Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 1 of 186
Found at i:9874 original size:24 final size:24
Alignment explanation
Indices: 9847--9892 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
9837 GTAATTTAGG
9847 GAGA-AAATCAAGGAGAGGATTATA
1 GAGATAAAT-AAGGAGAGGATTATA
* *
9871 GAGATATATTAGGAGAGGATTA
1 GAGATAAATAAGGAGAGGATTA
9893 AGGGAGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (24 bp):
GAGATAAATAAGGAGAGGATTATA
Found at i:11513 original size:26 final size:26
Alignment explanation
Indices: 11481--11583 Score: 107
Period size: 26 Copynumber: 4.0 Consensus size: 26
11471 CATATACTAA
* *
11481 TACTGGCAGTTTTGTTGCGATATTGT
1 TACTGGCAGCTTTGCTGCGATATTGT
* * *
11507 TATTGGCAGCTTTGCTGCGTTATTGA
1 TACTGGCAGCTTTGCTGCGATATTGT
* * *
11533 TACTGGTAGCTTTGCTGTGATATTAT
1 TACTGGCAGCTTTGCTGCGATATTGT
* * *
11559 TACTGGCAACTTTGTTGTGATATTG
1 TACTGGCAGCTTTGCTGCGATATTG
11584 GTGTGTTGGC
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.17, C:0.13, G:0.25, T:0.45
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTGT
Found at i:11583 original size:52 final size:52
Alignment explanation
Indices: 11480--11583 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
11470 ACATATACTA
* * * * * *
11480 ATACTGGCAGTTTTGTTGCGATATTGTTATTGGCAGCTTTGCTGCGTTATTG
1 ATACTGGCAGCTTTGCTGCGATATTATTACTGGCAACTTTGCTGCGATATTG
* * * *
11532 ATACTGGTAGCTTTGCTGTGATATTATTACTGGCAACTTTGTTGTGATATTG
1 ATACTGGCAGCTTTGCTGCGATATTATTACTGGCAACTTTGCTGCGATATTG
11584 GTGTGTTGGC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.44
Consensus pattern (52 bp):
ATACTGGCAGCTTTGCTGCGATATTATTACTGGCAACTTTGCTGCGATATTG
Found at i:13798 original size:26 final size:26
Alignment explanation
Indices: 13761--13844 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
13751 TGATACAAAT
* *
13761 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13787 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13813 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13839 TGATAA
1 TGATAA
13845 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:15382 original size:26 final size:26
Alignment explanation
Indices: 15330--15382 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15320 TTTATAGTTT
*
15330 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
15356 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
15382 T
1 T
15383 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:20750 original size:47 final size:47
Alignment explanation
Indices: 19718--20715 Score: 1933
Period size: 47 Copynumber: 21.2 Consensus size: 47
19708 TTAGGATTTT
* *
19718 AATGTGACGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
*
19765 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
19812 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
19859 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
19906 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
19953 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20000 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20047 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20094 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20141 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20188 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20235 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20282 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20329 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20376 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20423 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20470 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20517 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20564 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20611 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
* * **
20658 AATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
20705 AATGTGATGAA
1 AATGTGATGAA
20716 CGTGGAAGTG
Statistics
Matches: 943, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 943 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
Found at i:20789 original size:46 final size:46
Alignment explanation
Indices: 20739--20865 Score: 173
Period size: 46 Copynumber: 2.8 Consensus size: 46
20729 ATATGTGGCG
*
20739 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
* * * *
20785 AAGCCGAGTGGCTAATGCAAAACGTGTATGAGATGGATACGTGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
* * * *
20831 AAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
20866 TGTATATATA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
Found at i:21059 original size:37 final size:37
Alignment explanation
Indices: 21009--21079 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
20999 GGAAATATAT
*
21009 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
21046 TCCGGGTAAGACCCGATAACTACGTGTGGGGATT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATT
21080 ATTCAAGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:23979 original size:47 final size:46
Alignment explanation
Indices: 23917--24038 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 46
23907 CGAGGCTGAC
* * *
23917 GCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT-GTCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATAAT--ATGGCCGAT
* *
23963 GCCATGTCCTAGACATGGTCTTACACTCGCTCTCATAATATGGCCGAT
1 G-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATATGGCCGAT
24011 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
24039 ACACAAGTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 13 0.20
47 28 0.43
48 23 0.35
49 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCATAATATGGCCGAT
Found at i:24025 original size:140 final size:140
Alignment explanation
Indices: 23724--24035 Score: 321
Period size: 140 Copynumber: 2.2 Consensus size: 140
23714 GGTATAATGT
* * ** * *
23724 CGATGTCATGTCCCAGACATAGTCTTACACTGGCTCT-CACGTTAAGTC-GATGCCATGTCCCAA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TAAACCTCGAGGCTGACG-CATGTCCCAA
** *
23787 ACATCGCCTTACACTAACTCTCATGTATCTGTGTCGATGCCATGTCCCACACATGGTCTTATACT
62 ACATCGCCTTACACTAACTCTCA-GTATCAATGTCGATGCCATGTCCCACACATGGTCTTACACT
*
23852 GACACATCATGAAGC
126 GACACATCATAAAGC
* * * *
23867 TGATGCATGTCCCGGACATGTGTTACACTGGCTTAAACCTCGAGGCTGACGCATGTCCCAGACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTAAACCTCGAGGCTGACGCATGTCCCAAACAT
* * * * * *
23932 -GTCTTACACTAGCTCTC-GTCTCAATGTCGATGCCATGTCCTAGACATGGTCTTACACTCG-CT
66 CGCCTTACACTAACTCTCAGTATCAATGTCGATGCCATGTCCCACACATGGTCTTACACT-GACA
23994 C-TCATAATATGGC
130 CATCATAA-A--GC
24007 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
24036 AGCACACAAG
Statistics
Matches: 140, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
137 5 0.04
138 38 0.27
139 1 0.01
140 44 0.31
141 32 0.23
142 16 0.11
143 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (140 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTAAACCTCGAGGCTGACGCATGTCCCAAACAT
CGCCTTACACTAACTCTCAGTATCAATGTCGATGCCATGTCCCACACATGGTCTTACACTGACAC
ATCATAAAGC
Found at i:47589 original size:33 final size:34
Alignment explanation
Indices: 47544--47618 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
47534 AGTGTTAGAA
* *
47544 TTATATGTAAGAAAGGAAACTTCTTGATTCTAGG
1 TTATATGTAAGAAAGGAAACTACTTAATTCTAGG
* *
47578 TT-TATGTAAGAAAGGCAACTACTTAATTTTAGG
1 TTATATGTAAGAAAGGAAACTACTTAATTCTAGG
47611 TTATATGT
1 TTATATGT
47619 TAGTGTTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
33 29 0.81
34 7 0.19
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.39
Consensus pattern (34 bp):
TTATATGTAAGAAAGGAAACTACTTAATTCTAGG
Found at i:61886 original size:43 final size:42
Alignment explanation
Indices: 61839--61937 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
61829 TCCCAAACGA
* * *
61839 GGTCTTACATGTAATTAAATATCGATGCC-ATTGTCTCAGAGAG
1 GGTCTTACATGTAATTAAATA-CGATACCGA-TGTCCCAGACAG
* * *
61882 GGTCTTACACGAAATTAAATACGATACCGATGTCCCAGACAT
1 GGTCTTACATGTAATTAAATACGATACCGATGTCCCAGACAG
*
61924 GATCTTACATGTAA
1 GGTCTTACATGTAA
61938 ATATCAAATC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (42 bp):
GGTCTTACATGTAATTAAATACGATACCGATGTCCCAGACAG
Found at i:69901 original size:15 final size:16
Alignment explanation
Indices: 69874--69904 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
69864 TTAAGCTAAA
69874 GAAAGTAAATAAAATG
1 GAAAGTAAATAAAATG
69890 GAAAGT-AATAAAATG
1 GAAAGTAAATAAAATG
69905 CAAATGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (16 bp):
GAAAGTAAATAAAATG
Found at i:69903 original size:20 final size:20
Alignment explanation
Indices: 69880--69923 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
69870 TAAAGAAAGT
*
69880 AAAT-AAAATGGAAAGTAATA
1 AAATGAAAAT-GAAAGTAAGA
*
69900 AAATGCAAATGAAAGTAAGA
1 AAATGAAAATGAAAGTAAGA
69920 AAAT
1 AAAT
69924 TTGAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.18
Consensus pattern (20 bp):
AAATGAAAATGAAAGTAAGA
Found at i:70391 original size:15 final size:16
Alignment explanation
Indices: 70371--70400 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70361 TGGTGCCTTG
70371 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
70386 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
70401 AGCATGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:71921 original size:25 final size:25
Alignment explanation
