Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 66 of 168
Found at i:19074972 original size:47 final size:47
Alignment explanation
Indices: 19074876--19074998 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
19074866 TGTTGTATAT
*
19074876 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTAAA
* ** *
19074923 ATGCTGCCTAATTTGTTTTATATATGCTGTCCAATTTTGGTG-TAAAA
1 ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCT-AAA
* * * * *
19074970 ATGCTACTCAAATTGCTGTATATATGCTG
1 ATGCTGCCCAATTTGTTGCATATATGCTG
19074999 CTCAAAATTG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 63 0.98
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (47 bp):
ATGCTGCCCAATTTGTTGCATATATGCTGTCCAATTTTGATGCTAAA
Found at i:19074997 original size:70 final size:70
Alignment explanation
Indices: 19074923--19075295 Score: 516
Period size: 70 Copynumber: 5.3 Consensus size: 70
19074913 TGATGCTTAA
* * * * * *
19074923 ATGCTGCCTAATTTGTTTTATATATGCTGTCCAATTTTGGTGTAAAAATGCTACTCAAATTGCTG
1 ATGCTGCCCAAATTGTTGTATTTATGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTTG
19074988 TATAT
66 TATAT
* * *
19074993 ATGCTGCTCAAAATTGTTTTATTTATGCTGTCCAATTTTGGTGTAAAAATGTTGCTCAAATTGTT
1 ATGCTGC-CCAAATTGTTGTATTTATGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTT
19075058 GTATAT
65 GTATAT
* *
19075064 ATGCTGCCCAAATTGTTGAATTTATGATGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTTG
1 ATGCTGCCCAAATTGTTGTATTTATGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTTG
19075129 TATAT
66 TATAT
* * * *
19075134 ATGCTGCCCAAATTCTTGAATTTATTCTGTCCAATTTTGGTGTAAAAATACTGCTCAAATTGTTG
1 ATGCTGCCCAAATTGTTGTATTTATGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTTG
19075199 TATAT
66 TATAT
* * *
19075204 ATGCTGCCCAAATTGTTGTATTTATGCTGTCCAAATTTTGGTGTGAAAATGCTG-TCTAATT-TG
1 ATGCTGCCCAAATTGTTGTATTTATGCTGTCC-AATTTTGGTGTAAAAATGCTGCTCAAATTGTT
19075267 GTATAT
65 GTATAT
* *
19075273 AAATGCTGTCCAAATTGATGTAT
1 --ATGCTGCCCAAATTGTTGTAT
19075296 AAGAGCTGTC
Statistics
Matches: 275, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
69 7 0.03
70 166 0.60
71 102 0.37
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (70 bp):
ATGCTGCCCAAATTGTTGTATTTATGCTGTCCAATTTTGGTGTAAAAATGCTGCTCAAATTGTTG
TATAT
Found at i:19076956 original size:24 final size:24
Alignment explanation
Indices: 19076929--19076991 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
19076919 TAGCTCGAAA
19076929 GAGCATCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAT
* * *
19076953 GAGCATCCTGATATTTGGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
* *
19076978 GAGCTTCCCATTAT
1 GAGCATCCCGTTAT
19076992 ATAATTCTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:19080093 original size:54 final size:55
Alignment explanation
Indices: 19079971--19080133 Score: 186
Period size: 54 Copynumber: 3.0 Consensus size: 55
19079961 TATGATATTC
*
19079971 TTAA-ACAGCTTATATGGCAATCTCAAGTGATAAAGCGTCCAAATGACGCTACAAA
1 TTAACACAGCTTATATGGCAATCTCAAGTGA-AAAGCGTCCAAACGACGCTACAAA
* * * * * * *
19080026 CTATCATAGCTTATATGGCAATCTTAAGTG-AAAGCGTCCAAACGATGTTATAAA
1 TTAACACAGCTTATATGGCAATCTCAAGTGAAAAGCGTCCAAACGACGCTACAAA
* ***
19080080 TTAACACATCTTATATTATAATCTCAAGTGATAAAGCGTCCAAACGACGCTACA
1 TTAACACAGCTTATATGGCAATCTCAAGTGA-AAAGCGTCCAAACGACGCTACA
19080134 CTCAAGTGAC
Statistics
Matches: 86, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
54 42 0.49
55 2 0.02
56 42 0.49
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (55 bp):
TTAACACAGCTTATATGGCAATCTCAAGTGAAAAGCGTCCAAACGACGCTACAAA
Found at i:19089877 original size:3 final size:3
Alignment explanation
Indices: 19089869--19089919 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
19089859 TATTTGATGG
19089869 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19089917 ATT
1 ATT
19089920 TAAGACAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19091446 original size:2 final size:2
Alignment explanation
Indices: 19091439--19091469 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19091429 ATGGGATGCT
19091439 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19091470 TTTATATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19092953 original size:2 final size:2
Alignment explanation
Indices: 19092946--19092978 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19092936 GCTTTATTTT
19092946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19092979 TTCTATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19100085 original size:37 final size:37
Alignment explanation
Indices: 19100017--19100094 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 37
19100007 TTTTTTCTAG
*
19100017 AAAAGATATTTATATTAAATTTAAATT-A-ATATTTT
1 AAAAGATATTTATATAAAATTTAAATTAATATATTTT
*
19100052 AAAAGATCATTTATA-AAAATATTGAACTTAATATATTTT
1 AAAAGAT-ATTTATATAAAAT-TT-AAATTAATATATTTT
19100091 AAAA
1 AAAA
19100095 TTTAATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
35 11 0.31
36 9 0.25
37 4 0.11
38 1 0.03
39 11 0.31
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (37 bp):
AAAAGATATTTATATAAAATTTAAATTAATATATTTT
Found at i:19102173 original size:136 final size:136
Alignment explanation
Indices: 19101926--19102195 Score: 495
Period size: 136 Copynumber: 2.0 Consensus size: 136
19101916 GGGCCCATCA
19101926 TCAGTGCCTACGCAAGAACGGTTGACCTTTTGGTTTGTGACACAATTCTCTATCGGGTAAGAACT
1 TCAGTGCCTACGCAAGAACGGTTGACCTTTTGGTTTGTGACACAATTCTCTATCGGGTAAGAACT
* * * *
19101991 TAAACGGAGCAATCAATATAGACGACCACTTACGTTTATCTGGGACTAGTGGGAATACGTGTCTT
66 TAAACGAAGCAATAAATATAGACGACCACTTACGTTTATCTAGGACTAGTAGGAATACGTGTCTT
19102056 CACATG
131 CACATG
*
19102062 TCAGTGCCTATGCAAGAACGGTTGACCTTTTGGTTTGTGACACAATTCTCTATCGGGTAAGAACT
1 TCAGTGCCTACGCAAGAACGGTTGACCTTTTGGTTTGTGACACAATTCTCTATCGGGTAAGAACT
19102127 TAAACGAAGCAATAAATATAGACGACCACTTACGTTTATCTAGGACTAGTAGGAATACGTGTCTT
66 TAAACGAAGCAATAAATATAGACGACCACTTACGTTTATCTAGGACTAGTAGGAATACGTGTCTT
19102192 CACA
131 CACA
19102196 CATTGTAAAT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 129 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (136 bp):
TCAGTGCCTACGCAAGAACGGTTGACCTTTTGGTTTGTGACACAATTCTCTATCGGGTAAGAACT
TAAACGAAGCAATAAATATAGACGACCACTTACGTTTATCTAGGACTAGTAGGAATACGTGTCTT
CACATG
Found at i:19105561 original size:32 final size:32
Alignment explanation
Indices: 19105506--19105572 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
19105496 CCATAATTAA
19105506 TAAACACTTGAAAATAAATAAAACCCTAAAC-C
1 TAAACACTTGAAAATAAATAAAA-CCTAAACTC
19105538 TAAACACTT-ACAAATTAAA-AAAACCTAAACTC
1 TAAACACTTGA-AAA-TAAATAAAACCTAAACTC
19105570 TAA
1 TAA
19105573 TTTAAAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
31 8 0.25
32 20 0.62
33 4 0.12
ACGTcount: A:0.57, C:0.21, G:0.01, T:0.21
Consensus pattern (32 bp):
TAAACACTTGAAAATAAATAAAACCTAAACTC
Found at i:19108475 original size:15 final size:15
Alignment explanation
Indices: 19108445--19108474 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19108435 ATGTTTGAAA
19108445 TGTAAAATTATATTT
1 TGTAAAATTATATTT
19108460 TGTAAAA-TATATTT
1 TGTAAAATTATATTT
19108474 T
1 T
19108475 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TGTAAAATTATATTT
Found at i:19119890 original size:82 final size:85
Alignment explanation
Indices: 19119804--19119964 Score: 249
Period size: 82 Copynumber: 1.9 Consensus size: 85
19119794 AATATAATTT
19119804 AAAAAACGTATAAATAAACAAATATTATAAAACATTTAAAATATTAT-AAA-AAATAA-TAAACA
1 AAAAAACGTATAAATAAACAAATATTATAAAACATTTAAAATATTATAAAACAAATAATTAAA-A
*
19119866 GTT-AAAAAACAAATTTTCAA
65 ATTAAAAAAACAAATTTTCAA
* * *
19119886 AAAAAATGTTTGAATAAACAAATATTATAAAACATTTAAAATATTATAAAACAAATAATTAAAAA
1 AAAAAACGTATAAATAAACAAATATTATAAAACATTTAAAATATTATAAAACAAATAATTAAAAA
19119951 TTAAAAAAACAAAT
66 TTAAAAAAACAAAT
19119965 AATACACAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
82 44 0.62
83 3 0.04
84 9 0.13
85 15 0.21
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.27
Consensus pattern (85 bp):
AAAAAACGTATAAATAAACAAATATTATAAAACATTTAAAATATTATAAAACAAATAATTAAAAA
TTAAAAAAACAAATTTTCAA
Found at i:19119959 original size:23 final size:25
Alignment explanation
Indices: 19119933--19119989 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
19119923 AAAATATTAT
*
19119933 AAAACAAATAATTA-A-AAATTAA-A
1 AAAACAAATAA-TACACAAATAAAGA
19119956 AAAACAAATAATACACAAATAAAGA
1 AAAACAAATAATACACAAATAAAGA
19119981 AAAACAAAT
1 AAAACAAAT
19119990 CAAATAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 2 0.07
23 12 0.40
24 6 0.20
25 10 0.33
