Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 13 of 195
Found at i:2940164 original size:18 final size:17
Alignment explanation
Indices: 2940135--2940177 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
2940125 GAATTAAATC
*
2940135 AAATTATATATATTTATT
1 AAATTTTATATATTT-TT
*
2940153 AATTTTTATATATTTTT
1 AAATTTTATATATTTTT
2940170 AAATTTTA
1 AAATTTTA
2940178 AAATTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATTTTATATATTTTT
Found at i:2940213 original size:12 final size:12
Alignment explanation
Indices: 2940198--2940246 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
2940188 AAATTATTAT
2940198 TTATATTAAAAA
1 TTATATTAAAAA
2940210 TTATATT-AAAA
1 TTATATTAAAAA
*
2940221 TAATATATAAAAA
1 TTATAT-TAAAAA
*
2940234 -TAAATTAAAAA
1 TTATATTAAAAA
2940245 TT
1 TT
2940247 TTAATTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 15 0.48
12 12 0.39
13 4 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TTATATTAAAAA
Found at i:2943870 original size:14 final size:14
Alignment explanation
Indices: 2943831--2943870 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2943821 AGAAAGCTTC
*
2943831 TTATCATTATAAGA
1 TTATCATTATGAGA
**
2943845 TTATCAGCATGAGA
1 TTATCATTATGAGA
2943859 TTATCATTATGA
1 TTATCATTATGA
2943871 CAAAATGCAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (14 bp):
TTATCATTATGAGA
Found at i:2945133 original size:20 final size:22
Alignment explanation
Indices: 2945094--2945134 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2945084 AGATACTAAT
*
2945094 AAAAGATTGAAATCAGTATATG
1 AAAAGAATGAAATCAGTATATG
2945116 AAAAGAATG-AAT-AGTATAT
1 AAAAGAATGAAATCAGTATAT
2945135 ATTCAGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.54, C:0.02, G:0.17, T:0.27
Consensus pattern (22 bp):
AAAAGAATGAAATCAGTATATG
Found at i:2947356 original size:2 final size:2
Alignment explanation
Indices: 2947349--2947373 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2947339 ATAATAATTT
2947349 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
2947374 TGGCTAAATG
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:2954867 original size:62 final size:63
Alignment explanation
Indices: 2954787--2954913 Score: 193
Period size: 62 Copynumber: 2.0 Consensus size: 63
2954777 AGATATCATT
* *
2954787 CATTTCTTTTTATATACTAATAGCAATTAAAATGCTGCATGCGTATTAAAAACAGCCCTATGA
1 CATTTCTTTTTATATACTAATAGCAATTAAAAAGCTGCATGCGTAATAAAAACAGCCCTATGA
* * * *
2954850 CATTTTTTTTTA-ATACTAATAGCAATTAAAAAGCTGCTTGCTTAATAAAAATAGCCCTATGA
1 CATTTCTTTTTATATACTAATAGCAATTAAAAAGCTGCATGCGTAATAAAAACAGCCCTATGA
2954912 CA
1 CA
2954914 CTATCAAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
62 47 0.81
63 11 0.19
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (63 bp):
CATTTCTTTTTATATACTAATAGCAATTAAAAAGCTGCATGCGTAATAAAAACAGCCCTATGA
Found at i:2962891 original size:38 final size:38
Alignment explanation
Indices: 2962840--2962916 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
2962830 AACACTTGGT
2962840 AAACACTGGCTATTGACATAACAATTGATGGGTCACAC
1 AAACACTGGCTATTGACATAACAATTGATGGGTCACAC
2962878 AAACACTGGCTATTGACATAACAATTGATGGGTCACAC
1 AAACACTGGCTATTGACATAACAATTGATGGGTCACAC
2962916 A
1 A
2962917 CCAGAGTCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (38 bp):
AAACACTGGCTATTGACATAACAATTGATGGGTCACAC
Found at i:2970697 original size:2 final size:2
Alignment explanation
Indices: 2970690--2970725 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2970680 CTCCCAAACT
2970690 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
2970726 CCCATGCTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2971443 original size:15 final size:15
Alignment explanation
Indices: 2971423--2971452 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2971413 AAAAAAAGTT
2971423 AGAATTTTTTTTTTA
1 AGAATTTTTTTTTTA
2971438 AGAATTTTTTTTTTA
1 AGAATTTTTTTTTTA
2971453 TATTTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
AGAATTTTTTTTTTA
Found at i:2973058 original size:10 final size:10
Alignment explanation
Indices: 2973029--2973058 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
2973019 ATTAATTGAA
2973029 TTAATAAATT
1 TTAATAAATT
2973039 TTAATCAAATT
1 TTAAT-AAATT
2973050 TTAATAAAT
1 TTAATAAAT
2973059 AAAAGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
TTAATAAATT
Found at i:2973963 original size:23 final size:22
Alignment explanation
Indices: 2973936--2973982 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
2973926 TAATATTTGA
* *
2973936 ATTTAAAATTTTTTTAATTTAAT
1 ATTTAAAAATTTATTAA-TTAAT
2973959 ATTTAAAAATTTATTAATTAAT
1 ATTTAAAAATTTATTAATTAAT
2973981 AT
1 AT
2973983 AATATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTAAAAATTTATTAATTAAT
Found at i:2976076 original size:22 final size:21
Alignment explanation
Indices: 2976027--2976111 Score: 61
Period size: 22 Copynumber: 4.0 Consensus size: 21
2976017 TGAATTTTAA
*
2976027 AGTTTT-GTATTTTAGGGTTT
1 AGTTTTAGGATTTTAGGGTTT
*
2976047 AGAATTTAGGATTTTAGGGTTT
1 AG-TTTTAGGATTTTAGGGTTT
* *
2976069 CAGTTTTAGG-GTTTAAGGTTT
1 -AGTTTTAGGATTTTAGGGTTT
*
2976090 GAAGTTTT-GG-TTTTAGGATTT
1 --AGTTTTAGGATTTTAGGGTTT
2976111 A
1 A
2976112 AAGGATTTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 22 0.42
22 25 0.48
23 2 0.04
ACGTcount: A:0.21, C:0.01, G:0.27, T:0.51
Consensus pattern (21 bp):
AGTTTTAGGATTTTAGGGTTT
Found at i:2976634 original size:19 final size:19
Alignment explanation
Indices: 2976591--2976637 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2976581 AAAATTCAAA
*
2976591 ATAAAAAAATTAATAATAT
1 ATAAAAAAATTAATAAAAT
2976610 ATAAAAAAATTAA-AAAAT
1 ATAAAAAAATTAATAAAAT
*
2976628 TTCAAAAAAA
1 AT-AAAAAAA
2976638 ATTTTGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAAAAAATTAATAAAAT
Found at i:2977972 original size:28 final size:28
Alignment explanation
Indices: 2977890--2977985 Score: 81
Period size: 29 Copynumber: 3.4 Consensus size: 28
2977880 AATTTTAAGA
*
2977890 TTTAGGATTTAGGATTTAAGGGTTTCAGT
1 TTTAGGATTTAAGATTTAAGGGTTT-AGT
* * * *
2977919 TTTAGGGTTTGAGGTTTGAA-GTTTTAGT
1 TTTAGGATTTAAGATTT-AAGGGTTTAGT
*
2977947 TTTAGGATTTAAAGATTT-AGGGTTTA-A
1 TTTAGGATTT-AAGATTTAAGGGTTTAGT
*
2977974 TTTAAGATTTAA
1 TTTAGGATTTAA
2977986 AGAAAACGCG
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
26 2 0.04
27 10 0.19
28 17 0.32
29 22 0.42
30 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (28 bp):
TTTAGGATTTAAGATTTAAGGGTTTAGT
Found at i:2978459 original size:17 final size:18
Alignment explanation
Indices: 2978419--2978464 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
2978409 ATCATGCATA
*
2978419 AATATA-AAAAAATACTC
1 AATATATAAAAAATAATC
2978436 AA-A-ATAAAAAATAAT-
1 AATATATAAAAAATAATC
2978451 AATATATAAAAAAT
1 AATATATAAAAAAT
2978465 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.12
16 11 0.44
17 11 0.44
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
AATATATAAAAAATAATC
Found at i:2979807 original size:15 final size:16
Alignment explanation
Indices: 2979789--2979825 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
2979779 AAAGTTTTGA
2979789 ATTTTAGGA-TTTAGG
1 ATTTTAGGATTTTAGG
2979804 A-TTTAGGATTTTAGG
1 ATTTTAGGATTTTAGG
2979819 ATTTTAG
1 ATTTTAG
2979826 TTTTAGGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 8 0.40
16 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (16 bp):
ATTTTAGGATTTTAGG
Found at i:2979830 original size:22 final size:21
Alignment explanation
Indices: 2979781--2979865 Score: 61
Period size: 22 Copynumber: 4.0 Consensus size: 21
2979771 TGAATTTTAA
*
2979781 AGTTTT-GAATTTTAGGATTT
1 AGTTTTAGGATTTTAGGATTT
*
2979801 AGGATTTAGGATTTTAGGATTTT
1 A-GTTTTAGGATTTTAGGA-TTT
* *
2979824 AGTTTTAGGGTTTGAGG-TTT
1 AGTTTTAGGATTTTAGGATTT
*
2979844 GAAGTTTT-GG-TTTTAAGATTT
1 --AGTTTTAGGATTTTAGGATTT
2979865 A
1 A
2979866 AAGGATTCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
19 1 0.02
20 9 0.17
21 9 0.17
22 29 0.56
23 4 0.08
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.51
Consensus pattern (21 bp):
AGTTTTAGGATTTTAGGATTT
Found at i:2979836 original size:8 final size:8
Alignment explanation
Indices: 2979789--2979825 Score: 60
Period size: 7 Copynumber: 4.9 Consensus size: 8
2979779 AAAGTTTTGA
2979789 ATTTTAGG
1 ATTTTAGG
2979797 A-TTTAGG
1 ATTTTAGG
2979804 A-TTTAGG
1 ATTTTAGG
2979811 ATTTTAGG
1 ATTTTAGG
2979819 ATTTTAG
1 ATTTTAG
2979826 TTTTAGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (8 bp):
ATTTTAGG
Found at i:2980284 original size:19 final size:18
Alignment explanation
Indices: 2980228--2980290 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 18
2980218 AAATTATTCA
**
2980228 ATTTTTATTATTTTTTAAA
1 ATTTTTATT-TTTTTTAGC
2980247 ATTTTTATTATTATTTTTAGC
1 ATTTTTA-T-TT-TTTTTAGC
2980268 ATTTTTAGTTTTTTTTAGTC
1 ATTTTTA-TTTTTTTTAG-C
2980288 ATT
1 ATT
2980291 ATCCTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 14 0.38
20 8 0.22
21 15 0.41
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (18 bp):
ATTTTTATTTTTTTTAGC
