Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 56 of 335
Found at i:19722832 original size:20 final size:18
Alignment explanation
Indices: 19722804--19722863 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 18
19722794 ATTAATTTTT
19722804 TTTAAAATATAAAAATAA
1 TTTAAAATATAAAAATAA
19722822 TTTAAAAAATAATAAAAAT-A
1 TTT--AAAAT-ATAAAAATAA
19722842 TTTAAAATATAAAAATATA
1 TTTAAAATATAAAAATA-A
19722861 TTT
1 TTT
19722864 TTAATTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
17 8 0.22
18 8 0.22
19 4 0.11
20 9 0.24
21 8 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTAAAATATAAAAATAA
Found at i:19726133 original size:26 final size:26
Alignment explanation
Indices: 19726097--19726206 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19726087 CATGAAATTC
19726097 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19726123 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19726149 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
19726175 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19726201 TTATCA
1 TTATCA
19726207 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19728168 original size:18 final size:19
Alignment explanation
Indices: 19728145--19728184 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
19728135 TCCCTTTAAA
*
19728145 TTATTTCGTTATTTA-TTT
1 TTATTTCATTATTTACTTT
*
19728163 TTATTTCATTTTTTACTTT
1 TTATTTCATTATTTACTTT
19728182 TTA
1 TTA
19728185 CTTTTTACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (19 bp):
TTATTTCATTATTTACTTT
Found at i:19731849 original size:35 final size:35
Alignment explanation
Indices: 19731822--19731949 Score: 166
Period size: 35 Copynumber: 3.5 Consensus size: 35
19731812 CATGGCAAAG
*
19731822 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
19731857 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
19731892 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
**
19731932 TAAGAAATGTAGGTATGG
1 TGTGAAATGTAGGTATGG
19731950 CATTTCCTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
35 51 0.62
38 3 0.04
40 28 0.34
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:19731941 original size:75 final size:75
Alignment explanation
Indices: 19731822--19731993 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
19731812 CATGGCAAAG
** *
19731822 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
19731882 C-ATACTGAGC
65 CTATACCGAGC
19731892 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
19731957 TATACCGAGT
66 TATACCGAGC
***
19731967 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
19731994 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 3 0.03
75 44 0.51
76 18 0.21
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
TATACCGAGC
Found at i:19731967 original size:35 final size:34
Alignment explanation
Indices: 19731825--19731991 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 34
19731815 GGCAAAGTGT
* **
19731825 GAAATGTAGGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCATACTGAGTTAA
* **
19731860 GAAATGTAGGTATGGTATTATCCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCATACTGAGTTAA
19731895 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTA-T-T----TCCATACTGAGTTAA
* *
19731935 GAAATGTAGGTATGGCATTTCCTATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCC-ATACTGAGTT-AA
*
19731971 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
19731992 AATGAGGAAA
Statistics
Matches: 115, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
34 3 0.03
35 58 0.50
36 22 0.19
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (34 bp):
GAAATGTAGGTATGGTATTTCCATACTGAGTTAA
Found at i:19731983 original size:36 final size:35
Alignment explanation
Indices: 19731923--19731991 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
19731913 TATCAAATCC
* *
19731923 ATACTGAGTTAAGAAATGTAGGTATGGCATTTCCT
1 ATACCGAGTTAAAAAATGTAGGTATGGCATTTCCT
*
19731958 ATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 ATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
19731992 AATGAGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 9 0.30
36 21 0.70
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (35 bp):
ATACCGAGTTAAAAAATGTAGGTATGGCATTTCCT
Found at i:19740138 original size:15 final size:15
Alignment explanation
Indices: 19740114--19740160 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
19740104 CTATTTTAAG
19740114 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
*
19740129 TTTTTTTTAATTATTA
1 TTTATTTTAATT-TTA
19740145 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
19740160 T
1 T
19740161 ATTAATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:19742572 original size:17 final size:18
Alignment explanation
Indices: 19742550--19742583 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19742540 TTTTAGGGAC
19742550 TAAATTGAA-GGCAAAAG
1 TAAATTGAAGGGCAAAAG
*
19742567 TAAATTTAAGGGCAAAA
1 TAAATTGAAGGGCAAAA
19742584 AGCGTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (18 bp):
TAAATTGAAGGGCAAAAG
Found at i:19742784 original size:10 final size:10
Alignment explanation
Indices: 19742769--19742814 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
19742759 TAATCTTAGG
19742769 ATTTAT-TTT
1 ATTTATCTTT
19742778 CATTTATCTTT
1 -ATTTATCTTT
*
19742789 AATTATCTTT
1 ATTTATCTTT
19742799 ATTTAT-TTGT
1 ATTTATCTT-T
19742809 ATTTAT
1 ATTTAT
19742815 GTTTTAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:19746865 original size:25 final size:25
Alignment explanation
Indices: 19746835--19746997 Score: 238
Period size: 25 Copynumber: 6.5 Consensus size: 25
19746825 GACCTCAGCA
*
19746835 TGCTCTCTGATTATTAGCACGTCAG
1 TGCTCTCTGATTATTAGCACGCCAG
19746860 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
* *
19746885 TGCTCTCTGAATATTAGCACACCAG
1 TGCTCTCTGATTATTAGCACGCCAG
* *
19746910 TGCTCTCTGAATATTAGTACGCCAG
1 TGCTCTCTGATTATTAGCACGCCAG
*
19746935 TGCTCTCTGATTATTAGCACACCAG
1 TGCTCTCTGATTATTAGCACGCCAG
* *
19746960 TGTTCTCTGA-TATTTAGCACGTCAG
1 TGCTCTCTGATTA-TTAGCACGCCAG
19746985 TGCTCTCTGATTA
1 TGCTCTCTGATTA
19746998 GCACATTTGT
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
24 2 0.02
25 120 0.97
26 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (25 bp):
TGCTCTCTGATTATTAGCACGCCAG
Found at i:19747038 original size:22 final size:21
Alignment explanation
Indices: 19746973--19747039 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
19746963 TCTCTGATAT
*
19746973 TTAGCACGTCAGTGCTCTCTG
1 TTAGCACTTCAGTGCTCTCTG
*
19746994 ATTAGCACATT-TGTGCTCTCTG
1 -TTAGCAC-TTCAGTGCTCTCTG
19747016 TGTAGCACTTCAGTGCTCTCTG
1 T-TAGCACTTCAGTGCTCTCTG
19747038 TT
1 TT
19747040 CATTAGTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (21 bp):
TTAGCACTTCAGTGCTCTCTG
Found at i:19755160 original size:5 final size:5
Alignment explanation
Indices: 19755150--19755179 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
19755140 TTTTTTATTC
19755150 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
19755180 TTTGGATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:19756100 original size:96 final size:95
Alignment explanation
Indices: 19755923--19756100 Score: 266
Period size: 95 Copynumber: 1.9 Consensus size: 95
19755913 AATTAATTTC
* *
19755923 TAAGAATATGTTGGGCTGAGTAACCGGGGTGAGGTACTTGGCTGTCATCTCTCTTCGCGTCAAAA
1 TAAGAATATGCTGGGCTGAGTAACCGGGGTGAGGTACTTGGCTGTCATCTCTCTTCGAGTCAAAA
* **
19755988 GGTTCGATATGTTCTTAGAAATAATAAAAT
66 GGTTCAATATACTCTTAGAAATAATAAAAT
* * * *
19756018 TAAGAATGTGCTGGGCTGAGTAACCGGGGTGGGGTGCTTGGATTGTCATCTCTCTTCGAGTCAAA
1 TAAGAATATGCTGGGCTGAGTAACCGGGGTGAGGTACTTGG-CTGTCATCTCTCTTCGAGTCAAA
19756083 AGGTTCAATATACTCTTA
65 AGGTTCAATATACTCTTA
19756101 AGTGAAAGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 37 0.51
96 36 0.49
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (95 bp):
TAAGAATATGCTGGGCTGAGTAACCGGGGTGAGGTACTTGGCTGTCATCTCTCTTCGAGTCAAAA
GGTTCAATATACTCTTAGAAATAATAAAAT
Found at i:19756784 original size:10 final size:10
Alignment explanation
Indices: 19756771--19756812 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
19756761 TAATATTAGG
19756771 ATTTATTTTT
1 ATTTATTTTT
*
19756781 ATTTATATTT
1 ATTTATTTTT
*
19756791 ATTTATTTGT
1 ATTTATTTTT
19756801 ATTTATCTTTT
1 ATTTAT-TTTT
19756812 A
1 A
19756813 GAATTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:19762742 original size:13 final size:13
Alignment explanation