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.16
Consensus pattern (25 bp):
AAAACAAATAATACACAAATAAAGA
Found at i:19120802 original size:20 final size:20
Alignment explanation
Indices: 19120758--19120806 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19120748 TTAATGGACT
*
19120758 TTTTATTTGTGTTTTATTTTA
1 TTTTATTT-TGTTCTATTTTA
19120779 -TTTATTTTGTTCT-TTTTA
1 TTTTATTTTGTTCTATTTTA
19120797 GTTTTATTTT
1 -TTTTATTTT
19120807 ATTTGAGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 5 0.20
20 15 0.60
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (20 bp):
TTTTATTTTGTTCTATTTTA
Found at i:19122900 original size:26 final size:25
Alignment explanation
Indices: 19122871--19122970 Score: 94
Period size: 26 Copynumber: 3.9 Consensus size: 25
19122861 AAGTGAACCA
*
19122871 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATATA-AACAATTTAAAGT
*
19122897 AAATAGTATA-AAACAATTTAAAGT
1 AAATAATATATAAACAATTTAAAGT
* * *
19122921 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATAT-AAACAATTTAAAGT
* * *
19122947 AAACAACATACAAAACAATTTAAA
1 AAATAATATA-TAAACAATTTAAA
19122971 ACATATAAGA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 20 0.33
25 1 0.02
26 39 0.65
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.26
Consensus pattern (25 bp):
AAATAATATATAAACAATTTAAAGT
Found at i:19122911 original size:24 final size:23
Alignment explanation
Indices: 19122875--19123017 Score: 82
Period size: 24 Copynumber: 6.2 Consensus size: 23
19122865 GAACCAAAAT
* *
19122875 AATATATAGAACAATTTGAAGTA
1 AATATATAAAACAATTTAAAGTA
19122898 AATAGTATAAAACAATTTAAAGTA
1 AATA-TATAAAACAATTTAAAGTA
* *
19122922 AATAATATGTAAAACAAATTAAAATAAA
1 AAT-ATA--TAAAACAATTTAAAGT--A
* *
19122950 CAACATACAAAACAATTT--A--A
1 -AATATATAAAACAATTTAAAGTA
* * *
19122970 AACATATAAGACAATTTAAAAT-
1 AATATATAAAACAATTTAAAGTA
* *
19122992 AATATATAAAA-AGTTTAAAATA
1 AATATATAAAACAATTTAAAGTA
19123014 AATA
1 AATA
19123018 ATATGTAAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
19 15 0.16
20 1 0.01
21 10 0.10
22 13 0.14
23 4 0.04
24 23 0.24
25 1 0.01
26 23 0.24
28 4 0.04
29 2 0.02
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (23 bp):
AATATATAAAACAATTTAAAGTA
Found at i:19122975 original size:19 final size:19
Alignment explanation
Indices: 19122951--19122990 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
19122941 TAAAATAAAC
19122951 AACATACAAAACAATTTAA
1 AACATACAAAACAATTTAA
* *
19122970 AACATATAAGACAATTTAA
1 AACATACAAAACAATTTAA
19122989 AA
1 AA
19122991 TAATATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (19 bp):
AACATACAAAACAATTTAA
Found at i:19123026 original size:25 final size:25
Alignment explanation
Indices: 19122988--19123139 Score: 126
Period size: 27 Copynumber: 5.6 Consensus size: 25
19122978 AGACAATTTA
19122988 AAATAATATATAAAAAGTTTAAAAT
1 AAATAATATATAAAAAGTTTAAAAT
* *
19123013 AAATAATATGTAAAAAGAAGTTTTAAAT
1 AAATAATA--TATAAA-AAGTTTAAAAT
*
19123041 AAATAATATACAAAACAGTTTAAAAAT
1 AAATAATATATAAAA-AGTTT-AAAAT
* *
19123068 AAATGATATGTATAAAAA-TAATCCAAAAT
1 AAAT-A-ATATATAAAAAGT--T-TAAAAT
*
19123097 AAATAATATATATAACAGTTTAAAAAT
1 AAATAATATATA-AAAAGTTT-AAAAT
*
19123124 AAATAATATAAAAAAA
1 AAATAATATATAAAAA
19123140 TGAATAATAG
Statistics
Matches: 102, Mismatches: 12, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
25 9 0.09
26 13 0.13
27 37 0.36
28 24 0.24
29 19 0.19
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (25 bp):
AAATAATATATAAAAAGTTTAAAAT
Found at i:19123114 original size:56 final size:54
Alignment explanation
Indices: 19122988--19123132 Score: 177
Period size: 56 Copynumber: 2.6 Consensus size: 54
19122978 AGACAATTTA
* * ***
19122988 AAATAATATATAAAAAGTTT-AAAATAAATAATATGTAAAAAGAAGTTTTAAAT
1 AAATAATATATAAACAGTTTAAAAATAAATAATATGTAAAAAGAAATCCAAAAT
* *
19123041 AAATAATATACAAAACAGTTTAAAAATAAATGATATGTATAAAA-ATAATCCAAAAT
1 AAATAATATA-TAAACAGTTTAAAAATAAATAATATGTA-AAAAGA-AATCCAAAAT
19123097 AAATAATATATATAACAGTTTAAAAATAAATAATAT
1 AAATAATATATA-AACAGTTTAAAAATAAATAATAT
19123133 AAAAAAATGA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
53 10 0.13
54 8 0.10
55 18 0.23
56 42 0.54
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (54 bp):
AAATAATATATAAACAGTTTAAAAATAAATAATATGTAAAAAGAAATCCAAAAT
Found at i:19141501 original size:28 final size:28
Alignment explanation
Indices: 19141433--19141524 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 28
19141423 TAACAAACGA
* * *
19141433 CAAAATTTAAAAAAAACGACAACAACAG
1 CAAAATTTAAAATAAACGATAACACCAG
* *
19141461 C-AAATTCAAAATAAATGATAACACCAG
1 CAAAATTTAAAATAAACGATAACACCAG
* **
19141488 CAAAATTTAAAATAAAGGAT-ACACTTG
1 CAAAATTTAAAATAAACGATAACACCAG
19141515 -AAAATTTAAA
1 CAAAATTTAAA
19141525 CACATGCTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.19
27 27 0.50
28 17 0.31
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.20
Consensus pattern (28 bp):
CAAAATTTAAAATAAACGATAACACCAG
Found at i:19161008 original size:16 final size:16
Alignment explanation
Indices: 19160987--19161051 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
19160977 TTCGCTGTAT
19160987 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
19161003 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
19161019 TGTAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
19161035 TGGAATAGATGCGTAA
1 TGGAATAGAGGCGTAA
19161051 T
1 T
19161052 AGCAAATCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:19161094 original size:45 final size:44
Alignment explanation
Indices: 19161031--19161120 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
19161021 TAATAGAGGC
*
19161031 GTAATGGAATAGATGCGTAATAGCAAATC-AATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AAATCTAA-TGTTTGGTTGAAT
* *
19161076 GTAATGGAATAGAGGCGTAATAGTATTCTAATGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAAATCTAATGTTTGGTTGAAT
19161120 G
1 G
19161121 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
44 17 0.41
45 24 0.59
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAAATCTAATGTTTGGTTGAAT
Found at i:19166108 original size:3 final size:3
Alignment explanation
Indices: 19166100--19166125 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19166090 GATACTGGAG
19166100 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
19166126 TGCTAAGGAG
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19167209 original size:9 final size:9
Alignment explanation
Indices: 19167195--19167231 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19167185 TATAGTTTGA
19167195 TATTCGAAT
1 TATTCGAAT
19167204 TATTCGAAT
1 TATTCGAAT
*
19167213 TATTCGAGT
1 TATTCGAAT
19167222 TATTCGAAT
1 TATTCGAAT
19167231 T
1 T
19167232 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19167988 original size:5 final size:5
Alignment explanation
Indices: 19167978--19168002 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19167968 TTGGGGGGTT
19167978 GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG
19168003 TAAAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:19168116 original size:9 final size:9
Alignment explanation
Indices: 19168102--19168138 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19168092 TATAGTTTGA
19168102 TATTCGAAT
1 TATTCGAAT
19168111 TATTCGAAT
1 TATTCGAAT
*
19168120 TATTCGAGT
1 TATTCGAAT
19168129 TATTCGAAT
1 TATTCGAAT
19168138 T
1 T
19168139 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19168209 original size:9 final size:9
Alignment explanation
Indices: 19168192--19168222 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19168182 TCGAGTTGAT
19168192 TCGAATAAC
1 TCGAATAAC
*
19168201 TCGATTAAC
1 TCGAATAAC
19168210 TCGAATAAC
1 TCGAATAAC
19168219 TCGA
1 TCGA
19168223 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19172443 original size:18 final size:19
Alignment explanation
Indices: 19172415--19172451 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
19172405 GCATTCACAT
19172415 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
19172434 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
19172452 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:19186148 original size:27 final size:27
Alignment explanation
Indices: 19186107--19186169 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
19186097 CCAAAATAGA
*
19186107 TAAAATAACCAAAATAC-CCCAATAGGG
1 TAAAATGACCAAAATACTCCC-ATAGGG
*
19186134 TAAAATGACCGAAATACTCCCATAGGG
1 TAAAATGACCAAAATACTCCCATAGGG
19186161 TAAAATGAC
1 TAAAATGAC
19186170 TGTTATACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 30 0.91