Found at i:2982914 original size:2 final size:2
Alignment explanation
Indices: 2982909--2982946 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2982899 TGTTTGTATG
*
2982909 TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2982947 ATTGGCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2990252 original size:160 final size:160
Alignment explanation
Indices: 2989989--2990306 Score: 512
Period size: 160 Copynumber: 2.0 Consensus size: 160
2989979 CAAATACTTT
* * *
2989989 AAGATGTTTCTTCAATTTGTAGTGGGACTGGAAAACATGGGACTCTATGCTTTTATTTTCTTGCC
1 AAGATGTTTCCTAAATTTGTAGTGGGACTGGAAAACATGGGACTCCATGCTTTTATTTTCTTGCC
* *
2990054 TGTTTTTGGTAGTATATGTACCTAAACATTCCCTGACTTTAGAATTCAGAAACACCATTGTCATG
66 TGTTTTTGGTAGTATATGTACCTAAACATGCACTGACTTTAGAATTCAGAAACACCATTGTCATG
*
2990119 AAAA-TGGGGGCATTGTCAATTTCCAAATG
131 AAAATTGGGGGCATTGTCAAATTCCAAATG
* *
2990148 AAGATGTTTCCTAAATTTGTATTGGGACTGGAAAACATGGGGCTCCATGCTTTTTATTTTCTTGC
1 AAGATGTTTCCTAAATTTGTAGTGGGACTGGAAAACATGGGACTCCATGC-TTTTATTTTCTTGC
* *
2990213 CTGTTTTTGGTTGTATATGTACCTAAACGTGCACTGACTTTAGAATTCAGAAACACCATTGTCAT
65 CTGTTTTTGGTAGTATATGTACCTAAACATGCACTGACTTTAGAATTCAGAAACACCATTGTCAT
* *
2990278 GAAAATTGGGTGTATTGTCAAATTCCAAA
130 GAAAATTGGGGGCATTGTCAAATTCCAAA
2990307 AATTAAGTCT
Statistics
Matches: 145, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
159 45 0.31
160 80 0.55
161 20 0.14
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (160 bp):
AAGATGTTTCCTAAATTTGTAGTGGGACTGGAAAACATGGGACTCCATGCTTTTATTTTCTTGCC
TGTTTTTGGTAGTATATGTACCTAAACATGCACTGACTTTAGAATTCAGAAACACCATTGTCATG
AAAATTGGGGGCATTGTCAAATTCCAAATG
Found at i:2991824 original size:29 final size:27
Alignment explanation
Indices: 2991791--2991853 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
2991781 ATTACAATGA
*
2991791 AATAAAAATTTATAATCTTA-ATTTTATGT
1 AATAAAAATTTA-AAACTTATATTTT-T-T
2991820 AATAAAAATTTAAAACTTATATTTTTT
1 AATAAAAATTTAAAACTTATATTTTTT
2991847 AATAAAA
1 AATAAAA
2991854 TTCAAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 8 0.25
28 7 0.22
29 17 0.53
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAAAAATTTAAAACTTATATTTTTT
Found at i:2995539 original size:13 final size:12
Alignment explanation
Indices: 2995512--2995536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2995502 AAAAGATAAT
2995512 ATATATTTTAAA
1 ATATATTTTAAA
2995524 ATATATTTTAAA
1 ATATATTTTAAA
2995536 A
1 A
2995537 ATAAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATATTTTAAA
Found at i:2995926 original size:17 final size:17
Alignment explanation
Indices: 2995904--2995961 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
2995894 TATTTTTAAG
* *
2995904 ATTATTGTAGTAATTTA
1 ATTATTATAATAATTTA
**
2995921 ATTATTATAATAATAAA
1 ATTATTATAATAATTTA
2995938 ATTATTA-AATTAATTTA
1 ATTATTATAA-TAATTTA
2995955 ATTATTA
1 ATTATTA
2995962 GTGATTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 2 0.06
17 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTATTATAATAATTTA
Found at i:2996179 original size:3 final size:3
Alignment explanation
Indices: 2996171--2996201 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2996161 AACACCCATT
2996171 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2996202 CTTTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2997044 original size:59 final size:56
Alignment explanation
Indices: 2996997--2997221 Score: 251
Period size: 59 Copynumber: 3.9 Consensus size: 56
2996987 TAATTCATCA
*
2996997 ATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTT--AATTTT
**
2997055 ATTTTCAA-AGAAAATTGATACTTTCAACTTTTAT-C-AAAAATATTTTTAAAAATTTT
1 ATTTTCAAGA-AAAATTGATACTTTCAACTTTT-TCCAAAAAATATTTTT-TTAATTTT
* * *
2997111 ATTTT-AAGAAAAATTGATACTTTCAATTTTTTATCAAAAAATATTTTTTGAAGTTTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTT-CCAAAAAATATTTTTTTAA--TTTT
* * * *
2997169 ATTTTTAAGAAAAATTAATACTATCAACTTTTTCTCAAAAAATATATTTTTAA
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTTC-CAAAAAATATTTTTTTAA
2997222 AATTTTTATT
Statistics
Matches: 145, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
54 1 0.01
55 23 0.16
56 15 0.10
57 25 0.17
58 40 0.28
59 41 0.28
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.46
Consensus pattern (56 bp):
ATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTTAATTTT
Found at i:2997060 original size:58 final size:58
Alignment explanation
Indices: 2996997--2997233 Score: 277
Period size: 58 Copynumber: 4.1 Consensus size: 58
2996987 TAATTCATCA
*
2996997 ATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAAAATTTT
*
2997055 ATTTTCAA-AGAAAATTGATACTTTCAACTTTTAT--CAAAAATA-TTTTTAAAAATTTT
1 ATTTTCAAGA-AAAATTGATACTTTCAACTTTT-TCCCAAAAATATTTTTTTAAAATTTT
* * * * **
2997111 ATTTT-AAGAAAAATTGATACTTTCAATTTTTTATCAAAAAATATTTTTTGAAGTTTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTT-CCCAAAAATATTTTTTTAAAATTTT
* * * * *
2997169 ATTTTTAAGAAAAATTAATACTATCAACTTTTTCTCAAAAAATATATTTTTAAAATTTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTTC-CCAAAAATATTTTTTTAAAA-TTTT
2997229 ATTTT
1 ATTTT
2997234 TTTAAAAAAA
Statistics
Matches: 154, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
54 1 0.01
55 23 0.15
56 18 0.12
57 16 0.10
58 46 0.30
59 41 0.27
60 9 0.06
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (58 bp):
ATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTAAAATTTT
Found at i:2998197 original size:12 final size:14
Alignment explanation
Indices: 2998180--2998216 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2998170 CTAGCATACT
2998180 AAAAAACA-AAA-A
1 AAAAAACACAAACA
2998192 AAAAAACACAAACA
1 AAAAAACACAAACA
*
2998206 AAAAATCACAA
1 AAAAAACACAA
2998217 TCTCTGGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 11 0.50
ACGTcount: A:0.81, C:0.16, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAACACAAACA
Found at i:2999096 original size:23 final size:23
Alignment explanation
Indices: 2999061--2999130 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
2999051 ATAAAATTTT
2999061 AAAATTAAAAATAAAAA-ATAGAA
1 AAAATTAAAAATAAAAATA-AGAA
** *
2999084 AAAATTATTAATAAAAATAATAA
1 AAAATTAAAAATAAAAATAAGAA
** *
2999107 AAAATTAGTAA-AAATATAAGAA
1 AAAATTAAAAATAAAAATAAGAA
2999129 AA
1 AA
2999131 GAAAATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 11 0.28
23 28 0.70
24 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (23 bp):
AAAATTAAAAATAAAAATAAGAA
Found at i:3002787 original size:25 final size:26
Alignment explanation
Indices: 3002699--3002789 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 26
3002689 TATCTAAATT
*
3002699 ATTTCATCATTTGAGACAAATTTATAGAAA
1 ATTTCATCATTT-AG--AAATTTTTA-AAA
* *
3002729 ATTTC-TCATCTAGAAATTTTATAGAA
1 ATTTCATCATTTAGAAATTTT-TAAAA
3002755 ATTT-ATCATTTA-AAATTTTTAAAA
1 ATTTCATCATTTAGAAATTTTTAAAA
3002779 ATTTCATCATT
1 ATTTCATCATT
3002790 GGATAATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
24 8 0.15
25 13 0.25
26 18 0.34
27 2 0.04
28 2 0.04
29 5 0.09
30 5 0.09
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (26 bp):
ATTTCATCATTTAGAAATTTTTAAAA
Found at i:3002839 original size:15 final size:15
Alignment explanation
Indices: 3002819--3002853 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
3002809 TAAAAAAAGA
3002819 TATTTTATTTTGTT-T
1 TATTTTATTTT-TTAT
3002834 TATTTTATTTTTTAT
1 TATTTTATTTTTTAT
3002849 TATTT
1 TATTT
3002854 CTTCTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (15 bp):
TATTTTATTTTTTAT
Found at i:3003379 original size:19 final size:18
Alignment explanation
Indices: 3003353--3003390 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3003343 TATGGCCATG
* *
3003353 CATTTTTTTTCAATTATC
1 CATTTTTTTTTAAATATC
3003371 CATTTTTTTTTAAATATC
1 CATTTTTTTTTAAATATC
3003389 CA
1 CA
3003391 GATGCATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (18 bp):
CATTTTTTTTTAAATATC
Found at i:3003494 original size:18 final size:17
Alignment explanation
Indices: 3003471--3003525 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
3003461 ATAAGTAATA
3003471 AAATAAAATAAAAAGGAT
1 AAATAAAATAAAAA-GAT
3003489 AAATAAAA-AAATATAGAT
1 AAATAAAATAAA-A-AGAT
* *
3003507 AAATAAAGTAAAAACAT
1 AAATAAAATAAAAAGAT
3003524 AA
1 AA
3003526 TTTTGACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 8 0.25
18 20 0.62
19 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (17 bp):
AAATAAAATAAAAAGAT
Found at i:3003930 original size:33 final size:32
Alignment explanation
Indices: 3003888--3003969 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
3003878 AAGGTTCAGT
*
3003888 TTTGCAAGAATTTGATTAATAATGATTTTCAAA
1 TTTGCAAGAATTTGATTAATAAGGA-TTTCAAA
** **
3003921 TTTGCAAGAATTTGATTCGTAAGGATTTCGGA
1 TTTGCAAGAATTTGATTAATAAGGATTTCAAA
*
3003953 CTTGCAAGAATTTGATT
1 TTTGCAAGAATTTGATT
3003970 TTCAAAGATT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 21 0.49
33 22 0.51
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (32 bp):
TTTGCAAGAATTTGATTAATAAGGATTTCAAA
Found at i:3003963 original size:32 final size:33