Indices: 71893--71963 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
71883 ATTTTTTATT
* *
71893 TTGATGAACATTTTGATTTATGCCA
1 TTGATGAATATTTTGAGTTATGCCA
71918 TTGATGAATATTTTGAGTTATGCCA
1 TTGATGAATATTTTGAGTTATGCCA
*
71943 TTGATGAATA-TTTGAGCTATG
1 TTGATGAATATTTTGAGTTATG
71964 TAATGTTAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
24 10 0.23
25 33 0.77
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
TTGATGAATATTTTGAGTTATGCCA
Found at i:72678 original size:43 final size:42
Alignment explanation
Indices: 72601--72762 Score: 123
Period size: 43 Copynumber: 3.8 Consensus size: 42
72591 ACATAGGATC
* * *
72601 CGATATGTGTTTTCGTGTAAGACCACATCAGGGACGTTGGCAT
1 CGATATGTG-ATTCGTGTAAGACCATATCTGGGACGTTGGCAT
* * **
72644 CGATATGTGGTTACGTGTAAGACCATGA-CTGGGACATCAGCAT
1 CGATATGTGATT-CGTGTAAGACCAT-ATCTGGGACGTTGGCAT
* * *
72687 CG-TATTTGATTCATGTAAGACCCTATCTGGGACAG-TGGCAT
1 CGATATGTGATTCGTGTAAGACCATATCTGGGAC-GTTGGCAT
* * * **
72728 CGATATGAGATAGCATGTAAGACCACGTCTGGGAC
1 CGATATGTGAT-TCGTGTAAGACCATATCTGGGAC
72763 ATTAGCATTG
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 24 0.26
42 15 0.16
43 53 0.56
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (42 bp):
CGATATGTGATTCGTGTAAGACCATATCTGGGACGTTGGCAT
Found at i:72760 original size:84 final size:84
Alignment explanation
Indices: 72616--72775 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
72606 TGTGTTTTCG
* * * *
72616 TGTAAGACCACATCAGGGACGTTGGCATCGATATGTGGTTACGTGTAAGACCATGACTGGGACAT
1 TGTAAGACCACATCAGGGACGTTGGCATCGATATGTAGATACATGTAAGACCACGACTGGGACAT
72681 CAGCATCGTATTTGATTCA
66 CAGCATCGTATTTGATTCA
* *
72700 TGTAAGACC-CTATCTGGGACAG-TGGCATCGATATG-AGATAGCATGTAAGACCACGTCTGGGA
1 TGTAAGACCAC-ATCAGGGAC-GTTGGCATCGATATGTAGATA-CATGTAAGACCACGACTGGGA
* *
72762 CATTAGCATTGTAT
63 CATCAGCATCGTAT
72776 GATAAATCTG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
83 4 0.06
84 60 0.92
85 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (84 bp):
TGTAAGACCACATCAGGGACGTTGGCATCGATATGTAGATACATGTAAGACCACGACTGGGACAT
CAGCATCGTATTTGATTCA
Found at i:77754 original size:31 final size:31
Alignment explanation
Indices: 77716--77786 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
77706 TTAGGGACAT
*
77716 GGGCGTGTGTGACCACA-TGACCTGCCCACAC
1 GGGCGTGTGTGACCACACAG-CCTGCCCACAC
77747 GGGCGTGTGTGACCACACAGCCTGCCCACAC
1 GGGCGTGTGTGACCACACAGCCTGCCCACAC
77778 GGGCGTGTG
1 GGGCGTGTG
77787 ACCCCTGTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.17, C:0.34, G:0.34, T:0.15
Consensus pattern (31 bp):
GGGCGTGTGTGACCACACAGCCTGCCCACAC
Found at i:85416 original size:17 final size:17
Alignment explanation
Indices: 85396--85428 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
85386 TAGTGGTTAG
*
85396 TTTATTTTTCTTATTTA
1 TTTAATTTTCTTATTTA
85413 TTTAATTTTCTTATTT
1 TTTAATTTTCTTATTT
85429 CTTTTTATCT
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:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTAATTTTCTTATTTA
Found at i:107618 original size:24 final size:24
Alignment explanation
Indices: 107584--107639 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
107574 TTTCTCCTCT
*
107584 CTTTTTT-TATTTT-TTCATTTTCC
1 CTTTTTTCTATTTTCTT-ACTTTCC
107607 CTTTTTTCTATTTTCTTACTTTCC
1 CTTTTTTCTATTTTCTTACTTTCC
*
107631 CTTCTTTCT
1 CTTTTTTCT
107640 TTCTAGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 7 0.24
24 20 0.69
25 2 0.07
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (24 bp):
CTTTTTTCTATTTTCTTACTTTCC
Found at i:108257 original size:19 final size:19
Alignment explanation
Indices: 108230--108270 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
108220 TTTCTTTTTA
*
108230 TTTATAATTTTT-ATAATAT
1 TTTACAATTTTTAATAA-AT
108249 TTTACAATTTTTAATAAAT
1 TTTACAATTTTTAATAAAT
108268 TTT
1 TTT
108271 TGTATACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTACAATTTTTAATAAAT
Found at i:108286 original size:10 final size:9
Alignment explanation
Indices: 108230--108290 Score: 59
Period size: 9 Copynumber: 6.1 Consensus size: 9
108220 TTTCTTTTTA
108230 TTTATAATT
1 TTTATAATT
108239 TTTATAATAT
1 TTTATAAT-T
*
108249 TTTACAATT
1 TTTATAATT
108258 TTTAATAAATTT
1 TTT-AT-AA-TT
108270 TTGTATACATT
1 TT-TATA-ATT
108281 TTTATAATT
1 TTTATAATT
108290 T
1 T
108291 AAAAAGTTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
9 16 0.36
10 13 0.30
11 7 0.16
12 7 0.16
13 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:121286 original size:27 final size:27
Alignment explanation
Indices: 121246--121357 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
121236 AGGAAGCGTC
*
121246 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
121273 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
121300 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
121328 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
121354 CTGG
1 CTGG
121358 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:121350 original size:54 final size:54
Alignment explanation
Indices: 121246--121357 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
121236 AGGAAGCGTC
*
121246 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
121300 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
121354 CTGG
1 CTGG
121358 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:123553 original size:22 final size:22
Alignment explanation
Indices: 123525--123572 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
123515 CATGGCCATA
123525 TACAAATAGATATGTATATCTT
1 TACAAATAGATATGTATATCTT
*
123547 TACAAATAGATGTGTATATCTT
1 TACAAATAGATATGTATATCTT
123569 TACA
1 TACA
123573 TGTCTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (22 bp):
TACAAATAGATATGTATATCTT
Found at i:127091 original size:41 final size:40
Alignment explanation
Indices: 127038--127193 Score: 140
Period size: 41 Copynumber: 3.8 Consensus size: 40
127028 CTTAGTACCT
127038 GCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACCACTG
1 GCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAG-CCACTG
* * * *
127079 GCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-TTATGGCACTG
1 GCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGATTA-GCCACTG
* * * *
127119 GCTCTAAAAAGCCCTTCGAAACTAAGTTCGACTATTAG-CACTG
1 GCTC--AAAAGCCCTTCGAGACCAAGCTCG--GATTAGCCACTG
127162 GCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
1 GCTCAAAAGCCCTTCGAGACCAAGCTCGGATT
127194 TAGACCCCGA
Statistics
Matches: 93, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
39 3 0.03
40 14 0.15
41 44 0.47
42 18 0.19
43 10 0.11
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
GCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGCCACTG
Found at i:127142 original size:42 final size:41
Alignment explanation
Indices: 127018--127178 Score: 130
Period size: 41 Copynumber: 3.9 Consensus size: 41
127008 CTTCGGAATA
* * * *
127018 AAGTCCGACTCTTAGTACCT-GCTCAAAAGCCCTTCGAGACC
1 AAGTCCGACTATTAGCA-CTGGCTCAAAAGCCCTTCGAAACT
* * * * * * *
127059 AAGCTCGGATTA-GACCACTGGCTCGAAGGCCCTTCGGAACT
1 AAG-TCCGACTATTAGCACTGGCTCAAAAGCCCTTCGAAACT
** *
127100 AAGTCCGGTTA-TGGCACTGGCTCTAAAAAGCCCTTCGAAACT
1 AAGTCCGACTATTAGCACTGGCTC--AAAAGCCCTTCGAAACT
*
127142 AAGTTCGACTATTAGCACTGGCTCAAAAGCCCTTCGA
1 AAGTCCGACTATTAGCACTGGCTCAAAAGCCCTTCGA
127179 GACCAAGCTC
Statistics
Matches: 92, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
40 17 0.18
41 37 0.40
42 27 0.29
43 11 0.12
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (41 bp):
AAGTCCGACTATTAGCACTGGCTCAAAAGCCCTTCGAAACT
Found at i:128992 original size:48 final size:48
Alignment explanation
Indices: 128921--129017 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
128911 TTCCCACTAG
128921 GGTCAATTTAGGGGTGTCACATCATAATAATCATAAAATAAATATTTT
1 GGTCAATTTAGGGGTGTCACATCATAATAATCATAAAATAAATATTTT
128969 GGTCAATTTAGGGGTGTCACATCATAATAATCATAAAATAAATATTTT
1 GGTCAATTTAGGGGTGTCACATCATAATAATCATAAAATAAATATTTT
129017 G
1 G
129018 ATGTCAAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (48 bp):
GGTCAATTTAGGGGTGTCACATCATAATAATCATAAAATAAATATTTT
Found at i:134326 original size:13 final size:13
Alignment explanation
Indices: 134308--134349 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
134298 CACATGACCG
134308 GTCGCACAGCCGT
1 GTCGCACAGCCGT
* *
134321 GTCGCACGGTCGT
1 GTCGCACAGCCGT
*
134334 GTCGCACAGCTGT
1 GTCGCACAGCCGT
134347 GTC
1 GTC
134350 TTGCTTTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.33, T:0.21
Consensus pattern (13 bp):
GTCGCACAGCCGT
Found at i:140282 original size:610 final size:612
Alignment explanation
Indices: 138557--141006 Score: 3666
Period size: 611 Copynumber: 4.0 Consensus size: 612
138547 TAGAATGAAT
* ** * * * ** *
138557 TACCTCGACTGTGCTGTATGGGAAAATACTAAGTACCGTAAGAGGGATTTCTCCATTAGGTTTAG
1 TACCTCGACTGTACCATATGGGAAAATATTGAGTACCGTAAGAGGGATTACTTTATTAGGTTCAG
* * * * * *
138622 AGGTGGAAAT-CTGAGGGTCTGCTGCATCTAATAGTACTTTGTCTCCAAACTTAAGTTGATTTGG
66 AAGTGGTAATGC-AAGGATCTGCTGCATCTAGTAGTACTTTGTCTCCAACCTTAAGTTGATTTGG
* ** * * * * *
138686 TAAAATATTGAACTCGTCATGGCAT-GGTTTT--AGTTTATCGTGTGATCTCGATTTTTGTGTCC
130 TGATGTATTGAACTCGTCCTTGC-TCAGTTTTCGAGTTTATCG-GTGTTCTCGATTTCTGTGTCC
138748 GCCATTCATCTAGTTCCTCGATCTGTAGCCGTCGTTCTTCATAGATAGGTCCTTTGTTGTTGCCT
193 GCCATTCATCTAGTTCCTCGATCTGTAGCCGTCGTTCTTCATAGATAGGTCCTTTGTTGTTGCCT
* *
138813 GAACATGGCTCGTGTAGGTTTTCCGAACTTATTTCCTGCAAAGGAGGTTACACCACATGGTCAGT