Indices: 19762726--19762750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19762716 TTTGAGAAGG
19762726 GATTTGGATATGA
1 GATTTGGATATGA
19762739 GATTTGGATATG
1 GATTTGGATATG
19762751 CTGATGTTTA
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:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (13 bp):
GATTTGGATATGA
Found at i:19762849 original size:28 final size:28
Alignment explanation
Indices: 19762800--19762907 Score: 162
Period size: 28 Copynumber: 3.8 Consensus size: 28
19762790 TTGTGCTATT
* * *
19762800 CTGGTGTGTTTTGGATGGATTATATTATT
1 CTGGTGTGTTTGGGA-GGATTATATGATA
19762829 CTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTGGGAGGATTATATGATA
19762857 CTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTGGGAGGATTATATGATA
* *
19762885 CTGGTGTCTTTTGGAGGATTATA
1 CTGGTGTGTTTGGGAGGATTATA
19762908 CTGGTGTGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 60 0.81
29 14 0.19
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.44
Consensus pattern (28 bp):
CTGGTGTGTTTGGGAGGATTATATGATA
Found at i:19762919 original size:23 final size:26
Alignment explanation
Indices: 19762800--19762921 Score: 115
Period size: 28 Copynumber: 4.5 Consensus size: 26
19762790 TTGTGCTATT
* *
19762800 CTGGTGTGTTTTGGATGGATTATATTATT
1 CTGGTGTGTTTTGGA-GG--TATATGATA
*
19762829 CTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGAGG--TATATGATA
*
19762857 CTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGAGG--TATATGATA
*
19762885 CTGGTGTCTTTTGGAGG-AT-T-ATA
1 CTGGTGTGTTTTGGAGGTATATGATA
19762908 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
19762922 TTGGACATTT
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
23 16 0.18
24 1 0.01
25 2 0.02
28 54 0.62
29 14 0.16
ACGTcount: A:0.17, C:0.05, G:0.34, T:0.44
Consensus pattern (26 bp):
CTGGTGTGTTTTGGAGGTATATGATA
Found at i:19774135 original size:27 final size:27
Alignment explanation
Indices: 19774105--19774161 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
19774095 GCATAAAATC
19774105 AAAATATATAAAATTGTATATTAAACT
1 AAAATATATAAAATTGTATATTAAACT
*
19774132 AAAATATATAAAATTGTATGTTAAACT
1 AAAATATATAAAATTGTATATTAAACT
19774159 AAA
1 AAA
19774162 GATTTATCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (27 bp):
AAAATATATAAAATTGTATATTAAACT
Found at i:19774857 original size:23 final size:23
Alignment explanation
Indices: 19774801--19774859 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
19774791 CCAAAAATAT
* * * *
19774801 AAAATCATAAATTAACATATAAC
1 AAAATTATAATTTAACAGATAAA
*
19774824 AAAATTATAATTTAACAGTTAAA
1 AAAATTATAATTTAACAGATAAA
19774847 AAAATTATAATTT
1 AAAATTATAATTT
19774860 GATTTTAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAATTATAATTTAACAGATAAA
Found at i:19777521 original size:2 final size:2
Alignment explanation
Indices: 19777514--19777551 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
19777504 CAGCACTACT
*
19777514 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19777552 ATGCATGCTA
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:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:19786980 original size:237 final size:235
Alignment explanation
Indices: 19786688--19787885 Score: 970
Period size: 252 Copynumber: 4.9 Consensus size: 235
19786678 CATTCTTATC
* * * * *
19786688 ATATATTATTGTTTATTGTTATATTGGTTGAAATATGTTTTAAGTCCCTATACTTTTTGTACATT
1 ATATATTATTATATATTATTATATTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTACATT
* * *
19786753 TGATAGTTAGCCATCCTATTATATTACATAATGTTATATCATAT-CATATAATATATAATACATT
66 TGAAAGTTAGCC-TCCTACTATATTACATAATGCTATATCATATACATATAATATATAATACA-T
* * *
19786817 AATAGTTTATACATATGCATCAATGATTAAACATTATAATATCATATAGTATTATATATTTTATT
129 AAT-GTTTAT--ATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATATTTTATT
* * *
19786882 ATGATTTATAATATAATAATAGTTATACATAATAGTAGTACAT-T
191 ATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATAT
19786926 ATATATTA-T-TATATTATTATATTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCGTACAT
1 ATATATTATTATATATTATTATATTGGTTGAAATATGC-TTTAAGTCCCTATACTTTTCGTACAT
* * * * ** *
19786989 TTGAAAGTTAGCTCTCTTATTATATTACATAATGCTATATCATA-CCATGTGGTATATAATATAT
65 TTGAAAGTTAGC-CTCCTACTATATTACATAATGCTATATCATATACATATAATATATAATACA-
19787053 TAATAGTTTATATATGCATCAATGATTAAACA-TATAATATCATGTAATACTATATATTTTATTA
128 TAAT-GTTTATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATATTTTATTA
*
19787117 TAATTTATAATATAATAATAGTTATATATAATAGTAGTACATTAT
192 TAATCTATAATATAATAATAGTTATATATAATAGTAGTACA-TAT
** ** *
19787162 ATATAAATTATTATACATTATTGTTTATTATTATTCTAATTGAAATATGCTCCAAGTCCTTATAC
1 ATAT--ATTATTAT--A-TA----TTATTA-TA-T-TGGTTGAAATATGCTTTAAGTCCCTATAC
* * * * * *
19787227 TTTTCGTACATCTAAAAGTTAACCCTTCTACTATATTATATATTGCTATATCATATAGCATATAA
54 TTTTCGTACATTTGAAAGTT-AGCCTCCTACTATATTACATAATGCTATATCATATA-CATATAA
* * * * * * ** *
19787292 CATAT--TA-ATAAT-TTTGTATATGCATCGATGATTGAACATTAAAATATTATGTAATTTTCTA
117 TATATAATACATAATGTTTATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATA
*
19787353 TCTTTTATTATAATCTATAATATAATAATA-TTAATATATAATAGTAGTATACATTATCT
182 TATTTTATTATAATCTATAATATAATAATAGTT-ATATATAATAGTAG--TACA-TA--T
* * * * ** * * *
19787412 ATTACATATTATTGTTTATTATTATAGTGGTTGAAATTTGCTTTAAGTTTCTATGC-TTTCATGC
1 A-T--ATATTATTATATATTATTATATTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTAC
* * *
19787476 ATTTGGAAA-TTAGCCTTCCTACTATATTATATAATGCTATATCATATCACATATTAATATTTTA
63 ATTT-GAAAGTTAGCC-TCCTACTATATTACATAATGCTATATCATAT-ACATA-TAATATATAA
* * * * *
19787540 TACAT-ATGTATATATATGTATAAATGATT-AACATTATAATATCATGTAATACCATATTTTTTA
124 TACATAATGTTTATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATATTTTA
* * *
19787603 TTATAATCTATATTATATTAATAGTTATATATAATAGTAGTCCATTAT
189 TTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACA-TAT
* * * * *
19787651 ATATTACTTATTGTTGTATATTATTGTTTATTGTTACAGTAGTTAAAATATGTTTTAAGTCTCTA
1 ATA-TA-TTA----T-TATA-TATT-ATTA-TATT---G--GTTGAAATATGCTTTAAGTCCCTA
* * * ** * ** *
19787716 TATTTTTCATACATTTGAAAGTTAACCCTATTACTATATTATATAATATTATATCATAT-CATAA
51 TACTTTTCGTACATTTGAAAGTT-AGCCTCCTACTATATTACATAATGCTATATCATATACATAT
*** * * * * * * * *
19787780 AATATATTAATGGTTTATATATATATATGTATCGATAATTAAACATTACAATATCATGTAATATT
115 AATATA-TAATACATAATGTTTATATATGCATCAATGATTAAACATTATAATATCATGTAATACT
* * *
19787845 ATATCTTTTACTATAATCTATATTATAATAATAGTTATATA
179 ATATATTTTATTATAATCTATAATATAATAATAGTTATATA
19787886 CATGTTAATA
Statistics
Matches: 786, Mismatches: 113, Indels: 108
0.78 0.11 0.11
Matches are distributed among these distances:
234 68 0.09
235 22 0.03
236 30 0.04
237 93 0.12
238 17 0.02
239 6 0.01
240 45 0.06
241 36 0.05
242 2 0.00
243 72 0.09
244 30 0.04
245 28 0.04
246 61 0.08
247 10 0.01
248 12 0.02
249 65 0.08
250 24 0.03
251 61 0.08
252 99 0.13
253 5 0.01
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (235 bp):
ATATATTATTATATATTATTATATTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCGTACATT
TGAAAGTTAGCCTCCTACTATATTACATAATGCTATATCATATACATATAATATATAATACATAA
TGTTTATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATATTTTATTATAAT
CTATAATATAATAATAGTTATATATAATAGTAGTACATAT
Found at i:19787147 original size:16 final size:17
Alignment explanation
Indices: 19787121--19787154 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19787111 TTATTATAAT
19787121 TTATAATATAATAATAG
1 TTATAATATAATAATAG
*
19787138 TTAT-ATATAATAGTAG
1 TTATAATATAATAATAG
19787154 T
1 T
19787155 ACATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
TTATAATATAATAATAG
Found at i:19787568 original size:489 final size:480
Alignment explanation
Indices: 19786793--19787885 Score: 1188
Period size: 489 Copynumber: 2.2 Consensus size: 480
19786783 ATGTTATATC
* * * * * *
19786793 ATATCATATAATATATAATACATTAATAGTTTATACATATGCATCAATGATTAAACATTATAATA
1 ATATCATAT-ACATATAATATATTAATAATTT-TATATATGCATCGATGATTAAACATTAAAATA
* * * * * *
19786858 TCATATAGTATTATATATTTTATTATGATTTATAATATAATAATAGTTATACATAATAGTAGTAC
64 TCATGTAATATTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTAC
* *
19786923 ATTATATATTATTATATTATTATATTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCGTACA
129 ATTATATATTATTATATTATTATAGTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCATACA
* * *
19786988 TTTGAAAGTTAGCTCTCTTATTATATTACATAATGCTATATCATACCATGTGGTATATAATATAT
194 TTTGAAAGTTAGCTCTCCTACTATATTACATAATGCTATATCATACCATAT-GTATATAATATAT
* * *
19787053 TAATAGTTTATATATGCATCAATGATTAAACA-TATAATATCATGTAATACTATATATTTTATTA