Alignment explanation
Indices: 3003889--3003969 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 33
3003879 AGGTTCAGTT
* *
3003889 TTGCAAGAATTTGATTAATAATGATTTTCAAAT
1 TTGCAAGAATTTGATTAATAAGGATTTTCAAAC
** **
3003922 TTGCAAGAATTTGATTCGTAAGGA-TTTCGGAC
1 TTGCAAGAATTTGATTAATAAGGATTTTCAAAC
3003954 TTGCAAGAATTTGATT
1 TTGCAAGAATTTGATT
3003970 TTCAAAGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 21 0.50
33 21 0.50
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (33 bp):
TTGCAAGAATTTGATTAATAAGGATTTTCAAAC
Found at i:3004509 original size:25 final size:25
Alignment explanation
Indices: 3004454--3004544 Score: 148
Period size: 25 Copynumber: 3.7 Consensus size: 25
3004444 TTTAAAGCTC
*
3004454 AAAGATTCTCATTCAAAATTT-CTT
1 AAAGATTCTCATTTAAAATTTCCTT
*
3004478 AAAGATTCTTATTTAAAATTTCCTT
1 AAAGATTCTCATTTAAAATTTCCTT
*
3004503 AAAGATTCTCATTTAAAATTCCCTT
1 AAAGATTCTCATTTAAAATTTCCTT
3004528 AAAGATTCTCATTTAAA
1 AAAGATTCTCATTTAAA
3004545 GCCCTAAAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 19 0.31
25 43 0.69
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAGATTCTCATTTAAAATTTCCTT
Found at i:3004555 original size:22 final size:25
Alignment explanation
Indices: 3004454--3004561 Score: 125
Period size: 25 Copynumber: 4.5 Consensus size: 25
3004444 TTTAAAGCTC
* **
3004454 AAAGATTCTCATTCAAAAT-TTCTT
1 AAAGATTCTCATTTAAAATGCCCTT
* **
3004478 AAAGATTCTTATTTAAAATTTCCTT
1 AAAGATTCTCATTTAAAATGCCCTT
*
3004503 AAAGATTCTCATTTAAAATTCCCTT
1 AAAGATTCTCATTTAAAATGCCCTT
3004528 AAAGATTCTCATTT-AAA-GCCC-T
1 AAAGATTCTCATTTAAAATGCCCTT
3004550 AAAGATTCTCAT
1 AAAGATTCTCAT
3004562 CATTTTAAAC
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
22 13 0.17
23 3 0.04
24 20 0.26
25 41 0.53
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAGATTCTCATTTAAAATGCCCTT
Found at i:3004566 original size:50 final size:46
Alignment explanation
Indices: 3004433--3004561 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 46
3004423 ATTCTCATAC
* * *
3004433 AAAGATT-TCCATTTAAAGCTC-AAAGATTCTCATTCAAAATTTCTT
1 AAAGATTCT-CATTTAAAGCCCTAAAGATTCTCATTTAAAATTCCTT
* * *
3004478 AAAGATTCTTATTTAAAATTTCCTTAAAGATTCTCATTTAAAATTCCCTT
1 AAAGATTCTCATTT-AAA--GCCCTAAAGATTCTCATTTAAAATT-CCTT
3004528 AAAGATTCTCATTTAAAGCCCTAAAGATTCTCAT
1 AAAGATTCTCATTTAAAGCCCTAAAGATTCTCAT
3004562 CATTTTAAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
45 11 0.16
46 4 0.06
47 15 0.22
48 1 0.01
49 22 0.32
50 16 0.23
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (46 bp):
AAAGATTCTCATTTAAAGCCCTAAAGATTCTCATTTAAAATTCCTT
Found at i:3005745 original size:24 final size:23
Alignment explanation
Indices: 3005718--3005778 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
3005708 TCAATTTGAG
*
3005718 TTTTTTTTTATCTATTTTTT-TTCT
1 TTTTTTTTT-TC-ATTTTTTCTTCA
3005742 TTTTTATTTTTCATTTTTTCTTCA
1 TTTTT-TTTTTCATTTTTTCTTCA
*
3005766 TTTTTTATTTCAT
1 TTTTTTTTTTCAT
3005779 CCATTATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 14 0.42
24 15 0.45
25 4 0.12
ACGTcount: A:0.11, C:0.10, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTTTTTCATTTTTTCTTCA
Found at i:3005772 original size:25 final size:25
Alignment explanation
Indices: 3005718--3005775 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
3005708 TCAATTTGAG
3005718 TTTTTT-TTTATCTATTTTTTTTC-
1 TTTTTTATTTATCTATTTTTTTTCA
*
3005741 TTTTTTATTTTTC-ATTTTTTCTTCA
1 TTTTTTATTTATCTATTTTTT-TTCA
3005766 TTTTTTATTT
1 TTTTTTATTT
3005776 CATCCATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 13 0.42
24 8 0.26
25 10 0.32
ACGTcount: A:0.10, C:0.09, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTTATTTATCTATTTTTTTTCA
Found at i:3009538 original size:14 final size:16
Alignment explanation
Indices: 3009507--3009543 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
3009497 TAAAATCTTG
3009507 ATTTTAATGGTCTTAA
1 ATTTTAATGGTCTTAA
3009523 ATTTTAAT-GT-TTAA
1 ATTTTAATGGTCTTAA
*
3009537 ATATTAA
1 ATTTTAA
3009544 AAATAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 2 0.10
16 8 0.40
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (16 bp):
ATTTTAATGGTCTTAA
Found at i:3009802 original size:6 final size:6
Alignment explanation
Indices: 3009791--3009815 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3009781 ATCATTGAAA
3009791 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
3009816 CTAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:3009891 original size:47 final size:47
Alignment explanation
Indices: 3009807--3009905 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
3009797 TTTATTTTTA
* * **
3009807 TTTTTATTTCTAAATTTTTCACCATTTTGGCCAATTTAGAATTTTCT
1 TTTTTATTTCTAAATTTTTCACCAGTTTGGCCAATTTACAAAATTCT
* *
3009854 TTTTTATTTCTAAATTTTTCACC-GTTTGGATCTATTTACAAAATTCT
1 TTTTTATTTCTAAATTTTTCACCAGTTTGG-CCAATTTACAAAATTCT
3009901 TTTTT
1 TTTTT
3009906 TTTTTATCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 5 0.11
47 40 0.89
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (47 bp):
TTTTTATTTCTAAATTTTTCACCAGTTTGGCCAATTTACAAAATTCT
Found at i:3010444 original size:26 final size:26
Alignment explanation
Indices: 3010373--3010434 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
3010363 AAATTTAGAG
3010373 AAAATTTC-TCACTTAAAAATTTTATA
1 AAAATTTCATCACTT-AAAATTTTATA
*
3010399 AAAATTT-ATCATTTAAAATTTT-TA
1 AAAATTTCATCACTTAAAATTTTATA
3010423 AAAATTTCATCA
1 AAAATTTCATCA
3010435 TTAGATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 9 0.27
25 12 0.36
26 12 0.36
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.44
Consensus pattern (26 bp):
AAAATTTCATCACTTAAAATTTTATA
Found at i:3010501 original size:15 final size:15
Alignment explanation
Indices: 3010466--3010500 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3010456 TCAAAAAAGA
*
3010466 TATTTTATTTTGTTT
1 TATTTTATTTTGTAT
3010481 TATTTTATTTT-TAT
1 TATTTTATTTTGTAT
3010495 TATTTT
1 TATTTT
3010501 TCTAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (15 bp):
TATTTTATTTTGTAT
Found at i:3010552 original size:4 final size:4
Alignment explanation
Indices: 3010543--3010573 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
3010533 ATACTTTAAA
3010543 AATT AATT AATT AATT AATT AATT AAATT AA
1 AATT AATT AATT AATT AATT AATT -AATT AA
3010574 AAAAAGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
AATT
Found at i:3017175 original size:109 final size:109
Alignment explanation
Indices: 3017035--3017241 Score: 244
Period size: 109 Copynumber: 1.9 Consensus size: 109
3017025 ATTTTTTAAG
* * *
3017035 TTGTTGAGTCTCTACTTAGAGAAGCTTTTTTCAAA-ATGAAGAATTGTTTTATAGTTATTGAACC
1 TTGTTGAGTCTCTACTTAGAGAAGCCTTTTTCAAATA-G-AGAATTATTTTAAAGTTATTGAACC
*
3017099 T-TTACTAAGATGAGCTTTTTTT-AAGATGAGATTTTAAAAAAAAAA
64 TCTGACTAA-ATGAGCTTTTTTTCAAGATGAGATTTTAAAAAAAAAA
* * * *
3017144 TTGTTGAGTCTTTA-TCTAGA-ATAGCCTTTTTCAGATAGTGACTTATTTTAAAGTTATTGAACC
1 TTGTTGAGTCTCTACT-TAGAGA-AGCCTTTTTCAAATAGAGAATTATTTTAAAGTTATTGAACC
* *
3017207 TCTGCCTAAATGAGGTTTTTTTCAAGATGAGATTT
64 TCTGACTAAATGAGCTTTTTTTCAAGATGAGATTT
3017242 GTTTTAAAGT
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
108 36 0.43
109 46 0.55
110 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (109 bp):
TTGTTGAGTCTCTACTTAGAGAAGCCTTTTTCAAATAGAGAATTATTTTAAAGTTATTGAACCTC
TGACTAAATGAGCTTTTTTTCAAGATGAGATTTTAAAAAAAAAA
Found at i:3017681 original size:3 final size:3
Alignment explanation
Indices: 3017673--3017701 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3017663 CACGATTTTG
3017673 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3017702 TATTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3017949 original size:12 final size:13
Alignment explanation
Indices: 3017919--3017951 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3017909 GAGCGAACCC
3017919 ACAAAAAATCCAT
1 ACAAAAAATCCAT
*
3017932 AGAAAAAATCC-T
1 ACAAAAAATCCAT
3017944 ACAAAAAA
1 ACAAAAAA
3017952 ATTAAAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.67, C:0.18, G:0.03, T:0.12
Consensus pattern (13 bp):
ACAAAAAATCCAT
Found at i:3018636 original size:24 final size:23
Alignment explanation
Indices: 3018599--3018650 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
3018589 GTTCATATAA
**
3018599 ATTTTTTTTTTAAT-TTTTTGAATT
1 ATTTTTTTAATAATATTTTTG--TT
3018623 ATTTTTTTAATAATATTTTTGTT
1 ATTTTTTTAATAATATTTTTGTT
3018646 ATTTT
1 ATTTT
3018651 GAATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 12 0.48
25 6 0.24
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (23 bp):
ATTTTTTTAATAATATTTTTGTT
Found at i:3021156 original size:57 final size:58
Alignment explanation
Indices: 3021090--3021481 Score: 501
Period size: 58 Copynumber: 6.8 Consensus size: 58
3021080 TGCTTTTGTA
* *
3021090 CAAGAAAAATTGATACTTTCAATTTTTCCTC-AAAATATTTTTT-GAAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAAAAAAC-TTATTTT
* * * * *
3021147 CGAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAAACCCTTTTTTAGAAAA-TTATTTT