28 3 0.09
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (27 bp):
TAAAATGACCAAAATACTCCCATAGGG
Found at i:19186177 original size:27 final size:26
Alignment explanation
Indices: 19186120--19186202 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
19186110 AATAACCAAA
* **
19186120 ATACCCCAATAGGGTAAAATGACCGAA
1 ATACCCC-ATAGGGTAAAATGACTGTT
19186147 ATACTCCCATAGGGTAAAATGACTGTT
1 ATAC-CCCATAGGGTAAAATGACTGTT
*
19186174 ATACCCC-TAGGAGATGAAATGACTGTT
1 ATACCCCATAGG-G-TAAAATGACTGTT
19186201 AT
1 AT
19186203 GGCCTTATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 38 0.78
28 3 0.06
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (26 bp):
ATACCCCATAGGGTAAAATGACTGTT
Found at i:19187042 original size:90 final size:91
Alignment explanation
Indices: 19186932--19187114 Score: 332
Period size: 90 Copynumber: 2.0 Consensus size: 91
19186922 GTGCTATGAG
* *
19186932 GGACTTGATGATGGCTACACAACCACATCAGCTTTCATTTTTAGCCTTTAATTTATAAGAAAATT
1 GGACTCGATGATGGCCACACAACCACATCAGCTTTCATTTTTAGCCTTTAATTTATAAGAAAATT
19186997 GAATTTGGGTAT-TTTTATGTAAAAA
66 GAATTTGGGTATATTTTATGTAAAAA
*
19187022 GGACTCGATGATGGCCACACAACCGCATCAGCTTTCATTTTTAGCCTTTAATTTATAAGAAAATT
1 GGACTCGATGATGGCCACACAACCACATCAGCTTTCATTTTTAGCCTTTAATTTATAAGAAAATT
19187087 GAATTTGGGTATATTTTATGTAAAAA
66 GAATTTGGGTATATTTTATGTAAAAA
19187113 GG
1 GG
19187115 TCTCTTTAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 74 0.83
91 15 0.17
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (91 bp):
GGACTCGATGATGGCCACACAACCACATCAGCTTTCATTTTTAGCCTTTAATTTATAAGAAAATT
GAATTTGGGTATATTTTATGTAAAAA
Found at i:19187922 original size:18 final size:19
Alignment explanation
Indices: 19187894--19187930 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
19187884 GCATTCACAT
19187894 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
19187913 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
19187931 TCCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:19196128 original size:94 final size:94
Alignment explanation
Indices: 19196003--19196190 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
19195993 CCTTTGACGA
*
19196003 GTTATTGCTCTAAGACTTTCAATTGAGAACTTCATATCAGGTAGAATTTCAATTGAGAAATTCCT
1 GTTATTGCTCTAAAACTTTCAATTGAGAACTTCATATCAGGTAGAATTTCAATTGAGAAATTCCT
19196068 TTTTCTTTCATATTCATATTCTTTTTGGT
66 TTTTCTTTCATATTCATATTCTTTTTGGT
19196097 GTTATTGCTCTAAAACTTTCAATTGAGAACTTCATATCAGGTAGAATTTCAATTGAGAAATTCCT
1 GTTATTGCTCTAAAACTTTCAATTGAGAACTTCATATCAGGTAGAATTTCAATTGAGAAATTCCT
19196162 TTTTCTTTCATATTCATATTCTTTTTGGT
66 TTTTCTTTCATATTCATATTCTTTTTGGT
19196191 TCTTACTTTT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (94 bp):
GTTATTGCTCTAAAACTTTCAATTGAGAACTTCATATCAGGTAGAATTTCAATTGAGAAATTCCT
TTTTCTTTCATATTCATATTCTTTTTGGT
Found at i:19197180 original size:230 final size:230
Alignment explanation
Indices: 19196777--19197226 Score: 882
Period size: 230 Copynumber: 2.0 Consensus size: 230
19196767 ACAACTACCT
19196777 CCAGTTACCCTTTCTTTTGAAGCAATTAAGACTGATTCTGTGATCTTTTTTTCCAATCCTCAAAT
1 CCAGTTACCCTTTCTTTTGAAGCAATTAAGACTGATTCTGTGATCTTTTTTTCCAATCCTCAAAT
*
19196842 TCTTTGGTCAGATATGAATGGTAATCTTAGTTGTCTGATTGTCTTGTTATTACTTCTACCCTCTT
66 TCTTTGGTCAGATATGAATAGTAATCTTAGTTGTCTGATTGTCTTGTTATTACTTCTACCCTCTT
*
19196907 GTTTTCTGGATTATGTTAATTGCATGAAGAAAAAGTTTTATTTAAATTAAGATCCCAAAATAGCA
131 GTTTTCTGGATTATGTTAATTGCATGAAGAAAAAGCTTTATTTAAATTAAGATCCCAAAATAGCA
19196972 TGAAATGGGACTTGTATGCACTTGAAATTAAAATC
196 TGAAATGGGACTTGTATGCACTTGAAATTAAAATC
19197007 CCAGTTACCCTTTCTTTTGAAGCAATTAAGACTGATTCTGTGATCTTTTTTTCCAATCCTCAAAT
1 CCAGTTACCCTTTCTTTTGAAGCAATTAAGACTGATTCTGTGATCTTTTTTTCCAATCCTCAAAT
19197072 TCTTTGGTCAGATATGAATAGTAATCTTAGTTGTCTGATTGTCTTGTTATTACTTCTACCCTCTT
66 TCTTTGGTCAGATATGAATAGTAATCTTAGTTGTCTGATTGTCTTGTTATTACTTCTACCCTCTT
19197137 GTTTTCTGGATTATGTTAATTGCATGAAGAAAAAGCTTTATTTAAATTAAGATCCCAAAATAGCA
131 GTTTTCTGGATTATGTTAATTGCATGAAGAAAAAGCTTTATTTAAATTAAGATCCCAAAATAGCA
19197202 TGAAATGGGACTTGTATGCACTTGA
196 TGAAATGGGACTTGTATGCACTTGA
19197227 GATGGTGGCA
Statistics
Matches: 218, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
230 218 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (230 bp):
CCAGTTACCCTTTCTTTTGAAGCAATTAAGACTGATTCTGTGATCTTTTTTTCCAATCCTCAAAT
TCTTTGGTCAGATATGAATAGTAATCTTAGTTGTCTGATTGTCTTGTTATTACTTCTACCCTCTT
GTTTTCTGGATTATGTTAATTGCATGAAGAAAAAGCTTTATTTAAATTAAGATCCCAAAATAGCA
TGAAATGGGACTTGTATGCACTTGAAATTAAAATC
Found at i:19215023 original size:35 final size:35
Alignment explanation
Indices: 19214979--19215081 Score: 116
Period size: 35 Copynumber: 2.9 Consensus size: 35
19214969 ACATCAAATG
* * * * *
19214979 CTCACAAGAGTTAGTCCAACCGTAGCACGCCTATA
1 CTCATAAGAGCTAGTCCAACCGAAACACGCCAATA
* * *
19215014 CTTATAAGAGCTAGTCCAACCGAAACAGGCCAATG
1 CTCATAAGAGCTAGTCCAACCGAAACACGCCAATA
* *
19215049 CTCATAAGAGCTAGTCCAACCAAAACACACCAA
1 CTCATAAGAGCTAGTCCAACCGAAACACGCCAA
19215082 ACAGAGAGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.38, C:0.30, G:0.16, T:0.17
Consensus pattern (35 bp):
CTCATAAGAGCTAGTCCAACCGAAACACGCCAATA
Found at i:19220717 original size:15 final size:15
Alignment explanation
Indices: 19220692--19220732 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19220682 TAAATTTAGT
* *
19220692 ACTTAAATTTTCAAT
1 ACTTAATTTTTCAAC
*
19220707 ATTTAATTTTTCAAC
1 ACTTAATTTTTCAAC
19220722 ACTTAATTTTT
1 ACTTAATTTTT
19220733 TTAGTTTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (15 bp):
ACTTAATTTTTCAAC
Found at i:19221270 original size:25 final size:25
Alignment explanation
Indices: 19221216--19221270 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
19221206 CTTAAGGGAT
*
19221216 GTTTTCTCGAGTCCTTGATAGTCCA
1 GTTTTCTCGAGTCCGTGATAGTCCA
* * *
19221241 ATTTTCTCGAGTTCGTGGTGAGT-CA
1 GTTTTCTCGAGTCCGTGAT-AGTCCA
19221266 GTTTT
1 GTTTT
19221271 ATCAAGTCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.44
Consensus pattern (25 bp):
GTTTTCTCGAGTCCGTGATAGTCCA
Found at i:19223662 original size:87 final size:88
Alignment explanation
Indices: 19223551--19223719 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 88
19223541 CTCTTGTTTT
* * * *
19223551 TTTTTTTTCACTCATTTGTGTACTTGAACTTTCAAAATGTACCAAAAAGGCCCTCAAACCTTT-A
1 TTTTTTTACACTCAATTGTGTACTTGAACTTTCAAAATGTACAAAAAAGACCCTCAAACCTTTAA
19223615 AAAAAAAGCAATTAAGCCCCTAC
66 AAAAAAAGCAATTAAGCCCCTAC
* * * * * *
19223638 TTTTTTTACACTCAATTG-GATACTTTAACTTTCGAAATGTATAAAAAATATCCTCAAACTTTTA
1 TTTTTTTACACTCAATTGTG-TACTTGAACTTTCAAAATGTACAAAAAAGACCCTCAAACCTTTA
19223702 AAAAAAAAGCAATTAAGC
65 AAAAAAAAGCAATTAAGC
19223720 TCATGCTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 51 0.73
88 18 0.26
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (88 bp):
TTTTTTTACACTCAATTGTGTACTTGAACTTTCAAAATGTACAAAAAAGACCCTCAAACCTTTAA
AAAAAAAGCAATTAAGCCCCTAC
Found at i:19223790 original size:56 final size:53
Alignment explanation
Indices: 19223728--19223834 Score: 126
Period size: 56 Copynumber: 2.0 Consensus size: 53
19223718 GCTCATGCTT
* *
19223728 TTATTAAAAATTAGA-AAAACATTATAAAAATTTAAAATCAATAAAAGATATAAATA
1 TTATTAAAAATTA-ATAAAAAATTA-AAAAATTAAAAATCAA-AAAA-ATATAAATA
** *
19223784 TTATTAAATTTTAATAAAAAATTAAAAAATTAAAAATTAAAAAAATATAAA
1 TTATTAAAAATTAATAAAAAATTAAAAAATTAAAAATCAAAAAAATATAAA
19223835 AATCGTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 7 0.16
54 4 0.09
55 15 0.33
56 19 0.42
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (53 bp):
TTATTAAAAATTAATAAAAAATTAAAAAATTAAAAATCAAAAAAATATAAATA
Found at i:19223811 original size:8 final size:8
Alignment explanation
Indices: 19223798--19223837 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
19223788 TAAATTTTAA
19223798 TAAAAAAT
1 TAAAAAAT
19223806 TAAAAAAT
1 TAAAAAAT
19223814 T-AAAAAT
1 TAAAAAAT
*
19223821 TAAAAAAA
1 TAAAAAAT
19223829 TATAAAAAT
1 TA-AAAAAT
19223838 CGTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 7 0.25
8 16 0.57
9 5 0.18
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAAAT
Found at i:19223819 original size:9 final size:9
Alignment explanation
Indices: 19223799--19223860 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 9
19223789 AAATTTTAAT
19223799 AAAAAATT-
1 AAAAAATTA
19223807 AAAAAATT-
1 AAAAAATTA
19223815 -AAAAATTA
1 AAAAAATTA
19223823 AAAAAA-TA
1 AAAAAATTA
*
19223831 TAAAAATCGTAA
1 AAAAAAT--T-A
19223843 AAAAAATATA
1 AAAAAAT-TA
19223853 AAAAAATT
1 AAAAAATT
19223861 GTAAAATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
7 7 0.16
8 15 0.33
9 6 0.13
10 8 0.18
11 2 0.04
12 7 0.16