258 GAACATGGCTCGTGTAGGTTCTCCGAACTTATTTCCTGCAAAGGAGGTTGCACCACATGGTCAGT
* *
138878 TTTAGTAGAATCATTTATACAACCACCTTCAATTTTTGATGTGTTATTCAAATTACGAGCTTGAA
323 TTTAGTAGAATGATTTATACAACCACCTTCAATTTTCGATGTGTTATTCAAATTACGAGCTTGAA
*
138943 GGGTGATTGTTTCATCTCCCACACGAAGTGTGAGTTCCCTTGTGCTGACATCAATAATGGTTCTA
388 GGGTGATTGTTTCATCTCCCACACGAAGTGTGAGTTCACTTGTGCTGACATCAATAATGGTTCTA
* * * *
139008 GCAGTCGCT-AAAAGGGTCGTCTTAAAATCAAAGGTGCGTTACTCTTTTCTTCCATGTCTAAAAC
453 GCAGTCGCTAAAAAGGGTCGTCCTAAAATCAAAGGTGCATTACTATCTTCTTCCATGTCTAAAAC
139072 AACAAAGTCTACTGGGTATATAAATTTATCGATCTTAACAAGAACATCTTCAATGATACCTCTAG
518 AACAAAGTCTACTGGGTATATAAATTTATCGATCTTAACAAGAACATCTTCAATGATACCTCTAG
*
139137 GAAATCTAATGGTTTTATCATCTTCAACGA
583 GAAATCTAATGGTTTTATCATCTTCAAAGA
*
139167 TACCTCGACTGTACTATATGGGAAAATATTGAGTACCGTAAGAGGGATTACTTTATTAGGTTCAG
1 TACCTCGACTGTACCATATGGGAAAATATTGAGTACCGTAAGAGGGATTACTTTATTAGGTTCAG
*
139232 AAGTGGTAATGCAAGGATCTGCTGCATCTAGTAGTACTTTGTCTCCAACATTAAGTTGATTTGGT
66 AAGTGGTAATGCAAGGATCTGCTGCATCTAGTAGTACTTTGTCTCCAACCTTAAGTTGATTTGGT
* *
139297 GATGGATTGAACTCGT-CTTGGCTCAATTTTGGTTTATTGAGTGTTTTTAGTTTATCGGGTGTTC
131 GATGTATTGAACTCGTCCTT-GCTC-A-----G-TT-TT---CG-----AGTTTATC-GGTGTTC
* * * *
139361 TCGATTTCAGTGTCCACCATTTATCTAGTTCCTCGATTTGTAGCCGTCGTTCTTCATAGATAGG-
178 TCGATTTCTGTGTCCGCCATTCATCTAGTTCCTCGATCTGTAGCCGTCGTTCTTCATAGATAGGT
* * *
139425 CCTTTGTTGTTGCCTGAACATGGCTCGTATAGGTTCTTCGAACTTATTTCCTGCAAAGTAGGTTG
243 CCTTTGTTGTTGCCTGAACATGGCTCGTGTAGGTTCTCCGAACTTATTTCCTGCAAAGGAGGTTG
* * * * *
139490 CACCAGATGGTCAATTTTAGTAGAATAATTTAGACAACCACCTTCAATTTTCGATGTGTTATTCG
308 CACCACATGGTCAGTTTTAGTAGAATGATTTATACAACCACCTTCAATTTTCGATGTGTTATTCA
* * *
139555 AATTACGAGCTTGAAGGGTGATTGTTTCATCTCCTACATGAAGTGTGAGTTCACTTGTGCCGACA
373 AATTACGAGCTTGAAGGGTGATTGTTTCATCTCCCACACGAAGTGTGAGTTCACTTGTGCTGACA
* *
139620 TCAATAATGGTTCTAGCAGTCACTAAAAAGGGTCGTCTTAAAATCAAAGGTGCATTACTATCTTC
438 TCAATAATGGTTCTAGCAGTCGCTAAAAAGGGTCGTCCTAAAATCAAAGGTGCATTACTATCTTC
139685 TTCCATGTCTAAAACAACAAAGTCTACTGGGTATAT-AATTTATCGATCTTAACAAGAACATCTT
503 TTCCATGTCTAAAACAACAAAGTCTACTGGGTATATAAATTTATCGATCTTAACAAGAACATCTT
* *
139749 CAATGATACCTCTAGGAAATCTAATGGTTCTATCATCTTCAATGA
568 CAATGATACCTCTAGGAAATCTAATGGTTTTATCATCTTCAAAGA
139794 TACCTCGACTGTACCATATGGGAAAATATTGAGTACCGTAAGAGGGATTACTTTATTAGGTTCAG
1 TACCTCGACTGTACCATATGGGAAAATATTGAGTACCGTAAGAGGGATTACTTTATTAGGTTCAG
139859 AAGTGGTAATGCAAGGATCTGCTGCATCTAGTAGTACTTTGTCTCCAACCTTAAGTTGATTTGGT
66 AAGTGGTAATGCAAGGATCTGCTGCATCTAGTAGTACTTTGTCTCCAACCTTAAGTTGATTTGGT
* * *
139924 GATGTATTGAGCTTGTCCTTGCTCAG-TTTCGA-TTTATCGAGTGTTCTCGATTTCTGTGTCTGC
131 GATGTATTGAACTCGTCCTTGCTCAGTTTTCGAGTTTATCG-GTGTTCTCGATTTCTGTGTCCGC
* * *
139987 CATTCATCTAGTTCCTCGATCTATAACCGTCGTTCTTCATAGATAGGTTCTTTGTTGTTGCCTGA
195 CATTCATCTAGTTCCTCGATCTGTAGCCGTCGTTCTTCATAGATAGGTCCTTTGTTGTTGCCTGA
*
140052 ACATGGCTCGTGTAGGTTCTCCGAACTTATTTCCTGCAAAGGAGGTTGCACCATATGGTCAGTTT
260 ACATGGCTCGTGTAGGTTCTCCGAACTTATTTCCTGCAAAGGAGGTTGCACCACATGGTCAGTTT
*
140117 TAGTAGTATGATTTATACAACCACCTTCAATTTTCGATGTGTTATTCAAATTACGAGCTTGAAGG
325 TAGTAGAATGATTTATACAACCACCTTCAATTTTCGATGTGTTATTCAAATTACGAGCTTGAAGG
**
140182 GTGATTGTTTCATCTCCCACACGAAGTGTGAGTTCACTTGTGCTGACATCAATAATGGTTCTATT
390 GTGATTGTTTCATCTCCCACACGAAGTGTGAGTTCACTTGTGCTGACATCAATAATGGTTCTAGC
* *
140247 AGTCGCTAAAACGGGTCGTCCTAAAATCAAAGGTGCATTACTATTTTCTTCCATGTCTAAAACAA
455 AGTCGCTAAAAAGGGTCGTCCTAAAATCAAAGGTGCATTACTATCTTCTTCCATGTCTAAAACAA
* *
140312 CAAAGTCTACTGGGTATATAAATTTATCGATCTTAAGAAGAACATCTTCAATGATACTTCTAGGA
520 CAAAGTCTACTGGGTATATAAATTTATCGATCTTAACAAGAACATCTTCAATGATACCTCTAGGA
140377 AATCTAATGGTTTTATCATCTTCAAAGA
585 AATCTAATGGTTTTATCATCTTCAAAGA
140405 TACCTCGACTGTACCATATGGGAAAATATTGAGTACCGTAAGAGGGATTACTTTATTAGGTTCAG
1 TACCTCGACTGTACCATATGGGAAAATATTGAGTACCGTAAGAGGGATTACTTTATTAGGTTCAG
* *
140470 AAGTGGTAATGCAAGGATCTGCTGTATCTAGTAGTACTTTGTCTCCAACCTTAAGTTGATTTCGT
66 AAGTGGTAATGCAAGGATCTGCTGCATCTAGTAGTACTTTGTCTCCAACCTTAAGTTGATTTGGT
* * * * * * * * * *
140535 GATGTGTTGAGCTTGTCCTAGCTC-GATTTCG-GTTTATAGGGGGTCTCAATTTTTGTGTCCGCC
131 GATGTATTGAACTCGTCCTTGCTCAGTTTTCGAGTTTATCGGTGTTCTCGATTTCTGTGTCCGCC
* *
140598 ATTCATCTAGTTCCTCGATTTGTAGTCGTCGTTCTTCATAGATAGGTCCTTTTGTTGTTGCCTGA
196 ATTCATCTAGTTCCTCGATCTGTAGCCGTCGTTCTTCATAGATAGGTCC-TTTGTTGTTGCCTGA
* * * * * *
140663 ACATGTCTCGTGTAGATTTTTCGAACTTATTTCCTGCAAAGTAGGTTGCATCACATGGTCAGTTT
260 ACATGGCTCGTGTAGGTTCTCCGAACTTATTTCCTGCAAAGGAGGTTGCACCACATGGTCAGTTT
* *
140728 TAGTAGATTGATTTATACAACCACCTTCAATTTTCGATGTGTTATTCGAATTACGAGCTTGAAGG
325 TAGTAGAATGATTTATACAACCACCTTCAATTTTCGATGTGTTATTCAAATTACGAGCTTGAAGG
* * *
140793 GTGATTGTTTCATCTCCCACACGAAGTGTGAGTTCACCTATGTTGACATCAATAATGGTTCTAGC
390 GTGATTGTTTCATCTCCCACACGAAGTGTGAGTTCACTTGTGCTGACATCAATAATGGTTCTAGC
* * *
140858 AGTCGCTAAAAAGGGT-GGCTCTAAAATCAAAGGTGCGTTGCTATCTTCTTCCATGTCTAAAACA
455 AGTCGCTAAAAAGGGTCGTC-CTAAAATCAAAGGTGCATTACTATCTTCTTCCATGTCTAAAAC-
** * *
140922 AACAAAGTCTACCAGGTATATAAATTTATCGATCTTAGCAAGAACATCTTCAATGATACCTCTAA
518 AACAAAGTCTACTGGGTATATAAATTTATCGATCTTAACAAGAACATCTTCAATGATACCTCTAG
140987 GAAATCTAATGGTTTTATCA
583 GAAATCTAATGGTTTTATCA
141007 GCCAATTGAA
Statistics
Matches: 1682, Mismatches: 126, Indels: 62
0.90 0.07 0.03
Matches are distributed among these distances:
608 1 0.00
609 71 0.04
610 471 0.28
611 481 0.29
612 79 0.05
615 1 0.00
616 1 0.00
617 2 0.00
618 4 0.00
619 1 0.00
621 1 0.00
626 1 0.00
627 419 0.25
628 148 0.09
629 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (612 bp):
TACCTCGACTGTACCATATGGGAAAATATTGAGTACCGTAAGAGGGATTACTTTATTAGGTTCAG
AAGTGGTAATGCAAGGATCTGCTGCATCTAGTAGTACTTTGTCTCCAACCTTAAGTTGATTTGGT
GATGTATTGAACTCGTCCTTGCTCAGTTTTCGAGTTTATCGGTGTTCTCGATTTCTGTGTCCGCC
ATTCATCTAGTTCCTCGATCTGTAGCCGTCGTTCTTCATAGATAGGTCCTTTGTTGTTGCCTGAA
CATGGCTCGTGTAGGTTCTCCGAACTTATTTCCTGCAAAGGAGGTTGCACCACATGGTCAGTTTT
AGTAGAATGATTTATACAACCACCTTCAATTTTCGATGTGTTATTCAAATTACGAGCTTGAAGGG
TGATTGTTTCATCTCCCACACGAAGTGTGAGTTCACTTGTGCTGACATCAATAATGGTTCTAGCA
GTCGCTAAAAAGGGTCGTCCTAAAATCAAAGGTGCATTACTATCTTCTTCCATGTCTAAAACAAC
AAAGTCTACTGGGTATATAAATTTATCGATCTTAACAAGAACATCTTCAATGATACCTCTAGGAA
ATCTAATGGTTTTATCATCTTCAAAGA
Found at i:153740 original size:31 final size:31
Alignment explanation
Indices: 153702--153765 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
153692 TTTAAGGAAT
153702 TTACCAAATTGTTCATCTGAGCGGTCTTTCC
1 TTACCAAATTGTTCATCTGAGCGGTCTTTCC
*
153733 TTACCAAATTGTTCATCTGAGTGGTCTTTCC
1 TTACCAAATTGTTCATCTGAGCGGTCTTTCC
153764 TT
1 TT
153766 GTCGCGTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (31 bp):
TTACCAAATTGTTCATCTGAGCGGTCTTTCC
Found at i:157155 original size:20 final size:20
Alignment explanation
Indices: 157130--157202 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
157120 GGTCACACAT
*
157130 GCCCGTGTAGCTTAGGACAC
1 GCCCGTGTCGCTTAGGACAC
157150 GCCCGTGTCGCTTAGGACAC
1 GCCCGTGTCGCTTAGGACAC
*
157170 GTCCGTGTCGCTTAGGACAC
1 GCCCGTGTCGCTTAGGACAC
157190 GCCCGTGTC-CTTA
1 GCCCGTGTCGCTTA
157203 TCCCGTGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
19 4 0.08
20 46 0.92
ACGTcount: A:0.15, C:0.33, G:0.29, T:0.23
Consensus pattern (20 bp):
GCCCGTGTCGCTTAGGACAC
Found at i:160880 original size:21 final size:21
Alignment explanation
Indices: 160839--160880 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
160829 AACCATTTTA
*
160839 GCCAAAATAAGCCAATTACAT
1 GCCAAAATAAGCCAATCACAT
160860 GCCAAATATAAGCCAA-CACAT
1 GCCAAA-ATAAGCCAATCACAT
160881 TTGGCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.48, C:0.26, G:0.10, T:0.17
Consensus pattern (21 bp):
GCCAAAATAAGCCAATCACAT
Found at i:171330 original size:32 final size:32
Alignment explanation
Indices: 171294--171359 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
171284 ATGAGAATTC
*
171294 ATTTCTCTAGGTTTCTTTGACTGAGATTGAAT
1 ATTTCTCTAGATTTCTTTGACTGAGATTGAAT
*
171326 ATTTCTTTAGATTTCTTTGACTGAGATTGAAT
1 ATTTCTCTAGATTTCTTTGACTGAGATTGAAT
171358 AT
1 AT
171360 GACTTACTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (32 bp):
ATTTCTCTAGATTTCTTTGACTGAGATTGAAT
Found at i:172533 original size:48 final size:48
Alignment explanation
Indices: 172480--172576 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
172470 GATTTAATAA
*
172480 TTGAAATAAAATGAATTAAATAAAAGAGAAGAAAGATGAAGGTGTTCG
1 TTGAAATAAAATGAATTAAATAAAAGAGAAGAAAGAGGAAGGTGTTCG
172528 TTGAAATAAAATGAATTAAATAAAAGAGAAGAAAGAGGAAGGTGTTCG
1 TTGAAATAAAATGAATTAAATAAAAGAGAAGAAAGAGGAAGGTGTTCG
172576 T
1 T
172577 CTTCTTCTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.23
Consensus pattern (48 bp):
TTGAAATAAAATGAATTAAATAAAAGAGAAGAAAGAGGAAGGTGTTCG
Found at i:174973 original size:47 final size:47
Alignment explanation
Indices: 174904--175059 Score: 174
Period size: 47 Copynumber: 3.3 Consensus size: 47
174894 GGCTTAAGAT
*
174904 CGAATGGCCAACGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** *
174951 CGAATGGCCAATGTGATGAATGTGGAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** * * *
174998 CGGATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGACAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
175043 CGAATGGCCAATTGTGA
1 CGAATGGCCAA-TGTGA
175060 AAAGTGTGCA
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
45 21 0.23
46 6 0.07
47 63 0.70
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:175212 original size:40 final size:39