1 CAAGAAAAATTGATACTTTCAATTTTTCC-TCAAAAATA---TTTTTTAAAAAACTTATTTT
* * *
3021208 CAA-AGAAAATTGATACTTTCAACTTTTCTTCGAAAATATTTTTTAAAAAACTTATTTT
1 CAAGA-AAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
*
3021266 CAAGAAAAATTGATATTTTCAATTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
* *
3021324 AAAGGAAAATTGAT-C-TTCAACTTTTT-CTCAAAAATATTTTTTAAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAA-TTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
* * * *
3021380 CAAGAAAAATTGATACTTTCAATTTTTTCTCAAAAACATTTTTTAGAAAATTTATTTT
1 CAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
* *
3021438 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 CAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTT
3021482 TTGAAATTTT
Statistics
Matches: 295, Mismatches: 27, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
56 47 0.16
57 49 0.17
58 144 0.49
59 6 0.02
60 7 0.02
61 31 0.11
62 6 0.02
63 5 0.02
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
Found at i:3021370 original size:114 final size:115
Alignment explanation
Indices: 3021095--3021481 Score: 518
Period size: 114 Copynumber: 3.3 Consensus size: 115
3021085 TTGTACAAGA
* * *
3021095 AAAATTGATACTTTCAA-TTTTTCCTC-AAAATATTTTTT-GAAAACTTTAATTTCGAGAAAAAT
1 AAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTTAAAAAAC-TTATTTTCAAGAAAAAT
* *
3021157 TGATACTTTCAACTTTTCCTTAAAAAAAACCCTTTTTTAGAAAATTATTTTCAAA-G
64 TGATACTTTCAATTTTTCC-TCAAAAAAA---TTTTTTAGAAAATTATTTT-AAAGG
*
3021213 AAAATTGATACTTTCAAC-TTTTCTTCGAAAATATTTTTTAAAAAACTTATTTTCAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTAAAAAACTTATTTTCAAGAAAAATT
* * *
3021277 GATATTTTCAATTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTAAAGG
65 GATACTTTCAATTTTTCCTCAAAAAAATTTTTTAGAAAA-TTATTTTAAAGG
3021329 AAAATTGAT-C-TTCAACTTTTTCTCAAAAATATTTTTTAAAAAACTTATTTTCAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAACTTATTTTCAAGAAAAATTG
* * *
3021392 ATACTTTCAATTTTTTCTCAAAAACATTTTTTAGAAAATTTATTTTCAAGG
66 ATACTTTCAATTTTTCCTCAAAAAAATTTTTTAGAAAA-TTATTTTAAAGG
*
3021443 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
3021482 TTGAAATTTT
Statistics
Matches: 244, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
114 100 0.41
115 21 0.09
116 43 0.18
117 1 0.00
118 30 0.12
119 44 0.18
120 5 0.02
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.43
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAACTTATTTTCAAGAAAAATTG
ATACTTTCAATTTTTCCTCAAAAAAATTTTTTAGAAAATTATTTTAAAGG
Found at i:3021508 original size:5 final size:5
Alignment explanation
Indices: 3021500--3021551 Score: 59
Period size: 5 Copynumber: 9.6 Consensus size: 5
3021490 TTATTTAAAG
*
3021500 AAAAT AAAAT AAAAAT AAATAA AAAAT AAAGAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT -AAAAT AAA-AT AAAAT AAA-AT -AAAAT AAAAT AAAAT
3021549 AAA
1 AAA
3021552 GAATACTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 25 0.61
6 13 0.32
7 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:3021516 original size:11 final size:11
Alignment explanation
Indices: 3021500--3021551 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
3021490 TTATTTAAAG
3021500 AAAATAAAATA
1 AAAATAAAATA
3021511 AAAAT-AAATAA
1 AAAATAAAAT-A
3021522 AAAATAAAGATA
1 AAAATAAA-ATA
3021534 AAAATAAAAT-
1 AAAATAAAATA
3021544 AAAATAAA
1 AAAATAAA
3021552 GAATACTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 12 0.32
11 13 0.34
12 11 0.29
13 2 0.05
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:3021527 original size:17 final size:17
Alignment explanation
Indices: 3021500--3021556 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
3021490 TTATTTAAAG
3021500 AAAATAAAATAAAAATA
1 AAAATAAAATAAAAATA
*
3021517 AATAA-AAAATAAAGATA
1 AA-AATAAAATAAAAATA
3021534 AAAATAAAAT-AAAATA
1 AAAATAAAATAAAAATA
3021550 AAGAATA
1 AA-AATA
3021557 CTAAATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 9 0.26
17 24 0.69
18 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:3021564 original size:24 final size:23
Alignment explanation
Indices: 3021500--3021553 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
3021490 TTATTTAAAG
3021500 AAAATAAA-ATAAAAATAAATAA
1 AAAATAAAGATAAAAATAAATAA
*
3021522 AAAATAAAGATAAAAATAAA-AT
1 AAAATAAAGATAAAAATAAATAA
3021544 AAAATAAAGA
1 AAAATAAAGA
3021554 ATACTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAATAAAGATAAAAATAAATAA
Found at i:3021609 original size:28 final size:28
Alignment explanation
Indices: 3021502--3021611 Score: 75
Period size: 28 Copynumber: 3.9 Consensus size: 28
3021492 ATTTAAAGAA
* *
3021502 AATAA-AATAAAAATAAATAAAAAATAA-
1 AATAATAATAATAAT-AATAATAAATAAT
* *
3021529 AGATAAAAATAA-AATAA-AATAAAGAAT
1 A-ATAATAATAATAATAATAATAAATAAT
* **
3021556 ACTAAATAATTCTAATCTAATCAATAAATAAT
1 AAT-AATAATAATAA--TAAT-AATAAATAAT
3021588 AATAATAATAATAATAATAATAAA
1 AATAATAATAATAATAATAATAAA
3021612 AGACATAATA
Statistics
Matches: 64, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
26 8 0.12
27 9 0.14
28 15 0.23
29 9 0.14
30 3 0.05
31 9 0.14
32 11 0.17
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (28 bp):
AATAATAATAATAATAATAATAAATAAT
Found at i:3021622 original size:3 final size:3
Alignment explanation
Indices: 3021582--3021610 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3021572 CTAATCAATA
3021582 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3021611 AAGACATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3021633 original size:12 final size:11
Alignment explanation
Indices: 3021591--3021642 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
3021581 AAATAATAAT
*
3021591 AATAATAATAAT
1 AATAATAA-AAA
3021603 AATAATAAAAGA
1 AATAATAAAA-A
*
3021615 CATAATAAAAA
1 AATAATAAAAA
*
3021626 AATAAATAAATA
1 AAT-AATAAAAA
3021638 AATAA
1 AATAA
3021643 AATCTTTGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 7 0.21
12 27 0.79
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:3021634 original size:15 final size:15
Alignment explanation
Indices: 3021578--3021645 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 15
3021568 TAATCTAATC
*
3021578 AATAAATAATAATAAT
1 AATAAATAATAA-AAA
*
3021594 AATAATAATAATAATAA
1 AAT-A-AATAATAAAAA
* *
3021611 AAGACATAATAAAAA
1 AATAAATAATAAAAA
3021626 AATAAATAAATAAATAA
1 AATAAAT-AATAAA-AA
3021643 AAT
1 AAT
3021646 CTTTGGAACG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
15 14 0.34
16 10 0.24
17 9 0.22
18 8 0.20
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (15 bp):
AATAAATAATAAAAA
Found at i:3022057 original size:12 final size:12
Alignment explanation
Indices: 3022011--3022041 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
3022001 GTATACAGGA
3022011 TATGTGAACTAT
1 TATGTGAACTAT
3022023 TATGTGAACTAT
1 TATGTGAACTAT
3022035 TATGTGA
1 TATGTGA
3022042 TATGTGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (12 bp):
TATGTGAACTAT
Found at i:3025783 original size:58 final size:58
Alignment explanation
Indices: 3025610--3025885 Score: 310
Period size: 58 Copynumber: 4.7 Consensus size: 58
3025600 GTTTTTGTAT
* * *
3025610 AAGAAAAATCGATACTTTCAACTTTTTTTC-AAAATATTTTTCT-G-AAACTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT-TAGAAAAC-TTATTTTC
* * * * *
3025667 GAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAACCTTTTTTTA-AAAAATTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA---TTTTTTAGAAAACTTATTTTC
* * * *
3025727 AAAAAAAATTGTTACTTTTAACTTTTTCTCGAAAATATTTTTTAGAAAACTTATTTTC
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTC
* * * *
3025785 AAGGAAAATTGATAATTTCAACTTTTTCTAAAAAATATTTTTTAGAAAACTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTC
*
3025843 AAGAAAAATTGATACTTTTAA-TTTTTCTCAAAAATATATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTT
3025886 TTGAAATTTT
Statistics
Matches: 182, Mismatches: 29, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
57 47 0.26
58 90 0.49
60 37 0.20
61 8 0.04
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (58 bp):
AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTC
Found at i:3025971 original size:3 final size:3
Alignment explanation
Indices: 3025958--3026007 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
3025948 AATTCTAATC
3025958 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3026004 TAA T
1 TAA T
3026008 TTAAAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3026804 original size:27 final size:28
Alignment explanation
Indices: 3026755--3026852 Score: 112
Period size: 27 Copynumber: 3.6 Consensus size: 28
3026745 AACCAAAAAA
* * *
3026755 AATA-ATAGATAATAATATATATACATT
1 AATAGATAAATAATAAAAAATATACATT
*
3026782 AATCGATAAAT-ATAAAAAATATACATT
1 AATAGATAAATAATAAAAAATATACATT
*
3026809 AATAGATAAATAATAAAAAATA-ATATT
1 AATAGATAAATAATAAAAAATATACATT
* *
3026836 AATGGATAACTAATAAA
1 AATAGATAAATAATAAA
3026853 TATATATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
27 46 0.75
28 15 0.25
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (28 bp):
AATAGATAAATAATAAAAAATATACATT