258 TAATAGTATATATATGCATAAATGATT-AACATTATAATATCATGTAATACCATATATTTTATTA
*
19787117 TAATTTATAATATAATAATAGTTATATATAATAGTAGTACATTATATA-TA-AATTATTATACAT
322 TAATCTATAATATAATAATAGTTATATATAATAGTAGTACATTATATATTACAATTATTATACAT
** * *
19787180 TATTGTTTATTATTATTCTAATTGAAATATGCTCCAAGTC-CTTATACTTTTCGTACATCTAAAA
387 TATTGTTTATTATTACACTAATTAAAATATGCTCCAAGTCTC-TATACTTTTCATACATCTAAAA
* *
19787244 GTTAACCCT-TCTACTATATTATATATTGCT
451 GTTAACCCTAT-TACTATATTATATAATACT
* * *
19787274 ATATCATATAGCATATAACATATTAATAATTTTGTATATGCATCGATGATTGAACATTAAAATAT
1 ATATCATATA-CATATAATATATTAATAATTTTATATATGCATCGATGATTAAACATTAAAATAT
* * *
19787339 TATGTAATTTTCTATCTTTTATTATAATCTATAATATAATAATA-TTAATATATAATAGTAGTAT
65 CATGTAATATTATATCTTTTATTATAATCTATAATATAATAATAGTT-ATATATAATAGTAG--T
* * ** *
19787403 ACATTATCTATTACATATTATTGTTTATTATTATAGTGGTTGAAATTTGC-TTTAAGTTTCTATG
127 AC---AT-TA-T--ATATTA-T-TATATTATTATAGTGGTTGAAATATGCTTTTAAGTCCCTATA
* *
19787467 C-TTTCATGCATTTGGAAA-TTAGC-CTTCCTACTATATTATATAATGCTATATCATATCACATA
183 CTTTTCATACATTT-GAAAGTTAGCTC-TCCTACTATATTACATAATGCTATATCATA-C-CATA
* * *
19787529 T-TA-ATATTTTA-TACATATGTATATATATGTATAAATGATTAACATTATAATATCATGTAATA
244 TGTATATAATATATTA-ATA-GTATATATATGCATAAATGATTAACATTATAATATCATGTAATA
* * * *
19787591 CCATATTTTTTATTATAATCTATATTATATTAATAGTTATATATAATAGTAGTCCATTATATATT
307 CCATATATTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACATTATATATT
* * * * * * * * ** *
19787656 ACTTATTGTTGTATATTATTGTTTATTGTTACAGTAGTTAAAATATGTTTTAAGTCTCTATATTT
372 AC-AATTATTATACATTATTGTTTATTATTACACTAATTAAAATATGCTCCAAGTCTCTATACTT
* * *
19787721 TTCATACATTTGAAAGTTAACCCTATTACTATATTATATAATATT
436 TTCATACATCTAAAAGTTAACCCTATTACTATATTATATAATACT
* * * * * *
19787766 ATATCATAT-CATAAAATATATTAATGGTTTATATATATATATGTATCGATAATTAAACATTACA
1 ATATCATATACATATAATATATTAA----TAAT-TTTATATATGCATCGATGATTAAACATTAAA
* *
19787830 ATATCATGTAATATTATATCTTTTACTATAATCTATATTATAATAATAGTTATATA
61 ATATCATGTAATATTATATCTTTTATTATAATCTATAATATAATAATAGTTATATA
19787886 CATGTTAATA
Statistics
Matches: 506, Mismatches: 75, Indels: 48
0.80 0.12 0.08
Matches are distributed among these distances:
479 2 0.00
480 78 0.15
481 26 0.05
482 3 0.01
485 2 0.00
486 2 0.00
487 3 0.01
488 14 0.03
489 143 0.28
490 33 0.07
491 28 0.06
492 92 0.18
493 2 0.00
494 3 0.01
495 73 0.14
496 2 0.00
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (480 bp):
ATATCATATACATATAATATATTAATAATTTTATATATGCATCGATGATTAAACATTAAAATATC
ATGTAATATTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAGTAGTACAT
TATATATTATTATATTATTATAGTGGTTGAAATATGCTTTTAAGTCCCTATACTTTTCATACATT
TGAAAGTTAGCTCTCCTACTATATTACATAATGCTATATCATACCATATGTATATAATATATTAA
TAGTATATATATGCATAAATGATTAACATTATAATATCATGTAATACCATATATTTTATTATAAT
CTATAATATAATAATAGTTATATATAATAGTAGTACATTATATATTACAATTATTATACATTATT
GTTTATTATTACACTAATTAAAATATGCTCCAAGTCTCTATACTTTTCATACATCTAAAAGTTAA
CCCTATTACTATATTATATAATACT
Found at i:19789232 original size:66 final size:66
Alignment explanation
Indices: 19789126--19789257 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
19789116 GAGTTAAATC
* *
19789126 TAGTTTTTCCGAGTCAAAACATGTAAAGGGATTTTATATTATGTATATAACTATATATACCTGGA
1 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
19789191 T
66 T
19789192 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
1 TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
19789257 T
66 T
19789258 ACGGAGATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (66 bp):
TAGTTTTTCCGAGTCAAAACATGTAAACGGATTATATATTATGTATATAACTATATATACCTGGA
T
Found at i:19792740 original size:16 final size:18
Alignment explanation
Indices: 19792719--19792755 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
19792709 TTAATCAAAT
19792719 AAGTTTAG-AAAAAA-AA
1 AAGTTTAGCAAAAAAGAA
*
19792735 AAGTTTGGCAAAAAAGAA
1 AAGTTTAGCAAAAAAGAA
19792753 AAG
1 AAG
19792756 ATATACGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.62, C:0.03, G:0.19, T:0.16
Consensus pattern (18 bp):
AAGTTTAGCAAAAAAGAA
Found at i:19797855 original size:29 final size:30
Alignment explanation
Indices: 19797792--19797856 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
19797782 TTTTATTATC
* *
19797792 TTAGTATCTAAACTTTTGTTTTTGTCACAA
1 TTAGTACCTAAACTTTTGTTTTTCTCACAA
* *
19797822 ATAGTACCTAAACTATTT-TTTTTCTCA-AG
1 TTAGTACCTAAACT-TTTGTTTTTCTCACAA
19797851 TTAGTA
1 TTAGTA
19797857 TATCCGTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
29 6 0.21
30 20 0.69
31 3 0.10
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (30 bp):
TTAGTACCTAAACTTTTGTTTTTCTCACAA
Found at i:19799473 original size:20 final size:20
Alignment explanation
Indices: 19799448--19799486 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19799438 TGCTGGAACT
* *
19799448 TGCATTTTGGCTTTTTTTAG
1 TGCATTTTAGCTTGTTTTAG
19799468 TGCATTTTAGCTTGTTTTA
1 TGCATTTTAGCTTGTTTTA
19799487 TTTGTTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.18, T:0.59
Consensus pattern (20 bp):
TGCATTTTAGCTTGTTTTAG
Found at i:19801517 original size:20 final size:18
Alignment explanation
Indices: 19801489--19801544 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
19801479 TATATATTTT
19801489 TTATAAAATTAATAAAAC
1 TTATAAAATTAATAAAAC
*
19801507 TTATTTAAAATTTTATAAAAAC
1 TTA--TAAAA-TTAAT-AAAAC
*
19801529 TTATAAAATTCATAAA
1 TTATAAAATTAATAAA
19801545 TAGTATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 6 0.19
19 4 0.12
20 10 0.31
21 4 0.12
22 8 0.25
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
TTATAAAATTAATAAAAC
Found at i:19802199 original size:12 final size:12
Alignment explanation
Indices: 19802182--19802210 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
19802172 AACTACATAG
19802182 ATTCTAATGATT
1 ATTCTAATGATT
19802194 ATTCTAATGATT
1 ATTCTAATGATT
19802206 ATTCT
1 ATTCT
19802211 CATTATCCAA
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:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (12 bp):
ATTCTAATGATT
Found at i:19802342 original size:10 final size:9
Alignment explanation
Indices: 19802291--19802611 Score: 133
Period size: 10 Copynumber: 34.7 Consensus size: 9
19802281 CCAACAAATG
19802291 AATTTTTAT
1 AATTTTTAT
19802300 ATATTTTT-T
1 A-ATTTTTAT
*
19802309 TATATTTTATT
1 AAT-TTTTA-T
**
19802320 AAAATTTAT
1 AATTTTTAT
19802329 -ATTTTTAAT
1 AATTTTT-AT
*
19802338 AATTTATTAG
1 AATTT-TTAT
*
19802348 AACTTATTAT
1 AA-TTTTTAT
*
19802358 GATTTTTTAT
1 -AATTTTTAT
*
19802368 AAGTTTTAT
1 AATTTTTAT
*
19802377 AATTATTGAT
1 AATT-TTTAT
19802387 AA-TTTTAT
1 AATTTTTAT
19802395 AA-TTTTAT
1 AATTTTTAT
19802403 AA--TTTAT
1 AATTTTTAT
*
19802410 -ATTTTATTT
1 AATTTT-TAT
19802419 GAATTTTTAT
1 -AATTTTTAT
19802429 -ATTTTTAT
1 AATTTTTAT
* *
19802437 GATATTTAT
1 AATTTTTAT
*
19802446 TATTTTTAT
1 AATTTTTAT
* *
19802455 AATATTTAC
1 AATTTTTAT
*
19802464 AAATTTTAT
1 AATTTTTAT
** *
19802473 AAGTTCATAGA
1 AA-TTTTTA-T
* *
19802484 AAGTTTTAA
1 AATTTTTAT
19802493 ATATTTTTA-
1 A-ATTTTTAT
19802502 ACATGTTTTAT
1 A-AT-TTTTAT
*
19802513 -TTTTTTAT
1 AATTTTTAT
* *
19802521 AATTAATTAG
1 AATT-TTTAT
19802531 AATTTTTAT
1 AATTTTTAT
*
19802540 AATATTTAT
1 AATTTTTAT
19802549 AAGTTTTTAT
1 AA-TTTTTAT
19802559 GAATTTTTAT
1 -AATTTTTAT
* *
19802569 TAGTTTTAT
1 AATTTTTAT
19802578 AATTTTTTAT
1 AA-TTTTTAT
*
19802588 AA-TATTAT
1 AATTTTTAT
*
19802596 AAGTTTATAT
1 AA-TTTTTAT
19802606 AATTTT
1 AATTTT
19802612 GTAATATTTT
Statistics
Matches: 232, Mismatches: 52, Indels: 56
0.68 0.15 0.16
Matches are distributed among these distances:
6 1 0.00
7 5 0.02
8 43 0.19
9 82 0.35
10 85 0.37
11 16 0.07
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:19802342 original size:27 final size:25
Alignment explanation
Indices: 19802299--19802414 Score: 67
Period size: 27 Copynumber: 4.3 Consensus size: 25
19802289 TGAATTTTTA
*
19802299 TATATTTTTTTATATTTTATTAAAATT
1 TATATTTTTATA-ATTTTA-TAAAATT
*
19802326 TATATTTTTAATAA-TTTATTAGAACTTAT
1 TATATTTTT-ATAATTTTA-TA-AA-AT-T
*
19802355 TATGATTTTTTATAAGTTTTATAATTATT
1 TAT-A-TTTTTATAA-TTTTATAA-AATT
* *
19802384 GATAATTTTATAATTTTAT--AATT
1 TATATTTTTATAATTTTATAAAATT
19802407 TATATTTT
1 TATATTTT
19802415 ATTTGAATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
23 9 0.13
26 13 0.18
27 20 0.28
28 4 0.06
29 7 0.10
30 7 0.10
31 7 0.10
32 4 0.06
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (25 bp):
TATATTTTTATAATTTTATAAAATT
Found at i:19802354 original size:26 final size:27
Alignment explanation
Indices: 19802299--19802354 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
