Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 6 of 97
Found at i:2708547 original size:2 final size:2
Alignment explanation
Indices: 2708540--2708572 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2708530 GCTATTCACC
2708540 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2708573 CATGAGTTGG
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2723011 original size:17 final size:17
Alignment explanation
Indices: 2722981--2723016 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2722971 ATTTTAAGAA
2722981 ATTTTAAATAAAATTTT
1 ATTTTAAATAAAATTTT
* *
2722998 ATTTTTAATCAAATTTT
1 ATTTTAAATAAAATTTT
2723015 AT
1 AT
2723017 AATTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAAATAAAATTTT
Found at i:2726601 original size:22 final size:23
Alignment explanation
Indices: 2726552--2726603 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2726542 CTCAAGCTTG
* *
2726552 TAATTATTACTGTTTTTTTACTA
1 TAATTATTACTCTTTGTTTACTA
2726575 TAATTATTACTCTTTGTTTA-TA
1 TAATTATTACTCTTTGTTTACTA
2726597 TAATTAT
1 TAATTAT
2726604 AACATAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (23 bp):
TAATTATTACTCTTTGTTTACTA
Found at i:2743204 original size:6 final size:6
Alignment explanation
Indices: 2743160--2743207 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
2743150 TGTCGTCAAA
* * *
2743160 CCCCAA CCCCAT CCCAAT CCCCAT CCCCAT CCCCAT CCCCGT CCCCAT
1 CCCCAT CCCCAT CCCCAT CCCCAT CCCCAT CCCCAT CCCCAT CCCCAT
2743208 TAGCCATAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.19, C:0.65, G:0.02, T:0.15
Consensus pattern (6 bp):
CCCCAT
Found at i:2752126 original size:6 final size:6
Alignment explanation
Indices: 2752117--2752202 Score: 66
Period size: 6 Copynumber: 14.3 Consensus size: 6
2752107 AAGCCATGCT
* * * * *
2752117 CATGTC CATGTC CGTGTC CATGAC TATGCC CATGTC CATGTC CGTGTC
1 CATGTC CATGTC CATGTC CATGTC CATGTC CATGTC CATGTC CATGTC
* * * * *
2752165 CATGAC TATGCC CATGTC CACGGT- CATGTT CATGTC CA
1 CATGTC CATGTC CATGTC CA-TGTC CATGTC CATGTC CA
2752203 CGACTCCTCA
Statistics
Matches: 61, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
5 2 0.03
6 57 0.93
7 2 0.03
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (6 bp):
CATGTC
Found at i:2752153 original size:30 final size:30
Alignment explanation
Indices: 2752112--2752184 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
2752102 CTCCTAAGCC
*
2752112 ATGCTCATGTCCATGTCCGTGTCCATGACT
1 ATGCCCATGTCCATGTCCGTGTCCATGACT
2752142 ATGCCCATGTCCATGTCCGTGTCCATGACT
1 ATGCCCATGTCCATGTCCGTGTCCATGACT
2752172 ATGCCCATGTCCA
1 ATGCCCATGTCCA
2752185 CGGTCATGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.18, C:0.33, G:0.19, T:0.30
Consensus pattern (30 bp):
ATGCCCATGTCCATGTCCGTGTCCATGACT
Found at i:2754631 original size:4 final size:4
Alignment explanation
Indices: 2754622--2754646 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2754612 GCAGGAAAAT
2754622 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
2754647 ATTAAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:2755007 original size:95 final size:95
Alignment explanation
Indices: 2754844--2755036 Score: 350
Period size: 95 Copynumber: 2.0 Consensus size: 95
2754834 TTAAGTTACA
*
2754844 AAATGCTGCCTAGAGCTTCCTTTTAAACAGTTTCAACGTGGGAGAATAAAATGGTCCGAACATGC
1 AAATGCTGCCTAGAGCTTCCTTTTAAACAGTTTCAACGTGGGAGAATAAAATGGTCCGAACATAC
*
2754909 TTGAAATGTTTGGACTTTACCAATCATGTG
66 TTGAAATGTCTGGACTTTACCAATCATGTG
* *
2754939 AAATGCTGCCTAGAGCTTCCTTTTGAAGAGTTTCAACGTGGGAGAATAAAATGGTCCGAACATAC
1 AAATGCTGCCTAGAGCTTCCTTTTAAACAGTTTCAACGTGGGAGAATAAAATGGTCCGAACATAC
2755004 TTGAAATGTCTGGACTTTACCAATCATGTG
66 TTGAAATGTCTGGACTTTACCAATCATGTG
2755034 AAA
1 AAA
2755037 ACCATACATG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (95 bp):
AAATGCTGCCTAGAGCTTCCTTTTAAACAGTTTCAACGTGGGAGAATAAAATGGTCCGAACATAC
TTGAAATGTCTGGACTTTACCAATCATGTG
Found at i:2755779 original size:3 final size:3
Alignment explanation
Indices: 2755771--2755805 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2755761 AGATTTTTAT
2755771 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2755806 TAACAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2774101 original size:15 final size:15
Alignment explanation
Indices: 2774081--2774129 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
2774071 GTTAACAAAT
2774081 AAATTTAAAAATTAA
1 AAATTTAAAAATTAA
*
2774096 AAATTTAAAAAAATAA
1 AAATTT-AAAAATTAA
* *
2774112 ATATTCATAAAATTAA
1 AAATTTA-AAAATTAA
2774128 AA
1 AA
2774130 TTAGAAGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTTAAAAATTAA
Found at i:2789744 original size:12 final size:12
Alignment explanation
Indices: 2789696--2789745 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
2789686 TTTGGCTTTA
*
2789696 GCTGCAGCAGAT
1 GCTGCAGCAGCT
* *
2789708 GCGGCAGCAGCA
1 GCTGCAGCAGCT
2789720 GCTGCAGCAGCT
1 GCTGCAGCAGCT
*
2789732 GCTGCAGCCGCT
1 GCTGCAGCAGCT
2789744 GC
1 GC
2789746 AGATGCAGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.18, C:0.34, G:0.36, T:0.12
Consensus pattern (12 bp):
GCTGCAGCAGCT
Found at i:2792087 original size:29 final size:29
Alignment explanation
Indices: 2792029--2792088 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
2792019 TTAAAAGTTT
* *
2792029 AAACGTGTACATAGACACCTTTTGAAAAA
1 AAACATGTACATAGACACATTTTGAAAAA
*
2792058 AAACATGTACATAGACA-ATTTTAGAGAAA
1 AAACATGTACATAGACACATTTT-GAAAAA
2792087 AA
1 AA
2792089 TTTCCATGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (29 bp):
AAACATGTACATAGACACATTTTGAAAAA
Found at i:2826011 original size:2 final size:2
Alignment explanation
Indices: 2826004--2826032 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2825994 TATTCAGTTA
2826004 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2826033 GTGCTTCCCG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2833046 original size:2 final size:2
Alignment explanation
Indices: 2833041--2833065 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2833031 AGCTTTTTTT
2833041 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 T
2833066 TTAAATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2834876 original size:11 final size:11
Alignment explanation
Indices: 2834862--2834887 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2834852 TTTTAATTTA
2834862 AAAATTATTAT
1 AAAATTATTAT
2834873 AAAATTATTAT
1 AAAATTATTAT
2834884 AAAA
1 AAAA
2834888 AATAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTATTAT
Found at i:2834952 original size:14 final size:14
Alignment explanation
Indices: 2834933--2834963 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2834923 ATTAATTTTT
*
2834933 TTTATAAGTTATTA
1 TTTATAAGTTATAA
2834947 TTTATAAGTTATAA
1 TTTATAAGTTATAA
2834961 TTT
1 TTT
2834964 TTGTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTATAAGTTATAA
Found at i:2835125 original size:13 final size:13
Alignment explanation
Indices: 2835107--2835131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2835097 CTCATTAGAG
2835107 TTTTTTTTTAAAC
1 TTTTTTTTTAAAC
2835120 TTTTTTTTTAAA
1 TTTTTTTTTAAA
2835132 AATTTTGTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTTTTAAAC
Found at i:2839677 original size:42 final size:42
Alignment explanation
Indices: 2839618--2839701 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
2839608 ACTAAGTAAG
2839618 ACAAAAACACTCAAGAAGGAATCTTAAGCAACCAGGAGGCAT
1 ACAAAAACACTCAAGAAGGAATCTTAAGCAACCAGGAGGCAT
2839660 ACAAAAACACTCAAGAAGGAATCTTAAGCAACCAGGAGGCAT
1 ACAAAAACACTCAAGAAGGAATCTTAAGCAACCAGGAGGCAT
2839702 CGCAAGGACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (42 bp):
ACAAAAACACTCAAGAAGGAATCTTAAGCAACCAGGAGGCAT
Found at i:2861787 original size:29 final size:29
Alignment explanation
Indices: 2861751--2861809 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2861741 AAGAATTTGC
2861751 TGGAATATCTTTGATGTCAATTGTTGCTT
1 TGGAATATCTTTGATGTCAATTGTTGCTT
2861780 TGGAATATCTTTGATGTCAATTGTTGCTT
1 TGGAATATCTTTGATGTCAATTGTTGCTT
2861809 T
1 T
2861810 CTTTAACTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (29 bp):
TGGAATATCTTTGATGTCAATTGTTGCTT
Found at i:2864706 original size:12 final size:12
Alignment explanation
Indices: 2864689--2864717 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2864679 ACTCTGGGGG
2864689 TCCCCTCCGGCC
1 TCCCCTCCGGCC
2864701 TCCCCTCCGGCC
1 TCCCCTCCGGCC
2864713 TCCCC
1 TCCCC
2864718 GTCGTCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.69, G:0.14, T:0.17