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (9 bp):
AAAAAATTA
Found at i:19223866 original size:9 final size:9
Alignment explanation
Indices: 19223732--19223923 Score: 76
Period size: 10 Copynumber: 20.6 Consensus size: 9
19223722 ATGCTTTTAT
19223732 TAAAAATTA
1 TAAAAATTA
*
19223741 GAAAAACATTA
1 -TAAAA-ATTA
19223752 TAAAAATT-
1 TAAAAATTA
*
19223760 T-AAAATCAA
1 TAAAAAT-TA
19223769 TAAAAGA-TA
1 TAAAA-ATTA
*
19223778 TAAATATTA
1 TAAAAATTA
**
19223787 TTAAATTTTAA
1 -TAAAAATT-A
19223798 TAAAAAATTA
1 T-AAAAATTA
19223808 -AAAAA-T-
1 TAAAAATTA
19223814 TAAAAATTA
1 TAAAAATTA
*
19223823 -AAAAAATA
1 TAAAAATTA
19223831 TAAAAATCGTAA
1 TAAAAAT--T-A
*
19223843 AAAAAATATA
1 TAAAAAT-TA
* *
19223853 AAAAAATTG
1 TAAAAATTA
19223862 TAAAATATTA
1 TAAAA-ATTA
**
19223872 TAAAAATCG
1 TAAAAATTA
19223881 TAAAAATTA
1 TAAAAATTA
19223890 T-AAAATATA
1 TAAAAAT-TA
*
19223899 TAGAAATATA
1 TAAAAAT-TA
*
19223909 AAAGAAATTA
1 TAA-AAATTA
19223919 TAAAA
1 TAAAA
19223924 TTTTATAAAG
Statistics
Matches: 139, Mismatches: 23, Indels: 41
0.68 0.11 0.20
Matches are distributed among these distances:
7 11 0.08
8 20 0.14
9 36 0.26
10 48 0.35
11 17 0.12
12 7 0.05
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:19223868 original size:18 final size:18
Alignment explanation
Indices: 19223845--19223924 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 18
19223835 AATCGTAAAA
*
19223845 AAAATATAAAAAAATTGT
1 AAAATATAAAAAAATTAT
* **
19223863 AAAATATTATAAAAATCGT
1 AAAATA-TAAAAAAATTAT
* *
19223882 AAAA-ATTATAAAATATAT
1 AAAATATAAAAAAAT-TAT
19223900 AGAAATATAAAAGAAATTAT
1 A-AAATATAAAA-AAATTAT
19223920 AAAAT
1 AAAAT
19223925 TTTATAAAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
17 6 0.12
18 9 0.19
19 21 0.44
20 8 0.17
21 4 0.08
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAATATAAAAAAATTAT
Found at i:19223876 original size:29 final size:29
Alignment explanation
Indices: 19223799--19223932 Score: 108
Period size: 29 Copynumber: 4.8 Consensus size: 29
19223789 AAATTTTAAT
19223799 AAAAAATTA-AAAA-A-T-TAAAAAT-TA
1 AAAAAATTATAAAATATTATAAAAATATA
*
19223823 AAAAAA-TATAAAA-ATCGTAAAAAAAATATA
1 AAAAAATTATAAAATAT--T-ATAAAAATATA
* *
19223853 AAAAAATTGTAAAATATTATAAAAATCGT-
1 AAAAAATTATAAAATATTATAAAAAT-ATA
*
19223882 -AAAAATTATAAAATA-TATAGAAATATA
1 AAAAAATTATAAAATATTATAAAAATATA
*
19223909 AAAGAAATTATAAAATTTTATAAA
1 AAA-AAATTATAAAATATTATAAA
19223933 GTCGTAAGAA
Statistics
Matches: 87, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
23 2 0.02
24 11 0.13
26 1 0.01
27 9 0.10
28 16 0.18
29 25 0.29
30 15 0.17
31 6 0.07
32 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (29 bp):
AAAAAATTATAAAATATTATAAAAATATA
Found at i:19224173 original size:25 final size:26
Alignment explanation
Indices: 19224143--19224193 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
19224133 TTCTTTTATG
*
19224143 ATTTTTA-TAAAATTTTACAATTTTT
1 ATTTTTATTAAAATTTAACAATTTTT
*
19224168 ATTTTTATTAAAATTTAATAATTTTT
1 ATTTTTATTAAAATTTAACAATTTTT
19224194 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTATTAAAATTTAACAATTTTT
Found at i:19224340 original size:86 final size:87
Alignment explanation
Indices: 19224239--19224459 Score: 270
Period size: 87 Copynumber: 2.5 Consensus size: 87
19224229 TTTTAATAAG
* *
19224239 AGCAGGGGCTTAATTGCATTTT-TGAAAAA-TGTTGAGGGTCTTTTTGATGCATTTTGACAGTTC
1 AGCAGGGGCTTAATTGCATTTTCTGAAAAAGT-TTGAGAGTCTTTTTGATGCATTTTGAAAGTTC
19224302 AAGTACCCAATTGAGTGAAAAAA
65 AAGTACCCAATTGAGTGAAAAAA
* *
19224325 AGCAGGGGCTTAATTGCTTTTTCTGAAGAAGTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCA
1 AGCAGGGGCTTAATTGCATTTTCTGAAAAAGTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCA
***
19224390 AGTGTTCAATTGAGTGAAAAAAAAAA
66 AGTACCCAATTGAGTG----AAAAAA
* * * *
19224416 AG-AGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAG-GACTTTTT
1 AGCAGGGGCTTAATTGCATTTTCTGAAAAAGTTTGAGAGTCTTTTT
19224460 ACATCCTTAA
Statistics
Matches: 118, Mismatches: 11, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
86 21 0.18
87 50 0.42
88 1 0.01
89 7 0.06
90 31 0.26
91 8 0.07
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (87 bp):
AGCAGGGGCTTAATTGCATTTTCTGAAAAAGTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCA
AGTACCCAATTGAGTGAAAAAA
Found at i:19234648 original size:22 final size:23
Alignment explanation
Indices: 19234611--19234655 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
19234601 TTCTAATGAT
19234611 GAGTAGAAAATTCATAAAGTTTA
1 GAGTAGAAAATTCATAAAGTTTA
* *
19234634 GAGTAG-AGATTCATAATGTTTA
1 GAGTAGAAAATTCATAAAGTTTA
19234656 CATTAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.33
Consensus pattern (23 bp):
GAGTAGAAAATTCATAAAGTTTA
Found at i:19240023 original size:13 final size:13
Alignment explanation
Indices: 19239969--19240016 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
19239959 CCTTAAGAAT
19239969 TAAGTAAATATATA
1 TAAGTAAATATA-A
*
19239983 TAA-TATA-ATAA
1 TAAGTAAATATAA
19239994 TAAAGTAAATATAA
1 T-AAGTAAATATAA
19240008 TAAGTAAAT
1 TAAGTAAAT
19240017 GAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 2 0.07
12 5 0.17
13 14 0.48
14 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
TAAGTAAATATAA
Found at i:19240044 original size:12 final size:12
Alignment explanation
Indices: 19240029--19240105 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 12
19240019 AATAAAAAGG
19240029 GAAAGAAAGGAA
1 GAAAGAAAGGAA
*
19240041 GAAAATGAAA-CAA
1 G-AAA-GAAAGGAA
19240054 -AAAGGAAAAGGAA
1 GAAA-G-AAAGGAA
* **
19240067 AAAAGAAAAAAA
1 GAAAGAAAGGAA
*
19240079 GAAAGAAAGAAA
1 GAAAGAAAGGAA
19240091 GAAAGAAA-GAA
1 GAAAGAAAGGAA
19240102 GAAA
1 GAAA
19240106 CACAAGGGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
11 10 0.19
12 27 0.52
13 8 0.15
14 7 0.13
ACGTcount: A:0.74, C:0.01, G:0.23, T:0.01
Consensus pattern (12 bp):
GAAAGAAAGGAA
Found at i:19240073 original size:30 final size:30
Alignment explanation
Indices: 19240013--19240101 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
19240003 TATAATAAGT
* * *
19240013 AAATGAAATAAAAAGGGAAAGAAAGGAAGA
1 AAATGAAACAAAAAGGAAAAGAAAGAAAGA
19240043 AAATGAAACAAAAAGGAAAAGGAAA-AAAGA
1 AAATGAAACAAAAAGGAAAA-GAAAGAAAGA
* *
19240073 AAA--AAAGAAAGAAAG-AAAGAAAGAAAGA
1 AAATGAAACAAA-AAGGAAAAGAAAGAAAGA
19240101 A
1 A
19240102 GAAACACAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 4 0.08
28 15 0.29
29 3 0.06
30 25 0.49
31 4 0.08
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.03
Consensus pattern (30 bp):
AAATGAAACAAAAAGGAAAAGAAAGAAAGA
Found at i:19240076 original size:8 final size:8
Alignment explanation
Indices: 19240059--19240098 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
19240049 AACAAAAAGG
*
19240059 AAAAGGAA
1 AAAAGAAA
19240067 AAAAGAAA
1 AAAAGAAA
19240075 AAAAGAAA
1 AAAAGAAA
*
19240083 GAAAGAAA
1 AAAAGAAA
*
19240091 GAAAGAAA
1 AAAAGAAA
19240099 GAAGAAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:19240085 original size:4 final size:4
Alignment explanation
Indices: 19240064--19240105 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
19240054 AAAGGAAAAG
*
19240064 GAAA -AAA GAAA AAAA GAAA GAAA GAAA GAAA GAAA G-AA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
19240106 CACAAGGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 6 0.18
4 28 0.82
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:19241038 original size:40 final size:40
Alignment explanation
Indices: 19240928--19241063 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
19240918 AACTTCGAGT
* * * *
19240928 CGATGAGACACTAGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTAGGTGTCAATATATTACTTC-GATTTATC
* * * *
19240969 CGATGAGGCACTGGGT-TGCCA-AT-TTACTTCGATTTAGC
1 CGATGAGACACTAGGTGT-CAATATATTACTTCGATTTATC
*
19241007 CGATGAGACACTAGGTGTCAATATATTACTTCGAATTATC
1 CGATGAGACACTAGGTGTCAATATATTACTTCGATTTATC
* * *
19241047 CAATGAGGCACTGGGTG
1 CGATGAGACACTAGGTG
19241064 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
38 21 0.28
39 9 0.12
40 29 0.39
41 16 0.21
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTAGGTGTCAATATATTACTTCGATTTATC
Found at i:19241353 original size:31 final size:33
Alignment explanation
Indices: 19241318--19241385 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
19241308 CAACTGATGA
* * *
19241318 GAATTGAGTATTGGATGAATGATGT-ATT-TAT
1 GAATTGAATATTGAATGAATAATGTCATTGTAT
*
19241349 GAATTGAATATTGAATGACTAATGTCATTGTAT
1 GAATTGAATATTGAATGAATAATGTCATTGTAT
19241382 GAAT
1 GAAT
19241386 AAATGTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 21 0.68