19802289 TGAATTTTTA
* * *
19802299 TATATTTTTTTATATTTTATTAAAATT
1 TATATTTTTTAATAATTTATTAAAACT
*
19802326 TATA-TTTTTAATAATTTATTAGAACT
1 TATATTTTTTAATAATTTATTAAAACT
19802352 TAT
1 TAT
19802355 TATGATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
TATATTTTTTAATAATTTATTAAAACT
Found at i:19802410 original size:7 final size:8
Alignment explanation
Indices: 19802362--19802474 Score: 77
Period size: 9 Copynumber: 13.0 Consensus size: 8
19802352 TATTATGATT
19802362 TTTTATAA
1 TTTTATAA
19802370 GTTTTATAA
1 -TTTTATAA
19802379 TTATTGATAA
1 TT-TT-ATAA
19802389 TTTTATAA
1 TTTTATAA
19802397 TTTTATAA
1 TTTTATAA
19802405 -TTTAT-A
1 TTTTATAA
19802411 TTTTATTTGAA
1 TTTTA--T-AA
*
19802422 TTTTTATAT
1 -TTTTATAA
*
19802431 TTTTATGA
1 TTTTATAA
*
19802439 TATTTATTAT
1 T-TTTA-TAA
19802449 TTTTATAA
1 TTTTATAA
*
19802457 TATTTACAAA
1 T-TTTA-TAA
19802467 TTTTATAA
1 TTTTATAA
19802475 GTTCATAGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
6 1 0.01
7 9 0.11
8 26 0.31
9 30 0.36
10 12 0.14
11 1 0.01
12 5 0.06
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (8 bp):
TTTTATAA
Found at i:19802427 original size:19 final size:20
Alignment explanation
Indices: 19802405--19802455 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
19802395 AATTTTATAA
*
19802405 TTTATATTTTATTTGA-ATT
1 TTTATATTTTATATGATATT
19802424 TTTATATTTT-TATGATATT
1 TTTATATTTTATATGATATT
19802443 TATTAT-TTTTATA
1 T-TTATATTTTATA
19802456 ATATTTACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTATATTTTATATGATATT
Found at i:19802555 original size:18 final size:18
Alignment explanation
Indices: 19802515--19802620 Score: 67
Period size: 18 Copynumber: 5.8 Consensus size: 18
19802505 TGTTTTATTT
* *
19802515 TTTTATAATTAATTAGAA
1 TTTTATAATTATTTATAA
19802533 TTTTTATAA-TATTTATAA
1 -TTTTATAATTATTTATAA
*
19802551 GTTTTTATGAATT-TTTATTAG
1 --TTTTAT-AATTATTTA-TAA
*
19802572 TTTTATAATTTTTTATAA
1 TTTTATAATTATTTATAA
* *
19802590 TATTATAAGTT-TATATAA
1 TTTTATAA-TTATTTATAA
*
19802608 TTTTGTAA-TATTT
1 TTTTATAATTATTT
19802621 TATTTTTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
16 1 0.01
17 2 0.03
18 32 0.45
19 27 0.38
20 6 0.08
21 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTTATAATTATTTATAA
Found at i:19802555 original size:19 final size:19
Alignment explanation
Indices: 19802514--19802580 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
19802504 ATGTTTTATT
* *
19802514 TTTTTATAATTAATTAGAA-
1 TTTTTATAA-TATTTATAAG
19802533 TTTTTATAATATTTATAAG
1 TTTTTATAATATTTATAAG
* *
19802552 TTTTTATGAATTTTTATTAG
1 TTTTTAT-AATATTTATAAG
19802572 -TTTTATAAT
1 TTTTTATAAT
19802581 TTTTTATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.24
19 22 0.52
20 10 0.24
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTATAATATTTATAAG
Found at i:19802576 original size:29 final size:28
Alignment explanation
Indices: 19802507--19802611 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 28
19802497 TTTTAACATG
* *
19802507 TTTTATT-TTTTTATAATTAATTA-GAAT
1 TTTTATTAGTTTTATAATT-TTTATGAAT
*
19802534 TTTTA-TAATATTTATAAGTTTTTATGAAT
1 TTTTATTAGT-TTTATAA-TTTTTATGAAT
19802563 TTTTATTAGTTTTATAATTTTTTAT-AA-
1 TTTTATTAGTTTTATAA-TTTTTATGAAT
* *
19802590 TATTATAAGTTTATATAATTTT
1 TTTTATTAGTTT-TATAATTTT
19802612 GTAATATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.02
27 20 0.30
28 17 0.26
29 25 0.38
30 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTATTAGTTTTATAATTTTTATGAAT
Found at i:19802584 original size:19 final size:19
Alignment explanation
Indices: 19802361--19802589 Score: 80
Period size: 18 Copynumber: 12.5 Consensus size: 19
19802351 TTATTATGAT
19802361 TTTTTATAAG-TTTTATAA
1 TTTTTATAAGTTTTTATAA
*
19802379 TTATTGATAA--TTTTATAA
1 TT-TTTATAAGTTTTTATAA
19802397 -TTTTATAA---TTTAT-A
1 TTTTTATAAGTTTTTATAA
*
19802411 TTTTATTTGAA-TTTTTAT-A
1 TTTT-TAT-AAGTTTTTATAA
* * *
19802430 TTTTTATGA-TATTTATTA
1 TTTTTATAAGTTTTTATAA
* *
19802448 TTTTTATAA-TATTTACAA
1 TTTTTATAAGTTTTTATAA
* ** *
19802466 ATTTTATAAGTTCATAGAAA
1 TTTTTATAAGTTTTTA-TAA
* *
19802486 GTTTTA-AATATTTTTA-ACA
1 TTTTTATAA-GTTTTTATA-A
*
19802505 TGTTTTAT--TTTTTTATAA
1 T-TTTTATAAGTTTTTATAA
* *
19802523 TTAATTAGAA-TTTTTATAA
1 TT-TTTATAAGTTTTTATAA
*
19802542 TATTTATAAGTTTTTATGAA
1 TTTTTATAAGTTTTTAT-AA
*
19802562 TTTTTATTAG-TTTTATAA
1 TTTTTATAAGTTTTTATAA
19802580 TTTTTTATAA
1 -TTTTTATAA
19802590 TATTATAAGT
Statistics
Matches: 163, Mismatches: 28, Indels: 39
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.01
15 8 0.05
16 8 0.05
17 11 0.07
18 55 0.34
19 54 0.33
20 26 0.16
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATAAGTTTTTATAA
Found at i:19803088 original size:15 final size:15
Alignment explanation
Indices: 19803068--19803097 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19803058 ACCAATTCAG
19803068 TTAATTTAGTTAATT
1 TTAATTTAGTTAATT
*
19803083 TTAATTTGGTTAATT
1 TTAATTTAGTTAATT
19803098 CAGTTAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTAATTTAGTTAATT
Found at i:19803692 original size:47 final size:47
Alignment explanation
Indices: 19803637--19803732 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
19803627 ATTTCTTATC
19803637 ACACAAATAAATTTATAGATAAAATTTTAACTTTTTTACATAAATTA
1 ACACAAATAAATTTATAGATAAAATTTTAACTTTTTTACATAAATTA
19803684 ACACAAATAAATTTATAGATAAAATTTTAACTTTTTTACATAAATTA
1 ACACAAATAAATTTATAGATAAAATTTTAACTTTTTTACATAAATTA
19803731 AC
1 AC
19803733 TCACTTCAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (47 bp):
ACACAAATAAATTTATAGATAAAATTTTAACTTTTTTACATAAATTA
Found at i:19807314 original size:2 final size:2
Alignment explanation
Indices: 19807307--19807333 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19807297 TTCTCTGCAA
19807307 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
19807334 TTTGAAGCGT
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:19812444 original size:2 final size:2
Alignment explanation
Indices: 19812437--19812477 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
19812427 TAATGCTAAT
19812437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19812478 ATCTACCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19820497 original size:4 final size:4
Alignment explanation
Indices: 19820490--19820516 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19820480 ATTTCTCTCT
19820490 CTCG CTCG CTCG CTCG CTCG CTCG CTC
1 CTCG CTCG CTCG CTCG CTCG CTCG CTC
19820517 CAAAGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.22, T:0.26
Consensus pattern (4 bp):
CTCG
Found at i:19820859 original size:2 final size:2
Alignment explanation
Indices: 19820854--19820890 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
19820844 TCTACATTGA
*
19820854 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CA CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
19820891 GTTTTTGATG
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:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:19850171 original size:35 final size:35
Alignment explanation
Indices: 19850127--19850293 Score: 183
Period size: 35 Copynumber: 4.6 Consensus size: 35
19850117 TCCTCATTGA
** *
19850127 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* * ***
19850162 AATGCCATACGTACATTTTTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
19850202 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
19850237 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
19850272 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
19850294 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 87 0.76
39 3 0.03
40 25 0.22
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:19850210 original size:75 final size:73
Alignment explanation
Indices: 19850122--19850293 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 73
19850112 GGTTTTCCTC
** * * * ***
19850122 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACGTACATTTTTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
19850186 TCAGTATGG
65 TCAGTATGG
*
19850195 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
19850260 CTCAGTATGG
64 CTCAGTATGG
19850270 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
19850294 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 56 0.64
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:19854220 original size:2 final size:2
Alignment explanation
Indices: 19854213--19854262 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