Found at i:3026880 original size:15 final size:15
Alignment explanation
Indices: 3026846--3026895 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
3026836 AATGGATAAC
*
3026846 TAATAAATATATATAAA
1 TAATAAA-A-ATAAAAA
3026863 TAATAAAAATAAAAA
1 TAATAAAAATAAAAA
*
3026878 TAATAAAACTAAAAA
1 TAATAAAAATAAAAA
3026893 TAA
1 TAA
3026896 AATGGACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 23 0.74
16 1 0.03
17 7 0.23
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
TAATAAAAATAAAAA
Found at i:3029553 original size:22 final size:23
Alignment explanation
Indices: 3029518--3029566 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
3029508 TTTTATATCT
*
3029518 AAATCTATTTAAAT-ATAT-TAA
1 AAATCTATTAAAATAATATATAA
3029539 AAATCATATTAAAATAATATATAA
1 AAATC-TATTAAAATAATATATAA
3029563 AAAT
1 AAAT
3029567 TTTAATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 4 0.17
24 7 0.29
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATCTATTAAAATAATATATAA
Found at i:3030516 original size:6 final size:6
Alignment explanation
Indices: 3030505--3030542 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
3030495 AAAAATAAGT
*
3030505 AAATTA AAATTA AAATTA AAATTA AATATCA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA AA-ATTA AAATTA A
3030543 TAAATTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:3033227 original size:8 final size:8
Alignment explanation
Indices: 3033214--3033243 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
3033204 CTCATTTTAT
3033214 TTTATTGA
1 TTTATTGA
3033222 TTTATTGA
1 TTTATTGA
*
3033230 TTTATTTA
1 TTTATTGA
3033238 TTTATT
1 TTTATT
3033244 TTTTTGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (8 bp):
TTTATTGA
Found at i:3033670 original size:3 final size:3
Alignment explanation
Indices: 3033662--3033726 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
3033652 TATTAACATA
3033662 TAT TAT TA- TAT ATAT TAT TAT TAT TAT TATT TAT CTAT TA- TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT
* * *
3033708 TTT TAT TTT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT T
3033727 TTTTCTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 4 0.08
3 38 0.75
4 9 0.18
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:3033744 original size:19 final size:19
Alignment explanation
Indices: 3033707--3033745 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3033697 TATTATATTA
*
3033707 TTTTTATTTTTATTTTTAT
1 TTTTTATTTTTATTCTTAT
* *
3033726 TTTTTCTTTTTCTTCTTAT
1 TTTTTATTTTTATTCTTAT
3033745 T
1 T
3033746 CGGTTGGGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTATTCTTAT
Found at i:3034590 original size:19 final size:19
Alignment explanation
Indices: 3034551--3034591 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
3034541 TCCAAGGTTT
3034551 TTTTTTTCATTTTTATTTTA
1 TTTTTTTCA-TTTTATTTTA
3034571 TTTTTTTCA-TTTATTGTTA
1 TTTTTTTCATTTTATT-TTA
3034590 TT
1 TT
3034592 ATTGTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 5 0.25
20 9 0.45
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTCATTTTATTTTA
Found at i:3034593 original size:3 final size:3
Alignment explanation
Indices: 3034581--3034621 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
3034571 TTTTTTTCAT
* * *
3034581 TTA TTG TTA TTA TTG TTA TTA TTA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3034622 TATTGATTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3034663 original size:5 final size:5
Alignment explanation
Indices: 3034653--3034695 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
3034643 TTAGTATTTC
*
3034653 TTATT TTATT TTATT CTATTT TTATCT TTATT TT-TT TTATT TT
1 TTATT TTATT TTATT TTA-TT TTAT-T TTATT TTATT TTATT TT
3034696 TCTCTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 4 0.12
5 20 0.61
6 9 0.27
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:3034693 original size:21 final size:22
Alignment explanation
Indices: 3034647--3034703 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
3034637 AATTATTTAG
3034647 TATTTCTTAT-TTTATTTTATTC
1 TATTT-TTATCTTTATTTTATTC
*
3034669 TATTTTTATCTTTATTTT-TTT
1 TATTTTTATCTTTATTTTATTC
*
3034690 TATTTTTCTCTTTA
1 TATTTTTATCTTTA
3034704 AATAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (22 bp):
TATTTTTATCTTTATTTTATTC
Found at i:3034796 original size:58 final size:58
Alignment explanation
Indices: 3034716--3034988 Score: 408
Period size: 58 Copynumber: 4.7 Consensus size: 58
3034706 TAAAATTTTA
*
3034716 AAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATTCTTC
1 AAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
3034775 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
*
3034833 AAAAAAATA-TTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTCTTC
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
* * * * *
3034890 AAAAAAAATATTTTCGAA-GAAAAGTTGAAAGTATTAATTTTCTTTGAAGATAATTTTTT
1 -AAAAAAATATTTT-TAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
* *
3034949 AAAAAAAGT-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAA-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
3034989 TCTTGAAGTT
Statistics
Matches: 197, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
57 48 0.24
58 101 0.51
59 46 0.23
60 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
Found at i:3034995 original size:58 final size:59
Alignment explanation
Indices: 3034715--3035049 Score: 398
Period size: 58 Copynumber: 5.7 Consensus size: 59
3034705 ATAAAATTTT
* *
3034715 AAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATTCTTC
1 AAAAAAA-ATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
*
3034775 -AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
1 AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
* *
3034833 -AAAAAAATA-TTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTCTTC
1 AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
* * * * *
3034890 AAAAAAAATATTTTCGAAG-AAAAGTTGAAAGTATTAATTTTCTTTGAAGATAATTTTTT
1 AAAAAAAATATTTT-TAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
* * ** *
3034949 AAAAAAAGT-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TCTTGAAGTTAAAGT-TTC
1 AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCT-TTGAAAAT-AATTCTTC
* *
3035007 AGAAAAAAAATATTTTT-TGAAAAAAGTTAAAAGTATCAATTTT
1 --AAAAAAAATATTTTTAAG-AAAAAGTTGAAAGTATCAATTTT
3035050 TCTTGTATGA
Statistics
Matches: 247, Mismatches: 18, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
57 50 0.20
58 103 0.42
59 55 0.22
60 12 0.05
61 27 0.11
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (59 bp):
AAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAATTCTTC
Found at i:3046631 original size:41 final size:40
Alignment explanation
Indices: 3046584--3046828 Score: 183
Period size: 41 Copynumber: 5.9 Consensus size: 40
3046574 ATGATTGTCA
* *
3046584 ATGAGCAATTTATTTTTTGAAGTTGTGATACCTCTGTTCAG
1 ATGAGCAATTTATTTTTTAAAGTTGTGA-GCCTCTGTTCAG
* *
3046625 AGGAGCAATTTATTTTTTAAAAGTCGTTGAGCCTCTGATT-AG
1 ATGAGCAATTTATTTTTT-AAAGTTG-TGAGCCTCTG-TTCAG
** *
3046667 ATGAGCCTTTTATTTTTAAAAGTCAT-TGAGCCTCTGTTCAG
1 ATGAGCAATTTATTTTTTAAAGT--TGTGAGCCTCTGTTCAG
*
3046708 ATGAGCAATTTATTTTTTAAAAGTCGTTGAGCCTCTGATT-AG
1 ATGAGCAATTTATTTTTT-AAAGTTG-TGAGCCTCTG-TTCAG
** * * * *
3046750 ATGAGCCTTTTATTTTTAAAAGTCGTTAAGCCTCTAATT-AG
1 ATGAGCAATTTATTTTTTAAAGTTG-TGAGCCTCT-GTTCAG
* ** * *
3046791 ATAAGCCTTTTATTTTTAAAAGTTGTTAAGCCTCTGTT
1 ATGAGCAATTTATTTTTTAAAGTTG-TGAGCCTCTGTT
3046829 TATAGGAGCT
Statistics
Matches: 172, Mismatches: 21, Indels: 23
0.80 0.10 0.11
Matches are distributed among these distances:
40 4 0.02
41 102 0.59
42 59 0.34
43 7 0.04
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (40 bp):
ATGAGCAATTTATTTTTTAAAGTTGTGAGCCTCTGTTCAG
Found at i:3046724 original size:124 final size:124
Alignment explanation
Indices: 3046584--3046911 Score: 365
Period size: 124 Copynumber: 2.6 Consensus size: 124
3046574 ATGATTGTCA
* *
3046584 ATGAGCAATTTATTTTTT-GAAGTTG-TGATACCTCTG-TTCAGAGGAGCAATTTATTTTTTAAA
1 ATGAGCAATTTATTTTTTAAAAGTCGTTGA-ACCTCTGATT-AGAGGAGCAATTTA-TTTTTAAA
* * * *
3046646 AGTCGTTGAGCCTCTGATTAGATGAGCCTTTTATTTTTAAAAGTCATTGAGCCTCTGTTCAG
63 AGTCGTTAAGCCTCTAATTAGATAAGCCTTTTATTTTTAAAAGTCATTAAGCCTCTGTTCAG
* * **
3046708 ATGAGCAATTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGATGAGCCTTTTATTTTTAAAAGT
1 ATGAGCAATTTATTTTTTAAAAGTCGTTGAACCTCTGATTAGAGGAGCAATTTATTTTTAAAAGT
** * *
3046773 CGTTAAGCCTCTAATTAGATAAGCCTTTTATTTTTAAAAGTTGTTAAGCCTCTGTTTAT
66 CGTTAAGCCTCTAATTAGATAAGCCTTTTATTTTTAAAAGTCATTAAGCCTCTGTTCAG
* ** * * * * **
3046832 AGGAGCTTTGTTTATCTTTTCAAAAGTCGTTGAGCCTCTAATTAGAGAAGCCTTTTATTTTTAAA
1 ATGAGC--AATTTAT-TTTTTAAAAGTCGTTGAACCTCTGATTAGAGGAGCAATTTATTTTTAAA
*
3046897 AGTTGTTAAGCCTCT
63 AGTCGTTAAGCCTCT
3046912 GTTTAAAGAA
Statistics
Matches: 176, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
124 85 0.48
125 22 0.12
126 10 0.06
127 59 0.34
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (124 bp):