32 3 0.10
33 7 0.23
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (33 bp):
GAATTGAATATTGAATGAATAATGTCATTGTAT
Found at i:19242542 original size:17 final size:17
Alignment explanation
Indices: 19242516--19242560 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
19242506 GCGTGTGTCT
19242516 CAGCCATGTGAGGCACA
1 CAGCCATGTGAGGCACA
*
19242533 CAGCCGTGTGAGGCACA
1 CAGCCATGTGAGGCACA
19242550 CAGCCATGTGA
1 CAGCCATGTGA
19242561 CCCATGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.31, T:0.13
Consensus pattern (17 bp):
CAGCCATGTGAGGCACA
Found at i:19243759 original size:5 final size:5
Alignment explanation
Indices: 19243749--19243774 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19243739 TGAGCATTCG
19243749 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
19243775 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:19244813 original size:9 final size:9
Alignment explanation
Indices: 19244799--19244835 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19244789 TATAGTTTGA
19244799 TATTCGAAT
1 TATTCGAAT
19244808 TATTCGAAT
1 TATTCGAAT
*
19244817 TATTCGAGT
1 TATTCGAAT
19244826 TATTCGAAT
1 TATTCGAAT
19244835 T
1 T
19244836 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19244906 original size:9 final size:9
Alignment explanation
Indices: 19244889--19244919 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19244879 TTGAGTTGAT
19244889 TCGAATAAC
1 TCGAATAAC
*
19244898 TCGATTAAC
1 TCGAATAAC
19244907 TCGAATAAC
1 TCGAATAAC
19244916 TCGA
1 TCGA
19244920 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19249140 original size:17 final size:17
Alignment explanation
Indices: 19249094--19249141 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
19249084 TCAACCTTTC
*
19249094 ACCTTTCATCTCCCTTA
1 ACCTTTCATCTTCCTTA
*
19249111 ATCTTTCATCTTCCTTA
1 ACCTTTCATCTTCCTTA
*
19249128 ACCTTTCACCTTCC
1 ACCTTTCATCTTCC
19249142 ATTTTCTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.44
Consensus pattern (17 bp):
ACCTTTCATCTTCCTTA
Found at i:19258193 original size:14 final size:15
Alignment explanation
Indices: 19258174--19258209 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
19258164 TCTAATTTAC
*
19258174 TGAAACTTT-TATTG
1 TGAAACTTTAGATTG
19258188 TGAAACTTTAGATTG
1 TGAAACTTTAGATTG
19258203 TGAAACT
1 TGAAACT
19258210 ATACAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (15 bp):
TGAAACTTTAGATTG
Found at i:19258255 original size:16 final size:16
Alignment explanation
Indices: 19258236--19258269 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19258226 GTAGACCATG
*
19258236 AAACTTTAGATTCTGA
1 AAACTGTAGATTCTGA
*
19258252 AAACTGTAGATTTTGA
1 AAACTGTAGATTCTGA
19258268 AA
1 AA
19258270 CTATAGTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
AAACTGTAGATTCTGA
Found at i:19265954 original size:29 final size:29
Alignment explanation
Indices: 19265921--19266038 Score: 128
Period size: 29 Copynumber: 4.1 Consensus size: 29
19265911 AGCTTGCCCC
* * **
19265921 AAGGCATTCATTTAACTGAGATAGCCACA
1 AAGGCATCCTTTTAACAAAGATAGCCACA
* *
19265950 AAGGCACCCTTTTAACAAAGATAGCTACA
1 AAGGCATCCTTTTAACAAAGATAGCCACA
* * * *
19265979 AAGACATCCTTTTAATAGAGATAGTCACA
1 AAGGCATCCTTTTAACAAAGATAGCCACA
* *
19266008 AAGTCTTCCTTTTAACAAAGATAGCCACA
1 AAGGCATCCTTTTAACAAAGATAGCCACA
19266037 AA
1 AA
19266039 TACTTTTTTT
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (29 bp):
AAGGCATCCTTTTAACAAAGATAGCCACA
Found at i:19266049 original size:29 final size:29
Alignment explanation
Indices: 19265939--19266067 Score: 109
Period size: 29 Copynumber: 4.4 Consensus size: 29
19265929 CATTTAACTG
** **
19265939 AGATAGCCACAAAGGCACCCTTTTAACAA
1 AGATAGCCACAAATACTTCCTTTTAACAA
* * * * *
19265968 AGATAGCTACAAAGACATCCTTTTAATAG
1 AGATAGCCACAAATACTTCCTTTTAACAA
*
19265997 AGATAGTCACAAAGT-CTTCCTTTTAACAA
1 AGATAGCCACAAA-TACTTCCTTTTAACAA
** *
19266026 AGATAGCCACAAATACTTTTTTTTACCAA
1 AGATAGCCACAAATACTTCCTTTTAACAA
19266055 AGATCA-CCACAAA
1 AGAT-AGCCACAAA
19266068 GGCTTTCTTT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
28 1 0.01
29 80 0.98
30 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (29 bp):
AGATAGCCACAAATACTTCCTTTTAACAA
Found at i:19266073 original size:29 final size:29
Alignment explanation
Indices: 19266018--19266153 Score: 118
Period size: 28 Copynumber: 4.8 Consensus size: 29
19266008 AAGTCTTCCT
** *
19266018 TTTAACAAAGAT-AGCCACAAATACTTTTT
1 TTTAACAAAGATCA-CCACAAAGGCTTTTC
*
19266047 TTTACCAAAGATCACCACAAAGGC-TTTC
1 TTTAACAAAGATCACCACAAAGGCTTTTC
* *
19266075 TTTAACAGAGATCACCACAAAGG-TTTCC
1 TTTAACAAAGATCACCACAAAGGCTTTTC
** * *
19266103 TTTAACGGAGATCACCACAAA-GATTTCC
1 TTTAACAAAGATCACCACAAAGGCTTTTC
* * *
19266131 TTTTACAAAAATTACCACAAAGG
1 TTTAACAAAGATCACCACAAAGG
19266154 TGTCTCTTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.01
28 68 0.76
29 20 0.22
30 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (29 bp):
TTTAACAAAGATCACCACAAAGGCTTTTC
Found at i:19266087 original size:28 final size:28
Alignment explanation
Indices: 19266055--19266163 Score: 130
Period size: 28 Copynumber: 3.9 Consensus size: 28
19266045 TTTTTACCAA
19266055 AGATCACCACAAAGGCTTT-CTTTAACAG
1 AGATCACCACAAAGG-TTTCCTTTAACAG
*
19266083 AGATCACCACAAAGGTTTCCTTTAACGG
1 AGATCACCACAAAGGTTTCCTTTAACAG
* * *
19266111 AGATCACCACAAAGATTTCCTTTTACAA
1 AGATCACCACAAAGGTTTCCTTTAACAG
* * *
19266139 AAATTACCACAAAGGTGTCTCTTTA
1 AGATCACCACAAAGGTTTC-CTTTA
19266164 TAGATTACCA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 3 0.04
28 62 0.90
29 4 0.06
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.28
Consensus pattern (28 bp):
AGATCACCACAAAGGTTTCCTTTAACAG
Found at i:19286871 original size:24 final size:24
Alignment explanation
Indices: 19286844--19286890 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19286834 ATATTGCATA
19286844 TGTTATTATTAATT-TTAAATATTG
1 TGTT-TTATTAATTATTAAATATTG
*
19286868 TGTTTTATTATTTATTAAATATT
1 TGTTTTATTAATTATTAAATATT
19286891 ATTTTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (24 bp):
TGTTTTATTAATTATTAAATATTG
Found at i:19286890 original size:14 final size:14
Alignment explanation
Indices: 19286873--19286910 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
19286863 TATTGTGTTT
*
19286873 TATTATTTATTAAA
1 TATTATTTATCAAA
19286887 TATTATTT-TCAAA
1 TATTATTTATCAAA
19286900 TACTTATTTAT
1 TA-TTATTTAT
19286911 ATTCTAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 14 0.67
15 1 0.05
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATTTATCAAA
Found at i:19289270 original size:25 final size:25
Alignment explanation
Indices: 19289241--19289302 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
19289231 AGTGGCAAAG
19289241 TATAATTTTTAATAATTTATATCTT
1 TATAATTTTTAATAATTTATATCTT
*
19289266 TATAATTTTTAATAGTTTATATCTT
1 TATAATTTTTAATAATTTATATCTT
*
19289291 TATAATATTTAA
1 TATAATTTTTAA
19289303 AGGATTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (25 bp):
TATAATTTTTAATAATTTATATCTT
Found at i:19296672 original size:2 final size:2
Alignment explanation
Indices: 19296665--19296697 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19296655 AGTCATAGTT
19296665 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19296698 TAAAACTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19303948 original size:14 final size:14
Alignment explanation
Indices: 19303922--19303983 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
19303912 AGAATTTTCA
*
19303922 AATTATAATTTAATT
1 AATTATAA-TTAAAT
19303937 AATTATAATTAAAT
1 AATTATAATTAAAT
* * *
19303951 AACTAAAATTAAAA
1 AATTATAATTAAAT
19303965 AATTA-AATTAAATT
1 AATTATAATTAAA-T
19303979 AATTA
1 AATTA
19303984 GTCATTATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
13 7 0.17
14 25 0.62
15 8 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTATAATTAAAT
Found at i:19304117 original size:9 final size:9
Alignment explanation
Indices: 19304101--19304135 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
19304091 TTAATTGATA
19304101 AATTAATTT
1 AATTAATTT
*
19304110 AGTTAATTT
1 AATTAATTT
*
19304119 AATTAATTG
1 AATTAATTT
19304128 AATTAATT
1 AATTAATT
19304136 GAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:19304136 original size:9 final size:9
Alignment explanation
Indices: 19304101--19304139 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
19304091 TTAATTGATA
*
19304101 AATTAATTT
1 AATTAATTG
* *
19304110 AGTTAATTT
1 AATTAATTG
19304119 AATTAATTG
1 AATTAATTG
19304128 AATTAATTG