19854203 CTTTCCTTAC
19854213 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19854255 AT AT AT AT
1 AT AT AT AT
19854263 TAAATAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19855456 original size:44 final size:44
Alignment explanation
Indices: 19855407--19855497 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
19855397 ATAGATCAAA
* *
19855407 TAATATTAAAATAACCTACACTAATTAAAATTTAAGTAAAAATT
1 TAATATTAAAATAACCTACACTAATTAAAATTTAAATAAAAAAT
**
19855451 TAATATTAAAATAATTTACACTAATTAAAATTTAAATAAAAAAT
1 TAATATTAAAATAACCTACACTAATTAAAATTTAAATAAAAAAT
19855495 TAA
1 TAA
19855498 AAATATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATTAAAATTTAAATAAAAAAT
Found at i:19877265 original size:7 final size:7
Alignment explanation
Indices: 19877212--19877300 Score: 64
Period size: 7 Copynumber: 13.3 Consensus size: 7
19877202 TTAATATAAA
19877212 AATATAT
1 AATATAT
*
19877219 ACTATAT
1 AATATAT
*
19877226 ATTATATT
1 AATATA-T
19877234 AAT-T-T
1 AATATAT
*
19877239 AATATTT
1 AATATAT
19877246 AAGTAT-T
1 AA-TATAT
19877253 AATATAT
1 AATATAT
19877260 AATATAT
1 AATATAT
*
19877267 CATAT-T
1 AATATAT
19877273 -AT-TAT
1 AATATAT
*
19877278 ATTATAT
1 AATATAT
*
19877285 TATATAT
1 AATATAT
19877292 AATATAT
1 AATATAT
19877299 AA
1 AA
19877301 AACATAAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
4 1 0.02
5 7 0.11
6 6 0.09
7 46 0.70
8 6 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (7 bp):
AATATAT
Found at i:19877291 original size:20 final size:20
Alignment explanation
Indices: 19877212--19877300 Score: 69
Period size: 18 Copynumber: 4.5 Consensus size: 20
19877202 TTAATATAAA
*
19877212 AATATATACTATATATTATATT
1 AATATATA--ATATATCATATT
* *
19877234 AAT-T-TAATATTTAAGTATT
1 AATATATAATATATCA-TATT
19877253 AATATATAATATATCATATT
1 AATATATAATATATCATATT
* *
19877273 -AT-TATATTATATTATATAT
1 AATATATAATATATCATAT-T
19877292 AATATATAA
1 AATATATAA
19877301 AACATAAGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
18 19 0.35
19 10 0.19
20 9 0.17
21 13 0.24
22 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (20 bp):
AATATATAATATATCATATT
Found at i:19878517 original size:22 final size:22
Alignment explanation
Indices: 19878488--19878544 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
19878478 TAGCACGTTA
19878488 AGTGCTCTCTGTTTAGCAC-AT
1 AGTGCTCTCTGTTTAGCACTAT
* *
19878509 ATGTGCTCTCTGTATAGCACTTT
1 A-GTGCTCTCTGTTTAGCACTAT
19878532 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
19878545 CATTTGTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 28 0.90
23 2 0.06
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTAT
Found at i:19879176 original size:12 final size:11
Alignment explanation
Indices: 19879148--19879173 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19879138 AAATGCTGCC
19879148 AAAATTAAAAA
1 AAAATTAAAAA
19879159 AAAATTAAAAA
1 AAAATTAAAAA
19879170 AAAA
1 AAAA
19879174 ATTCGTTCCA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATTAAAAA
Found at i:19881347 original size:12 final size:11
Alignment explanation
Indices: 19881325--19881358 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
19881315 CCAATTTGTG
19881325 AAAAAATAAAAT
1 AAAAAA-AAAAT
19881337 AAAATAAAAAAT
1 AAAA-AAAAAAT
19881349 AAAAAAAAAA
1 AAAAAAAAAA
19881359 CAGATTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 13 0.62
13 2 0.10
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:19881357 original size:17 final size:17
Alignment explanation
Indices: 19881325--19881357 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19881315 CCAATTTGTG
*
19881325 AAAAAATAAAATAAAAT
1 AAAAAATAAAAAAAAAT
19881342 AAAAAATAAAAAAAAA
1 AAAAAATAAAAAAAAA
19881358 ACAGATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAT
Found at i:19887108 original size:10 final size:9
Alignment explanation
Indices: 19887082--19887112 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
19887072 TTATGTGTTC
19887082 TTTATTTTA
1 TTTATTTTA
19887091 TTTATTTTA
1 TTTATTTTA
19887100 TTCTATTTTA
1 TT-TATTTTA
19887110 TTT
1 TTT
19887113 TTTATCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:19888936 original size:17 final size:16
Alignment explanation
Indices: 19888907--19888955 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
19888897 GACCACGTAT
19888907 AATTTATAAAAATTAAA
1 AATTTA-AAAAATTAAA
*
19888924 ATATTTAAAAAATCAAA
1 A-ATTTAAAAAATTAAA
19888941 AACTTTCAAAAAATT
1 AA-TTT-AAAAAATT
19888956 TCATAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 14 0.52
18 12 0.44
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTTAAAAAATTAAA
Found at i:19889213 original size:22 final size:22
Alignment explanation
Indices: 19889185--19889226 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
19889175 ATAGCTAATG
19889185 GAATTTATTCTAAAATTAAAAA
1 GAATTTATTCTAAAATTAAAAA
*
19889207 GAATTTATTTTAAAATTAAA
1 GAATTTATTCTAAAATTAAA
19889227 GCATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (22 bp):
GAATTTATTCTAAAATTAAAAA
Found at i:19890807 original size:2 final size:2
Alignment explanation
Indices: 19890800--19890833 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19890790 AAGTAAGTGT
19890800 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19890834 ACTTAGTTTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19891418 original size:3 final size:3
Alignment explanation
Indices: 19891412--19891437 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19891402 TACCAAATAA
19891412 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
19891438 AACCTAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:19893332 original size:56 final size:56
Alignment explanation
Indices: 19893270--19893394 Score: 187
Period size: 56 Copynumber: 2.2 Consensus size: 56
19893260 CGGCTGTGTC
* * * *
19893270 AGTCAGTATGCTCACACAGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGACCTA
1 AGTCAGTATACTCACACAGCCTAGCACACGGGCGTATGGCTTAGCCGTGTGACCCA
* *
19893326 AGTCAGTATACTCACACAGTCTAGCACACGGGCGTATGGTTTAGCCGTGTGACCCA
1 AGTCAGTATACTCACACAGCCTAGCACACGGGCGTATGGCTTAGCCGTGTGACCCA
*
19893382 AGTTAGTATACTC
1 AGTCAGTATACTC
19893395 GCACGGGCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.24
Consensus pattern (56 bp):
AGTCAGTATACTCACACAGCCTAGCACACGGGCGTATGGCTTAGCCGTGTGACCCA
Found at i:19894725 original size:19 final size:19
Alignment explanation
Indices: 19894698--19894758 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
19894688 CTTGTTAATG
*
19894698 GTGTTTGATTAGTGGAATT
1 GTGTCTGATTAGTGGAATT
* *
19894717 GTGTCTGATTAATGGAACT
1 GTGTCTGATTAGTGGAATT
* *
19894736 GCGTGTGATTAGTGGAATT
1 GTGTCTGATTAGTGGAATT
19894755 GTGT
1 GTGT
19894759 ATGCATGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.41
Consensus pattern (19 bp):
GTGTCTGATTAGTGGAATT
Found at i:19898607 original size:2 final size:2
Alignment explanation
Indices: 19898600--19898625 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19898590 AAAATTTTAG
19898600 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19898626 GTGTGTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19898949 original size:2 final size:2
Alignment explanation
Indices: 19898942--19898969 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19898932 ACGAAATTAC
19898942 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19898970 AATGCAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19902507 original size:3 final size:3
Alignment explanation
Indices: 19902499--19902570 Score: 92
Period size: 3 Copynumber: 23.3 Consensus size: 3
19902489 TATATATATA
**
19902499 ATT ATT ATT ATT ATT AACC ATT ATT ATGGT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT
19902546 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
19902571 AATAAAGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.02
3 57 0.93
4 2 0.03
5 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:19903909 original size:40 final size:40
Alignment explanation
Indices: 19903829--19903909 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
19903819 AATTATGAGA
** * *
19903829 TACTAAATATTGTTTTGAATACCGAATTGAACTGTGAAAT
1 TACTAAATATTGTTAAGAATACCGAATTGAACTATAAAAT
* * *
19903869 TACTAAATATTGTTAAGTATACTGCATTGAACTATAAAAT
1 TACTAAATATTGTTAAGAATACCGAATTGAACTATAAAAT
19903909 T
1 T
19903910 TCTGATGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (40 bp):
TACTAAATATTGTTAAGAATACCGAATTGAACTATAAAAT
Found at i:19904164 original size:44 final size:45