ATGAGCAATTTATTTTTTAAAAGTCGTTGAACCTCTGATTAGAGGAGCAATTTATTTTTAAAAGT
CGTTAAGCCTCTAATTAGATAAGCCTTTTATTTTTAAAAGTCATTAAGCCTCTGTTCAG
Found at i:3046872 original size:86 final size:84
Alignment explanation
Indices: 3046633--3047037 Score: 371
Period size: 86 Copynumber: 4.8 Consensus size: 84
3046623 AGAGGAGCAA
* * *
3046633 TTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGATGAGC-CTTTTATTTTT-AAAAGTCATTGA
1 TTTA-TTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTTTTATTTTTCAAAAGTCGTTGA
* * **
3046696 GCCTCT-GTTCAGATGAGCAA
65 GCCTCTAATT-AGATAAGCCT
* * *
3046716 TTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGATGAGC-CTTTTATTTTT-AAAAGTCGTTAA
1 TTTA-TTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTTTTATTTTTCAAAAGTCGTTGA
3046779 GCCTCTAATTAGATAAGCCT
65 GCCTCTAATTAGATAAGCCT
* * * *
3046799 TTTATTTTTAAAAGTTGTTAAGCCTCTGTTTATAGGAGCTTTGTTTATCTTTTCAAAAGTCGTTG
1 TTTATTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT-TTTAT-TTTTCAAAAGTCGTTG
*
3046864 AGCCTCTAATTAGAGAAGCCT
64 AGCCTCTAATTAGATAAGCCT
* * * * * *
3046885 TTTATTTTTAAAAGTTGTTAAGCCTCTGTTTAAAGAAGCTTTATTTATTTTTCTAAAGGT-GTTG
1 TTTATTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT-TTTATTTTTC-AAAAGTCGTTG
* *
3046949 AGCCTCTATTTAGA-AGAG-TT
64 AGCCTCTAATTAGATA-AGCCT
* * * *
3046969 ATTTATTTTTCCAAAGTCATTGAGCCTCT-ACTTATAGGAGCCTTTGTTTATTCTTTC-AAAGTT
1 -TTTATTTTT-AAAAGTCGTTGAGCCTCTGA-TTAGAGGAG-CTTT-TTTATT-TTTCAAAAGTC
3047032 GTTGAG
60 GTTGAG
3047038 TATCTGTCAT
Statistics
Matches: 280, Mismatches: 29, Indels: 22
0.85 0.09 0.07
Matches are distributed among these distances:
82 30 0.11
83 79 0.28
84 9 0.03
85 37 0.13
86 105 0.38
87 16 0.06
88 4 0.01
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (84 bp):
TTTATTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTTTTATTTTTCAAAAGTCGTTGAG
CCTCTAATTAGATAAGCCT
Found at i:3046909 original size:41 final size:40
Alignment explanation
Indices: 3046633--3046997 Score: 315
Period size: 41 Copynumber: 8.7 Consensus size: 40
3046623 AGAGGAGCAA
3046633 TTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGATGAGCCT
1 TTTA-TTTTTAAAAGTCGTTGAGCCTCTGATTAGA-GAGCCT
* **
3046675 TTTATTTTTAAAAGTCATTGAGCCTCTG-TTCAGATGAGCAA
1 TTTATTTTTAAAAGTCGTTGAGCCTCTGATT-AGA-GAGCCT
3046716 TTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGATGAGCCT
1 TTTA-TTTTTAAAAGTCGTTGAGCCTCTGATTAGA-GAGCCT
* * *
3046758 TTTATTTTTAAAAGTCGTTAAGCCTCTAATTAGATAAGCCT
1 TTTATTTTTAAAAGTCGTTGAGCCTCTGATTAGA-GAGCCT
* * * * *
3046799 TTTATTTTTAAAAGTTGTTAAGCCTCTGTTTATAGGAGCTTT
1 TTTATTTTTAAAAGTCGTTGAGCCTCTGATTAGA-GAGC-CT
*
3046841 GTTTATCTTTTCAAAAGTCGTTGAGCCTCTAATTAGAGAAGCCT
1 -TTTAT-TTTT-AAAAGTCGTTGAGCCTCTGATTAGAG-AGCCT
* * * * *
3046885 TTTATTTTTAAAAGTTGTTAAGCCTCTGTTTAAAGAAGCTTT
1 TTTATTTTTAAAAGTCGTTGAGCCTCTGATTAGAG-AGC-CT
* *
3046927 ATTTATTTTTCTAAAGGT-GTTGAGCCTCT-ATTTAGAAGAG-TT
1 -TTTA-TTTT-TAAAAGTCGTTGAGCCTCTGA-TTAG-AGAGCCT
* *
3046969 ATTTATTTTTCCAAAGTCATTGAGCCTCT
1 -TTTATTTTT-AAAAGTCGTTGAGCCTCT
3046998 ACTTATAGGA
Statistics
Matches: 272, Mismatches: 35, Indels: 32
0.80 0.10 0.09
Matches are distributed among these distances:
40 3 0.01
41 135 0.50
42 62 0.23
43 16 0.06
44 25 0.09
45 31 0.11
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (40 bp):
TTTATTTTTAAAAGTCGTTGAGCCTCTGATTAGAGAGCCT
Found at i:3047298 original size:3 final size:3
Alignment explanation
Indices: 3047292--3047405 Score: 68
Period size: 3 Copynumber: 34.7 Consensus size: 3
3047282 TTCTAAAATT
* *
3047292 TTA TTA TTTA TTA TTA TTA TTA TTA TTTA TTA ATA -TA CATA TATA TTTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA T-TA -TTA
**
3047341 TTTA TCTA TTA ACA TATA TTA TTA TTTA TTA TTA TTA TTA TTTA TATA
1 -TTA T-TA TTA TTA T-TA TTA TTA -TTA TTA TTA TTA TTA -TTA T-TA
* *
3047389 TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TT
3047406 TTTTCTTTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
2 2 0.02
3 57 0.63
4 30 0.33
5 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3047321 original size:16 final size:16
Alignment explanation
Indices: 3047292--3047405 Score: 83
Period size: 16 Copynumber: 6.9 Consensus size: 16
3047282 TTCTAAAATT
3047292 TTATTATTTATTATTA
1 TTATTATTTATTATTA
3047308 TTATTA-TTATTTATTA
1 TTATTATTTA-TTATTA
* **
3047324 ATA-TACATATATATTTA
1 TTATTATTTAT-TA-TTA
**
3047341 TTTATCTA-TTAACATATA
1 -TTAT-TATTTATTAT-TA
3047359 TTATTATTTATTATTA
1 TTATTATTTATTATTA
3047375 TTATTATTTATATATTA
1 TTATTATTTAT-TATTA
*
3047392 TTTTTATTT-TTATT
1 TTATTATTTATTATT
3047406 TTTTCTTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
15 10 0.13
16 34 0.43
17 26 0.33
18 5 0.06
19 2 0.03
20 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATTTATTATTA
Found at i:3047355 original size:24 final size:24
Alignment explanation
Indices: 3047309--3047375 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
3047299 TTATTATTAT
*
3047309 TATTATTATTTATTAATATACATA
1 TATTATTATTTATTATTATACATA
3047333 TA-TATTTATTTATCTATTA-ACATA
1 TATTA-TTATTTAT-TATTATACATA
3047357 TATTATTATTTATTATTAT
1 TATTATTATTTATTATTAT
3047376 TATTATTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 7 0.18
24 25 0.66
25 6 0.16
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTATTATTTATTATTATACATA
Found at i:3047408 original size:13 final size:13
Alignment explanation
Indices: 3047357--3047409 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
3047347 TATTAACATA
*
3047357 TATTATTATTTAT
1 TATTATTATTTTT
*
3047370 TATTATTATTATT
1 TATTATTATTTTT
3047383 TATATATTA-TTTT
1 TAT-TATTATTTTT
*
3047396 TATTTTTATTTTT
1 TATTATTATTTTT
3047409 T
1 T
3047410 CTTTTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 4 0.12
13 25 0.74
14 5 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTATTATTTTT
Found at i:3048198 original size:5 final size:5
Alignment explanation
Indices: 3048188--3048331 Score: 75
Period size: 5 Copynumber: 27.8 Consensus size: 5
3048178 GTTTCAAGGT
3048188 TTTTA TTTTA TTTTA -TTTA -TTTA -TTTA TTATTA TTGTTA TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TT-TTA TT-TTA
* * ** * *
3048233 TTATTTA TTGATTA GATTAA AATTA TTTAA TATT- TTTTA TTTTA TTTTA
1 -T-TTTA TT--TTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
3048282 TTCTA TTTTTA TCTTTA TTTT- TATT- TTTTA TTTTTA TTTTA TTTTA
1 TTTTA -TTTTA T-TTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA
3048328 TTTT
1 TTTT
3048332 TCTCTTTAAA
Statistics
Matches: 111, Mismatches: 16, Indels: 24
0.74 0.11 0.16
Matches are distributed among these distances:
4 21 0.19
5 51 0.46
6 30 0.27
7 7 0.06
8 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:3048236 original size:29 final size:28
Alignment explanation
Indices: 3048190--3048246 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
3048180 TTCAAGGTTT
*
3048190 TTATTTTATTTTATTTATTTATTTATTA
1 TTATTTTATTTTATTTATTTATTGATTA
3048218 TTATTGTTATTATTA-TTATTTATTGATTA
1 TTATT-TTATT-TTATTTATTTATTGATTA
3048247 GATTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 5 0.19
29 18 0.69
30 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (28 bp):
TTATTTTATTTTATTTATTTATTGATTA
Found at i:3048300 original size:41 final size:41
Alignment explanation
Indices: 3048255--3048339 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
3048245 TAGATTAAAA
3048255 TTATTTAATATTTTTTA-TTTTATTTTATTCTATTTTTATCT
1 TTATTT-ATATTTTTTATTTTTATTTTATTCTATTTTTATCT
* * *
3048296 TTATTTTTATTTTTTATTTTTATTTTATTTTATTTTTCTCT
1 TTATTTATATTTTTTATTTTTATTTTATTCTATTTTTATCT
3048337 TTA
1 TTA
3048340 AATAAAATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 9 0.22
41 31 0.77
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (41 bp):
TTATTTATATTTTTTATTTTTATTTTATTCTATTTTTATCT
Found at i:3048412 original size:58 final size:57
Alignment explanation
Indices: 3048350--3048680 Score: 397
Period size: 58 Copynumber: 5.7 Consensus size: 57
3048340 AATAAAATTC
3048350 CAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAGTCTT
1 CAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATC-AATTTTCTTGAAAATAAGTCTT
* *
3048408 CAAAAAAA-A-TTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAATTCTT
1 CAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAAATAAGTCTT
*
3048464 TAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTT
1 CAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAGTCTT
* * * * *
3048522 CAAAAAAATATTTTCGAA-AAAAAGTTGAAAGTATCAATTTTCTTTGAAGATAATTTTT
1 CAAAAAAATATTTT-TAAGGAAAAGTTGAAAGTATCAATTTTC-TTGAAAATAAGTCTT
* * * * *
3048580 TAAAAAAAGATTTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTT-AAAGTTAAAGT-TT
1 CAAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAA-AT-AAGTCTT
3048639 CAGAAAAAATATTTTTGAA--AAAAGTTGAAAGTATCAATTTTC
1 CA-AAAAAATATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTC
3048681 CTTGTATGAA
Statistics
Matches: 236, Mismatches: 24, Indels: 27
0.82 0.08 0.09
Matches are distributed among these distances:
55 2 0.01
56 49 0.21
57 12 0.05
58 123 0.52
59 34 0.14
60 16 0.07