Alignment explanation
Indices: 175136--175214 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
175126 ATTGTGCGGA
* * * *
175136 GATTGTATCTGGGTTAGAGACCCGCTGGCTTCATGCTGG
1 GATTGTATCCGGGTTAAAGACCCGCAGGCTTAATGCTGG
*
175175 GATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAATGCTGG
1 GATTGTATCCGGG-TTAAAGACCCGCAGGCTTAATGCTGG
175215 TGAATTAAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 12 0.35
40 22 0.65
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (39 bp):
GATTGTATCCGGGTTAAAGACCCGCAGGCTTAATGCTGG
Found at i:184029 original size:40 final size:40
Alignment explanation
Indices: 183967--184224 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
183957 AAGCCAAGTA
* * * *
183967 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
184006 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
184046 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
184086 CCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
184126 CTTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
184166 CTTTCGAGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
184206 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
184225 TTATCATCCA
Statistics
Matches: 196, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.07
40 183 0.93
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:186045 original size:40 final size:40
Alignment explanation
Indices: 186000--186190 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
185990 TAGATATCTG
* *
186000 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCA
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCA
* *
186040 GGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCA
* *
186080 GGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTATAT-CA
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCA
*
186119 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 -GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCA
* *
186160 GGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
186191 ATGTGTATTC
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCA
Found at i:190074 original size:47 final size:47
Alignment explanation
Indices: 190005--190160 Score: 174
Period size: 47 Copynumber: 3.3 Consensus size: 47
189995 GGCCTAAGAT
*
190005 CGAATGGCCAACGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** *
190052 CGAATGGCCAATGTGATGAATGTGGAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** * * *
190099 CGGATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGACAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
190144 CGAATGGCCAATTGTGA
1 CGAATGGCCAA-TGTGA
190161 AAAGTGTTCA
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
45 21 0.23
46 6 0.07
47 63 0.70
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:200311 original size:21 final size:21
Alignment explanation
Indices: 200278--200317 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
200268 GGGTAGCTTC
* * *
200278 ATGGGTGTTTCACGACATCTA
1 ATGGATGTGTCACAACATCTA
200299 ATGGATGTGTCACAACATC
1 ATGGATGTGTCACAACATC
200318 AAAGGCAGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (21 bp):
ATGGATGTGTCACAACATCTA
Found at i:202221 original size:14 final size:14
Alignment explanation
Indices: 202202--202230 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
202192 TCTAATTTTC
202202 TACTCTTGATCTAT
1 TACTCTTGATCTAT
202216 TACTCTTGATCTAT
1 TACTCTTGATCTAT
202230 T
1 T
202231 CTTCATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (14 bp):
TACTCTTGATCTAT
Found at i:204750 original size:79 final size:80
Alignment explanation
Indices: 204608--204788 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
204598 TACTCGTTCA
* **
204608 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
204673 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
204688 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
204750 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
204767 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
204789 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.67
80 26 0.30
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:204790 original size:40 final size:40
Alignment explanation
Indices: 204587--204790 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
204577 CGGAATTTAA
** *
204587 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
204627 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
204667 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
204706 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
204746 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
204786 CCGGA
1 CCGGA
204791 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:220215 original size:40 final size:39
Alignment explanation
Indices: 220170--220260 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
220160 TTAACAATAA
* **
220170 AAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGG-CTTAACCCGGAACTAGTAACTCGCAC
* * *
220210 CAATGCCTTCTGGCTTAGCCCGGAACTAGTAACTCGCAC
1 AAATGCCTTCGGGCTTAACCCGGAACTAGTAACTCGCAC
220249 AAATGCCTTCGG
1 AAATGCCTTCGG
220261 ATCTTAGTCC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 32 0.74
40 11 0.26
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
AAATGCCTTCGGGCTTAACCCGGAACTAGTAACTCGCAC
Found at i:225684 original size:179 final size:179
Alignment explanation
Indices: 225384--225740 Score: 696
Period size: 179 Copynumber: 2.0 Consensus size: 179
225374 GAAGTTCAGG
225384 GAGGACATTAAGAAGTCGAGGGCGACTGCGGGAATTTCCATCAGGGCAAGACCATCGATGGGCTC
1 GAGGACATTAAGAAGTCGAGGGCGACTGCGGGAATTTCCATCAGGGCAAGACCATCGATGGGCTC
*
225449 CCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGTCACGAGAAACCTGAATGTCCCCAATGTG
66 CCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGGCACGAGAAACCTGAATGTCCCCAATGTG
*
225514 GAAGACGACACCTAGGTGAATGTTGGGGCAAGTCTACTAGCAGGGCCTA
131 GAAGACGACACCTAGGTGAATGTTGGGGCAAGTCTACTAACAGGGCCTA
225563 GAGGACATTAAGAAGTCGAGGGCGACTGCGGGAATTTCCATCAGGGCAAGACCATCGATGGGCTC
1 GAGGACATTAAGAAGTCGAGGGCGACTGCGGGAATTTCCATCAGGGCAAGACCATCGATGGGCTC
225628 CCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGGCACGAGAAACCTGAATGTCCCCAATGTG
66 CCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGGCACGAGAAACCTGAATGTCCCCAATGTG
225693 GAAGACGACACCTAGGTGAATGTTGGGGCAAGTCTACTAACAGGGCCT
131 GAAGACGACACCTAGGTGAATGTTGGGGCAAGTCTACTAACAGGGCCT
225741 GTTACGGATG
Statistics
Matches: 176, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 176 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.19
Consensus pattern (179 bp):
GAGGACATTAAGAAGTCGAGGGCGACTGCGGGAATTTCCATCAGGGCAAGACCATCGATGGGCTC
CCGAGCTACTTCGGTAGCTAGTGTGGGCAATAATCGGCACGAGAAACCTGAATGTCCCCAATGTG
GAAGACGACACCTAGGTGAATGTTGGGGCAAGTCTACTAACAGGGCCTA
Found at i:226283 original size:50 final size:50
Alignment explanation
Indices: 226205--226300 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
226195 TCCAGCCGAT
* * *
226205 TTGATGCTTTTGCTGTTCGACGAGTTTGATGTTATTCTTGGTTTGGCGAC
1 TTGATGCTTTTGCCGTTCGACGAATTTGATGTTATCCTTGGTTTGGCGAC
* *
226255 TTGATGCTTTTGCCGTTTGATGAATTTGATGTTATCCTTGGTTTGG
1 TTGATGCTTTTGCCGTTCGACGAATTTGATGTTATCCTTGGTTTGG
226301 ATTGGTTGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.12, C:0.12, G:0.27, T:0.48
Consensus pattern (50 bp):
TTGATGCTTTTGCCGTTCGACGAATTTGATGTTATCCTTGGTTTGGCGAC
Found at i:229381 original size:161 final size:161
Alignment explanation
Indices: 229105--229425 Score: 457
Period size: 161 Copynumber: 2.0 Consensus size: 161
229095 CCCCCTGAAC
* *
229105 TTGAAAGGATGCACGATGTCTTCCATGTTTCAATGCTTCGACGTTATAGATCCGATCCGTCACAT
1 TTGAAAAGATGCACGATGTCTTCCATGTTTCAATGCTTCGACGCTATAGATCCGATCCGTCACAT
* * * * * *
229170 GTGATTAATCCCTCAGAAGTTGAAATTCAATCTGACTTGAGCTATGAAGAAGAACCGATTCGTAT
66 ATAATTAAGCCCTCAGAAGTTGAAATTCAAGCCGACTTGAGCTATGAAGAAGAACCGATACGTAT
229235 CCTAGCTCGTGAAGTGAAAGAGTTGCGAAAT
131 CCTAGCTCGTGAAGTGAAAGAGTTGCGAAAT
* * * * * *
229266 TTGAAAAGATTCACGATGTCTTTCATGTTTCGATGCTTCGACGCTATCGATCTGATCCGTCGCAT
1 TTGAAAAGATGCACGATGTCTTCCATGTTTCAATGCTTCGACGCTATAGATCCGATCCGTCACAT
* *
229331 ATAATT-AGCCCATCAGAGGTTGAAATTCAAGCCGA-TATGAGTTATGAAGAAGAACCGATACGT
66 ATAATTAAGCCC-TCAGAAGTTGAAATTCAAGCCGACT-TGAGCTATGAAGAAGAACCGATACGT
*
229394 ATCCTAGCTCGTGAGGTGAAAGAGTTGCGAAA
129 ATCCTAGCTCGTGAAGTGAAAGAGTTGCGAAA
229426 CAAAAGGGTT
Statistics
Matches: 141, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
160 5 0.04
161 136 0.96
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (161 bp):
TTGAAAAGATGCACGATGTCTTCCATGTTTCAATGCTTCGACGCTATAGATCCGATCCGTCACAT
ATAATTAAGCCCTCAGAAGTTGAAATTCAAGCCGACTTGAGCTATGAAGAAGAACCGATACGTAT
CCTAGCTCGTGAAGTGAAAGAGTTGCGAAAT
Found at i:239322 original size:30 final size:30
Alignment explanation
Indices: 239286--239345 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
239276 AATCAATTGT
* *
239286 AGGACATCGGAAGGGATCTCGGTAGCAGTC
1 AGGACATCGGAAGAGATCTCAGTAGCAGTC
239316 AGGACATCGGAAGAGATCTCAGTAGCAGTC
1 AGGACATCGGAAGAGATCTCAGTAGCAGTC
239346 GTCGCGAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.17
Consensus pattern (30 bp):
AGGACATCGGAAGAGATCTCAGTAGCAGTC
Found at i:244482 original size:55 final size:54
Alignment explanation
Indices: 244387--244536 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
244377 CTACTTTGTT
* ** * *
244387 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