Alignment explanation
Indices: 19904116--19904227 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
19904106 CGACTATTGT
*
19904116 TACTGTTACCGTTACTGTTACTGATTCGACAC-TTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACTGATTCAACACTTTGTGTGTTGAA
* *
19904160 TACTGTTACCGTTACTATTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACTGATTCAACACTTTGTGTGTTGAA
**
19904205 TACTGTTATTGTTACTGTTACTG
1 TACTGTTACCGTTACTGTTACTG
19904228 CTACCGTTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
44 29 0.48
45 31 0.52
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACTGATTCAACACTTTGTGTGTTGAA
Found at i:19904167 original size:50 final size:49
Alignment explanation
Indices: 19904083--19904227 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 49
19904073 TTTTGACGGC
* * * * *
19904083 TTACTGATTAGGCACTTATGTGTCGACTATTGTTACTGTTACCGTTACTG
1 TTACTGATTCGACACTTGTGTGTTGAATA-TGTTACTGTTACCGTTACTG
*
19904133 TTACTGATTCGACACTTGTGTGTTG-A-A---TACTGTTACCGTTACTA
1 TTACTGATTCGACACTTGTGTGTTGAATATGTTACTGTTACCGTTACTG
* * * *
19904177 TTACAGATTCAACACTTTGTGTGTTGAATACTGTTATTGTTACTGTTACTG
1 TTACTGATTCGACAC-TTGTGTGTTGAATA-TGTTACTGTTACCGTTACTG
19904228 CTACCGTTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
44 29 0.38
45 10 0.13
46 1 0.01
47 1 0.01
48 1 0.01
50 21 0.27
51 14 0.18
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (49 bp):
TTACTGATTCGACACTTGTGTGTTGAATATGTTACTGTTACCGTTACTG
Found at i:19904212 original size:45 final size:44
Alignment explanation
Indices: 19904116--19904212 Score: 158
Period size: 44 Copynumber: 2.2 Consensus size: 44
19904106 CGACTATTGT
* * *
19904116 TACTGTTACCGTTACTGTTACTGATTCGACACTTGTGTGTTGAA
1 TACTGTTACCGTTACTATTACAGATTCAACACTTGTGTGTTGAA
19904160 TACTGTTACCGTTACTATTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTATTACAGATTCAACAC-TTGTGTGTTGAA
19904205 TACTGTTA
1 TACTGTTA
19904213 TTGTTACTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 29 0.59
45 20 0.41
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (44 bp):
TACTGTTACCGTTACTATTACAGATTCAACACTTGTGTGTTGAA
Found at i:19904223 original size:6 final size:6
Alignment explanation
Indices: 19904205--19904248 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
19904195 GTGTGTTGAA
* * *
19904205 TACTGT TATTGT TACTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
19904249 TAGGTACTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:19907281 original size:6 final size:6
Alignment explanation
Indices: 19907270--19907297 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19907260 CCGAAAATCG
19907270 CCCTCT CCCTCT CCCTCT CCCTCT CCCT
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCT
19907298 TTCTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTCT
Found at i:19907778 original size:17 final size:16
Alignment explanation
Indices: 19907752--19907784 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
19907742 ACTCTTATTA
19907752 TTTTTATATTATTAAT
1 TTTTTATATTATTAAT
19907768 TTTTTACTATTATTAAT
1 TTTTTA-TATTATTAAT
19907785 ATTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTATATTATTAAT
Found at i:19908206 original size:23 final size:23
Alignment explanation
Indices: 19908176--19908225 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
19908166 ATTAGTTATG
*
19908176 TATATATTCTTT-ACATTATCTTA
1 TATATATT-TTTCACATTATATTA
*
19908199 TATATATTTTTCATATTATATTA
1 TATATATTTTTCACATTATATTA
19908222 TATA
1 TATA
19908226 CCTATCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (23 bp):
TATATATTTTTCACATTATATTA
Found at i:19908225 original size:25 final size:26
Alignment explanation
Indices: 19908159--19908225 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 26
19908149 TACGTACTTC
*
19908159 TCATATTATTAGTTATGTATATATTCTT
1 TCATATTA-TA-TTATATATATATTCTT
* *
19908187 T-ACATTAT-CT-TATATATATT-TT
1 TCATATTATATTATATATATATTCTT
19908209 TCATATTATATTATATA
1 TCATATTATATTATATA
19908226 CCTATCCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
22 3 0.10
23 15 0.48
24 2 0.06
25 4 0.13
26 1 0.03
27 5 0.16
28 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (26 bp):
TCATATTATATTATATATATATTCTT
Found at i:19911715 original size:55 final size:55
Alignment explanation
Indices: 19911629--19911738 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
19911619 TTCTTTTCTT
*
19911629 TTCTCAGTAATGAAGTTTTCGTACGTCGTAGTAGAACTGAACGAGGATGTGGAGG
1 TTCTCAGTAATGAAGTTTTCGTACGTAGTAGTAGAACTGAACGAGGATGTGGAGG
19911684 TTCTCAGTAATGAAGTTTTCGTACGTAGTAGTAGAACTGAACGAGGATGTGGAGG
1 TTCTCAGTAATGAAGTTTTCGTACGTAGTAGTAGAACTGAACGAGGATGTGGAGG
19911739 ATCGGATATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (55 bp):
TTCTCAGTAATGAAGTTTTCGTACGTAGTAGTAGAACTGAACGAGGATGTGGAGG
Found at i:19915494 original size:15 final size:15
Alignment explanation
Indices: 19915476--19915505 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19915466 TTCTTTAGTA
19915476 TTTTT-TTTTTTATT
1 TTTTTATTTTTTATT
19915490 TTTTTATTTTTTATT
1 TTTTTATTTTTTATT
19915505 T
1 T
19915506 ATAACATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTATTTTTTATT
Found at i:19916890 original size:29 final size:30
Alignment explanation
Indices: 19916828--19916890 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
19916818 AATTATATTT
* * *
19916828 TTATAATTTTTAAATGATTAAATCAAAATC
1 TTATAATTTTTAAAGGATAAAATCAAAATA
* *
19916858 TTATCATTTTTAAAGGATAAAAT-ATAATA
1 TTATAATTTTTAAAGGATAAAATCAAAATA
19916887 TTAT
1 TTAT
19916891 TATTAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (30 bp):
TTATAATTTTTAAAGGATAAAATCAAAATA
Found at i:19920292 original size:3 final size:3
Alignment explanation
Indices: 19920284--19920317 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
19920274 GAGATCATCT
19920284 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19920318 TTAAAAGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19954693 original size:23 final size:21
Alignment explanation
Indices: 19954645--19954711 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
19954635 TTAGTATTTA
* *
19954645 TTAATTTTTTTATTTTAAAAT
1 TTAAATTTTTTAGTTTAAAAT
19954666 TTAAATTTTTTAGTTTAAAAT
1 TTAAATTTTTTAGTTTAAAAT
** *
19954687 TACTAAATTTTAAAGGTTAAAAT
1 T--TAAATTTTTTAGTTTAAAAT
19954710 TT
1 TT
19954712 TTATTATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 21 0.54
23 18 0.46
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (21 bp):
TTAAATTTTTTAGTTTAAAAT
Found at i:19971919 original size:44 final size:45
Alignment explanation
Indices: 19971829--19971957 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
19971819 GACAGAACGA
*
19971829 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
19971875 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
19971919 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
19971958 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:19979111 original size:44 final size:45
Alignment explanation
Indices: 19979021--19979149 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
19979011 GACAGAACGA
*
19979021 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
19979067 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
19979111 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
19979150 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:19983949 original size:19 final size:19
Alignment explanation
Indices: 19983921--19983957 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19983911 CTTTGAGTAG
*
19983921 AAACCAAAAACTTTAACAC
1 AAACCAAAAACTTCAACAC
*
19983940 AAACCTAAAACTTCAACA
1 AAACCAAAAACTTCAACA
19983958 ATAACAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (19 bp):
AAACCAAAAACTTCAACAC
Found at i:19987039 original size:15 final size:15
Alignment explanation
Indices: 19987001--19987056 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
19986991 ACAAAACAAT
* *
19987001 AATATAAATGACTAA
1 AATATAAATAATTAA
* *
19987016 AATAT-AATATTTCA
1 AATATAAATAATTAA
19987030 AATATAAATAATTAA
1 AATATAAATAATTAA
19987045 AATATAATATAA
1 AATATAA-ATAA
19987057 AACAAATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.30
15 19 0.58
16 4 0.12
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (15 bp):
AATATAAATAATTAA
Found at i:19989386 original size:17 final size:17
Alignment explanation
Indices: 19989364--19989398 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19989354 TATTTAAATT
*
19989364 AAAATTTCAAAATTCAA
1 AAAATTTCAAAAATCAA
*