Consensus pattern (12 bp):
TCCCCTCCGGCC
Found at i:2867402 original size:20 final size:20
Alignment explanation
Indices: 2867377--2867415 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2867367 ATCAGTTTTG
2867377 ATGAAGAGAAAGAATAAAAC
1 ATGAAGAGAAAGAATAAAAC
2867397 ATGAAGAGAAAGAATAAAA
1 ATGAAGAGAAAGAATAAAA
2867416 TCTACAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.21, T:0.10
Consensus pattern (20 bp):
ATGAAGAGAAAGAATAAAAC
Found at i:2879794 original size:43 final size:43
Alignment explanation
Indices: 2879720--2879804 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
2879710 TCTATTATAG
** *
2879720 AAAATTTATTTTAACTACTAAATTATGAAATTTAAATAATTTT
1 AAAATTTATTTTAACTACTAAAAAATAAAATTTAAATAATTTT
* * *
2879763 AAAA-TTATCTTTAATTACTAAAAAATAAAATTTTAATTATTT
1 AAAATTTAT-TTTAACTACTAAAAAATAAAATTTAAATAATTT
2879805 GTATTCTAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (43 bp):
AAAATTTATTTTAACTACTAAAAAATAAAATTTAAATAATTTT
Found at i:2890600 original size:2 final size:2
Alignment explanation
Indices: 2890595--2890624 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2890585 TGTCATCCAC
2890595 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2890625 TTGTTCGTTC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2918843 original size:28 final size:26
Alignment explanation
Indices: 2918791--2918847 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
2918781 ATTTATCCTA
*
2918791 TGTTCAAAAAGTATAGTCGTATCTTG
1 TGTTCAAAAAGTATAATCGTATCTTG
*
2918817 TGTTCAAAAAAGTATAATCTTCATCTTG
1 TGTTC-AAAAAGTATAATCGT-ATCTTG
2918845 TGT
1 TGT
2918848 CTTTGCTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 5 0.19
27 13 0.48
28 9 0.33
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (26 bp):
TGTTCAAAAAGTATAATCGTATCTTG
Found at i:2921897 original size:2 final size:2
Alignment explanation
Indices: 2921890--2921923 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2921880 TGCTATCTGC
2921890 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2921924 TTTCTGTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2924720 original size:117 final size:117
Alignment explanation
Indices: 2924501--2924735 Score: 321
Period size: 117 Copynumber: 2.0 Consensus size: 117
2924491 ACTAAGTTAG
* *
2924501 GATCTTCTAGAGGAGATGAGCAACCCTTTATGCTAGCTCCAGCTGATACAGCACCAAGGCTAGGT
1 GATCATCTAGAGCAGATGAGCAACCCTTTATGCTAGCTCCAGCTGATACAGCACCAAGGCTAGGT
* *
2924566 TCAGGTTGAACGCCAGCACTTGAACTAATGCCAACAGGACCATCCCGTCTTT
66 TCAGGTTGAACGCCAGCACTTGAACTAATACCAACAGGACCATCCCATCTTT
* * * * *
2924618 GATCATCTAGAGCAGATGTGTAACCCTTTATGCTAGCTCCAGCTGATCCAGCACCACGGCTGGGT
1 GATCATCTAGAGCAGATGAGCAACCCTTTATGCTAGCTCCAGCTGATACAGCACCAAGGCTAGGT
* * * *
2924683 T-GGGATTGAA-GTCCAGCACTTGGACTAATACCTACAGGAGCATCCCATCTTT
66 TCAGG-TTGAACG-CCAGCACTTGAACTAATACCAACAGGACCATCCCATCTTT
2924735 G
1 G
2924736 GCCAACTGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
116 3 0.03
117 100 0.97
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (117 bp):
GATCATCTAGAGCAGATGAGCAACCCTTTATGCTAGCTCCAGCTGATACAGCACCAAGGCTAGGT
TCAGGTTGAACGCCAGCACTTGAACTAATACCAACAGGACCATCCCATCTTT
Found at i:2924922 original size:129 final size:130
Alignment explanation
Indices: 2924623--2924935 Score: 312
Period size: 129 Copynumber: 2.4 Consensus size: 130
2924613 TCTTTGATCA
* * * * *
2924623 TCTAGAGCAGATGTGTAACCCTTTAT-GCTAGCTCCAGCTGATCCAGCACCACGGCTGGGTTGGG
1 TCTAGAGCAGATGAGTAACCC-CTATGGC-AGCTCCAGCTGATACAGCACCAAGGCTGGGTTAGG
* * * * **
2924687 ATTGAAGTCCAGCACTTGGACTAATACCTACAGGAGCATCCCATCTTTGGCCAACTGAATTTGGA
64 ATTGAACTCCAGAACTTGGACTAATACC-ACAGGAGCATCCCATCTGTGGCCAACTAAACCTGGA
2924752 ACC
128 ACC
* * ** * *
2924755 TCTAGAGCAGATGAATAACTCCTATCGGTGGCTGCAGCTGATACAGCACCAAGTCTGGGTTCAGG
1 TCTAGAGCAGATGAGTAACCCCTAT-GGCAGCTCCAGCTGATACAGCACCAAGGCTGGGTT-AGG
* * **
2924820 A-TGAACTCCAGAACTTGGGCTAAT-GC-CAGGAGCATCCTGTCTGTGGCCAACTAAACCTGGAA
64 ATTGAACTCCAGAACTTGGACTAATACCACAGGAGCATCCCATCTGTGGCCAACTAAACCTGGAA
*
2924882 CT
129 CC
* *
2924884 TCTAGTGCAGATGAGTAACCCCTAATGGCAGATCCAGCTGATAC-GCCACCAA
1 TCTAGAGCAGATGAGTAACCCCT-ATGGCAGCTCCAGCTGATACAG-CACCAA
2924936 AAGTAGGTTC
Statistics
Matches: 147, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
128 1 0.01
129 71 0.48
130 2 0.01
131 4 0.03
132 65 0.44
133 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (130 bp):
TCTAGAGCAGATGAGTAACCCCTATGGCAGCTCCAGCTGATACAGCACCAAGGCTGGGTTAGGAT
TGAACTCCAGAACTTGGACTAATACCACAGGAGCATCCCATCTGTGGCCAACTAAACCTGGAACC
Found at i:2928605 original size:2 final size:2
Alignment explanation
Indices: 2928600--2928629 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2928590 AGAGCTATTC
2928600 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2928630 GAAATGGAGG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2933004 original size:169 final size:166
Alignment explanation
Indices: 2932725--2933053 Score: 568
Period size: 169 Copynumber: 2.0 Consensus size: 166
2932715 TCTTTCCAAC
*
2932725 TTGGGCTAGCTTATAATATAAAATCTTTTCCATGACAGATGGAGACTGCTAGTATTAAACGATTT
1 TTGGGCTAGCTTATAATATAAAATCGTTTCCATGACAGATGGAGACTGCTAGTATTAAACGATTT
*
2932790 TAATGCTTGATAAAGCCTAGATGTGTTATCTGCTTTTATATATACAATGGTATGCTGATAATATT
66 TAATGCTTGATAAAGCCTAGATGTGTAATCTGCTTTTATATATACAATGGTATGCTGATAATATT
2932855 GTATTTAGTCCACCACTAAAAATGCATTTACTTTTTAAT
131 GTATTTAGT---CCACTAAAAATGCATTTACTTTTTAAT
* * *
2932894 TTGGGCTAGTTTATAATATAAAATCGTTTCCTTTACAGATGGAGACTGCTAGTATTAAACGATTT
1 TTGGGCTAGCTTATAATATAAAATCGTTTCCATGACAGATGGAGACTGCTAGTATTAAACGATTT
*
2932959 TAATGCTTGATAAAGCCTAGATGTGTAATCTGCTTTTATATATACAATGTTATGCTGATAATATT
66 TAATGCTTGATAAAGCCTAGATGTGTAATCTGCTTTTATATATACAATGGTATGCTGATAATATT
*
2933024 GTATTTAGTTCACTAAAAATGCATTTACTT
131 GTATTTAGTCCACTAAAAATGCATTTACTT
2933054 CTACGTATTC
Statistics
Matches: 153, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
166 20 0.13
169 133 0.87
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (166 bp):
TTGGGCTAGCTTATAATATAAAATCGTTTCCATGACAGATGGAGACTGCTAGTATTAAACGATTT
TAATGCTTGATAAAGCCTAGATGTGTAATCTGCTTTTATATATACAATGGTATGCTGATAATATT
GTATTTAGTCCACTAAAAATGCATTTACTTTTTAAT
Found at i:2958669 original size:23 final size:23
Alignment explanation
Indices: 2958643--2958725 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 23
2958633 TTAATCATAA
*
2958643 TAATATTTAAATTAAATAAATGT
1 TAATATTTAAATTAAATAAATAT
* *
2958666 TAATATTTAAA-TAATTAATTAT
1 TAATATTTAAATTAAATAAATAT
*
2958688 TAATATTTTAATTAAATTTTAAATTAT
1 TAATATTTAAATTAAA---TAAA-TAT
2958715 TAATATTTAAA
1 TAATATTTAAA
2958726 AAATCTAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 18 0.38
23 14 0.29
26 3 0.06
27 13 0.27
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
TAATATTTAAATTAAATAAATAT
Found at i:2958723 original size:15 final size:15
Alignment explanation
Indices: 2958643--2958725 Score: 61
Period size: 15 Copynumber: 5.7 Consensus size: 15
2958633 TTAATCATAA
*
2958643 TAATATTTAAATTAAA
1 TAATATTTAAATT-AT
2958659 TAA-ATGTTAATATT-T
1 TAATAT-TTAA-ATTAT
* *
2958674 AAATAATT-AATTAT
1 TAATATTTAAATTAT
*
2958688 TAATATTTTAATTA-
1 TAATATTTAAATTAT
2958702 -AAT-TTTAAATTAT
1 TAATATTTAAATTAT
2958715 TAATATTTAAA
1 TAATATTTAAA
2958726 AAATCTAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
12 8 0.15
13 6 0.11
14 11 0.21
15 17 0.32
16 8 0.15
17 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
TAATATTTAAATTAT
Found at i:2958737 original size:27 final size:28
Alignment explanation
Indices: 2958570--2958737 Score: 65
Period size: 27 Copynumber: 6.1 Consensus size: 28
2958560 NNNNNNTATC
*
2958570 AATTATTAATATTTTAA-ATAAATT-ATC
1 AATTATTAATATTTTAATA-AAATTAATA
*
2958597 AATTATTAATATTTTAAAAATAAAATAAAATA
1 AATTATTAATATTTT---AATAAAAT-TAATA
* *
2958629 AA-AATTAATCA---TAATAATATT--TA
1 AATTATTAAT-ATTTTAATAAAATTAATA
* * *
2958652 AATTAAATAA-ATGTTAATATTTAAA-TAATT
1 AATT-ATTAATATTTTAATA---AAATTAATA
* *
2958682 AATTATTAATATTTTAATTAAATT-TTA
1 AATTATTAATATTTTAATAAAATTAATA
2958709 AATTATTAATA-TTTAA-AAAATCTAATA
1 AATTATTAATATTTTAATAAAAT-TAATA
2958736 AA
1 AA
2958738 AATAAAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 42
0.64 0.10 0.26
Matches are distributed among these distances:
23 5 0.05
25 8 0.08
26 18 0.17
27 34 0.33
28 2 0.02
29 7 0.07
30 18 0.17
31 7 0.07
32 5 0.05
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (28 bp):
AATTATTAATATTTTAATAAAATTAATA
Found at i:2958743 original size:18 final size:19