1 AATTAATTG
19304137 AAT
1 AAT
19304140 AAATAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (9 bp):
AATTAATTG
Found at i:19309271 original size:38 final size:38
Alignment explanation
Indices: 19309229--19309304 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
19309219 CGAGCTGTGG
19309229 TGAGTCTGCAACAATTGCAGGAGCTCGACCAAAACGGT
1 TGAGTCTGCAACAATTGCAGGAGCTCGACCAAAACGGT
19309267 TGAGTCTGCAACAATTGCAGGAGCTCGACCAAAACGGT
1 TGAGTCTGCAACAATTGCAGGAGCTCGACCAAAACGGT
19309305 AACCCTTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (38 bp):
TGAGTCTGCAACAATTGCAGGAGCTCGACCAAAACGGT
Found at i:19316538 original size:26 final size:23
Alignment explanation
Indices: 19316508--19316568 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 23
19316498 GAGCCATGAT
19316508 CGGTAAGCTTATTCCGAGCTGAAGAA
1 CGGTAAGCTTATT-CGAGCTG-A-AA
19316534 CGGTAAGCTCTA-TCGAGCTGAAA
1 CGGTAAGCT-TATTCGAGCTGAAA
*
19316557 TGGTAAGCTTAT
1 CGGTAAGCTTAT
19316569 AAGAGTTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.06
23 10 0.31
24 1 0.03
25 7 0.22
26 10 0.31
27 2 0.06
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGTAAGCTTATTCGAGCTGAAA
Found at i:19317528 original size:8 final size:8
Alignment explanation
Indices: 19317516--19317545 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
19317506 ATTATAACTT
*
19317516 TAATTACT
1 TAATTACC
19317524 TAATTACC
1 TAATTACC
19317532 TAATTACC
1 TAATTACC
19317540 TAATTA
1 TAATTA
19317546 ACCTTTAAAA
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:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (8 bp):
TAATTACC
Found at i:19320296 original size:39 final size:39
Alignment explanation
Indices: 19320209--19320557 Score: 330
Period size: 39 Copynumber: 9.0 Consensus size: 39
19320199 CCAATACACT
* * *
19320209 GGCACACAACCTGTTAGGCACATAGCCCG-A-AATCACC
1 GGCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACC
* *
19320246 GGCACACAGCCTGCTAGGCACAGAGCCCGAATAATCACA
1 GGCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACC
* * * * * *
19320285 GGCAAAAAGCCTACTAGGCACATAGCTCAAATAATCACC
1 GGCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACC
* * * *
19320324 TGCTCATAGCCTG-TAAGGCACAAAGCCCAAATAATCACC
1 GGCACACAGCCTGCT-AGGCACAAAGCCCGAATAATCACC
* * *
19320363 GGCATACAGCCTACTAGGCACAAAGCCAGAATAATCACC
1 GGCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACC
* * * *
19320402 GGCACAAAAAGCCTGCTAGGTACATAGCCCGAATAATGACC
1 GGCAC--ACAGCCTGCTAGGCACAAAGCCCGAATAATCACC
* * * *
19320443 TAG-TCACAGCCTGCTAGGCATAAAGCCTGAATAATCACC
1 -GGCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACC
*** * *
19320482 GGCACACAGCCTGCTAGGCACACTTCCCAAACAATCACC
1 GGCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACC
* *
19320521 GGCACAAAGCGTGCTAGGCACAAAG-CCGAATAATCAC
1 GGCACACAGCCTGCTAGGCACAAAGCCCGAATAATCAC
19320558 TGTATTTCTA
Statistics
Matches: 248, Mismatches: 56, Indels: 15
0.78 0.18 0.05
Matches are distributed among these distances:
37 26 0.10
38 13 0.05
39 178 0.72
40 1 0.00
41 29 0.12
42 1 0.00
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (39 bp):
GGCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACC
Found at i:19322043 original size:19 final size:19
Alignment explanation
Indices: 19322019--19322062 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
19322009 AATATGCAGC
19322019 GAAAGTGAGTGGAATTTCG
1 GAAAGTGAGTGGAATTTCG
19322038 GAAAGTGAGTGGAATTTCG
1 GAAAGTGAGTGGAATTTCG
*
19322057 GTAAGT
1 GAAAGT
19322063 ACATATGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (19 bp):
GAAAGTGAGTGGAATTTCG
Found at i:19322869 original size:20 final size:21
Alignment explanation
Indices: 19322846--19322886 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19322836 ATCACTTTAA
19322846 TATTAAATT-AATATAATATT
1 TATTAAATTAAATATAATATT
* *
19322866 TATTATATTAAATTTAATATT
1 TATTAAATTAAATATAATATT
19322887 AAATCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTAAATTAAATATAATATT
Found at i:19322885 original size:12 final size:12
Alignment explanation
Indices: 19322841--19322890 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
19322831 AATTAATCAC
19322841 TTTAATATTAAA
1 TTTAATATTAAA
19322853 -TTAATA-TAATA
1 TTTAATATTAA-A
19322864 TTTATTATATTAAA
1 TTTA--ATATTAAA
19322878 TTTAATATTAAA
1 TTTAATATTAAA
19322890 T
1 T
19322891 CTTATTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 3 0.09
11 7 0.21
12 12 0.36
14 8 0.24
15 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:19332967 original size:40 final size:38
Alignment explanation
Indices: 19332919--19333054 Score: 114
Period size: 40 Copynumber: 3.5 Consensus size: 38
19332909 ACCAATTTAG
* *
19332919 CACCCAGTGCCTCATCAGATAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATC-GATAATCCAAAGTAATAA-TTGA
* * * * *
19332959 CACCCAGTGTCTCATCGGCTAAACCCAAGT-A-AATTCA
1 CACCCAGTGCCTCATC-GATAATCCAAAGTAATAATTGA
*
19332996 CACCCTGTGCCTCATCGAATTAATCCAAAGTAATAAATTGA
1 CACCCAGTGCCTCATCG-A-TAATCCAAAGTAAT-AATTGA
* *
19333037 CGCCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
19333055 GTCAAAGTCA
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
36 1 0.01
37 17 0.23
38 11 0.15
39 2 0.03
40 25 0.33
41 19 0.25
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGATAATCCAAAGTAATAATTGA
Found at i:19333051 original size:41 final size:41
Alignment explanation
Indices: 19332945--19333054 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 41
19332935 AGATAATTCG
* * *
19332945 AAGTAATAATTTGACACCCAGTGTCTCATCG-GCTAAACCC
1 AAGTAATAAATTGACACCCAGTGTCTCATCGAACTAAACCA
* * * * *
19332985 AAG---TAAATTCACACCCTGTGCCTCATCGAATTAATCCA
1 AAGTAATAAATTGACACCCAGTGTCTCATCGAACTAAACCA
*
19333023 AAGTAATAAATTGACGCCCAGTGTCTCATCGA
1 AAGTAATAAATTGACACCCAGTGTCTCATCGA
19333055 GTCAAAGTCA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
37 21 0.39
38 8 0.15
40 3 0.06
41 22 0.41
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (41 bp):
AAGTAATAAATTGACACCCAGTGTCTCATCGAACTAAACCA
Found at i:19333970 original size:7 final size:7
Alignment explanation
Indices: 19333958--19334023 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
19333948 ATCTACTTAT
19333958 TATAATA
1 TATAATA
19333965 TATAATA
1 TATAATA
19333972 TAATATATA
1 T-ATA-ATA
19333981 TACTTAATA
1 TA--TAATA
*
19333990 -ATTAAGA
1 TA-TAATA
19333997 TATAATA
1 TATAATA
19334004 TTATAATA
1 -TATAATA
19334012 TTATAATA
1 -TATAATA
19334020 TATA
1 TATA
19334024 TTTTTTAACT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 21 0.41
8 21 0.41
9 7 0.14
10 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:19333985 original size:30 final size:31
Alignment explanation
Indices: 19333945--19334023 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 31
19333935 TTTTATTTAT
*
19333945 TATATCTACTTATTATAATATATA-ATATAA
1 TATATATACTTATTATAATATATAGATATAA
19333975 TATATATACTTA--ATAAT-TA-AGATATAA
1 TATATATACTTATTATAATATATAGATATAA
*
19334002 TAT-TATA-ATATTATAATATATA
1 TATATATACTTATTATAATATATA
19334024 TTTTTTAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 16 0.38
28 7 0.17
29 1 0.02
30 11 0.26
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (31 bp):
TATATATACTTATTATAATATATAGATATAA
Found at i:19334010 original size:8 final size:8
Alignment explanation
Indices: 19333955--19334020 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
19333945 TATATCTACT
19333955 TATTATAA
1 TATTATAA
19333963 TA-TATAA
1 TATTATAA
*
19333970 TATAAT-A
1 TATTATAA
19333977 TATATACTTAA
1 TAT-TA--TAA
*
19333988 TAAT-TAA
1 TATTATAA
*
19333995 GA-TATAA
1 TATTATAA
19334002 TATTATAA
1 TATTATAA
19334010 TATTATAA
1 TATTATAA
19334018 TAT
1 TAT
19334021 ATATTTTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.41
8 21 0.46
10 2 0.04
11 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:19338534 original size:43 final size:42
Alignment explanation
Indices: 19338473--19338611 Score: 179
Period size: 43 Copynumber: 3.5 Consensus size: 42
19338463 ACCCCTTGGG
19338473 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCA-ATTTAAAGATACGGT
*
19338516 GGAATCAGCACTTAGCAA-CCAC--CAA-TT--A-AT-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCAATTTAAAGATACGGT
*
19338549 GGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCA-ATTTAAAGATACGGT
19338592 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
19338612 ACCAATGAGT
Statistics
Matches: 83, Mismatches: 3, Indels: 20
0.78 0.03 0.19
Matches are distributed among these distances:
33 18 0.22
34 6 0.07
35 2 0.02
36 2 0.02
37 1 0.01