19989381 AAAATTTTAAAAATCAA
1 AAAATTTCAAAAATCAA
19989398 A
1 A
19989399 TTAAAATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTTCAAAAATCAA
Found at i:19998581 original size:89 final size:89
Alignment explanation
Indices: 19998429--19998597 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
19998419 CATGGCCATC
*
19998429 GTGCTTACTACCAAGGCTTGAAAATCTCCTCTAGACTTAATGAACTCGTACTTCAAAGCTCAATC
1 GTGCTTACTACCAAGGCTTGAAAATCTCCTCTAGACTTAATGAACTCATACTTCAAAGCTCAATC
19998494 AAGTATATATTCTTGTAATTTATT
66 AAGTATATATTCTTGTAATTTATT
* * * * *
19998518 GTGCTTACTACCAAGGCTTGAAAATTTCCTCTAGA-TTCAATGGATTCATACTTTAAAGTTCAAT
1 GTGCTTACTACCAAGGCTTGAAAATCTCCTCTAGACTT-AATGAACTCATACTTCAAAGCTCAAT
* * *
19998582 CATGTTTTTATTCTTG
65 CAAGTATATATTCTTG
19998598 AATCCTTTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
88 2 0.03
89 68 0.97
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (89 bp):
GTGCTTACTACCAAGGCTTGAAAATCTCCTCTAGACTTAATGAACTCATACTTCAAAGCTCAATC
AAGTATATATTCTTGTAATTTATT
Found at i:20001550 original size:29 final size:29
Alignment explanation
Indices: 20001508--20001565 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
20001498 CTTGAGATGA
*
20001508 TGATATTTTATATATTATTTTACAATATT
1 TGATATATTATATATTATTTTACAATATT
20001537 TGATATATTATATATTATTTTACAATATT
1 TGATATATTATATATTATTTTACAATATT
20001566 GATTATGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (29 bp):
TGATATATTATATATTATTTTACAATATT
Found at i:20019700 original size:53 final size:54
Alignment explanation
Indices: 20019609--20019729 Score: 208
Period size: 53 Copynumber: 2.3 Consensus size: 54
20019599 TTAATTTAAA
**
20019609 TATCTTTCCAATTTATCATAAATTATTATTATAATTGCTACAAGTTATTTTGCC
1 TATCTTTTAAATTTATCATAAATTATTATTATAATTGCTACAAGTTATTTTGCC
20019663 TATCTTTTAAATTTATCAT-AATTATTATTATAATTGCTACAAGTTATTTTGCC
1 TATCTTTTAAATTTATCATAAATTATTATTATAATTGCTACAAGTTATTTTGCC
*
20019716 TATTTTTTAAATTT
1 TATCTTTTAAATTT
20019730 GTTTTCAAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 47 0.73
54 17 0.27
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.52
Consensus pattern (54 bp):
TATCTTTTAAATTTATCATAAATTATTATTATAATTGCTACAAGTTATTTTGCC
Found at i:20019766 original size:2 final size:2
Alignment explanation
Indices: 20019759--20019791 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
20019749 AGTTTACTTT
*
20019759 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20019792 TCCAAATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20021484 original size:21 final size:22
Alignment explanation
Indices: 20021460--20021503 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
20021450 AAATCAATAC
* *
20021460 ATAT-CATAATAAGATTTAAAT
1 ATATACATAATAAAATTAAAAT
*
20021481 ATATACATTATAAAATTAAAAT
1 ATATACATAATAAAATTAAAAT
20021503 A
1 A
20021504 ATTTTACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATACATAATAAAATTAAAAT
Found at i:20026901 original size:21 final size:21
Alignment explanation
Indices: 20026877--20026937 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
20026867 CGGAAGCTTG
20026877 TAAGAGCTGAACGAAAACCCA
1 TAAGAGCTGAACGAAAACCCA
* * * * *
20026898 TAAGGGTTAAAC-AGAAGCTCA
1 TAAGAGCTGAACGA-AAACCCA
*
20026919 AAAGAGCTGAACGAAAACC
1 TAAGAGCTGAACGAAAACC
20026938 TATTAGGGTT
Statistics
Matches: 27, Mismatches: 11, Indels: 4
0.64 0.26 0.10
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.48, C:0.20, G:0.21, T:0.11
Consensus pattern (21 bp):
TAAGAGCTGAACGAAAACCCA
Found at i:20032224 original size:2 final size:2
Alignment explanation
Indices: 20032217--20032243 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20032207 ACAAAGGACA
20032217 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 A
20032244 GATTATGCAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20033889 original size:34 final size:34
Alignment explanation
Indices: 20033851--20033915 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
20033841 TTCAGTCAAT
* *
20033851 TTTAGTCTATGTATTTTTTAAATTTTAAAATACA
1 TTTAGTCTATGTAATATTTAAATTTTAAAATACA
* **
20033885 TTTAGTCTTTGTAATATTTGTATTTTAAAAT
1 TTTAGTCTATGTAATATTTAAATTTTAAAAT
20033916 TTCATTCCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (34 bp):
TTTAGTCTATGTAATATTTAAATTTTAAAATACA
Found at i:20040989 original size:21 final size:22
Alignment explanation
Indices: 20040965--20041005 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20040955 CCTAAATTTT
20040965 TAAA-TTTAAAAAATAAATAAC
1 TAAATTTTAAAAAATAAATAAC
*
20040986 TAAATTTTTAAAAATAAATA
1 TAAATTTTAAAAAATAAATA
20041006 TATAGAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAATTTTAAAAAATAAATAAC
Found at i:20042583 original size:2 final size:2
Alignment explanation
Indices: 20042576--20042602 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20042566 AAATTTAGGG
20042576 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 A
20042603 AAGATTCAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20044757 original size:3 final size:3
Alignment explanation
Indices: 20044749--20044779 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
20044739 TTAATACCCT
*
20044749 ATA ATA ATA ATA ATA ATA ATA AGA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20044780 AAAACATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:20047395 original size:20 final size:21
Alignment explanation
Indices: 20047361--20047414 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
20047351 TGATGATATT
*
20047361 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
20047382 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
20047402 TTTTATTATTTTA
1 TTATATTATTTTA
20047415 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:20047420 original size:11 final size:11
Alignment explanation
Indices: 20047404--20047431 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
20047394 ATGAGATATT
20047404 TTATTATTTTA
1 TTATTATTTTA
20047415 TTATTATTTTA
1 TTATTATTTTA
20047426 TTATTA
1 TTATTA
20047432 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:20049631 original size:46 final size:46
Alignment explanation
Indices: 20049579--20049760 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
20049569 AGTGTGCTCT
*
20049579 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
20049625 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
20049671 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
20049717 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
20049761 TCATGTCAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:20051297 original size:46 final size:46
Alignment explanation
Indices: 20051103--20051283 Score: 242
Period size: 46 Copynumber: 3.9 Consensus size: 46
20051093 TGTAACCCGC
* * * *
20051103 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
20051149 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
20051199 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
20051242 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
20051284 AACCATCCTA
Statistics
Matches: 118, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 73 0.62
47 33 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:20054156 original size:46 final size:45
Alignment explanation
Indices: 20054106--20054276 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 45
20054096 TGAGCATCCA
* *
20054106 AACTCGTTGAGTTAAGTCCGAGTTCACTTACGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCCG
* * *
20054152 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TCCG
* *
20054199 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCCG
* *
20054245 AGCTCGTTGAGTTGAGTCTGAGTTCACTTAGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
20054277 GGTGGGTTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 55 0.53
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTCCG
Found at i:20054258 original size:93 final size:93
Alignment explanation
Indices: 20054099--20054269 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
20054089 GGATGGTTGA
* **
20054099 GCATCCAAACTCGTTGAGTTAAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTAAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
20054164 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
20054192 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTAAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
20054257 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