Alignment explanation
Indices: 2958722--2958762 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
2958712 TATTAATATT
2958722 TAAAAAATC-TAATAAA-AA
1 TAAAAAATCGT-ATAAATAA
*
2958740 TAAAATATCGTATAAATAA
1 TAAAAAATCGTATAAATAA
2958759 TAAA
1 TAAA
2958763 TGATGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAAAATCGTATAAATAA
Found at i:2977030 original size:248 final size:250
Alignment explanation
Indices: 2976590--2977088 Score: 831
Period size: 248 Copynumber: 2.0 Consensus size: 250
2976580 TAAAGCTAAA
*
2976590 CCTTAGTGGGGTATATTGAATTATTTTGAATGTTTTCATAGGTACAATGAAGTAATATGAGTGAA
1 CCTTAGTGGGGTATATTGAATTATTTTGAATGTTTTCATAGGTACAATGAAGTAATATGAGAGAA
*
2976655 GTAAGTGCAACATGCCATTAACCAGAGTCAATCTCTGATGAAACTAACTCATTGCCACTTGTTAG
66 GTAAATGCAACATGCCATTAACCAGAGTCAATCTCTGATGAAACTAACTCATTGCCACTTGTTAG
* *
2976720 ATTATCTTATTTTTGGTATTTCTACAGTTCATGTTTGCCTCAGTAGTAACCTTTTCTTTATTCTT
131 ATTATCTTATTTTTGGTATTTCTACAGTTCATGTTTGCCTCAGTAGTAACCTCTGCTTTATTCTT
*
2976785 TCTTATGTTTTTACATACTTTGCTGCTATCTCTAGCCCGCATCTACTTTTGAGGC
196 TCTTATGTTTTTACATACTTTGCTACTATCTCTAGCCCGCATCTACTTTTGAGGC
* *
2976840 CCTTAGTGGGGTATATTGGATTATTTTGAATGTTTTCATAGGTACGATGAAGT-A-ATGAGAGAA
1 CCTTAGTGGGGTATATTGAATTATTTTGAATGTTTTCATAGGTACAATGAAGTAATATGAGAGAA
**
2976903 GTAAATGCAACATGCCATTAACCAGAGTCAATCTCTGATGAAACTAACTCATTGCTGCTTGTTAG
66 GTAAATGCAACATGCCATTAACCAGAGTCAATCTCTGATGAAACTAACTCATTGCCACTTGTTAG
* **
2976968 GTTATCTTATTTTTGGTATTTCTACAGTTCATGTTTGCCTTTGTAGTAACCTCTGCTTTATTCTT
131 ATTATCTTATTTTTGGTATTTCTACAGTTCATGTTTGCCTCAGTAGTAACCTCTGCTTTATTCTT
* * ***
2977033 TCTTATGTTTTTACATACTTTGCTACTATTTGTAGTGTGCATCTACTTTTGAGGC
196 TCTTATGTTTTTACATACTTTGCTACTATCTCTAGCCCGCATCTACTTTTGAGGC
2977088 C
1 C
2977089 AGTTATTGAT
Statistics
Matches: 232, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
248 180 0.78
249 1 0.00
250 51 0.22
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (250 bp):
CCTTAGTGGGGTATATTGAATTATTTTGAATGTTTTCATAGGTACAATGAAGTAATATGAGAGAA
GTAAATGCAACATGCCATTAACCAGAGTCAATCTCTGATGAAACTAACTCATTGCCACTTGTTAG
ATTATCTTATTTTTGGTATTTCTACAGTTCATGTTTGCCTCAGTAGTAACCTCTGCTTTATTCTT
TCTTATGTTTTTACATACTTTGCTACTATCTCTAGCCCGCATCTACTTTTGAGGC
Found at i:2982812 original size:28 final size:28
Alignment explanation
Indices: 2982772--2982830 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
2982762 CCAAAGACGA
2982772 GCTATTTGGGCTAGAATCCTGCATATTG
1 GCTATTTGGGCTAGAATCCTGCATATTG
2982800 GCTATTTGGGCTAGAATCCTGCATATTG
1 GCTATTTGGGCTAGAATCCTGCATATTG
2982828 GCT
1 GCT
2982831 TAGGCATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (28 bp):
GCTATTTGGGCTAGAATCCTGCATATTG
Found at i:2988473 original size:34 final size:34
Alignment explanation
Indices: 2988430--2988499 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
2988420 ATCTTTATTG
* *
2988430 AAATTACATTTACAAGTTGTTCATTATTTTCAAT
1 AAATTACATTTACAAGGTGTTCATCATTTTCAAT
*
2988464 AAATTACATTTACAAGGTGTTGATCATTTTCAAT
1 AAATTACATTTACAAGGTGTTCATCATTTTCAAT
2988498 AA
1 AA
2988500 TGAAAGAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (34 bp):
AAATTACATTTACAAGGTGTTCATCATTTTCAAT
Found at i:2988653 original size:100 final size:100
Alignment explanation
Indices: 2988526--2988714 Score: 254
Period size: 100 Copynumber: 1.9 Consensus size: 100
2988516 AAAAAAATAT
* * * * * *
2988526 CTTTTGAACAATTATAATTGTTTAAGAATTATGTTTCTTTAAACAATTAACTTTGTTCAAATAAT
1 CTTTTAAACAATTATAATTATTCAAGAATTATATTTATTTAAACAATTAAATTTGTTCAAATAAT
*
2988591 TATATTGTT-GAAAACAAAAGAAAAAATAGACAATC
66 TATAATGTTAG-AAACAAAAGAAAAAATAGACAATC
* * * *
2988626 CTTTTAAATAATTATGATTATTCAAGAATTATATTTATTTAAATAATTAAATTTGTTCAAATACT
1 CTTTTAAACAATTATAATTATTCAAGAATTATATTTATTTAAACAATTAAATTTGTTCAAATAAT
*
2988691 TGTAATGTTAGAAACAAAAGAAAA
66 TATAATGTTAGAAACAAAAGAAAA
2988715 TGGATGATTG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
100 75 0.99
101 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.39
Consensus pattern (100 bp):
CTTTTAAACAATTATAATTATTCAAGAATTATATTTATTTAAACAATTAAATTTGTTCAAATAAT
TATAATGTTAGAAACAAAAGAAAAAATAGACAATC
Found at i:2997120 original size:30 final size:28
Alignment explanation
Indices: 2997065--2997130 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 28
2997055 AAATAGAAAA
* *
2997065 AATTAATTCATAATTAAAATTAAAAATTT
1 AATTAAAT-ATAATTAAAATTAAAAATAT
*
2997094 ATTTAAATATAAGTTAAAATTTAAAAATAT
1 AATTAAATATAA-TTAAAA-TTAAAAATAT
2997124 AATTAAA
1 AATTAAA
2997131 AGTTGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 4 0.13
29 12 0.39
30 15 0.48
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
AATTAAATATAATTAAAATTAAAAATAT
Found at i:2997123 original size:20 final size:22
Alignment explanation
Indices: 2997098--2997154 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
2997088 AAATTTATTT
2997098 AAATATAAGTTAAAA-TT-TAA
1 AAATATAAGTTAAAAGTTGTAA
2997118 AAATATAA-TTAAAAGTTGTAA
1 AAATATAAGTTAAAAGTTGTAA
*
2997139 AAGATAAAAGCTTAAA
1 AA-ATATAAG-TTAAA
2997155 TGAAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 6 0.19
20 10 0.32
21 5 0.16
22 5 0.16
24 5 0.16
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
AAATATAAGTTAAAAGTTGTAA
Found at i:2999127 original size:36 final size:36
Alignment explanation
Indices: 2999075--2999148 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
2999065 AGCGCAACCC
*
2999075 AATCCCATGGGTCTGGTGTTTGTTGTCATGTCCATG
1 AATCCCATGGGCCTGGTGTTTGTTGTCATGTCCATG
*
2999111 AATCCCATGGGCCTGGTGTTTGTTTTCATGTCCATG
1 AATCCCATGGGCCTGGTGTTTGTTGTCATGTCCATG
2999147 AA
1 AA
2999149 AGGACAGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (36 bp):
AATCCCATGGGCCTGGTGTTTGTTGTCATGTCCATG
Found at i:2999680 original size:6 final size:7
Alignment explanation
Indices: 2999655--2999679 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2999645 TAATTATTTG
2999655 TTTTTAA
1 TTTTTAA
2999662 TTTTTAA
1 TTTTTAA
2999669 TTTTTAA
1 TTTTTAA
2999676 TTTT
1 TTTT
2999680 ATGGTATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:3014597 original size:39 final size:39
Alignment explanation
Indices: 3014539--3014635 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 39
3014529 AAAAGAAGCT
* * * *
3014539 GCTTGAGAATTCTCCAAATTGGACTCGTTATA-CTTATTC
1 GCTTGAGAATTCTCCAAATTAGACTCATTA-AGCATATCC
*
3014578 GCTTGAGAATTC-CTTAAATTAGACTCATTAAGCATATCC
1 GCTTGAGAATTCTC-CAAATTAGACTCATTAAGCATATCC
3014617 GCTTGAGAAGTT-TCCAAAT
1 GCTTGAGAA-TTCTCCAAAT
3014636 CGGGCTCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
38 2 0.04
39 43 0.90
40 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (39 bp):
GCTTGAGAATTCTCCAAATTAGACTCATTAAGCATATCC
Found at i:3021278 original size:108 final size:105
Alignment explanation
Indices: 3021087--3021299 Score: 291
Period size: 108 Copynumber: 2.0 Consensus size: 105
3021077 GTGGTGTGAG
* * * * * * * *
3021087 GGTGGGGGTGGTGACTTGTATTTGTATATGAAAGGTGGAGGAGACTTGTATGTGTATGGAGGCGA
1 GGTGAGGGTGGTGACTCGTATTTGCAGATAAAAGGTGGAGGAGACTTGTAGGTGTAGGGAGGCAA
3021152 TGGGAGGAGAGGTGGGGATTTATGCTTGCATTTATAATGT
66 TGGGAGGAGAGGTGGGGATTTATGCTTGCATTTATAATGT
*
3021192 GGTGAGGGTGGTGACTCGTATTTGCAGATAAAAGGTGGAGGAGGAGACTTGTAGGTTTAGGGAGG
1 GGTGAGGGTGGTGACTCGTATTTGCAGATAAAAGGT---GGAGGAGACTTGTAGGTGTAGGGAGG
* * *
3021257 CAATGGGAGGGGGGGTGGGGATTTATGCTTGTATTTATAATGT
63 CAATGGGAGGAGAGGTGGGGATTTATGCTTGCATTTATAATGT
3021300 AGTAGCGGTG
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
105 31 0.33
108 62 0.67
ACGTcount: A:0.23, C:0.05, G:0.42, T:0.31
Consensus pattern (105 bp):
GGTGAGGGTGGTGACTCGTATTTGCAGATAAAAGGTGGAGGAGACTTGTAGGTGTAGGGAGGCAA
TGGGAGGAGAGGTGGGGATTTATGCTTGCATTTATAATGT
Found at i:3026812 original size:75 final size:75
Alignment explanation
Indices: 3026726--3026958 Score: 430
Period size: 75 Copynumber: 3.1 Consensus size: 75
3026716 GTGGTTCGAG
* * *
3026726 GCTTCAGCAGGGGCAGTAGCTAATACTCGTGCTGTCTGGGGGACAGGATTTTTCTCTCGGTTACT
1 GCTTCAGCAGGGGCAGTAGCTAAGACTCCTGCTGTCGGGGGGACAGGATTTTTCTCTCGGTTACT
3026791 AGTATTCGCA
66 AGTATTCGCA
*
3026801 GCTTCAGCAGGGGCAGTAGCTAAGACTCTTGCTGTCGGGGGGACAGGATTTTTCTCTCGGTTACT
1 GCTTCAGCAGGGGCAGTAGCTAAGACTCCTGCTGTCGGGGGGACAGGATTTTTCTCTCGGTTACT
3026866 AGTATTCGCA
66 AGTATTCGCA
3026876 GCTTCAGCAGGGGCAGTAGCTAAGACTCCTGCTGTCGGGGGGACAGGATTTTTCTCTCGGTTACT
1 GCTTCAGCAGGGGCAGTAGCTAAGACTCCTGCTGTCGGGGGGACAGGATTTTTCTCTCGGTTACT
3026941 AGTATTCGCA
66 AGTATTCGCA
3026951 GCTTCAGC
1 GCTTCAGC
3026959 CGTCTGAACG
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 154 1.00
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.29