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (57 bp):
CAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAGTCTT
Found at i:3048670 original size:117 final size:116
Alignment explanation
Indices: 3048351--3048684 Score: 475
Period size: 117 Copynumber: 2.9 Consensus size: 116
3048341 ATAAAATTCC
*
3048351 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAGTCTTCAAAAAAA
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTCTTCAAAAAAA
*
3048416 -A-TTTTAAGAAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATAATTCTTT
66 TATTTTTGA-AAAAAGTTGAAAGTATCAATTTTCTCTTGAAAATAATTCTTT
*
3048465 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTTCAAAAAAA
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTCTTCAAAAAAA
* * *
3048530 TATTTTCGAAAAAAAGTTGAAAGTATCAATTTTCT-TTGAAGATAATTTTTT
66 TATTTTTG-AAAAAAGTTGAAAGTATCAATTTTCTCTTGAAAATAATTCTTT
* * * *
3048581 AAAAAAAGATTTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTT-AAAGTTAAAGT-TTCAGAA
1 AAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAA-AT-AAGTCTTCA-AA
3048644 AAAATATTTTTGAAAAAAGTTGAAAGTATCAATTTTC-CTTG
62 AAAATATTTTTGAAAAAAGTTGAAAGTATCAATTTTCTCTTG
3048685 TATGAAAGCA
Statistics
Matches: 199, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
114 63 0.32
115 1 0.01
116 51 0.26
117 67 0.34
118 17 0.09
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (116 bp):
AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTCTTCAAAAAAA
TATTTTTGAAAAAAGTTGAAAGTATCAATTTTCTCTTGAAAATAATTCTTT
Found at i:3048675 original size:175 final size:171
Alignment explanation
Indices: 3048350--3048684 Score: 439
Period size: 175 Copynumber: 1.9 Consensus size: 171
3048340 AATAAAATTC
* *
3048350 CAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAGTCTTCAAAAAA
1 CAAAAAAATATTTTGAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAGTCTTCAAAAAA
* *
3048415 AATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAATTCTTTAAAAAAATATTTTTA
66 AATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTCTTCAAAAAAATATTTTTA
3048480 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTT
131 A-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTT
* * * *
3048522 CAAAAAAATATTTTCGAA-AAAAAGTTGAAAGTATC-AATTTTCTTTGAAGATAATTTTTTAAAA
1 CAAAAAAATATTTT-GAAGAAAAAGTTGAAAGTATCAAATTTTC-TTGAAAATAAGTCTTCAAAA
* *
3048585 AAAGATTTTTTGAGGAAAAA-TTGAAAGTATCAATTTTTCTT-AAAGTTAAAGT-TTCAGAAAAA
64 AAA-A--TTTT-AAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAA-AT-AAGTCTTCA-AAAAA
3048647 ATATTTTTGAA-AAAAGTTGAAAGTATCAATTTTCCTTG
122 ATATTTTT-AAGAAAAGTTGAAAGTATCAATTTTCCTTG
3048685 TATGAAAGCA
Statistics
Matches: 143, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
171 7 0.05
172 49 0.34
173 3 0.02
174 3 0.02
175 56 0.39
176 23 0.16
177 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (171 bp):
CAAAAAAATATTTTGAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAATAAGTCTTCAAAAAA
AATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTCTTCAAAAAAATATTTTTA
AGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTT
Found at i:3049343 original size:3 final size:3
Alignment explanation
Indices: 3049335--3049409 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
3049325 AACATAAATA
3049335 AAT AAT AAT AAT AAT AAT AAT AAT -AT AA- AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3049381 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3049410 GGATACGCAA
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.06
3 66 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3051759 original size:11 final size:11
Alignment explanation
Indices: 3051739--3051768 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3051729 AAGGAGTGTT
*
3051739 TTTTTTTTTTC
1 TTTTTCTTTTC
3051750 TTTTTCTTTTC
1 TTTTTCTTTTC
3051761 TTTTTCTT
1 TTTTTCTT
3051769 CAATCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:3054555 original size:4 final size:4
Alignment explanation
Indices: 3054546--3054570 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3054536 ATGACAACTG
3054546 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
3054571 TGTAGTATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:3062011 original size:28 final size:28
Alignment explanation
Indices: 3061947--3062011 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
3061937 CACATTTTTT
**
3061947 TTTACATAAAATACTGTTTTAACTTAGT
1 TTTACATAAAATACTGTTTTAACTTAAC
3061975 TTTACATAAAATACTGTTTTTAA-TATAAC
1 TTTACATAAAATACTG-TTTTAACT-TAAC
3062004 TTTA-ATAA
1 TTTACATAA
3062012 TATTCATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (28 bp):
TTTACATAAAATACTGTTTTAACTTAAC
Found at i:3063224 original size:59 final size:57
Alignment explanation
Indices: 3063133--3063352 Score: 237
Period size: 59 Copynumber: 3.8 Consensus size: 57
3063123 NNNNNNNTTT
* *
3063133 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTTCA
1 AAAAAAATATTTTGAA-AAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGT-TTCA
* * * *
3063192 AAAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTCTTTGAAGATAATTTTTTA
1 AAAAAAATATTTT-GAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA-GTTTCA
* * ** * *
3063251 AAAAAAGGTTTTTTGAGGAAAA-TTGAAAGTATCAATTTTTCTT-AAAGTTAAAGTTTCA
1 AAAAAA-ATATTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAA-AT-AAGTTTCA
* *
3063309 GAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAAAATATTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTG
3063353 TATGAAAGCA
Statistics
Matches: 133, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
57 14 0.11
58 49 0.37
59 62 0.47
60 8 0.06
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAAATATTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCA
Found at i:3064020 original size:3 final size:3
Alignment explanation
Indices: 3064012--3064043 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3064002 TAAATAAATA
3064012 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3064044 GGATACGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3076757 original size:28 final size:28
Alignment explanation
Indices: 3076693--3076757 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
3076683 CACATTTTTT
**
3076693 TTTACATAAAATACTGTTTTAACTTAGT
1 TTTACATAAAATACTGTTTTAACTTAAC
3076721 TTTACATAAAATACTGTTTTTAA-TATAAC
1 TTTACATAAAATACTG-TTTTAACT-TAAC
3076750 TTTA-ATAA
1 TTTACATAA
3076758 TATTCATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (28 bp):
TTTACATAAAATACTGTTTTAACTTAAC
Found at i:3077634 original size:17 final size:18
Alignment explanation
Indices: 3077614--3077673 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 18
3077604 ATAAATAATT
3077614 ATTTAATTATAAATTT-A
1 ATTTAATTATAAATTTAA
3077631 ATTTAA-TA-AAATTTAA
1 ATTTAATTATAAATTTAA
* *
3077647 ATTCAAGTAT-AATTTAA
1 ATTTAATTATAAATTTAA
*
3077664 ATTAAATTAT
1 ATTTAATTAT
3077674 TAAAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.16
16 8 0.22
17 23 0.62
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTTAATTATAAATTTAA
Found at i:3077642 original size:15 final size:17
Alignment explanation
Indices: 3077596--3077673 Score: 56
Period size: 17 Copynumber: 4.6 Consensus size: 17
3077586 TTTATTTTTT
*
3077596 ATTTTATTATAAATAATT-
1 ATTTAATTATAAAT--TTA
3077614 ATTTAATTATAAATTTA
1 ATTTAATTATAAATTTA
3077631 ATTTAA-TA-AAATTTAA
1 ATTTAATTATAAATTT-A
* *
3077647 ATTCAAGTAT-AATTTAA
1 ATTTAATTATAAATTT-A
*
3077664 ATTAAATTAT
1 ATTTAATTAT
3077674 TAAAAAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
15 6 0.12
16 10 0.19
17 23 0.44
18 13 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (17 bp):
ATTTAATTATAAATTTA
Found at i:3081062 original size:36 final size:36
Alignment explanation
Indices: 3081017--3081088 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
3081007 GACCTAATAA
*
3081017 CATGTTGTGGCCATTGTTTAATAAACAATAATCCAT
1 CATGCTGTGGCCATTGTTTAATAAACAATAATCCAT
3081053 CATGCTGTGGCCATTGTTTAATAAACAATAATCCAT
1 CATGCTGTGGCCATTGTTTAATAAACAATAATCCAT
3081089 TCCCTAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (36 bp):
CATGCTGTGGCCATTGTTTAATAAACAATAATCCAT
Found at i:3081166 original size:120 final size:120
Alignment explanation
Indices: 3080933--3081172 Score: 381
Period size: 120 Copynumber: 2.0 Consensus size: 120
3080923 GACCTAACAA
* * *
3080933 CATGTTGTGGCCACTGATTAATCAACAATAATCCATTCCCTAAATTTTCAAATTTTCTATGTTTC
1 CATGCTGTGGCCACTGATTAATAAACAATAATCCATTCCCTAAATTTCCAAATTTTCTATGTTTC
* * *
3080998 TGTAAGGCTGACCTAATAACATGTTGTGGCCATTGTTTAATAAACAATAATCCAT
66 TGTAAGGCTGACCTAATAACATGTTGCGGCCATCGTCTAATAAACAATAATCCAT
* *
3081053 CATGCTGTGGCCATTGTTTAATAAACAATAATCCATTCCCTAAATTTCCAAATTTTCTATGTTTC
1 CATGCTGTGGCCACTGATTAATAAACAATAATCCATTCCCTAAATTTCCAAATTTTCTATGTTTC
* * *
3081118 TGTATGGCTGACCTAATAACATGTTGCGGCCATCGTCTAATCAGCAATAATCCAT
66 TGTAAGGCTGACCTAATAACATGTTGCGGCCATCGTCTAATAAACAATAATCCAT
3081173 TCCCAAGTTC
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (120 bp):
CATGCTGTGGCCACTGATTAATAAACAATAATCCATTCCCTAAATTTCCAAATTTTCTATGTTTC