244441 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
244496 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
244537 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:244499 original size:27 final size:27
Alignment explanation
Indices: 244359--244536 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
244349 TAAATTGTAC
244359 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
244386 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
244412 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
244440 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
244468 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
244495 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
244522 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
244537 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:244500 original size:82 final size:81
Alignment explanation
Indices: 244360--244515 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
244350 AAATTGTACA
* * * *
244360 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
244425 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
244441 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
244504 TGTGCGAGTTGA
63 TGTGCGAATTGA
244516 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:256455 original size:300 final size:298
Alignment explanation
Indices: 255915--256512 Score: 1088
Period size: 300 Copynumber: 2.0 Consensus size: 298
255905 GACGAATGAG
*
255915 GAGTTGGGTTCGGTTTCTTCGTCTTTAGAAGCAAGAAAAAAGATGTTCAACACAACAAAAGGAAA
1 GAGTTGGGTTCGGTTTCTTCGACTTTAGAAGCAAGAAAAAAGATGTTCAACACAACAAAAGGAAA
255980 AAGGCTACCAATGTTAGCTAAAGAGAATTCGGCAGGCTTGACTCAAAGACGAAAAGAGAAGAAAT
66 AAGGCTACCAATGTTAGCTAAAGAGAATTCGGCAGGCTTGACTCAAAGACGAAAAGAGAAGAAAT
256045 TGAGAAGAGGTAAGAGTCACAATTAATTCGGCACAAAAGTGTAACACAAAAAAACCAAAAGTTGC
131 TGAGAAGAGGTAAGAGTCACAATTAATTCGGCACAAAAGTGTAACACAAAAAAACCAAAAGTTGC
*
256110 AAAGAAGGATTCAACACCTACTCTTAAACATCAATTATCGAAAATGCCTAACCCAAAACCCCTTG
196 AAAGAAGGATTCAACACCTACTCCTAAACATCAATTATCGAAAATGCCTAACCCAAAACCCCTTG
*
256175 GTTGAATTTGCACCCTCACACACACCCATTCGGCTACA
261 GTCGAATTTGCACCCTCACACACACCCATTCGGCTACA
*
256213 GAGTTGGGTTCGGTTTCTTCGACTTTAGAAGCAAGAAAAAAGATGTTCAACAGAACAAAAGGAAA
1 GAGTTGGGTTCGGTTTCTTCGACTTTAGAAGCAAGAAAAAAGATGTTCAACACAACAAAAGG-AA
*
256278 AAAGGCTACCAATGTTCGGCTAAAGAGAATTCGGCAGGCTTGACTCAAAGACGAAAAGAGAAGAA
65 AAAGGCTACCAATGTT-AGCTAAAGAGAATTCGGCAGGCTTGACTCAAAGACGAAAAGAGAAGAA
*
256343 ATTGAGAAGAGGTAAGAGTCACAATTAATTCGGCACAAAAGTGTAACACCAAAAAACCAAAAGTT
129 ATTGAGAAGAGGTAAGAGTCACAATTAATTCGGCACAAAAGTGTAACACAAAAAAACCAAAAGTT
** *
256408 GCAAAGAAGGATTCGGCACTTACTCCTAAACATCAATTATCGAAAATGCCTAACCCAAAACCCCT
194 GCAAAGAAGGATTCAACACCTACTCCTAAACATCAATTATCGAAAATGCCTAACCCAAAACCCCT
*
256473 TGGTCGAATTTGCACCCTCACACACGCCCATTCGGCTACA
259 TGGTCGAATTTGCACCCTCACACACACCCATTCGGCTACA
256513 ACTCCTCCCC
Statistics
Matches: 288, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
298 60 0.21
299 18 0.06
300 210 0.73
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (298 bp):
GAGTTGGGTTCGGTTTCTTCGACTTTAGAAGCAAGAAAAAAGATGTTCAACACAACAAAAGGAAA
AAGGCTACCAATGTTAGCTAAAGAGAATTCGGCAGGCTTGACTCAAAGACGAAAAGAGAAGAAAT
TGAGAAGAGGTAAGAGTCACAATTAATTCGGCACAAAAGTGTAACACAAAAAAACCAAAAGTTGC
AAAGAAGGATTCAACACCTACTCCTAAACATCAATTATCGAAAATGCCTAACCCAAAACCCCTTG
GTCGAATTTGCACCCTCACACACACCCATTCGGCTACA
Found at i:262530 original size:33 final size:33
Alignment explanation
Indices: 262493--262573 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
262483 GTGAATCACA
*
262493 CAGTATCAATACAGTCTGGGCCAAAGCCCTATT
1 CAGTATCAGTACAGTCTGGGCCAAAGCCCTATT
* *
262526 CAGTATCAGTACATTCTGGGCTAAAGCCCTATT
1 CAGTATCAGTACAGTCTGGGCCAAAGCCCTATT
*
262559 TAGTATCAGTACAGT
1 CAGTATCAGTACAGT
262574 GCAAAATGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTGGGCCAAAGCCCTATT
Found at i:263249 original size:19 final size:19
Alignment explanation
Indices: 263214--263251 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
263204 CGTGCGAGCC
*
263214 CACGTGCCCATTGGGCCCA
1 CACGTGCCCATTAGGCCCA
263233 CACG-GCCCATCTAGGCCCA
1 CACGTGCCCAT-TAGGCCCA
263252 TAGAAGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (19 bp):
CACGTGCCCATTAGGCCCA
Found at i:273294 original size:41 final size:40
Alignment explanation
Indices: 273236--273383 Score: 142
Period size: 41 Copynumber: 3.6 Consensus size: 40
273226 GAGCTTGATC
*
273236 TCGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTT
1 TCGAAGGGC-TTTGAGCCAGTGCTAATAACCGAACTTAGTT
*
273277 TCGAAGGGCTTTAGAGCCAGTG-TCAA-AACCGGACTTAGTT
1 TCGAAGGGCTTT-GAGCCAGTGCT-AATAACCGAACTTAGTT
* * * * *
273317 CCGAAGGGCCTTCGAGCCAGTGATCTAAT--CCGAGCTTGGTC
1 TCGAAGGG-CTTTGAGCCAGTG--CTAATAACCGAACTTAGTT
273358 TCGAAGGGCTCTTGAGCCAGTGCTAA
1 TCGAAGGGCT-TTGAGCCAGTGCTAA
273384 GAATCGGGCT
Statistics
Matches: 89, Mismatches: 10, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 4 0.04
40 34 0.38
41 48 0.54
42 2 0.02
43 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCGAAGGGCTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:281133 original size:41 final size:40
Alignment explanation
Indices: 281075--281215 Score: 133
Period size: 41 Copynumber: 3.5 Consensus size: 40
281065 GAGCTTGGTC
* *
281075 TCGAAGGGCTTTTGAGCCAGTG-CTAATAACTGAACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGTC-AA-AACCGAACTTAGTT
*
281116 TCGAAGGGCTTTAGAGCCAGTGTCAAAACCGGACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGTCAAAACCGAACTTAGTT
* * * * * * * *
281156 CCGAAGGGCCTTGGAGCCAGTGATCTAATCCGAGCTTGGTC
1 TCGAAGGGCTTTAGAGCCAGTG-TCAAAACCGAACTTAGTT
281197 TCGAAGGGCTCTT-GAGCCA
1 TCGAAGGGCT-TTAGAGCCA
281216 ATGCTAAGAA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
40 31 0.37
41 49 0.59
42 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCGAAGGGCTTTAGAGCCAGTGTCAAAACCGAACTTAGTT
Found at i:281163 original size:40 final size:41
Alignment explanation
Indices: 281076--281177 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 41
281066 AGCTTGGTCT
* * *
281076 CGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAGTTT
1 CGAAGGGCTTTAGAGCCAGTGCTAATAACCGAACTTAGTTC
*
281117 CGAAGGGCTTTAGAGCCAGTG-TCAA-AACCGGACTTAGTTC
1 CGAAGGGCTTTAGAGCCAGTGCT-AATAACCGAACTTAGTTC
* *
281157 CGAAGGGCCTTGGAGCCAGTG
1 CGAAGGGCTTTAGAGCCAGTG
281178 ATCTAATCCG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
40 32 0.59
41 22 0.41
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
CGAAGGGCTTTAGAGCCAGTGCTAATAACCGAACTTAGTTC
Found at i:282741 original size:18 final size:18
Alignment explanation
Indices: 282715--282758 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
282705 CAGTCTTGAT
*
282715 GATGAATCCGACTTTTAA
1 GATGGATCCGACTTTTAA
*
282733 GATGGATCCGGCTTTTAA
1 GATGGATCCGACTTTTAA
282751 GATGGATC
1 GATGGATC
282759 AGTTGGCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (18 bp):
GATGGATCCGACTTTTAA
Found at i:283656 original size:438 final size:437
Alignment explanation
Indices: 282824--283675 Score: 1140
Period size: 438 Copynumber: 1.9 Consensus size: 437
282814 TCTTCAAGGG
* * * * *
282824 TGTATTTATAGGCTTTGGAATGCCTATGAACCCTCAAAAGTGGCCTTTTTCGAATTGGACTTAAC
1 TGTATTTATAGGCTTTAGAATGCCTAAGAACCCTCAAAAGTGGCCTTTTCCGAATTAGACTCAAC
* * * ** * *
282889 TTAGGCTCGGCAGGGACACGCCCGTGTGCGATTACTTTAGGCTGTGTTCGAGCCGTTAGAATGGC
66 TTAGGCTCGACAGGGACACGCCCATGTGCGATTACTTCAGGCCATGGTCAAGCCGTTAGAATGGC
* * * ** * *
282954 ACGGGCGTGTGCTATACCCGTGTGAGTCATGCTTCGATTCTGCCGGATTGACACGGCCGTGTGGT
131 ACGAGCGTGTGCTACACCCGTGTGAGTCATGCTTCAATTCTGCCAAATTGACACAGCCATGTGGT
*
283019 CTGCCTGTGTGAGGAAGTCTAGGCTGTGTTAAGTTCGTACTTTGGCCCATTTTCTCTGTTTTTGG
196 CTGCCCGTGTGAGGAAGTCTAGGCTGTGTTAAGTTCGTACTTTGGCCCATTTTCTCTGTTTTTGG
* * * *
283084 CCCATTTTTCGTTTCTTTCGCTCTCCTATACTCTCCTAAGTATAAAACATGAAATTAAAGCATTA
261 CCCATTTCTCGTTCCTTTCACTCTCCTATACTCACCTAAGTATAAAACATGAAATTAAAGCATTA
* * * *
283149 GGAGCACCGAATTCACCAATTCTAATAGACAATCATCCATAAAATGCGTTAAACATAGGGTAAAA
326 GGAGCACCGAATTCACCAAATCTAAGAGAAAATCATCCATAAAATGCGCTAAACATAGGGTAAAA
283214 ATATGTATAAATTACGGTTTATCACCCCCTTTCCCTCCTCCTCTAGT
391 ATATGTATAAATTACGGTTTATCACCCCCTTTCCCTCCTCCTCTAGT
* * *
283261 TGTATTTATAGGCTTTAGAATGCTTAAGAACCCTCAAAATTGGCCTTTTCCGAATTAGACTCAAT
1 TGTATTTATAGGCTTTAGAATGCCTAAGAACCCTCAAAAGTGGCCTTTTCCGAATTAGACTCAAC
* *
283326 TTGGGCTCGACAGGGACACGCCCATGTGCGATTACTTCAGGCCATGGTCAAGCTTGTTA-AATAG
66 TTAGGCTCGACAGGGACACGCCCATGTGCGATTACTTCAGGCCATGGTCAAGC-CGTTAGAAT-G
* * * * *
283390 GCACGAGTGTGTGGTCCACCTGTGTGAGTCGTGCTTCAATTCTGCCAAATTGACACAGCCATGTG
129 GCACGAGCGTGTGCTACACCCGTGTGAGTCATGCTTCAATTCTGCCAAATTGACACAGCCATGTG
* * * *
283455 GTTTGCCCGTGTGAGGAGGTCTAGG-TCGTGTTGATTTCGTA-TGTTGGCCCATTTTCTCTGTTT
194 GTCTGCCCGTGTGAGGAAGTCTAGGCT-GTGTTAAGTTCGTACT-TTGGCCCATTTTCTCTGTTT
* * * *
283518 TTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTCACCTAAGTATAAAATATGAAATTAAGGC
257 TTGGCCCATTTCTCGTTCCTTTCACTCTCCTATACTCACCTAAGTATAAAACATGAAATTAAAGC
** * * *
283583 ATTAGGAGCATTGAATTCACCAAATGTAAG-GAAAAATCATCCATAAAATGTGCTAAGCAT-GGG
322 ATTAGGAGCACCGAATTCACCAAATCTAAGAG-AAAATCATCCATAAAATGCGCTAAACATAGGG
283646 -AGAGAAATATGTATAAATTACGGTTTATCA
386 TA-A-AAATATGTATAAATTACGGTTTATCA
283676 GTTTTCTTAC
Statistics
Matches: 357, Mismatches: 51, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
436 1 0.00
437 112 0.31
438 244 0.68
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (437 bp):