Consensus pattern (75 bp):
GCTTCAGCAGGGGCAGTAGCTAAGACTCCTGCTGTCGGGGGGACAGGATTTTTCTCTCGGTTACT
AGTATTCGCA
Found at i:3027754 original size:39 final size:39
Alignment explanation
Indices: 3027697--3027812 Score: 144
Period size: 39 Copynumber: 3.0 Consensus size: 39
3027687 CCTGTCTCTA
*
3027697 CTTGAGAATTCTCCAAATTGGGCTCTTTACGCATACCCG
1 CTTGAGAATTCTCCAAATTGGGCTCGTTACGCATACCCG
* * **
3027736 -TTGGAGAATTCTCTAAATTGAGCTCGTTACGCATACTTG
1 CTT-GAGAATTCTCCAAATTGGGCTCGTTACGCATACCCG
* * *
3027775 CTTGAGCATTCTCCAAATTGGGCTCGCTATGCATACCC
1 CTTGAGAATTCTCCAAATTGGGCTCGTTACGCATACCC
3027813 TCCCCATTGG
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 2 0.03
39 59 0.94
40 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (39 bp):
CTTGAGAATTCTCCAAATTGGGCTCGTTACGCATACCCG
Found at i:3032316 original size:18 final size:18
Alignment explanation
Indices: 3032284--3032330 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
3032274 CGATTTGATT
3032284 TATATATTT-AATAAAAAA
1 TATAT-TTTAAATAAAAAA
* *
3032302 TATTTTTTAAATAAAATA
1 TATATTTTAAATAAAAAA
3032320 TATATTTTAAA
1 TATATTTTAAA
3032331 AATTAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATATTTTAAATAAAAAA
Found at i:3039674 original size:30 final size:27
Alignment explanation
Indices: 3039640--3039707 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
3039630 TATTTTAATT
*
3039640 AATTATTTAATTAAAAATAAAAATATAAAA
1 AATTATTTAAAT-AAAATAAAAA-AT-AAA
* *
3039670 AATTAATTAAATATAATAAAAAATAAA
1 AATTATTTAAATAAAATAAAAAATAAA
3039697 AATTATTTAAA
1 AATTATTTAAA
3039708 AATTTGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.38
28 2 0.06
29 9 0.26
30 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AATTATTTAAATAAAATAAAAAATAAA
Found at i:3044545 original size:3 final size:3
Alignment explanation
Indices: 3044539--3044565 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3044529 AGCAGAAGTA
3044539 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
3044566 AAGAGATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:3046089 original size:4 final size:4
Alignment explanation
Indices: 3046082--3046128 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
3046072 GAACAAGGAA
* *
3046082 AAAG AAAG AAAG AAAG AAAG AGAG AAAG AGAG AAAG -AA- AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
3046128 A
1 A
3046129 GAGGGGGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 4 0.11
4 33 0.89
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:3054654 original size:2 final size:2
Alignment explanation
Indices: 3054642--3054680 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3054632 CTTCATTAAA
*
3054642 AT AT GT AT 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 AT AT AT AT A
3054681 GTACTATGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3055441 original size:30 final size:30
Alignment explanation
Indices: 3055406--3055472 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
3055396 AATATTTAGT
3055406 TATAATGATTTATTTGACTCAAAATAAAAA
1 TATAATGATTTATTTGACTCAAAATAAAAA
* * * *
3055436 TATAATAATTTATTTTACTTAAAATAAATA
1 TATAATGATTTATTTGACTCAAAATAAAAA
*
3055466 TACAATG
1 TATAATG
3055473 GCTTCATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (30 bp):
TATAATGATTTATTTGACTCAAAATAAAAA
Found at i:3055630 original size:30 final size:30
Alignment explanation
Indices: 3055578--3055637 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3055568 ATAAAGATTG
* * *
3055578 ATACTTTTATTTTAAGCTAAATAAGTCATT
1 ATACTTTTATCTCAAGCTAAATAAATCATT
3055608 ATACTTTTATCTCAAG-TCAAATAAATCATT
1 ATACTTTTATCTCAAGCT-AAATAAATCATT
3055638 TTTTGACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.43
Consensus pattern (30 bp):
ATACTTTTATCTCAAGCTAAATAAATCATT
Found at i:3056908 original size:21 final size:21
Alignment explanation
Indices: 3056882--3056936 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
3056872 TAAAAAATTA
3056882 AAGAAGGAGAAGATAATTAAG
1 AAGAAGGAGAAGATAATTAAG
3056903 AAGAAGGAGAAGATAATTAAG
1 AAGAAGGAGAAGATAATTAAG
*
3056924 AAGAAGAAGAAGA
1 AAGAAGGAGAAGA
3056937 AAAAGAGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (21 bp):
AAGAAGGAGAAGATAATTAAG
Found at i:3070170 original size:21 final size:21
Alignment explanation
Indices: 3070144--3070192 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
3070134 GGGCTTGAAG
3070144 GGGGCATAATGGTCAAGGAAA
1 GGGGCATAATGGTCAAGGAAA
3070165 GGGGCATAATGGTCAAGGAAA
1 GGGGCATAATGGTCAAGGAAA
3070186 GGGGCAT
1 GGGGCAT
3070193 TGGAGCACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.41, T:0.14
Consensus pattern (21 bp):
GGGGCATAATGGTCAAGGAAA
Found at i:3082132 original size:23 final size:23
Alignment explanation
Indices: 3082102--3082175 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
3082092 GGCCTTACAG
3082102 TTTTCTCACACGAATAAGCTCCC
1 TTTTCTCACACGAATAAGCTCCC
3082125 TTTTCTCACACGAATAAGCTCCC
1 TTTTCTCACACGAATAAGCTCCC
*
3082148 TTTTCACACACGAATAAGCTCCC
1 TTTTCTCACACGAATAAGCTCCC
3082171 TTTTC
1 TTTTC
3082176 AAAACACTAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.26, C:0.34, G:0.08, T:0.32
Consensus pattern (23 bp):
TTTTCTCACACGAATAAGCTCCC
Found at i:3082995 original size:1 final size:1
Alignment explanation
Indices: 3082989--3083041 Score: 79
Period size: 1 Copynumber: 53.0 Consensus size: 1
3082979 NNNNGGTTGT
* **
3082989 GGGGGGGGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGGGCAGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
3083042 ATATATATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.02, C:0.04, G:0.94, T:0.00
Consensus pattern (1 bp):
G
Found at i:3083019 original size:23 final size:22
Alignment explanation
Indices: 3082989--3083041 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
3082979 NNNNGGTTGT
3082989 GGGGGGGGGGGGGGGGGCGGGG
1 GGGGGGGGGGGGGGGGGCGGGG
*
3083011 GGGGGGGGGGGGGGGGGCAGGG
1 GGGGGGGGGGGGGGGGGCGGGG
3083033 GGGGGGGGG
1 GGGGGGGGG
3083042 ATATATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.02, C:0.04, G:0.94, T:0.00
Consensus pattern (22 bp):
GGGGGGGGGGGGGGGGGCGGGG
Found at i:3114123 original size:144 final size:143
Alignment explanation
Indices: 3113871--3114149 Score: 497
Period size: 144 Copynumber: 1.9 Consensus size: 143
3113861 GGGATAAGGG
3113871 TTGTGAGTTTGAGATGGTTCTTGTAATCTCCTGATTTTTTCTCTTAGTGGATTTTTCTCTGTTGC
1 TTGTGAGTTTGAGATGGTTCTTGTAATCTCCTGATTTTTTCTCTTAGTGGATTTTTCTCTGTTGC
* *
3113936 TGTGTCCGTGGACGTAAGTCATCAAAAGACCAAATCATGTAAATTCTTGTGTTCTTATGGGTGTG
66 TGTGTCCGTGGACGTAAGTCATCAAAAGACCAAACCACGTAAATTCTTGTGTTCTTATGGGTGTG
3114001 CTTGANGATAAGAA
131 CTTGA-GATAAGAA
3114015 TTGTGAGTTTGAGACT-GTTCTTGTAATCTCCTGATTTTTTCTCTTAGTGGATTTTTCTCTGTTG
1 TTGTGAGTTTGAGA-TGGTTCTTGTAATCTCCTGATTTTTTCTCTTAGTGGATTTTTCTCTGTTG
* *
3114079 CTGTGTCCGTGGACGTAAGTCATCAAAAGACCGAACCACGTAAATTCTTGTGTTCTTGTGGGTGT
65 CTGTGTCCGTGGACGTAAGTCATCAAAAGACCAAACCACGTAAATTCTTGTGTTCTTATGGGTGT
3114144 GCTTGA
130 GCTTGA
3114150 TTTCTTTCTT
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
144 129 0.99
145 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (143 bp):
TTGTGAGTTTGAGATGGTTCTTGTAATCTCCTGATTTTTTCTCTTAGTGGATTTTTCTCTGTTGC
TGTGTCCGTGGACGTAAGTCATCAAAAGACCAAACCACGTAAATTCTTGTGTTCTTATGGGTGTG
CTTGAGATAAGAA
Found at i:3122566 original size:2 final size:2
Alignment explanation
Indices: 3122559--3122585 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3122549 ATTAATCTAT
3122559 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 T
3122586 GAGTCGGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3130553 original size:6 final size:6
Alignment explanation
Indices: 3130542--3130576 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
3130532 AATTAAAGCC
3130542 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGA
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGA
3130577 GAGGGAGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:3147276 original size:1 final size:1
Alignment explanation
Indices: 3147270--3147334 Score: 121
Period size: 1 Copynumber: 65.0 Consensus size: 1
3147260 TANAACAACA
*
3147270 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3147335 ACCCCCAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.00, C:0.02, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:3155903 original size:2 final size:2
Alignment explanation
Indices: 3155898--3155934 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