TGTAAGGCTGACCTAATAACATGTTGCGGCCATCGTCTAATAAACAATAATCCAT
Found at i:3082319 original size:21 final size:21
Alignment explanation
Indices: 3082293--3082334 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3082283 ACTATCGCCT
3082293 ACAGTTGGGTCCATTATGGTC
1 ACAGTTGGGTCCATTATGGTC
3082314 ACAGTTGGGTCCATTATGGTC
1 ACAGTTGGGTCCATTATGGTC
3082335 CAATGCTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (21 bp):
ACAGTTGGGTCCATTATGGTC
Found at i:3088299 original size:19 final size:19
Alignment explanation
Indices: 3088272--3088310 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3088262 TTTTTTGAAA
*
3088272 ATAAATTTTTGAAAAAGTC
1 ATAAATTTTTCAAAAAGTC
* *
3088291 ATAATTTTTTCTAAAAGTC
1 ATAAATTTTTCAAAAAGTC
3088310 A
1 A
3088311 AATCGTTTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (19 bp):
ATAAATTTTTCAAAAAGTC
Found at i:3088355 original size:16 final size:16
Alignment explanation
Indices: 3088336--3088389 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
3088326 TGAACTTTTC
3088336 AAAAATTTATTTTTGA
1 AAAAATTTATTTTTGA
*
3088352 AAAAATTTATAATTTTCA
1 AAAAATTTAT--TTTTGA
**
3088370 AAAAATAAATTTTTGA
1 AAAAATTTATTTTTGA
3088386 AAAA
1 AAAA
3088390 TTATATGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 19 0.59
18 13 0.41
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (16 bp):
AAAAATTTATTTTTGA
Found at i:3088416 original size:34 final size:32
Alignment explanation
Indices: 3088331--3088461 Score: 104
Period size: 34 Copynumber: 4.0 Consensus size: 32
3088321 AAAATTGAAC
*
3088331 TTTTCAAAAATTTATTTTTGAAAAAATTTATAA
1 TTTTTAAAAATTTATTTTTG-AAAAATTTATAA
* ** *
3088364 TTTTCAAAAAATAAATTTTTGAAAAATTATATGAT
1 TTTT-TAAAAATTTATTTTTGAAAAATT-TAT-AA
* * **
3088399 TTTTTATAAATTCATTTTCAAAAAGATTTATAA
1 TTTTTAAAAATTTATTTTTGAAAA-ATTTATAA
*
3088432 TTTTTCGAAAATTTATTTTT--AAAATTTATA
1 TTTTT-AAAAATTTATTTTTGAAAAATTTATA
3088462 TGCAAGAGAA
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
31 7 0.09
32 3 0.04
33 17 0.22
34 43 0.55
35 8 0.10
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (32 bp):
TTTTTAAAAATTTATTTTTGAAAAATTTATAA
Found at i:3089081 original size:26 final size:26
Alignment explanation
Indices: 3089036--3089086 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
3089026 CACGTCTTCC
* *
3089036 TTGTTTTCATTGCATGTAAGAAAATG
1 TTGTTTTCATTACATATAAGAAAATG
* *
3089062 TTGTTTTCATTATATATAAGGAAAT
1 TTGTTTTCATTACATATAAGAAAAT
3089087 AGGTATTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (26 bp):
TTGTTTTCATTACATATAAGAAAATG
Found at i:3089475 original size:56 final size:57
Alignment explanation
Indices: 3089409--3089519 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 57
3089399 TTTAATAAAT
* *
3089409 TAAGTTAAAATATTTGTCCTTGATAAGTAATCCTAGAGAATCTT-ATCCAGCCGGAA
1 TAAGTTAAAATATTTGTCCCTGATAAGGAATCCTAGAGAATCTTGATCCAGCCGGAA
3089465 TAAGTTAAAATATTTGTCCCTGATAAGGAATCCTAGAGAATCTTGATCCAGCCGG
1 TAAGTTAAAATATTTGTCCCTGATAAGGAATCCTAGAGAATCTTGATCCAGCCGG
3089520 CAAGAGCAGC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 42 0.81
57 10 0.19
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (57 bp):
TAAGTTAAAATATTTGTCCCTGATAAGGAATCCTAGAGAATCTTGATCCAGCCGGAA
Found at i:3103816 original size:54 final size:54
Alignment explanation
Indices: 3103715--3103833 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 54
3103705 TATTCCGGTT
* * *
3103715 GCCAGGCTTCAGGAATATCTCCATCATCCATGGAAGCCGCAATATTTTCTTCTA
1 GCCAAGCTTCAGGAATATCTACATCATCCATGGAAGCCGCAAAATTTTCTTCTA
* * * *
3103769 GCGAAGCTTCAGGAATATCTACATCAT-C-TGTGATGTCCGGAAAATTTTCTTTTA
1 GCCAAGCTTCAGGAATATCTACATCATCCATG-GAAG-CCGCAAAATTTTCTTCTA
3103823 GCCAAGCTTCA
1 GCCAAGCTTCA
3103834 ACCATATCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.04
53 4 0.07
54 49 0.89
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (54 bp):
GCCAAGCTTCAGGAATATCTACATCATCCATGGAAGCCGCAAAATTTTCTTCTA
Found at i:3114138 original size:35 final size:35
Alignment explanation
Indices: 3114070--3114138 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
3114060 TTAACTTTAT
* *
3114070 TTTATATTTTATTTTTTCAAATCAAAATCTATAAC
1 TTTATATTTAATTTTTTCAAAACAAAATCTATAAC
* *
3114105 TTTATATTTAATTTTTTCAAAACTAAATTTATAA
1 TTTATATTTAATTTTTTCAAAACAAAATCTATAA
3114139 GTATTTCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (35 bp):
TTTATATTTAATTTTTTCAAAACAAAATCTATAAC
Found at i:3114385 original size:22 final size:24
Alignment explanation
Indices: 3114343--3114386 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
3114333 TAAACTTATT
*
3114343 TATTTGATTTTTGAATATATTACA
1 TATTTGATTTTTAAATATATTACA
3114367 TATTT-ATTTTTAAAT-TATTA
1 TATTTGATTTTTAAATATATTA
3114387 ATAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (24 bp):
TATTTGATTTTTAAATATATTACA
Found at i:3115047 original size:17 final size:17
Alignment explanation
Indices: 3115021--3115053 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3115011 CCTAATCAAA
3115021 TTTTTATA-TTTAATTT
1 TTTTTATATTTTAATTT
3115037 TTTTTATTATTTTAATT
1 TTTTTA-TATTTTAATT
3115054 AATAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATATTTTAATTT
Found at i:3116215 original size:24 final size:23
Alignment explanation
Indices: 3116145--3116215 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
3116135 TGCAATGATA
*
3116145 TTTATATGAATAATTA-TCTATT
1 TTTATATAAATAATTATTCTATT
* *
3116167 TATATTTAAATAATTATAATC-ATT
1 TTTATATAAATAATTAT--TCTATT
3116191 TGTTATAT-AATAATTATTTCTATT
1 T-TTATATAAATAATTA-TTCTATT
3116215 T
1 T
3116216 AAATATAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
22 13 0.34
23 2 0.05
24 16 0.42
25 7 0.18
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (23 bp):
TTTATATAAATAATTATTCTATT
Found at i:3121899 original size:35 final size:36
Alignment explanation
Indices: 3121847--3121916 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 36
3121837 ACTTATTACG
3121847 TTGAATTAAAATTTTAAAAAACTATATTTTTAAACA
1 TTGAATTAAAATTTTAAAAAACTATATTTTTAAACA
3121883 TTGAATT-AAATTTTAAAAAACTATATTTTTAAAC
1 TTGAATTAAAATTTTAAAAAACTATATTTTTAAAC
3121917 TACCCTAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 27 0.79
36 7 0.21
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (36 bp):
TTGAATTAAAATTTTAAAAAACTATATTTTTAAACA
Found at i:3130298 original size:14 final size:14
Alignment explanation
Indices: 3130279--3130320 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
3130269 ATTGTATTTG
3130279 ATAATTTAAAATAA
1 ATAATTTAAAATAA
* *
3130293 ATAATTATAAATTAT
1 ATAATT-TAAAATAA
3130308 AT-ATTTAAAATAA
1 ATAATTTAAAATAA
3130321 TTTTAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATTTAAAATAA
Found at i:3144866 original size:18 final size:17
Alignment explanation
Indices: 3144833--3144896 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 17
3144823 AAAATAAATT
3144833 ATTTTATATTTAATAAA
1 ATTTTATATTTAATAAA
* * *
3144850 ATTTTA-ATATATTATA
1 ATTTTATATTTAATAAA
*
3144866 ATATTATATTTAAATTAAA
1 ATTTTATATTT-AA-TAAA
3144885 TATTTT-TATTTA
1 -ATTTTATATTTA
3144897 TTATTAATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
16 12 0.34
17 9 0.26
18 2 0.06
19 8 0.23
20 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATATTTAATAAA
Found at i:3158837 original size:1 final size:1
Alignment explanation
Indices: 3158831--3158857 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
3158821 CATCTTATTT
3158831 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
3158858 TTTAAGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:3173288 original size:2 final size:2
Alignment explanation
Indices: 3173281--3173312 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3173271 CATCCAGGTA
*
3173281 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3173313 TTTTTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3180295 original size:2 final size:2
Alignment explanation
Indices: 3180288--3180334 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
3180278 CATGCATGTC
*
3180288 AT AT AT AT ACT -T AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3180330 AT AT A
1 AT AT A
3180335 CAACACACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.02
2 39 0.95
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3181982 original size:15 final size:15
Alignment explanation
Indices: 3181939--3181998 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
3181929 ATGAAGAAAT
*
3181939 AGAGGAAGAGGAGGA
1 AGAGGAAGAAGAGGA
* **
3181954 AGTGGAAGTTGAGGA
1 AGAGGAAGAAGAGGA
*
3181969 AGAGGTAGAAGAGGA
1 AGAGGAAGAAGAGGA
*
3181984 GGAGGAAGAAGAGGA
1 AGAGGAAGAAGAGGA
3181999 CGAGAATGCT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.50, T:0.07
Consensus pattern (15 bp):
AGAGGAAGAAGAGGA
Found at i:3187280 original size:3 final size:3
Alignment explanation
Indices: 3187272--3187311 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
3187262 GCTCTTAATA
3187272 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3187312 GGCTTGACGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.