TGTATTTATAGGCTTTAGAATGCCTAAGAACCCTCAAAAGTGGCCTTTTCCGAATTAGACTCAAC
TTAGGCTCGACAGGGACACGCCCATGTGCGATTACTTCAGGCCATGGTCAAGCCGTTAGAATGGC
ACGAGCGTGTGCTACACCCGTGTGAGTCATGCTTCAATTCTGCCAAATTGACACAGCCATGTGGT
CTGCCCGTGTGAGGAAGTCTAGGCTGTGTTAAGTTCGTACTTTGGCCCATTTTCTCTGTTTTTGG
CCCATTTCTCGTTCCTTTCACTCTCCTATACTCACCTAAGTATAAAACATGAAATTAAAGCATTA
GGAGCACCGAATTCACCAAATCTAAGAGAAAATCATCCATAAAATGCGCTAAACATAGGGTAAAA
ATATGTATAAATTACGGTTTATCACCCCCTTTCCCTCCTCCTCTAGT
Found at i:288010 original size:144 final size:144
Alignment explanation
Indices: 287747--288114 Score: 495
Period size: 144 Copynumber: 2.5 Consensus size: 144
287737 AATGATGATA
* * ** * *
287747 CCATGTCCCGGACATGGTCTTACACTAGCTCTCATACATCGGTGCCGATGCTATGTCTCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATA-ATAAG-GCCGATGCTATGTCCCAAACAT
* * * * *
287812 GGTCTTACACTGACACATATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCG
64 GGTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCG
*
287877 CATATTGAGGCCGATG
129 CATATTGAGACCGATG
* **
287893 TCATGTCCCAGACATGGTCTTACACTAGCTCACATTTTAAGGCCGATG-TCATGTCCCAAACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAAGGCCGATGCT-ATGTCCCAAACATG
287957 GTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCGC
65 GTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCGC
288022 ATATTGAGACCGATG
130 ATATTGAGACCGATG
* * * * ** * *
288037 CCATGTCCTAGACATGGTCTTACATTGGCTCACATAACAATACTGATGCTATGTTCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAAGGCCGATGCTATGTCCCAAACATGG
288102 TCTTACACTGGCT
66 TCTTACACTGGCT
288115 TGCATGTTGA
Statistics
Matches: 194, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
143 1 0.01
144 158 0.81
145 3 0.02
146 32 0.16
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (144 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAAGGCCGATGCTATGTCCCAAACATGG
TCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCGCA
TATTGAGACCGATG
Found at i:288112 original size:96 final size:96
Alignment explanation
Indices: 287747--288163 Score: 406
Period size: 96 Copynumber: 4.3 Consensus size: 96
287737 AATGATGATA
** * * ** *
287747 CCATGTCCCGGACATGGTCTTACACTAGCTCTCATACATCGGTGCCGATGCTATG-TCTCAGACA
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATA-A-CAATGCCGATGCTATGTTC-CAAACA
* * ** *** *
287811 TGGTCTTACACTGACACATATAACAATGCCGATG
63 TGGTCTTACACTGGCTCGCATATTGAGGCCGATG
* * * *** * * *
287845 CCATGTTCCAAACATGGTCTTACATTGGCTCGCATATTGAGGCCGATG-TCATGTCCCAGACATG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCT-ATGTTCCAAACATG
* * * *
287909 GTCTTACACTAGCTCACATTTTAAGGCCGATG
65 GTCTTACACTGGCTCGCATATTGAGGCCGATG
* * *
287941 TCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCTATGTTCCAAACATGG
*
288006 TCTTACACTGGCTCGCATATTGAGACCGATG
66 TCTTACACTGGCTCGCATATTGAGGCCGATG
* * * * *
288037 CCATGTCCTAGACATGGTCTTACATTGGCTCACATAACAATACTGATGCTATGTTCCAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCTATGTTCCAAACATGG
* *
288102 TCTTACACTGGCTTGCATGTTGAGGCCGATG
66 TCTTACACTGGCTCGCATATTGAGGCCGATG
* * *
288133 CCACGCCCCATACATGGTCTTACACTGGCTC
1 CCATGTCCCAAACATGGTCTTACACTGGCTC
288164 TTATATCTCC
Statistics
Matches: 264, Mismatches: 52, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
95 1 0.00
96 232 0.88
97 1 0.00
98 30 0.11
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
CCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCTATGTTCCAAACATGG
TCTTACACTGGCTCGCATATTGAGGCCGATG
Found at i:288130 original size:144 final size:144
Alignment explanation
Indices: 287747--288163 Score: 453
Period size: 144 Copynumber: 2.9 Consensus size: 144
287737 AATGATGATA
* * * * * *
287747 CCATGTCCCGGACATGGTCTTACACTAGCTCTCAT-ACATCGGTGCCGATG-CTATGTCTCAGAC
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAACA--AG-ACCGATGTC-ATGTCCCAAAC
* * * * *
287810 ATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCT
62 ATGGTCTTACACTGGCTCACATAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCT
*
287875 CGCATATTGAGGCCGATG
127 CGCATATTGAGACCGATG
* *** *
287893 TCATGTCCCAGACATGGTCTTACACTAGCTCACATTTTAAGGCCGATGTCATGTCCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAAGACCGATGTCATGTCCCAAACATGG
* *
287958 TCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCGCA
66 TCTTACACTGGCTCACATAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCA
288023 TATTGAGACCGATG
131 TATTGAGACCGATG
* * * * * *
288037 CCATGTCCTAGACATGGTCTTACATTGGCTCACATAACAATACTGATG-CTATGTTCCAAACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAAGACCGATGTC-ATGTCCCAAACATG
** **** * ** *
288101 GTCTTACACTGGCTTGCATGTTGAGGCCGATGCCACGCCCCATACATGGTCTTACACTGGCTC
65 GTCTTACACTGGCTCACATAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
288164 TTATATCTCC
Statistics
Matches: 231, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
143 1 0.00
144 195 0.84
145 2 0.01
146 32 0.14
147 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (144 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCACATAACAAGACCGATGTCATGTCCCAAACATGG
TCTTACACTGGCTCACATAACAAGGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCA
TATTGAGACCGATG
Found at i:288133 original size:48 final size:48
Alignment explanation
Indices: 287758--288163 Score: 348
Period size: 48 Copynumber: 8.4 Consensus size: 48
287748 CATGTCCCGG
* * * ** * *
287758 ACATGGTCTTACACTAGCTCTCATACATCGGTGCCGATGCTATG-TCTCAG
1 ACATGGTCTTACACTGGCTCACATA-TTAAG-GCCGATGCCATGTTC-CAA
* * * ** *
287808 ACATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
* * * * * *
287856 ACATGGTCTTACATTGGCTCGCATATTGAGGCCGATGTCATGTCCCAG
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
* * * *
287904 ACATGGTCTTACACTAGCTCACATTTTAAGGCCGATGTCATGTCCCAA
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
** * *
287952 ACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATATTCCAA
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
* * * *
288000 ACATGGTCTTACACTGGCTCGCATATTGAGACCGATGCCATG-TCCTAG
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCC-AA
* ** ** * *
288048 ACATGGTCTTACATTGGCTCACATAACAATACTGATGCTATGTTCCAA
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
** * * * ** *
288096 ACATGGTCTTACACTGGCTTGCATGTTGAGGCCGATGCCACGCCCCAT
1 ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
288144 ACATGGTCTTACACTGGCTC
1 ACATGGTCTTACACTGGCTC
288164 TTATATCTCC
Statistics
Matches: 283, Mismatches: 70, Indels: 8
0.78 0.19 0.02
Matches are distributed among these distances:
47 3 0.01
48 254 0.90
49 6 0.02
50 20 0.07
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCACATATTAAGGCCGATGCCATGTTCCAA
Found at i:290580 original size:21 final size:21
Alignment explanation
Indices: 290545--290593 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
290535 TGTTTTCATT
**
290545 AAAAACCCTTCTTAA-AATAAA
1 AAAAACCCTAATTAACAA-AAA
*
290566 AGAAACCCTAATTAACAAAAA
1 AAAAACCCTAATTAACAAAAA
290587 AAAAACC
1 AAAAACC
290594 TTTCAATTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.16
Consensus pattern (21 bp):
AAAAACCCTAATTAACAAAAA
Found at i:291652 original size:28 final size:28
Alignment explanation
Indices: 291614--291698 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
291604 TACCAGTATG
*
291614 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
* * *
291642 TGTCCCATTAAGCCTAAATCACATTTATA
1 TGGCCCATTAAGCC-CAATCACATTCATA
* * *
291671 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
291699 ATCATGCTCA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAATCACATTCATA
Found at i:304846 original size:46 final size:45
Alignment explanation
Indices: 304751--304971 Score: 196
Period size: 46 Copynumber: 4.8 Consensus size: 45
304741 AAGGTAAGGT
** *
304751 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-AGAT-TTTATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTCATCTTGA-G
* *
304797 GCCGATGCATGTCCCAGACATGTCTCACACTGGCTTACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTTGAG
* * * * ** *
304843 GCCGATGCATGTCCCAAACATGTCTTACATTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTCATCTTGAG
* ** *
304889 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCATCTTGAG
304937 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
304972 CACACAAATG
Statistics
Matches: 144, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 66 0.46
47 31 0.22
48 22 0.15
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTTGAG
Found at i:304944 original size:94 final size:92
Alignment explanation
Indices: 304797--304970 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 92
304787 AGATTTTATG
* * **
304797 GCCGATGCATGTCCCAGACATGTCTCACACTGGCTTACATCTTGAGGCCGATGCATGTCCCAAAC
1 GCCGATGCATGTCCCAAACATGTCTCACACTAGCTTACATAATGAGGCCGATGCATGTCCCAAAC
*
304862 ATGTCTTACATTAGCACTCGTCTCAAT
66 ATGTCTTACACTAGCACTCGTCTCAAT
* *
304889 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CATAATGTGGCCGATGCATGTCCCA
1 GCCGATG-CATGTCCCAAACAT-GTCTCACACTAGCT-TACATAATGAGGCCGATGCATGTCCCA
*
304953 GACATGTCTTACACTAGC
63 AACATGTCTTACACTAGC
304971 TCACACAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 7 0.10
93 13 0.18
94 50 0.70
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTCACACTAGCTTACATAATGAGGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:316706 original size:27 final size:24
Alignment explanation
Indices: 316676--316724 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