3155888 TTTTTTGAGA
* *
3155898 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3155935 GCATCAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:3158131 original size:21 final size:22
Alignment explanation
Indices: 3158105--3158153 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
3158095 TTGATTTTAA
3158105 ATAAAAATTT-TTAAATAAAAT
1 ATAAAAATTTATTAAATAAAAT
*
3158126 ATAAAAATTTAATTAAATATAAT
1 ATAAAAATTT-ATTAAATAAAAT
3158149 A-AAAA
1 ATAAAA
3158154 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAAAATTTATTAAATAAAAT
Found at i:3158154 original size:21 final size:20
Alignment explanation
Indices: 3158103--3158154 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
3158093 ATTTGATTTT
3158103 AAATAAAAATTTTTAAATAA
1 AAATAAAAATTTTTAAATAA
3158123 AATATAAAAATTTAATTAAAT-A
1 AA-ATAAAAATTT--TTAAATAA
*
3158145 TAATAAAAAT
1 AAATAAAAAT
3158155 AAAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 18 0.64
22 2 0.07
23 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATAAAAATTTTTAAATAA
Found at i:3174674 original size:3 final size:3
Alignment explanation
Indices: 3174666--3174695 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3174656 AACCTACTCA
*
3174666 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3174696 TTGTTTACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3194596 original size:27 final size:28
Alignment explanation
Indices: 3194548--3194604 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
3194538 TAATTATTTA
* * *
3194548 TTTAATTTATTTAACGATTTAAAA-AAT
1 TTTAATATATTTAACAAATTAAAATAAT
*
3194575 TTTAATATATTTATCAAATTAAAATAAT
1 TTTAATATATTTAACAAATTAAAATAAT
3194603 TT
1 TT
3194605 GATTGTTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
TTTAATATATTTAACAAATTAAAATAAT
Found at i:3201325 original size:2 final size:2
Alignment explanation
Indices: 3201318--3201342 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3201308 TTATGACCTT
3201318 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 A
3201343 AAGGTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3206578 original size:14 final size:15
Alignment explanation
Indices: 3206547--3206600 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
3206537 AATATATGAG
3206547 TAAATAAAATAGAAA
1 TAAATAAAATAGAAA
3206562 TAAAT-AAATA-AACA
1 TAAATAAAATAGAA-A
*
3206576 TAAACAACAATA-AAA
1 TAAATAA-AATAGAAA
3206591 TAAATGAAAA
1 TAAAT-AAAA
3206601 CAAAAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 2 0.06
14 10 0.30
15 13 0.39
16 8 0.24
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.19
Consensus pattern (15 bp):
TAAATAAAATAGAAA
Found at i:3206725 original size:12 final size:13
Alignment explanation
Indices: 3206699--3206723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3206689 TTGGGTGATC
3206699 ATTAAAAAATTTT
1 ATTAAAAAATTTT
3206712 ATTAAAAAATTT
1 ATTAAAAAATTT
3206724 ATATAATATG
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAAAAATTTT
Found at i:3210059 original size:33 final size:33
Alignment explanation
Indices: 3209983--3210060 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
3209973 GTCAAATTAG
* *
3209983 CATGTCACGTTATCATCAATTATGATATATCAA
1 CATGTCACATTATCATCAATTATAATATATCAA
* * *
3210016 TAT-ACTACATTATTATCAATTATAATATATCAA
1 CATGTC-ACATTATCATCAATTATAATATATCAA
3210049 CATGTCACATTA
1 CATGTCACATTA
3210061 ACATAATGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
32 1 0.03
33 34 0.94
34 1 0.03
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (33 bp):
CATGTCACATTATCATCAATTATAATATATCAA
Found at i:3210158 original size:21 final size:21
Alignment explanation
Indices: 3210134--3210176 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3210124 ATTGGATTTG
3210134 AAATAAAAAT-TAAAGAGCTTA
1 AAATAAAAATAT-AAGAGCTTA
*
3210155 AAATGAAAATATAAGAGCTTA
1 AAATAAAAATATAAGAGCTTA
3210176 A
1 A
3210177 TTGAACATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (21 bp):
AAATAAAAATATAAGAGCTTA
Found at i:3211688 original size:2 final size:2
Alignment explanation
Indices: 3211681--3211705 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3211671 TGCCCGTAAG
3211681 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
3211706 CCTCCCTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3219886 original size:170 final size:170
Alignment explanation
Indices: 3219604--3219939 Score: 573
Period size: 170 Copynumber: 2.0 Consensus size: 170
3219594 TAGCTCTTCG
*
3219604 AACTCTTGTTTTAAGGTGGTCTTTTGAAGGTTCCGGACATGCAAAAATGTCATTGATGATATTTA
1 AACTCTTGTTTTAAGGTGGTCTTTTGAAGGTTCCAGACATGCAAAAATGTCATTGATGATATTTA
* *
3219669 TAAATGCAATAAAATTATGAATTTGGTTACTTCTACCTTTTGCTTTGTGGTGCCAATATTTTTCT
66 TAAATGCAATAAAATTATGAATGTGGTTACTTCTACCTTTTGCTTTGTCGTGCCAATATTTTTCT
*
3219734 TTGCTGGATTTTATCTGTCATAAGTGGGCTGGATTCGTCA
131 TTGCTGGATTTTATCTGTCACAAGTGGGCTGGATTCGTCA
*
3219774 AACTCTTGTTTTAGGGTGGTCTTTTGAAGGTTCCAGACATGCAAAAATGTCATTGATGATATTTA
1 AACTCTTGTTTTAAGGTGGTCTTTTGAAGGTTCCAGACATGCAAAAATGTCATTGATGATATTTA
* *
3219839 TGAATGCAATAAAATTATGAATGTGGTTACTTCTACTTTTTGCTTTGTCGTGCCAATATTTTTCT
66 TAAATGCAATAAAATTATGAATGTGGTTACTTCTACCTTTTGCTTTGTCGTGCCAATATTTTTCT
* * **
3219904 TTGTTGGATTTTATTTGTTGCAAGTGGGCTGGATTC
131 TTGCTGGATTTTATCTGTCACAAGTGGGCTGGATTC
3219940 AATGCTTTTC
Statistics
Matches: 155, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
170 155 1.00
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (170 bp):
AACTCTTGTTTTAAGGTGGTCTTTTGAAGGTTCCAGACATGCAAAAATGTCATTGATGATATTTA
TAAATGCAATAAAATTATGAATGTGGTTACTTCTACCTTTTGCTTTGTCGTGCCAATATTTTTCT
TTGCTGGATTTTATCTGTCACAAGTGGGCTGGATTCGTCA
Found at i:3229569 original size:4 final size:4
Alignment explanation
Indices: 3229560--3229587 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
3229550 ATCTAACTCC
3229560 GATT GATT GATT GATT GATT GATT GATT
1 GATT GATT GATT GATT GATT GATT GATT
3229588 CAGATAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GATT
Found at i:3233049 original size:33 final size:33
Alignment explanation
Indices: 3232964--3233057 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 33
3232954 GCTTAGTACG
* * *
3232964 CCTGCTATACGAATCGATGTGTTGTGTACATAT
1 CCTGCTATACGTATCGATATGTTGTATACATAT
** * * *
3232997 -CTTATCATATGTATTGATATATTGTATACATAT
1 CCTGCT-ATACGTATCGATATGTTGTATACATAT
3233030 CCTGCTATACGTATCGATATGTTGTATA
1 CCTGCTATACGTATCGATATGTTGTATA
3233058 TTGAAAGTGT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
32 3 0.07
33 40 0.87
34 3 0.07
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (33 bp):
CCTGCTATACGTATCGATATGTTGTATACATAT
Found at i:3241349 original size:20 final size:20
Alignment explanation
Indices: 3241321--3241360 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3241311 GAACCTAGGG
3241321 TTTTATTTTCTTTCTTCTTT
1 TTTTATTTTCTTTCTTCTTT
* *
3241341 TTTTTTTTTCTTTTTTCTTT
1 TTTTATTTTCTTTCTTCTTT
3241361 CTTCTTTCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTATTTTCTTTCTTCTTT
Found at i:3241355 original size:14 final size:14
Alignment explanation
Indices: 3241326--3241367 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
3241316 TAGGGTTTTA
3241326 TTTTCTTTCTTCTT
1 TTTTCTTTCTTCTT
*
3241340 TTTT-TTTTTTCTT
1 TTTTCTTTCTTCTT
3241353 TTTTCTTTCTTCTT
1 TTTTCTTTCTTCTT
3241367 T
1 T
3241368 CGGGGTGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTCTTCTT
Found at i:3241356 original size:11 final size:11
Alignment explanation
Indices: 3241327--3241368 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
3241317 AGGGTTTTAT
*
3241327 TTTCTTTCTTC
1 TTTCTTTTTTC
3241338 TTT-TTTTTT-
1 TTTCTTTTTTC
3241347 TTTCTTTTTTC
1 TTTCTTTTTTC
*
3241358 TTTCTTCTTTC
1 TTTCTTTTTTC
3241369 GGGGTGGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 3 0.11
10 11 0.41
11 13 0.48
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:3244551 original size:22 final size:24
Alignment explanation
Indices: 3244526--3244579 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
3244516 TTAAGACCCA
3244526 ATCAAAGAGTTCTTTTG-TC-TCC
1 ATCAAAGAGTTCTTTTGTTCATCC
*
3244548 ATCATACG-GTTCTTTTGTTCATCC
1 ATCA-AAGAGTTCTTTTGTTCATCC
3244572 -TCAAAGAG
1 ATCAAAGAG
3244580 AGTTTGATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
22 15 0.58
23 8 0.31
24 3 0.12
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (24 bp):
ATCAAAGAGTTCTTTTGTTCATCC
Found at i:3248577 original size:24 final size:25
Alignment explanation