38 4 0.05
39 1 0.01
40 3 0.04
41 2 0.02
42 6 0.07
43 38 0.46
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCAATTTAAAGATACGGT
Found at i:19338549 original size:103 final size:103
Alignment explanation
Indices: 19338368--19338570 Score: 343
Period size: 103 Copynumber: 2.0 Consensus size: 103
19338358 CCATTGATTC
* *
19338368 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
19338433 ACCAATCATTCGGGGAGTCAACACTTAGCAACCCCTTG
66 ACCAATCAATCGGGGAATCAACACTTAGCAACCCCTTG
*
19338471 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
19338536 ACCAATTAATCGGGGAATCAGCACTTAGCAACCCC
66 ACCAATCAATCGGGGAATCAACACTTAGCAACCCC
19338571 CTTTATATTT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATCAATCGGGGAATCAACACTTAGCAACCCCTTG
Found at i:19338581 original size:76 final size:76
Alignment explanation
Indices: 19338471--19338654 Score: 325
Period size: 76 Copynumber: 2.4 Consensus size: 76
19338461 CAACCCCTTG
*
19338471 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
*
19338536 ACCAATTAATC
66 ACCAATGAATC
*
19338547 GGGGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
*
19338612 ACCAATGAGTC
66 ACCAATGAATC
19338623 GGGGAATCAGCACTTAGCAA-CCCCTTCATATT
1 GGGGAATCAGCACTTAGCAACCCCCTTCATATT
19338655 CAATGTACTC
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 11 0.11
76 92 0.89
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (76 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATC
Found at i:19342320 original size:25 final size:25
Alignment explanation
Indices: 19342284--19342332 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
19342274 AACAATGATA
19342284 GCTTAATCGATAGGAAATTATGTTT
1 GCTTAATCGATAGGAAATTATGTTT
*
19342309 GCTTAATTGATAGGAAATTATGTT
1 GCTTAATCGATAGGAAATTATGTT
19342333 GAATGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (25 bp):
GCTTAATCGATAGGAAATTATGTTT
Found at i:19366855 original size:30 final size:31
Alignment explanation
Indices: 19366821--19366880 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
19366811 AAACCTTTTA
*
19366821 TTTTCCCCTAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
*
19366851 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
19366881 TCCTATCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:19370129 original size:16 final size:16
Alignment explanation
Indices: 19370108--19370143 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19370098 TTTGGTTCGC
19370108 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19370124 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
19370140 TGTA
1 TGTA
19370144 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:19370208 original size:44 final size:45
Alignment explanation
Indices: 19370124--19370214 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
19370114 GGATTAGAGG
* * *
19370124 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
19370169 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
19370213 TG
1 TG
19370215 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:19375994 original size:27 final size:29
Alignment explanation
Indices: 19375936--19375999 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
19375926 TCTAATATCA
19375936 ATTATTATGATTTTAAAATTAAACTTACAT
1 ATTATTATGATTTTAAAATTAAACTTA-AT
*
19375966 ATTATTATG-TTTTAAATTTATAAC-T-AT
1 ATTATTATGATTTTAAAATTA-AACTTAAT
19375993 ATTATTA
1 ATTATTA
19376000 AGAAATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 9 0.28
29 11 0.34
30 12 0.38
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (29 bp):
ATTATTATGATTTTAAAATTAAACTTAAT
Found at i:19380224 original size:21 final size:23
Alignment explanation
Indices: 19380185--19380236 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
19380175 CTGCTGCTGT
* *
19380185 GAGAAAAAAGAAAGAAGAAA-AG
1 GAGAGAAAGGAAAGAAGAAATAG
*
19380207 G-GAGAAAGGAAAGGAGAAATAG
1 GAGAGAAAGGAAAGAAGAAATAG
19380229 GAGAGAAA
1 GAGAGAAA
19380237 TAATCTGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 15 0.60
22 4 0.16
23 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (23 bp):
GAGAGAAAGGAAAGAAGAAATAG
Found at i:19382620 original size:13 final size:13
Alignment explanation
Indices: 19382602--19382628 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19382592 CTGCCATTAC
19382602 TTCAGAACCATAA
1 TTCAGAACCATAA
19382615 TTCAGAACCATAA
1 TTCAGAACCATAA
19382628 T
1 T
19382629 AAATGAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (13 bp):
TTCAGAACCATAA
Found at i:19389624 original size:16 final size:16
Alignment explanation
Indices: 19389603--19389634 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19389593 ACACAATATT
*
19389603 CTATAAAAATTAAATA
1 CTATAAAAAATAAATA
19389619 CTATAAAAAATAAATA
1 CTATAAAAAATAAATA
19389635 AATATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
CTATAAAAAATAAATA
Found at i:19390863 original size:19 final size:19
Alignment explanation
Indices: 19390836--19390876 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19390826 AAAATTTATA
*
19390836 TATTCAAAAAATTAAAAAT
1 TATTAAAAAAATTAAAAAT
* *
19390855 TATTAAAAATATTGAAAAT
1 TATTAAAAAAATTAAAAAT
19390874 TAT
1 TAT
19390877 ATAATAATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TATTAAAAAAATTAAAAAT
Found at i:19394349 original size:20 final size:20
Alignment explanation
Indices: 19394305--19394357 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
19394295 TTCTAATAAA
19394305 ATTTATTACAAATGTAATTTT
1 ATTTATTA-AAATGTAATTTT
*
19394326 ATTTATTAAAAT-TTATTTT
1 ATTTATTAAAATGTAATTTT
*
19394345 CATTTAATAAAAT
1 -ATTTATTAAAAT
19394358 ATGATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 15 0.52
21 8 0.28
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTATTAAAATGTAATTTT
Found at i:19400326 original size:45 final size:45
Alignment explanation
Indices: 19400275--19400367 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
19400265 TGATGAATGA
*
19400275 TATTATGTATCTAGTATATTGTTGAAAAATAGAATATTGCTAAAT
1 TATTATGTATCTAGCATATTGTTGAAAAATAGAATATTGCTAAAT
* * * *
19400320 TATTATGTATTTAGCATGTTGTTGAAAAATGGAATATTGTTAAAT
1 TATTATGTATCTAGCATATTGTTGAAAAATAGAATATTGCTAAAT
19400365 TAT
1 TAT
19400368 GAATTTGTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (45 bp):
TATTATGTATCTAGCATATTGTTGAAAAATAGAATATTGCTAAAT
Found at i:19400579 original size:21 final size:21
Alignment explanation
Indices: 19400555--19400706 Score: 63
Period size: 21 Copynumber: 7.2 Consensus size: 21
19400545 ATGAGTTTTT
19400555 GTTCAACCCTAATGGGTTTCC
1 GTTCAACCCTAATGGGTTTCC
* * * * *
19400576 GTTCAGCTCTATTGAGCTTT-T
1 GTTCAACCCTAATG-GGTTTCC
* *
19400597 GTTTAACCCTTATGGGTTTCC
1 GTTCAACCCTAATGGGTTTCC
* * * * *
19400618 GTTCAGCTCTAATGAGCTTCT
1 GTTCAACCCTAATGGGTTTCC
* * * *
19400639 ATTTAACCTTTATGGGTTTCC
1 GTTCAACCCTAATGGGTTTCC
* ** * * *
19400660 GTTCAGCTTTAATGAGCTTCT
1 GTTCAACCCTAATGGGTTTCC
* *
19400681 GTTTAACCCTTATGGGTTTCC
1 GTTCAACCCTAATGGGTTTCC
*
19400702 ATTCA
1 GTTCA
19400707 GCTCTTACGA
Statistics
Matches: 83, Mismatches: 46, Indels: 4
0.62 0.35 0.03
Matches are distributed among these distances:
20 4 0.05
21 75 0.90
22 4 0.05
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (21 bp):
GTTCAACCCTAATGGGTTTCC
Found at i:19400612 original size:42 final size:42
Alignment explanation
Indices: 19400545--19400767 Score: 284
Period size: 42 Copynumber: 5.3 Consensus size: 42
19400535 TTTAACTCGC
* * * *
19400545 ATGAGTTTTTGTTCAACCCTAATGGGTTTCCGTTCAGCTCTA
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
* *
19400587 TTGAGCTTTTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
* * *
19400629 ATGAGCTTCTATTTAACCTTTATGGGTTTCCGTTCAGCTTTA
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
* *
19400671 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCTT
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
* * * * * * *
19400713 ACGAGCTTCAGTTCAACCATTATGGGTTTCTGTTTAGCTCTC
1 ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
19400755 ATGAGCTTCTGTT
1 ATGAGCTTCTGTT
19400768 CAGCCTTCGG
Statistics
Matches: 157, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 157 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
ATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTCTA
Found at i:19404099 original size:20 final size:20
Alignment explanation
Indices: 19404074--19404113 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19404064 CGTAAAATGA
*
19404074 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
19404094 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