20054270 ACTTAGGGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTAAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20062844 original size:17 final size:17
Alignment explanation
Indices: 20062822--20062854 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20062812 TAATTAATTA
*
20062822 ATTATATTTTATTTATT
1 ATTATATTATATTTATT
20062839 ATTATATTATATTTAT
1 ATTATATTATATTTAT
20062855 CTTATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATATTATATTTATT
Found at i:20065764 original size:18 final size:19
Alignment explanation
Indices: 20065730--20065765 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20065720 TTAGTCTCTC
*
20065730 TCAAAATAATTTTTAAAAT
1 TCAAAATAATTTATAAAAT
20065749 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTATAAAA
20065766 ATTATAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TCAAAATAATTTATAAAAT
Found at i:20065766 original size:19 final size:19
Alignment explanation
Indices: 20065730--20065768 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20065720 TTAGTCTCTC
*
20065730 TCAAAATAATTTTTAAAAT
1 TCAAAATAATTTTAAAAAT
20065749 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
20065768 T
1 T
20065769 ATAACATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:20066964 original size:18 final size:16
Alignment explanation
Indices: 20066936--20066970 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
20066926 CTAACGGCGG
20066936 AAATAATATTTATATTA
1 AAATAATATTTAT-TTA
20066953 AAATATATATTTATTTA
1 AAATA-ATATTTATTTA
20066970 A
1 A
20066971 TAATTATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATAATATTTATTTA
Found at i:20067132 original size:20 final size:19
Alignment explanation
Indices: 20067087--20067141 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
20067077 TTTAATGGAG
*
20067087 AATATTTTTAATTAATTATAT
1 AATA-TTTT-ATTTATTATAT
*
20067108 TATATTTTATTTATTATTAT
1 AATATTTTATTTATTA-TAT
*
20067128 AATATTATATTTAT
1 AATATTTTATTTAT
20067142 CCTATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 7 0.24
20 19 0.66
21 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATATTTTATTTATTATAT
Found at i:20067206 original size:15 final size:16
Alignment explanation
Indices: 20067176--20067208 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
20067166 TAAAATAAAA
*
20067176 TAAAATATTTAAATTT
1 TAAAATATTAAAATTT
20067192 TAAAAT-TTAAAATTT
1 TAAAATATTAAAATTT
20067207 TA
1 TA
20067209 TGATTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTAAAATTT
Found at i:20067307 original size:15 final size:15
Alignment explanation
Indices: 20067284--20067325 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
20067274 ATAATTTAAA
*
20067284 TTCAGTACTTAAAAT
1 TTCAATACTTAAAAT
*
20067299 TTCAATACTTAATAT
1 TTCAATACTTAAAAT
*
20067314 TTCAACACTTAA
1 TTCAATACTTAA
20067326 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (15 bp):
TTCAATACTTAAAAT
Found at i:20095746 original size:14 final size:16
Alignment explanation
Indices: 20095715--20095744 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20095705 AATTCATAAA
20095715 AATTCAAAAAAAGTTT
1 AATTCAAAAAAAGTTT
20095731 AATT-AAAAAAAGTT
1 AATTCAAAAAAAGTT
20095745 AAAAATTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (16 bp):
AATTCAAAAAAAGTTT
Found at i:20097543 original size:56 final size:56
Alignment explanation
Indices: 20097457--20097584 Score: 256
Period size: 56 Copynumber: 2.3 Consensus size: 56
20097447 ATTCTAAAAA
20097457 TATCATAACAATTTTCCTCACTCTTTTTTCACATTAATTTTTTATAAATATTATTT
1 TATCATAACAATTTTCCTCACTCTTTTTTCACATTAATTTTTTATAAATATTATTT
20097513 TATCATAACAATTTTCCTCACTCTTTTTTCACATTAATTTTTTATAAATATTATTT
1 TATCATAACAATTTTCCTCACTCTTTTTTCACATTAATTTTTTATAAATATTATTT
20097569 TATCATAACAATTTTC
1 TATCATAACAATTTTC
20097585 TTACATATGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.52
Consensus pattern (56 bp):
TATCATAACAATTTTCCTCACTCTTTTTTCACATTAATTTTTTATAAATATTATTT
Found at i:20116311 original size:27 final size:27
Alignment explanation
Indices: 20116262--20116335 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
20116252 GAGGGCATGT
*** *
20116262 CACAGGCGGCACTGGTGGTGGGGGTGC
1 CACAGGCGGCACCAATGGAGGGGGTGC
* * *
20116289 CAGAGGCGGCACCAATGGAGGGGTTGT
1 CACAGGCGGCACCAATGGAGGGGGTGC
20116316 CACAGGCGGCACCAATGGAG
1 CACAGGCGGCACCAATGGAG
20116336 AAGAAAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.20, C:0.23, G:0.45, T:0.12
Consensus pattern (27 bp):
CACAGGCGGCACCAATGGAGGGGGTGC
Found at i:20116368 original size:14 final size:14
Alignment explanation
Indices: 20116333--20116361 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20116323 GGCACCAATG
20116333 GAGAAGAA-AAGAA
1 GAGAAGAAGAAGAA
20116346 GAGAAGAAGAAGAA
1 GAGAAGAAGAAGAA
20116360 GA
1 GA
20116362 ACAGAAGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
GAGAAGAAGAAGAA
Found at i:20117075 original size:5 final size:6
Alignment explanation
Indices: 20117060--20117084 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20117050 TATTTTCGTT
20117060 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
20117085 AATATTATGG
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):
TTTTTA
Found at i:20117705 original size:24 final size:24
Alignment explanation
Indices: 20117669--20117714 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20117659 GAGAGAATTT
*
20117669 TTATTTTATTTAATATCAATATAA
1 TTATTTTATTTAAGATCAATATAA
*
20117693 TTATATTTA-TTAAGATTAATAT
1 TTAT-TTTATTTAAGATCAATAT
20117715 TAATATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
TTATTTTATTTAAGATCAATATAA
Found at i:20125453 original size:40 final size:40
Alignment explanation
Indices: 20125396--20125559 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
20125386 TGAATGATAC
* * * *
20125396 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
20125436 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
20125476 CCGGGCTAAGACCCGAAGGCAATTCTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
20125516 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
20125556 CCGG
1 CCGG
20125560 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:20125529 original size:80 final size:80
Alignment explanation
Indices: 20125396--20125559 Score: 204
Period size: 80 Copynumber: 2.0 Consensus size: 80
20125386 TGAATGATAC
* * * * * *
20125396 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
20125460 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
20125476 CCGGGCTAAGACCCGAAGGCAATTCTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
20125541 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
20125556 CCGG
1 CCGG
20125560 TTGAATCCCG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 68 0.96
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:20128469 original size:24 final size:24
Alignment explanation
Indices: 20128433--20128484 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
20128423 GATTAGAGTT
*
20128433 AAGGAAAAAAGAGAA-GAAAAAGA
1 AAGGAAAAAAGAGAAGGAAAAAAA
*
20128456 AAGGAGAAGAAGAGAAGGAAAAAAA
1 AAGGA-AAAAAGAGAAGGAAAAAAA
20128481 AAGG
1 AAGG
20128485 GATAGAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 9 0.36
25 11 0.44
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
AAGGAAAAAAGAGAAGGAAAAAAA
Found at i:20130780 original size:15 final size:16
Alignment explanation
Indices: 20130760--20130790 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
20130750 TTAGTTTTTA
20130760 TTTAAATT-TTTTATT
1 TTTAAATTATTTTATT
20130775 TTTAAATTATTTTATT
1 TTTAAATTATTTTATT
20130791 GACTTGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTAAATTATTTTATT
Found at i:20134722 original size:16 final size:16
Alignment explanation
Indices: 20134697--20134729 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
20134687 GCTAAAGGTC
20134697 ATAAAAATTA-AAAAA
1 ATAAAAATTATAAAAA
20134712 ATAAAATATTATAAAAA
1 ATAAAA-ATTATAAAAA
20134729 A
1 A
20134730 AGTCCTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAAATTATAAAAA
Found at i:20138943 original size:15 final size:15
Alignment explanation
Indices: 20138896--20138944 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
20138886 CCCCTATCAC
*
20138896 CACCTCTTCCACCAC
1 CACCTCTTCCACCAT
* *
20138911 CTCCTCTTCC-TC-T
1 CACCTCTTCCACCAT
20138924 C-CCTCTTCCACCAT
1 CACCTCTTCCACCAT
20138938 CACCTCT
1 CACCTCT
20138945 GCCCCTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 3 0.11
15 14 0.52
ACGTcount: A:0.12, C:0.57, G:0.00, T:0.31
Consensus pattern (15 bp):
CACCTCTTCCACCAT
Done.