Indices: 3248550--3248597 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
3248540 TGTTAGAGAG
*
3248550 GCAAGGAAG-AAGAGAGAAAGAGGA
1 GCAAGGAAGAAAGAAAGAAAGAGGA
3248574 GCAAGGAAGCAAAGAAAGAAAGAG
1 GCAAGGAAG-AAAGAAAGAAAGAG
3248598 CGCCGAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.56, C:0.06, G:0.38, T:0.00
Consensus pattern (25 bp):
GCAAGGAAGAAAGAAAGAAAGAGGA
Found at i:3250654 original size:30 final size:30
Alignment explanation
Indices: 3250614--3250685 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
3250604 ATTATTAATC
3250614 ATAAAGATTTTATTTGAT-TCAAAATAAAAAT
1 ATAAA-ATTTTATTT-ATGTCAAAATAAAAAT
*
3250645 ATAAAATTTTATTTATGTTAAAATAAAAAT
1 ATAAAATTTTATTTATGTCAAAATAAAAAT
*
3250675 ATAAAAATTTA
1 ATAAAATTTTA
3250686 ATTAAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 2 0.05
30 31 0.82
31 5 0.13
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (30 bp):
ATAAAATTTTATTTATGTCAAAATAAAAAT
Found at i:3250699 original size:29 final size:30
Alignment explanation
Indices: 3250634--3250709 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
3250624 TATTTGATTC
* * **
3250634 AAAATAAAAATATAAAATTTTATTTATGTT
1 AAAATAAAAATATAAAAATTTAATTATAAT
3250664 AAAATAAAAATATAAAAATTTAATTA-AAT
1 AAAATAAAAATATAAAAATTTAATTATAAT
* *
3250693 ATAATAAAACTATAAAA
1 AAAATAAAAATATAAAA
3250710 CGTTATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATAAAAATATAAAAATTTAATTATAAT
Found at i:3256839 original size:35 final size:34
Alignment explanation
Indices: 3256751--3256842 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 34
3256741 AACAACAATT
* *
3256751 ACAAGTGAAGTAGTACTTCACATAAAACAATTAAA
1 ACAAGTAAAGTA-TACTTCACATAAAACAACTAAA
** * * *
3256786 ACAAGTAAAGCTCCACTTCATATAGAACAACTAGA
1 ACAAGTAAAG-TATACTTCACATAAAACAACTAAA
3256821 ACAAGTAAAGATATACTTCACA
1 ACAAGTAAAG-TATACTTCACA
3256843 CTGAACAATT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
35 44 0.98
36 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (34 bp):
ACAAGTAAAGTATACTTCACATAAAACAACTAAA
Found at i:3266911 original size:5 final size:5
Alignment explanation
Indices: 3266901--3266925 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3266891 TTTTACGGTG
3266901 AAGAA AAGAA AAGAA AAGAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA
3266926 GATCAGTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:3275030 original size:2 final size:2
Alignment explanation
Indices: 3275023--3275068 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3275013 TTTTTCCTTT
3275023 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
3275065 TG TG
1 TG TG
3275069 GGATTGACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3282465 original size:2 final size:2
Alignment explanation
Indices: 3282458--3282492 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
3282448 TAAGTACTAT
3282458 TA TA TA TA -A TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3282493 TTAATGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3299636 original size:51 final size:51
Alignment explanation
Indices: 3299560--3299661 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
3299550 TCCTGACACT
*
3299560 TATCCAAATTCTGAAATCGATTCCTTAAACGGACTATTAGGAGGGCAACAG
1 TATCCAAATTCTGAAATCGATTCCTTAAACGGAATATTAGGAGGGCAACAG
3299611 TATCCAAATTCTGAAATCGATTCCTTAAACGGAATATTAGGAGGGCAACAG
1 TATCCAAATTCTGAAATCGATTCCTTAAACGGAATATTAGGAGGGCAACAG
3299662 CATCTGCTGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (51 bp):
TATCCAAATTCTGAAATCGATTCCTTAAACGGAATATTAGGAGGGCAACAG
Found at i:3320924 original size:2 final size:2
Alignment explanation
Indices: 3320917--3320958 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3320907 GCTAACAATA
*
3320917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3320959 TAAGTTCCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3327351 original size:15 final size:16
Alignment explanation
Indices: 3327330--3327371 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
3327320 ACCAACTCCG
3327330 TTTTTATATTTTTTAA
1 TTTTTATATTTTTTAA
**
3327346 -TTTTATATAATTTAA
1 TTTTTATATTTTTTAA
3327361 TTTTTATATTT
1 TTTTTATATTT
3327372 AAAATTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTATATTTTTTAA
Found at i:3327400 original size:29 final size:31
Alignment explanation
Indices: 3327352--3327428 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
3327342 TTAATTTTAT
3327352 ATAATTTAA-TTTTTATA-TTT-AAAATTAAA
1 ATAATTTAATTTTTTATATTTTAAAAATT-AA
*
3327381 ATAATTTAATTTTTTA-ATTTTAAAAATTAC
1 ATAATTTAATTTTTTATATTTTAAAAATTAA
*
3327411 TTCAATTTAATTTTTTAT
1 AT-AATTTAATTTTTTAT
3327429 CTAAAGATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 10 0.24
30 11 0.27
31 20 0.49
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
ATAATTTAATTTTTTATATTTTAAAAATTAA
Found at i:3327403 original size:24 final size:24
Alignment explanation
Indices: 3327332--3327405 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 24
3327322 CAACTCCGTT
*
3327332 TTTATATTTTTTAATTTT-ATATAA
1 TTTA-ATTTTTTAATTTTAAAATAA
*
3327356 TTTAATTTTTATATTTAAAATTAAAATAA
1 TTTAATTTTT-TAATT----TTAAAATAA
3327385 TTTAATTTTTTAATTTTAAAA
1 TTTAATTTTTTAATTTTAAAA
3327406 ATTACTTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
23 6 0.15
24 14 0.34
28 6 0.15
29 15 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTAATTTTTTAATTTTAAAATAA
Found at i:3327540 original size:30 final size:30
Alignment explanation
Indices: 3327505--3327571 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
3327495 GATGTTGAGA
*
3327505 TGATGACGTGGCATGCCACGT-GAAATCGAG
1 TGATGACGTGGCATGCCACGTAG-AATCAAG
* *
3327535 TGATGATGTGGCATGTCACGTAGAATCAAG
1 TGATGACGTGGCATGCCACGTAGAATCAAG
3327565 TGATGAC
1 TGATGAC
3327572 ATGGTAATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (30 bp):
TGATGACGTGGCATGCCACGTAGAATCAAG
Found at i:3328136 original size:107 final size:108
Alignment explanation
Indices: 3328019--3328227 Score: 348
Period size: 107 Copynumber: 1.9 Consensus size: 108
3328009 TAAAATAACT
* * * *
3328019 AAATATGTTGATTTAGTTATAACTTTTACAATTTACAAATACACATTTTT-TTAAATTATTTAAC
1 AAATATGTTGATTTAGTTATAACTTTCACAATTTACAAATACAAATTTTTATGAAATTATTCAAC
3328083 TCTTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAGCA
66 TCTTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAGCA
* *
3328126 AAATATGTTGATTTAGTTATAACTTTCACAATTTGCAAATACAAATTTTTATGAAATTATTCAAT
1 AAATATGTTGATTTAGTTATAACTTTCACAATTTACAAATACAAATTTTTATGAAATTATTCAAC
*
3328191 TCTTACCCAGTTTACCTTTTATTTAAATTTACTCAAA
66 TCTTACCCAATTTACCTTTTATTTAAATTTACTCAAA
3328228 ATTTCTTATA
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
107 47 0.50
108 47 0.50
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (108 bp):
AAATATGTTGATTTAGTTATAACTTTCACAATTTACAAATACAAATTTTTATGAAATTATTCAAC
TCTTACCCAATTTACCTTTTATTTAAATTTACTCAAATTAGCA
Found at i:3328246 original size:107 final size:107
Alignment explanation
Indices: 3328027--3328227 Score: 303
Period size: 108 Copynumber: 1.9 Consensus size: 107
3328017 CTAAATATGT
* * * *
3328027 TGATTTAGTTATAACTTTTACAATTTACAAATACACATTTTTTTAAATTATTTAACTCTTACCCA
1 TGATTTAGTTATAACTTTCACAATTTACAAATACAAATTTTTTGAAATTATTCAACTCTTACCCA
***
3328092 ATTTACCTTTTATTTAAATTTACTCAAATTAGCAAAATATGT
66 ATTTACCTTTTATTTAAATTTACTCAAATTAGCAAAATAAAA
* *
3328134 TGATTTAGTTATAACTTTCACAATTTGCAAATACAAATTTTTATGAAATTATTCAATTCTTACCC
1 TGATTTAGTTATAACTTTCACAATTTACAAATACAAATTTTT-TGAAATTATTCAACTCTTACCC
*
3328199 AGTTTACCTTTTATTTAAATTTACTCAAA
65 AATTTACCTTTTATTTAAATTTACTCAAA
3328228 ATTTCTTATA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
107 39 0.45
108 47 0.55
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.45
Consensus pattern (107 bp):
TGATTTAGTTATAACTTTCACAATTTACAAATACAAATTTTTTGAAATTATTCAACTCTTACCCA
ATTTACCTTTTATTTAAATTTACTCAAATTAGCAAAATAAAA
Found at i:3329224 original size:30 final size:30
Alignment explanation
Indices: 3329174--3329241 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
3329164 ATAATGACAC
* * * *
3329174 GTGGCATTGCCATATTATCACTCGGTCCCAG
1 GTGGCA-TGCCACATCATCACTCGATCCCAA
3329205 GTGGCATGCCACATCATCACTCGATCCCAA
1 GTGGCATGCCACATCATCACTCGATCCCAA
3329235 GT-GCATG
1 GTGGCATG
3329242 ACACGCCATC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 5 0.15
30 22 0.67
31 6 0.18
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (30 bp):
GTGGCATGCCACATCATCACTCGATCCCAA
Found at i:3329251 original size:29 final size:30
Alignment explanation