316666 CGAGGTAAGT
316676 TTGTATGTCAAATAAGCTTTAATATAA
1 TTGTAT-TCAAAT--GCTTTAATATAA
*
316703 TTGTATTTAAATGCTTTAATAT
1 TTGTATTCAAATGCTTTAATAT
316725 TGTATGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
26 5 0.24
27 6 0.29
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (24 bp):
TTGTATTCAAATGCTTTAATATAA
Found at i:321799 original size:47 final size:45
Alignment explanation
Indices: 321638--321907 Score: 222
Period size: 47 Copynumber: 5.8 Consensus size: 45
321628 GAATGAATTT
* * * *
321638 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTC-TAT-CGAG-G
* * ** **
321688 CTGATGCATGTCCCAGACATGTCTTACACTAGCACAAT-TCTTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCTATCGAGG
*
321732 CCGATGCGTGTCCCAGACATGTCTTACACTGGCTATCTCTATCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-A-CTCTATCGAGG
* *
321779 CCGATGCATGTCCCAGACATGTCTTACTCTTGCACTCATAAT--ATGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTC-T-ATCGA-GG
* * * * * * *
321825 CTGACGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTC-TATCGAGG
321871 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC
321908 ACAAATCACC
Statistics
Matches: 179, Mismatches: 31, Indels: 22
0.77 0.13 0.09
Matches are distributed among these distances:
44 31 0.17
45 7 0.04
46 45 0.25
47 52 0.29
48 25 0.14
49 14 0.08
50 5 0.03
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCTATCGAGG
Found at i:321844 original size:93 final size:90
Alignment explanation
Indices: 321645--321908 Score: 271
Period size: 93 Copynumber: 2.8 Consensus size: 90
321635 TTTCCGATGC
* * *
321645 CATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCG-TGCTGATGCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TC-TCTAT-CGATGCCGATGCATGTCCCAGACATG
** *
321709 TCTTACACTAGCACAATTCTTGGCCGATG
62 TCTTACACTAGCACAATAATTGGCCGACG
* *
321738 CGTGTCCCAGACATGTCTTACACTGGCTATCTCTATCGAGGCCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGTCTTACACTGGCT-TCTCTATCGATGCCGATGCATGTCCCAGACATGTCT
* * * *
321803 TACTCTTGCACTCATAATATGGCTGACG
65 TACACTAGCAC-AATAAT-TGGCCGACG
* * * *
321831 CATGTCCCAGACATGTCTTACACTAGC-CCTCGTCTGGATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTGGCTTCTC-TATCGATGCCGATG-CATGTCCCAGACAT-GT
*
321895 CTTACACTGGCACA
63 CTTACACTAGCACA
321909 CAAATCACCC
Statistics
Matches: 143, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
90 2 0.01
91 40 0.28
92 29 0.20
93 59 0.41
94 13 0.09
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (90 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCTCTATCGATGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCACAATAATTGGCCGACG
Found at i:330119 original size:12 final size:12
Alignment explanation
Indices: 330102--330127 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
330092 CTAAAGATGT
330102 GAAAATCATCAA
1 GAAAATCATCAA
330114 GAAAATCATCAA
1 GAAAATCATCAA
330126 GA
1 GA
330128 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:335112 original size:22 final size:23
Alignment explanation
Indices: 335087--335130 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
335077 TGTTTACTCA
335087 TAATATAATT-TATTTA-ATTTAC
1 TAAT-TAATTCTATTTACATTTAC
335109 TAATTAATTCTATTTACATTTA
1 TAATTAATTCTATTTACATTTA
335131 GGTTAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTAATTCTATTTACATTTAC
Found at i:338045 original size:49 final size:47
Alignment explanation
Indices: 337873--338045 Score: 159
Period size: 49 Copynumber: 3.6 Consensus size: 47
337863 AGATGCCGAC
* *
337873 GCCATGTCCCAAACATGGTCTTACACTGGCTAGCAC-ATCAAAGTCGAT
1 GCCATGTCCCAAACA-GGTCTTACACTGGCTATCACTATC-GAGTCGAT
* * ** * * *
337921 GCCATGTCCTAGACAGGTCTTACACTAACTTTCAAATATCGAGGCTGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGCTATC-ACTATCGAGTC-GAT
* * * *
337970 GCCGTGTCCCAAACAAGTCTTACACTGGCTCTCATCTATCTGTGTCGAT
1 GCCATGTCCCAAACAGGTCTTACACTGGCTATCA-CTATC-GAGTCGAT
*
338019 GCCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAAACAGGTCTTACACTG
338046 ACACGCAACA
Statistics
Matches: 98, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
47 14 0.14
48 18 0.18
49 63 0.64
50 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAAACAGGTCTTACACTGGCTATCACTATCGAGTCGAT
Found at i:338193 original size:46 final size:46
Alignment explanation
Indices: 338106--338193 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
338096 ATATCTCGAG
* * *
338106 GCCAATGCATCTCCTAGACATGTCTTACACTAGCTCTCATATTAAT
1 GCCAATGCATCTCCCAGACATGTCTTACACTAGCACACATATTAAT
* *
338152 GCCAATGCATGTCCCAGGCATGTCTTACACTAGCACACATAT
1 GCCAATGCATCTCCCAGACATGTCTTACACTAGCACACATAT
338194 CACCCAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (46 bp):
GCCAATGCATCTCCCAGACATGTCTTACACTAGCACACATATTAAT
Found at i:342341 original size:13 final size:13
Alignment explanation
Indices: 342325--342357 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
342315 TTTAATTAAA
*
342325 TTAGTTAATTAGT
1 TTAGATAATTAGT
342338 TTAGATAATTAGT
1 TTAGATAATTAGT
342351 TTA-ATAA
1 TTAGATAA
342358 ACAAACCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:343916 original size:18 final size:18
Alignment explanation
Indices: 343893--343928 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
343883 TTCTTGGGTG
343893 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
343911 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
343929 CAACCATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:351977 original size:49 final size:49
Alignment explanation
Indices: 351898--352035 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 49
351888 CGGCTAGCAC
* * *
351898 ATCAAAGTCGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATAT
1 ATCAACGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATAT
* * * *
351947 ATCAACG-CTGATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCT
1 ATCAACGTC-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATAT
*** *
351996 ATCGGTGTCGATGCCATGTTCCAGACAGGTCTTACACTGA
1 ATCAACGTCGATGCCATGTCCCAGACAGGTCTTACACTGA
352036 GACACAACAA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 71 0.97
50 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
ATCAACGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATAT
Found at i:352177 original size:48 final size:48
Alignment explanation
Indices: 352054--352177 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
352044 AAGCTGACGC
* * *
352054 CATGTCCTAGACAAGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTAATG
* *
352102 CATGTCCTAGACATGTCTTACATTGGCTTGTATATCTTGAGGCTAATG
1 CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTAATG
* *
352150 CATGTCCCAAACATGTCTTACACTGGCT
1 CATGTCCTAGACATGTCTTACACTGGCT
352178 ACCAACATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTAATG
Found at i:357445 original size:47 final size:46
Alignment explanation
Indices: 357367--357852 Score: 627
Period size: 47 Copynumber: 10.3 Consensus size: 46
357357 CCCTTCGGGA
* * *
357367 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
* * *
357414 CTTATCACACATACACATGTTCATATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAT-TTCACATTCATCACATTGGCCATTCGGC
* *
357461 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAT-TTCACATTCATCACATTGGCCATTCGGC
* * *
357508 CTTATCTCACATACACATGTTCACATTCATCACATT-GCCATTCGGC
1 CTTATCACATATATACAT-TTCACATTCATCACATTGGCCATTCGGC
* *
357554 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAT-TTCACATTCATCACATTGGCCATTCGGC
357601 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
*
357650 CTTATCACATGTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
* *
357697 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
*
357746 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-T-GGC
1 CTTATCACATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
*
357791 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCAC--ATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
* *
357840 TTTATCTCATATA
1 CTTATCACATATA
357853 CTATCATGTA
Statistics
Matches: 402, Mismatches: 26, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
45 11 0.03
46 45 0.11
47 247 0.61
48 1 0.00
49 97 0.24
50 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.34
Consensus pattern (46 bp):
CTTATCACATATATACATTTCACATTCATCACATTGGCCATTCGGC
Found at i:357699 original size:96 final size:96
Alignment explanation
Indices: 357367--357852 Score: 679
Period size: 96 Copynumber: 5.1 Consensus size: 96
357357 CCCTTCGGGA
* * * * *
357367 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCAC--ACATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
*
357430 A-TGTTCATATTCATCACATTGGCCATTCGGC
66 ACT-TTCACATTCATCACATTGGCCATTCGGC
* * * * *
357461 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTC--ACATACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
357523 CA-TGTTCACATTCATCACATT-GCCATTCGGC
65 CACT-TTCACATTCATCACATTGGCCATTCGGC
* *
357554 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
357618 CACTTTCACATTCATCACATTGGCCATTCGGC
65 CACTTTCACATTCATCACATTGGCCATTCGGC
*
357650 CTTATCACATGTATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
* *
357715 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
*
357746 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-T-GGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
*