19404114 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:19404103 original size:34 final size:35
Alignment explanation
Indices: 19404059--19404125 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
19404049 CAGTAAAATA
*
19404059 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
19404093 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
19404126 TTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:19413625 original size:18 final size:18
Alignment explanation
Indices: 19413591--19413624 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19413581 TCTCTTTCTT
*
19413591 TTTCTCTCTCATTTTTTG
1 TTTCTCTATCATTTTTTG
19413609 TTTCTCTATC-TTTTTT
1 TTTCTCTATCATTTTTT
19413625 TTGGTTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.06, C:0.21, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTCTCTATCATTTTTTG
Found at i:19414066 original size:3 final size:3
Alignment explanation
Indices: 19414058--19414095 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
19414048 AAAAGGTGGA
*
19414058 AAC AAC AAC AAC AAG AAC AAC AACC AA- AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AA-C AAC AAC AAC AAC AA
19414096 GGGTGGTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.68, C:0.29, G:0.03, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:19414330 original size:15 final size:15
Alignment explanation
Indices: 19414312--19414379 Score: 68
Period size: 15 Copynumber: 4.3 Consensus size: 15
19414302 AAGATTTCAG
19414312 TGATGATGATTATGA
1 TGATGATGATTATGA
19414327 TGATGATGACTTGGATGA
1 TGATGATGA-TT--ATGA
19414345 TGATTG-TGATCT-TGA
1 TGA-TGATGAT-TATGA
*
19414360 TGATGATGATTTTGA
1 TGATGATGATTATGA
19414375 TGATG
1 TGATG
19414380 GCGATGAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.07
15 27 0.59
16 2 0.04
17 1 0.02
18 11 0.24
19 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (15 bp):
TGATGATGATTATGA
Found at i:19414734 original size:15 final size:15
Alignment explanation
Indices: 19414699--19414735 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 15
19414689 CATATCAAGG
19414699 TGGCGGTGGTAAAAA
1 TGGCGGTGGTAAAAA
19414714 ---CGGTGGTAAAAA
1 TGGCGGTGGTAAAAA
19414726 TGGCGGTGGT
1 TGGCGGTGGT
19414736 TTACCTCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
12 12 0.63
15 7 0.37
ACGTcount: A:0.27, C:0.08, G:0.43, T:0.22
Consensus pattern (15 bp):
TGGCGGTGGTAAAAA
Found at i:19415614 original size:2 final size:2
Alignment explanation
Indices: 19415609--19415638 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19415599 ACTTCTCTCT
*
19415609 CA CA CA CA CA CA CA CA CA CA CA AA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
19415639 TACAATAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:19420965 original size:30 final size:30
Alignment explanation
Indices: 19420929--19421011 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
19420919 ACACAGCTGC
19420929 GTGTCACACACGGGTAAGTGACACGGCCAT
1 GTGTCACACACGGGTAAGTGACACGGCCAT
*
19420959 GTGTCACACATGGGTAAGTGACACGGCCAT
1 GTGTCACACACGGGTAAGTGACACGGCCAT
* * * *
19420989 GTATCATACACAGGTGAGTGACA
1 GTGTCACACACGGGTAAGTGACA
19421012 TGATCGTGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (30 bp):
GTGTCACACACGGGTAAGTGACACGGCCAT
Found at i:19422377 original size:31 final size:30
Alignment explanation
Indices: 19422322--19422380 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
19422312 GTAAATACCC
* *
19422322 AAAATTTAAAGGGTTAAAGTGTAAATATGA
1 AAAAGTTAAAGGATTAAAGTGTAAATATGA
*
19422352 AAAAGTTAAAGGATCTATAGTGTAAATAT
1 AAAAGTTAAAGGAT-TAAAGTGTAAATAT
19422381 TTTAAGGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.31
Consensus pattern (30 bp):
AAAAGTTAAAGGATTAAAGTGTAAATATGA
Found at i:19423726 original size:2 final size:2
Alignment explanation
Indices: 19423719--19423758 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19423709 AATAGTGGTA
19423719 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
19423759 CAAGGATGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19423958 original size:21 final size:21
Alignment explanation
Indices: 19423932--19423979 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
19423922 CCAAATTACA
19423932 TGAAATGAATTGTTTTATCAT
1 TGAAATGAATTGTTTTATCAT
19423953 TGAAATGAATTGTTTTATCAT
1 TGAAATGAATTGTTTTATCAT
*
19423974 TTAAAT
1 TGAAAT
19423980 TAATAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.48
Consensus pattern (21 bp):
TGAAATGAATTGTTTTATCAT
Found at i:19424382 original size:57 final size:59
Alignment explanation
Indices: 19424270--19424418 Score: 187
Period size: 57 Copynumber: 2.5 Consensus size: 59
19424260 AATTGACGGA
* *
19424270 AAAAAGGATCTACCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCATCCCGAAGAATATGTG-G
19424333 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCATCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCATCCCGAAGAATATGTGG
* * *
19424389 AAAATAGATTTAGCCTGGACGGGTAATCCA
1 AAAA-AGATCTAGCCCGGACGGGTGATCCA
19424419 AATTAGGGTC
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
56 5 0.06
57 45 0.58
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCATCCCGAAGAATATGTGG
Found at i:19436067 original size:23 final size:22
Alignment explanation
Indices: 19436035--19436077 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
19436025 GGAAGTTAGT
*
19436035 ATTTATATTTAAAATATAAATG
1 ATTTATATTTAAAAGATAAATG
*
19436057 ATTTAGTATTTATAAGATAAA
1 ATTTA-TATTTAAAAGATAAA
19436078 GGTTTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTATATTTAAAAGATAAATG
Found at i:19436206 original size:35 final size:34
Alignment explanation
Indices: 19436165--19436240 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
19436155 TATAATAAAT
19436165 AATATAAAATA-ATTTATACTAAATAATAGATTATA
1 AATATAAAATATATTTATACTAAATAAT-GATTA-A
* * **
19436200 AATATAACATATTTTTATGTTAAATAATGATTAA
1 AATATAAAATATATTTATACTAAATAATGATTAA
19436234 AAGTATA
1 AA-TATA
19436241 TTTTTCTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 3 0.09
35 19 0.54
36 13 0.37
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (34 bp):
AATATAAAATATATTTATACTAAATAATGATTAA
Found at i:19437376 original size:17 final size:18
Alignment explanation
Indices: 19437344--19437377 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19437334 CAATAGTTAA
*
19437344 ATAAATAATTAAAAATTC
1 ATAAATAATAAAAAATTC
19437362 ATAAA-AATAAAAAATT
1 ATAAATAATAAAAAATT
19437378 AAATTGGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATAAAAAATTC
Found at i:19444194 original size:12 final size:13
Alignment explanation
Indices: 19444170--19444198 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19444160 AGGCTATAAC
19444170 TATTGCATTTATT
1 TATTGCATTTATT
19444183 TATTGC-TTTATT
1 TATTGCATTTATT
19444195 TATT
1 TATT
19444199 CATATGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:19447995 original size:15 final size:15
Alignment explanation
Indices: 19447975--19448004 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19447965 GATCTATAGG
19447975 GATAGATCAAGACAA
1 GATAGATCAAGACAA
19447990 GATAGATCAAGACAA
1 GATAGATCAAGACAA
19448005 CTACTAGGTC
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:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (15 bp):
GATAGATCAAGACAA
Found at i:19450807 original size:14 final size:15
Alignment explanation
Indices: 19450773--19450811 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
19450763 CTAAATGGTT
*
19450773 AATTAATTGAACTTA
1 AATTAATTAAACTTA
*
19450788 AGTTAATTAAAC-TA
1 AATTAATTAAACTTA
19450802 AATTAATTAA
1 AATTAATTAA
19450812 TCTTTAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (15 bp):
AATTAATTAAACTTA
Found at i:19453776 original size:5 final size:5
Alignment explanation
Indices: 19453768--19453821 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
19453758 AGTTAAGTTA
19453768 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
19453818 TATA
1 TATA
19453822 AAAGAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:19454810 original size:25 final size:25
Alignment explanation
Indices: 19454782--19454867 Score: 127
Period size: 25 Copynumber: 3.4 Consensus size: 25
19454772 CTTTAGCGCA
*
19454782 CTCTCTGATTATTAGCACGTTGGTG
1 CTCTCTGATTACTAGCACGTTGGTG
*
19454807 CTCTCTGATTAGTAGCACGTTGGTG
1 CTCTCTGATTACTAGCACGTTGGTG
* **
19454832 CTCTTTGATTACTAGCACGTCAGTG
1 CTCTCTGATTACTAGCACGTTGGTG
19454857 CTCTCTGATTA
1 CTCTCTGATTA
19454868 GCACATCTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
CTCTCTGATTACTAGCACGTTGGTG
Done.