Indices: 3329190--3329252 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
3329180 TTGCCATATT
* * * *
3329190 ATCACTCGGTCCCAGGTGGCATGCCACATC
1 ATCACTCGATCCCAAGTGGCATGACACACC
*
3329220 ATCACTCGATCCCAAGT-GCATGACACGCC
1 ATCACTCGATCCCAAGTGGCATGACACACC
3329249 ATCA
1 ATCA
3329253 AAATGTGACT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.25, C:0.37, G:0.19, T:0.19
Consensus pattern (30 bp):
ATCACTCGATCCCAAGTGGCATGACACACC
Found at i:3331093 original size:32 final size:32
Alignment explanation
Indices: 3331057--3331132 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
3331047 AAATTATTTG
*
3331057 TTGATGTGTTTTAGTACAACTT-TATTAGGAAC
1 TTGATGTGTTTTAGTACAA-TTCTATTAAGAAC
* *
3331089 TTGATATG-TTTAGTACAATTCTATTAAGAAG
1 TTGATGTGTTTTAGTACAATTCTATTAAGAAC
3331120 TT-ATTGTGTTTTA
1 TTGA-TGTGTTTTA
3331133 ATATGTCTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
30 3 0.08
31 23 0.62
32 11 0.30
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (32 bp):
TTGATGTGTTTTAGTACAATTCTATTAAGAAC
Found at i:3338794 original size:22 final size:21
Alignment explanation
Indices: 3338758--3338807 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
3338748 ATTTTAGTTC
3338758 ATTTTTAGGATAAAAATCCCT
1 ATTTTTAGGATAAAAATCCCT
*
3338779 ATTTTTAGGATAAAAATGCCT
1 ATTTTTAGGATAAAAATCCCT
3338800 ATTTTTAG
1 ATTTTTAG
3338808 CTATGGCTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (21 bp):
ATTTTTAGGATAAAAATCCCT
Found at i:3348415 original size:34 final size:34
Alignment explanation
Indices: 3348372--3348440 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
3348362 ACATAGTTGG
3348372 AACTTGGAATATTTACAACTCCAACAATGGCTTT
1 AACTTGGAATATTTACAACTCCAACAATGGCTTT
3348406 AACTTGGAATATTTACAACTCCAACAATGGCTTT
1 AACTTGGAATATTTACAACTCCAACAATGGCTTT
3348440 A
1 A
3348441 CAATTTTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (34 bp):
AACTTGGAATATTTACAACTCCAACAATGGCTTT
Found at i:3352471 original size:108 final size:108
Alignment explanation
Indices: 3352356--3352565 Score: 368
Period size: 108 Copynumber: 1.9 Consensus size: 108
3352346 TATAAGAAAT
* * *
3352356 TTTGAGTAAATTTAAATAAAAGGTAAATTGGGTAAGAGTTGAATAATTTCAAAAGAATGTGTATT
1 TTTGAGTAAATTTAAATAAAAGGTAAATTAGATAAGAGTTGAATAATTTCAAAAGAATATGTATT
3352421 TGTAAA-TATTGAAAGTTGTAACTAAATCAACATATTTTATTAA
66 TGTAAATTA-TGAAAGTTGTAACTAAATCAACATATTTTATTAA
*
3352464 TTTGAGTAAATTTAAATAAAAGGTAAATTAGATAAGAGTTGAATAATTTTAAAAGAATATGTATT
1 TTTGAGTAAATTTAAATAAAAGGTAAATTAGATAAGAGTTGAATAATTTCAAAAGAATATGTATT
3352529 TGTAAATTATGAAAGTTGTAACTAAATCAACATATTT
66 TGTAAATTATGAAAGTTGTAACTAAATCAACATATTT
3352566 AGTCATTTTA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
108 95 0.98
109 2 0.02
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (108 bp):
TTTGAGTAAATTTAAATAAAAGGTAAATTAGATAAGAGTTGAATAATTTCAAAAGAATATGTATT
TGTAAATTATGAAAGTTGTAACTAAATCAACATATTTTATTAA
Found at i:3361644 original size:29 final size:29
Alignment explanation
Indices: 3361595--3361691 Score: 151
Period size: 29 Copynumber: 3.3 Consensus size: 29
3361585 AAGTGTACAA
* * *
3361595 AATA-TTTTTGAATATGACGTGTAATAAT
1 AATATTTTTTCAACATGGCGTGTAATAAT
3361623 AATATTTTTTCAACATGGCGTGTAATAAT
1 AATATTTTTTCAACATGGCGTGTAATAAT
3361652 AATATTTTTTCAACATGGCGTGTAATAAT
1 AATATTTTTTCAACATGGCGTGTAATAAT
3361681 AATATATTTTT
1 AATAT-TTTTT
3361692 TTCATTATGG
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 4 0.06
29 55 0.86
30 5 0.08
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (29 bp):
AATATTTTTTCAACATGGCGTGTAATAAT
Found at i:3361681 original size:32 final size:32
Alignment explanation
Indices: 3361616--3361708 Score: 131
Period size: 29 Copynumber: 3.0 Consensus size: 32
3361606 ATATGACGTG
3361616 TAATAATAATATTTTTTCAACATGGCGTG---
1 TAATAATAATATTTTTTCAACATGGCGTGTAA
3361645 TAATAATAATATTTTTTCAACATGGCGTGTAA
1 TAATAATAATATTTTTTCAACATGGCGTGTAA
**
3361677 TAATAAT-ATATTTTTTTCATTATGGCGTGTAA
1 TAATAATAATA-TTTTTTCAACATGGCGTGTAA
3361709 CAACTTTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
29 29 0.50
31 3 0.05
32 26 0.45
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (32 bp):
TAATAATAATATTTTTTCAACATGGCGTGTAA
Found at i:3361716 original size:26 final size:26
Alignment explanation
Indices: 3361687--3361761 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
3361677 TAATAATATA
* *
3361687 TTTTTTTCATTATGGCGTGTAACAAC
1 TTTTTTTAATTATGACGTGTAACAAC
3361713 TTTTTTTAATTATGACGTGTAACATA-
1 TTTTTTTAATTATGACGTGTAACA-AC
* *
3361739 TTTTTGT-A-CATGACGTGTAACAA
1 TTTTTTTAATTATGACGTGTAACAA
3361762 TAGTATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 1 0.02
24 13 0.30
25 1 0.02
26 28 0.64
27 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (26 bp):
TTTTTTTAATTATGACGTGTAACAAC
Found at i:3361732 original size:58 final size:57
Alignment explanation
Indices: 3361595--3361734 Score: 151
Period size: 58 Copynumber: 2.4 Consensus size: 57
3361585 AAGTGTACAA
*
3361595 AATATTTTTGAATATGACGTGTAATAATAATATTTTTTCAACATGGCGTGTAATAAT
1 AATATTTTTTAATATGACGTGTAATAATAATATTTTTTCAACATGGCGTGTAATAAT
* * ** *
3361652 AATATTTTTTCAACATGGCGTGTAATAATAATATATTTTTTTCATTATGGCGTGTAA-CA-
1 AATATTTTTT-AATATGACGTGTAATAAT-A-ATA-TTTTTTCAACATGGCGTGTAATAAT
*
3361711 ACT-TTTTTTAATTATGACGTGTAA
1 AATATTTTTTAA-TATGACGTGTAA
3361735 CATATTTTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
57 11 0.16
58 32 0.46
59 3 0.04
60 4 0.06
61 19 0.28
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.44
Consensus pattern (57 bp):
AATATTTTTTAATATGACGTGTAATAATAATATTTTTTCAACATGGCGTGTAATAAT
Found at i:3361962 original size:25 final size:24
Alignment explanation
Indices: 3361934--3361988 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
3361924 TTAAAAATAG
*
3361934 TTAAAATTATA-AAGAGAATTATTTT
1 TTAAAATCATATAAGAG--TTATTTT
3361959 TTAAAA-CATATAAGAGTTATTTT
1 TTAAAATCATATAAGAGTTATTTT
*
3361982 TAAAAAT
1 TTAAAAT
3361989 ACCCCTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 12 0.46
24 3 0.12
25 11 0.42
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (24 bp):
TTAAAATCATATAAGAGTTATTTT
Found at i:3365740 original size:2 final size:2
Alignment explanation
Indices: 3365733--3365759 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3365723 TGTGTATGAG
3365733 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3365760 TTCTTTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3371755 original size:23 final size:22
Alignment explanation
Indices: 3371703--3371855 Score: 164
Period size: 23 Copynumber: 6.7 Consensus size: 22
3371693 AAGTGTTAGC
3371703 ACATGGCGTGTAACATTTTTATTGA
1 ACATGGCGTGTAACA--TTT-TTGA
*
3371728 ACATGGCGTGTAACATGTTGTGA
1 ACATGGCGTGTAACAT-TTTTGA
*
3371751 ACATGACGTGTAACAATTTTTGA
1 ACATGGCGTGTAAC-ATTTTTGA
*
3371774 AC-TTGCGTGTAACATTTTTGA
1 ACATGGCGTGTAACATTTTTGA
3371795 ACATGGCGTGTAACATTTTTTGA
1 ACATGGCGTGTAACA-TTTTTGA
* *
3371818 ATATGGTGTGTAACATTTTTTGA
1 ACATGGCGTGTAACA-TTTTTGA
** *
3371841 ATGTGGCATGTAACA
1 ACATGGCGTGTAACA
3371856 ATATGACTGA
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
21 10 0.09
22 20 0.18
23 64 0.57
24 4 0.04
25 15 0.13
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (22 bp):
ACATGGCGTGTAACATTTTTGA
Found at i:3371805 original size:67 final size:69
Alignment explanation
Indices: 3371708--3371841 Score: 191
Period size: 67 Copynumber: 2.0 Consensus size: 69
3371698 TTAGCACATG
3371708 GCGTGTAACATTTTTATTGAACATGGCGTGTAACATGTTGTGAACATGACGTGTAACAATTTTTG
1 GCGTGTAACA-TTTTATTGAACATGGCGTGTAACATGTTGTGAACATGACGTGTAACAATTTTTG
3371773 AACTT
65 AACTT
* * * ** *
3371778 GCGTGTAACA-TTT-TTGAACATGGCGTGTAACATTTTTTGAATATGGTGTGTAACATTTTTTGA
1 GCGTGTAACATTTTATTGAACATGGCGTGTAACATGTTGTGAACATGACGTGTAACAATTTTTGA
3371841 A
66 A
3371842 TGTGGCATGT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
67 45 0.78
68 3 0.05
70 10 0.17
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.40
Consensus pattern (69 bp):
GCGTGTAACATTTTATTGAACATGGCGTGTAACATGTTGTGAACATGACGTGTAACAATTTTTGA
ACTT
Found at i:3375966 original size:137 final size:137
Alignment explanation
Indices: 3375720--3375994 Score: 469
Period size: 137 Copynumber: 2.0 Consensus size: 137
3375710 GCAAAGGTCC
3375720 TATCCCCTCTTACAGTTGCCTCGACTACTACATCAACCTGAAGAACATGGTCTCTTTCAGCCTCA
1 TATCCCCTCTTACAGTTGCCTCGACTACTACATCAACCTGAAGAACATGGTCTCTTTCAGCCTCA
* * *
3375785 ACTAAGTGAAGGTCCCCTTTCTCTCTCGCAGATATATCAACAACTGCATCAGCCTGAGGAACATA
66 ACTAAGTGAAGGTCCCCTTCCCCTCTCGCAGATATACCAACAACTGCATCAGCCTGAGGAACATA
3375850 GTCTCCT
