC
25049940 ATCGAGGGTA
Statistics
Matches: 258, Mismatches: 46, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 258 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (27 bp):
TTTACCCTACAGGGGCATTACGATCAT
Found at i:25049964 original size:27 final size:27
Alignment explanation
Indices: 25049941--25050027 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
25049931 ATCTTACCCA
* *
25049941 TCGAGGGTATTTCGGTCATTTTACCAT
1 TCGAGGGTATTTCGATAATTTTACCAT
* *
25049968 TCGAGGGTATTTTGATTATTTTACCAT
1 TCGAGGGTATTTCGATAATTTTACCAT
*
25049995 TCGAGGGTATTTCGATAATTTTACCCT
1 TCGAGGGTATTTCGATAATTTTACCAT
25050022 TCGAGG
1 TCGAGG
25050028 TTACTTCAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (27 bp):
TCGAGGGTATTTCGATAATTTTACCAT
Found at i:25052971 original size:99 final size:100
Alignment explanation
Indices: 25052799--25053021 Score: 385
Period size: 99 Copynumber: 2.2 Consensus size: 100
25052789 CCACTAAATT
* *
25052799 GGCACAGCATATTGTCTGATGCTTATTGTCTGGTTTCCATTCAAACTAGGTTGCCTCAATATCTG
1 GGCACAGCATATTGTCTGATGCATATTGTCTGGTTTCAATTCAAACTAGGTTGCCTCAATATCTG
25052864 GCTTTCTAATTCCTAGGTTTAACTCACTAAAAAGA
66 GCTTTCTAATTCCTAGGTTTAACTCACTAAAAAGA
*
25052899 GGCACAGCATATTGTCTGATGCATATTGTCT-GTTTCAATTCAAACTAGGTTGCCTCATTATCTG
1 GGCACAGCATATTGTCTGATGCATATTGTCTGGTTTCAATTCAAACTAGGTTGCCTCAATATCTG
* * *
25052963 GCTTTCTAATTCCTGGGTTTAACTCACTGAAAAGT
66 GCTTTCTAATTCCTAGGTTTAACTCACTAAAAAGA
25052998 GGCACAGCATATTGTCTGATGCAT
1 GGCACAGCATATTGTCTGATGCAT
25053022 CGATCCCTAT
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 87 0.74
100 30 0.26
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (100 bp):
GGCACAGCATATTGTCTGATGCATATTGTCTGGTTTCAATTCAAACTAGGTTGCCTCAATATCTG
GCTTTCTAATTCCTAGGTTTAACTCACTAAAAAGA
Found at i:25057397 original size:33 final size:33
Alignment explanation
Indices: 25057360--25057429 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
25057350 AAGAGATAAT
* *
25057360 GATGCTTGAGGGATGATTAAAGAATGGTTGTGG
1 GATGCTTGAGGGACGATTAAAGAATGATTGTGG
25057393 GATGCTTGAGGGACGATTAAAGAATGATTGTGG
1 GATGCTTGAGGGACGATTAAAGAATGATTGTGG
25057426 GATG
1 GATG
25057430 TTTGTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.04, G:0.39, T:0.29
Consensus pattern (33 bp):
GATGCTTGAGGGACGATTAAAGAATGATTGTGG
Found at i:25064355 original size:40 final size:40
Alignment explanation
Indices: 25064325--25064534 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
25064315 GGACTAAGAT
* * * **
25064325 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
25064365 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
25064405 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
25064445 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
25064485 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
25064524 CCGAAGGCATT
1 CCGAAGGCATT
25064535 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:25072363 original size:39 final size:40
Alignment explanation
Indices: 25072247--25072454 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
25072237 GGACTAAGAT
* * * **
25072247 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
25072287 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
25072327 CCGAAGGCATTCGTGCGAGTT-TTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
25072366 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTT-AGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
25072405 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
25072444 CCGAAGGCATT
1 CCGAAGGCATT
25072455 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 18 0.12
39 68 0.44
40 69 0.45
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:25072374 original size:79 final size:77
Alignment explanation
Indices: 25072247--25072454 Score: 308
Period size: 79 Copynumber: 2.6 Consensus size: 77
25072237 GGACTAAGAT
* *
25072247 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGG-CATTGTGCGAG-TTCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
25072312 AATCCGGGTTAAGTC
64 AATCCGGGTT-AGTC
*
25072327 CCGAAGGCATTCGTGCGAGTTTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 CCGAAGGCATT-GTGCGAGTTCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
25072392 ATCCGGGTTAGTC
65 ATCCGGGTTAGTC
* * * *
25072405 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTGTGCGAGTT-CTAAATCCGGGTTAAGTCCCGAAGGCATT
25072455 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
77 8 0.07
78 40 0.34
79 56 0.47
80 14 0.12
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTGTGCGAGTTCTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
TCCGGGTTAGTC
Found at i:25087099 original size:21 final size:21
Alignment explanation
Indices: 25087060--25087113 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
25087050 TCCCTTTTAG
25087060 CAACTTCTTCTTCCTCAACGA-
1 CAACTTCTTCTTCCTCAAC-AT
25087081 CAACTTCTTCTT-CTGCAACAT
1 CAACTTCTTCTTCCT-CAACAT
25087102 CAACTTCCTTCT
1 CAACTT-CTTCT
25087114 CAACAACAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.10
21 22 0.73
22 5 0.17
ACGTcount: A:0.22, C:0.37, G:0.04, T:0.37
Consensus pattern (21 bp):
CAACTTCTTCTTCCTCAACAT
Found at i:25095113 original size:27 final size:27
Alignment explanation
Indices: 25095072--25095434 Score: 311
Period size: 27 Copynumber: 13.4 Consensus size: 27
25095062 AATGGGCCTC
*
25095072 TAAAATTACCGAAATACCCTCAACGGG
1 TAAAATTACCGAAATACCCTCAATGGG
* **
25095099 TAAAATTACCAAAATACCCTTGATGGG
1 TAAAATTACCGAAATACCCTCAATGGG
* *
25095126 TAAAATTATCGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCAATGGG
* *
25095153 TAAAATTACTGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCAATGGG
*
25095180 TAAAATTACCAAAATACCCTC-ATCGGG
1 TAAAATTACCGAAATACCCTCAAT-GGG
* ** * *
25095207 TAAAATAACTAAAATACCCTCGATCGG
1 TAAAATTACCGAAATACCCTCAATGGG
* ** *
25095234 TAAAATAATTGAAATACCCGCGAA-GGG
1 TAAAATTACCGAAATACCCTC-AATGGG
* *
25095261 TAAAATTATCGAAATACCCTTAATGGG
1 TAAAATTACCGAAATACCCTCAATGGG
* * *
25095288 TAAAATTATCGAAATACCCCCGATGGG
1 TAAAATTACCGAAATACCCTCAATGGG
* * ** ***
25095315 TAAAAATTACTGAAATACCTTTGACAAG
1 T-AAAATTACCGAAATACCCTCAATGGG
*
25095343 TAAAATTACCGAAATACCCCCGAA-GGG
1 TAAAATTACCGAAATACCCTC-AATGGG
* * *
25095370 TAAAATGACCGAAAGACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCAATGGG
* * *
25095397 CAAAATTACTGAAATACCCT-TATAGGG
1 TAAAATTACCGAAATACCCTCAAT-GGG
*
25095424 TAAAATGACCG
1 TAAAATTACCG
25095435 TTATACCCCT
Statistics
Matches: 275, Mismatches: 53, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.03
27 245 0.89
28 23 0.08
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCAATGGG
Done.