131 GTCTCCT
* **
3375857 TATCCGCTCTTACAGTTGCCTCGACTACTACATCGGCCTGAAGAACATGGTCTCTTTCAGCCTCA
1 TATCCCCTCTTACAGTTGCCTCGACTACTACATCAACCTGAAGAACATGGTCTCTTTCAGCCTCA
* *
3375922 ACTGAGTGAAGGTCCCCTTCCCCTCTCGCAGATATACCAACAACTGCATCGGCCTGAGGAACATA
66 ACTAAGTGAAGGTCCCCTTCCCCTCTCGCAGATATACCAACAACTGCATCAGCCTGAGGAACATA
*
3375987 GTTTCCT
131 GTCTCCT
3375994 T
1 T
3375995 CAGCATCAAC
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
137 129 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (137 bp):
TATCCCCTCTTACAGTTGCCTCGACTACTACATCAACCTGAAGAACATGGTCTCTTTCAGCCTCA
ACTAAGTGAAGGTCCCCTTCCCCTCTCGCAGATATACCAACAACTGCATCAGCCTGAGGAACATA
GTCTCCT
Found at i:3376816 original size:151 final size:151
Alignment explanation
Indices: 3376616--3377013 Score: 423
Period size: 151 Copynumber: 2.6 Consensus size: 151
3376606 GATCGGTCGA
* * * * * *
3376616 TGGTTGATGAGTTGTCGTCGCCTCCGTCAATTTCAATAACAAAAATTACTGTGTTATTCAATAAA
1 TGGTTGAGGAGCTGTCGTCGCCTCCGTCAACTGCAATAACAGAAATTACTGTGTTATTCGATAAA
* * * * *
3376681 CATATGTGAAAATATTGAACACAAATCGTTAGAATCGTTCTTACCGG-TGACTCGTTAGTATTAT
66 CATATGTGAAAATATTGAACACAAATCGTTAGAACCATTCTTACCGGCAG-CTCGTTAGCACTAT
* *
3376745 GCAG-TTGAGCA-AGACCGATCAG
130 GC-GTTTGAACAGA-ACCGATAAG
* ** *
3376767 TGGTTGAGGAGCTGTCATCGCCTCTATCAACTGCAATAACAGAAATTACTGTATTATTCGATAAA
1 TGGTTGAGGAGCTGTCGTCGCCTCCGTCAACTGCAATAACAGAAATTACTGTGTTATTCGATAAA
* * *
3376832 CATTTGTGAAAATATTGAACACAAA-CTGTTAGAACCATTCTTATCGGCAGCTCGTTAGCACTGT
66 CATATGTGAAAATATTGAACACAAATC-GTTAGAACCATTCTTACCGGCAGCTCGTTAGCACTAT
**
3376896 GCGTTTGAACAGAACCTTTAAG
130 GCGTTTGAACAGAACCGATAAG
* ** * *
3376918 TGGTTGAGGAGCTGTCGTCGCATGGGTCAACTGTAA-ATACAGATATTACTGTGTTATTCGATAA
1 TGGTTGAGGAGCTGTCGTCGCCTCCGTCAACTGCAATA-ACAGAAATTACTGTGTTATTCGATAA
* *
3376982 TCACATATG-G-AATTGTTGAACACAAATCGTTA
65 --ACATATGTGAAAATATTGAACACAAATCGTTA
3377014 AAACTGTCTT
Statistics
Matches: 206, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
150 3 0.01
151 193 0.94
152 4 0.02
153 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (151 bp):
TGGTTGAGGAGCTGTCGTCGCCTCCGTCAACTGCAATAACAGAAATTACTGTGTTATTCGATAAA
CATATGTGAAAATATTGAACACAAATCGTTAGAACCATTCTTACCGGCAGCTCGTTAGCACTATG
CGTTTGAACAGAACCGATAAG
Found at i:3378496 original size:31 final size:31
Alignment explanation
Indices: 3378427--3378504 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
3378417 AGAAAGAAAT
* * * *
3378427 AAATGTTATTGCACACTATGCATACCAAGTA
1 AAATGTTGTTACACGCTAAGCATACCAAGTA
*
3378458 AAATGTTGTTACACGCTAAGCATACCAAGTC
1 AAATGTTGTTACACGCTAAGCATACCAAGTA
*
3378489 AAATGTTGTTAAACGC
1 AAATGTTGTTACACGC
3378505 CAACGTTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (31 bp):
AAATGTTGTTACACGCTAAGCATACCAAGTA
Found at i:3379237 original size:21 final size:22
Alignment explanation
Indices: 3379213--3379257 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
3379203 TTTTTCCTAT
*
3379213 TTCAAACTATGG-TGTCACATA
1 TTCAAACCATGGATGTCACATA
3379234 TTCAAACCATGGCATGTCACATA
1 TTCAAACCATGG-ATGTCACATA
3379257 T
1 T
3379258 ATGCTCACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
23 10 0.48
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (22 bp):
TTCAAACCATGGATGTCACATA
Found at i:3379255 original size:23 final size:23
Alignment explanation
Indices: 3379213--3379302 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 23
3379203 TTTTTCCTAT
*
3379213 TTCAAACTATGG--TGTCACATA
1 TTCAAACCATGGCATGTCACATA
3379234 TTCAAACCATGGCATGTCACATA
1 TTCAAACCATGGCATGTCACATA
** * *
3379257 TATGCTCACCATGGCGTGTCACAGA
1 T-T-CAAACCATGGCATGTCACATA
** *
3379282 TTCTCACCATGCCATGTCACA
1 TTCAAACCATGGCATGTCACA
3379303 CGATGTCAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 11 0.19
23 27 0.47
24 2 0.03
25 18 0.31
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (23 bp):
TTCAAACCATGGCATGTCACATA
Found at i:3379267 original size:25 final size:23
Alignment explanation
Indices: 3379225--3379302 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
3379215 CAAACTATGG
* **
3379225 TGTCACATATTCAAACCATGGCA
1 TGTCACAGATTCTCACCATGGCA
* *
3379248 TGTCACATATATGCTCACCATGGCG
1 TGTCACAGAT-T-CTCACCATGGCA
*
3379273 TGTCACAGATTCTCACCATGCCA
1 TGTCACAGATTCTCACCATGGCA
3379296 TGTCACA
1 TGTCACA
3379303 CGATGTCAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 27 0.57
24 2 0.04
25 18 0.38
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (23 bp):
TGTCACAGATTCTCACCATGGCA
Found at i:3379410 original size:23 final size:23
Alignment explanation
Indices: 3379384--3379433 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
3379374 CGTGTCACAT
* *
3379384 ATTCTCATCGTGCCGTCTCATAC
1 ATTCTCACCCTGCCGTCTCATAC
* *
3379407 ATTCTCACCCTGCCGTGTCATAG
1 ATTCTCACCCTGCCGTCTCATAC
3379430 ATTC
1 ATTC
3379434 CCTCCATGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.18, C:0.34, G:0.14, T:0.34
Consensus pattern (23 bp):
ATTCTCACCCTGCCGTCTCATAC
Found at i:3379536 original size:23 final size:23
Alignment explanation
Indices: 3379480--3379628 Score: 92
Period size: 23 Copynumber: 6.6 Consensus size: 23
3379470 GTTATAGCCG
* *
3379480 TGTCACATATGCTCACCATGCCA
1 TGTCACATATTCTTACCATGCCA
* * *
3379503 TCTCACATATTCTTACTATGGCA
1 TGTCACATATTCTTACCATGCCA
* *
3379526 TGTCACATATTCATACCATGTCA
1 TGTCACATATTCTTACCATGCCA
*
3379549 TGTCAC--ATTCTTA-CACTAG-CG
1 TGTCACATATTCTTACCA-T-GCCA
* * * *
3379570 TGTCATATATTCTCACCATGTCT
1 TGTCACATATTCTTACCATGCCA
* * * *
3379593 TCTCACATATTCCTT-CCAAGTCG
1 TGTCACATATT-CTTACCATGCCA
3379616 TGTCACATATTCT
1 TGTCACATATTCT
3379629 CACTCTGTCG
Statistics
Matches: 99, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
20 2 0.02
21 13 0.13
22 4 0.04
23 76 0.77
24 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.36
Consensus pattern (23 bp):
TGTCACATATTCTTACCATGCCA
Found at i:3379555 original size:46 final size:46
Alignment explanation
Indices: 3379480--3379631 Score: 145
Period size: 46 Copynumber: 3.3 Consensus size: 46
3379470 GTTATAGCCG
* * *
3379480 TGTCACATATGCTCACCATGCCATCTCACATATTCTTACTA-TGGCA
1 TGTCACATATTCTCACCATGTCATCTCACATATTCTTAC-ACTAGCA
* *
3379526 TGTCACATATTCAT-ACCATGTCATGTCAC--ATTCTTACACTAGCG
1 TGTCACATATTC-TCACCATGTCATCTCACATATTCTTACACTAGCA
* * * *
3379570 TGTCATATATTCTCACCATGTCTTCTCACATATTCCTT-C-CAAGTCG
1 TGTCACATATTCTCACCATGTCATCTCACATATT-CTTACACTAG-CA
3379616 TGTCACATATTCTCAC
1 TGTCACATATTCTCAC
3379632 TCTGTCGTGT
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.02
44 35 0.39
45 3 0.03
46 45 0.51
47 4 0.04
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.36
Consensus pattern (46 bp):
TGTCACATATTCTCACCATGTCATCTCACATATTCTTACACTAGCA
Found at i:3379723 original size:23 final size:22
Alignment explanation
Indices: 3379697--3379784 Score: 77
Period size: 23 Copynumber: 3.9 Consensus size: 22
3379687 GTCACAATCT
* *
3379697 TGTCACATATTCTCACCATGATG
1 TGTCACACATTCCCACCATG-TG
* * *
3379720 TGTCATACATTCCCACTATGCCG
1 TGTCACACATTCCCACCATG-TG
* * *
3379743 TGTCATACATTCCCACTATGTT
1 TGTCACACATTCCCACCATGTG
*
3379765 TGTCACACATTCTCACCATG
1 TGTCACACATTCCCACCATG
3379785 GCGTTTCACA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
22 17 0.31
23 37 0.69
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (22 bp):
TGTCACACATTCCCACCATGTG
Found at i:3380824 original size:80 final size:79
Alignment explanation
Indices: 3380667--3380823 Score: 221
Period size: 80 Copynumber: 2.0 Consensus size: 79
3380657 TATAAACGGT
* * * *
3380667 GAAATTAACCATAGTAGAACTGTAAAAGTGCTTTCAATTGCTAAATAAAAGGAGGGAGGGCTTCT
1 GAAAGTAACCATAGTAAAACTGTAAAAGTGATTTCAATTGCCAAATAAAA-GAGGGAGGGCTTCT
3380732 CACAAGAGCTAGCTA
65 CACAAGAGCTAGCTA
* *
3380747 GAAAGTAATCATAGTAAAACTGTAAAAGTGATTTCAATTGCCAAA-GAAA-A-GGAGGGCTTCTC
1 GAAAGTAACCATAGTAAAACTGTAAAAGTGATTTCAATTGCCAAATAAAAGAGGGAGGGCTTCTC
*
3380809 CCAAGAGCTAGCTA
66 ACAAGAGCTAGCTA
3380823 G
1 G
3380824 CAGTCTTTGC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 26 0.37
77 1 0.01
79 3 0.04
80 40 0.57
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (79 bp):
GAAAGTAACCATAGTAAAACTGTAAAAGTGATTTCAATTGCCAAATAAAAGAGGGAGGGCTTCTC
ACAAGAGCTAGCTA
Found at i:3402649 original size:14 final size:15
Alignment explanation
Indices: 3402621--3402654 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3402611 GTTTTTAATC
*
3402621 TAAAAAATTTCAACT
1 TAAAAAATATCAACT
3402636 TAAAAAATAT-AACT
1 TAAAAAATATCAACT
3402650 TAAAA
1 TAAAA
3402655 TATTAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAAATATCAACT
Done.