357809 ACTTTCACATTCATCACATTGGCCATTTGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
* *
357840 TTTATCTCATATA
1 CTTATCACATATA
357853 CTATCATGTA
Statistics
Matches: 365, Mismatches: 21, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
93 65 0.18
94 135 0.37
95 25 0.07
96 139 0.38
97 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:359338 original size:56 final size:56
Alignment explanation
Indices: 359271--359390 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
359261 TATTAGCTTA
359271 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
359327 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
359383 TTGCCCAT
1 TTGCCCAT
359391 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:360344 original size:18 final size:18
Alignment explanation
Indices: 360321--360356 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
360311 ATTCTTCCAA
360321 GAAGAATTCCAAAAGAAG
1 GAAGAATTCCAAAAGAAG
360339 GAAGAATTCCAAAAGAAG
1 GAAGAATTCCAAAAGAAG
360357 TACATCAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (18 bp):
GAAGAATTCCAAAAGAAG
Found at i:368872 original size:40 final size:40
Alignment explanation
Indices: 368842--369384 Score: 708
Period size: 40 Copynumber: 13.8 Consensus size: 40
368832 AGCATGATTA
* * *
368842 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
368882 CTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAATG
1 CTCTTCG-GGACTTAGCCCGGATATATCACTAGCACGAATG
* *
368922 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
368962 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
369002 CTCTTCGAGACTTAGCCCAGATACATCACTAGCAC--A--
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
369038 ---TTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
369075 CTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAATG
1 CTCTTCG-GGACTTAGCCCGGATATATCACTAGCACGAATG
* *
369115 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
369155 CTCTTTGAGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
** * *
369195 CTCTTCGAAACTTAGCCCGAATATATCACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
369235 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
369275 CTCTTCGGGACTTAGCCCAGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
369315 CTCCTCGGGACTTAGCCCGGATATATCACTGGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
369355 CTCCTCGAGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
369385 CTCAATTCTC
Statistics
Matches: 442, Mismatches: 50, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
33 26 0.06
35 1 0.00
38 1 0.00
39 2 0.00
40 408 0.92
41 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:369069 original size:33 final size:33
Alignment explanation
Indices: 369005--369069 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
368995 ACGAATGCTC
* * *
369005 TTCGAGACTTAGCCCAGATACATCACTAGCACA
1 TTCGAGACCTAGCCCAGATACAACACCAGCACA
* * *
369038 TTCGGGACCTAGCCCGGATATAACACCAGCAC
1 TTCGAGACCTAGCCCAGATACAACACCAGCAC
369070 GAATGCTCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.18
Consensus pattern (33 bp):
TTCGAGACCTAGCCCAGATACAACACCAGCACA
Found at i:370661 original size:37 final size:38
Alignment explanation
Indices: 370603--370680 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
370593 TTACGAAGTC
* * *
370603 TTACCCGGACATAATCTCCACACGAAGTTATCGGGT-T
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
*
370640 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
370678 TTA
1 TTA
370681 GAGCTCGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 32 0.89
38 4 0.11
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (38 bp):
TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
Found at i:370875 original size:47 final size:47
Alignment explanation
Indices: 370797--371162 Score: 561
Period size: 47 Copynumber: 7.7 Consensus size: 47
370787 CCCTTCGAGA
* * * * * * *
370797 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
* * *
370844 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
370891 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
370938 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
370985 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
371032 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
* *
371079 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
* * ** *
371128 CTTATCTCATATATGCATGTTCACATCCATCACAT
1 CTTATCACATATATACACCTTCACATTCATCACAT
371163 AGAATCCTAA
Statistics
Matches: 299, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 255 0.85
49 44 0.15
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
Found at i:372547 original size:23 final size:24
Alignment explanation
Indices: 372495--372552 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
372485 AAAGGATGGA
*
372495 CACATTTT-TTTTTCTTTTGTTTT
1 CACATTTTCTTTCTCTTTTGTTTT
*
372518 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTTCTCTTTTGTTTT
372543 C-CA-TTTCTTT
1 CACATTTTCTTT
372553 ATTACTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 6 0.19
25 14 0.45
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.71
Consensus pattern (24 bp):
CACATTTTCTTTCTCTTTTGTTTT
Found at i:375495 original size:46 final size:47
Alignment explanation
Indices: 375439--375614 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 47
375429 TGGTTGAGCA
375439 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
375485 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
375530 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
375578 -CCGGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
375615 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 9 0.08
46 57 0.53
47 26 0.24
48 5 0.05
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:375595 original size:93 final size:93
Alignment explanation
Indices: 375436--375606 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
375426 GGATGGTTGA
*
375436 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAGCTCGTTGAGT
375501 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
375529 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-AAGCTCGTTGAG
375593 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
375607 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:378789 original size:45 final size:45
Alignment explanation
Indices: 378703--378908 Score: 265
Period size: 45 Copynumber: 4.6 Consensus size: 45
378693 TGGCATTTCA
* * * *
378703 CCTGCTAGGCTCAAA-ACCC-AATA-TCATTTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCAGCATCATAG
* * * *
378746 CCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCAACATTATAC
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATCATAG
378791 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATCATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATCATAG
* * * * *
378836 CCTGCGAGGCTCAAAAGCACTAATAGTATCTCACCGGCATCATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATCATAG
378881 CCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CCTGCTAGGCTCAAAGGCCCGAATAGTA
378909 CCATACTATA
Statistics
Matches: 141, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
43 14 0.10
44 3 0.02
45 123 0.87
46 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATCATAG
Found at i:383551 original size:46 final size:46
Alignment explanation
Indices: 383501--384412 Score: 1670
Period size: 46 Copynumber: 19.8 Consensus size: 46
383491 TGGTTGAGCA
383501 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383547 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383593 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383639 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383685 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383731 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383777 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383823 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383869 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383915 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
383961 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
384007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
384053 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
384099 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
384145 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
384191 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
384237 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
384283 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
384328 CATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATACGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
384376 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
384413 GCGGGTTACA
Statistics
Matches: 843, Mismatches: 14, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.00
45 3 0.00
46 798 0.95
47 28 0.03
48 3 0.00
50 3 0.00
51 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:397465 original size:38 final size:39
Alignment explanation
Indices: 397416--397490 Score: 134
Period size: 38 Copynumber: 1.9 Consensus size: 39
397406 TGGAAATTAA
397416 TAATTTAATTGTTAATAACTG-TTTTTTTTATGGATGAT
1 TAATTTAATTGTTAATAACTGTTTTTTTTTATGGATGAT
*
397454 TAATTTAATTGTTAATAAGTGTTTTTTTTTATGGATG
1 TAATTTAATTGTTAATAACTGTTTTTTTTTATGGATG
397491 CCGAATGTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 20 0.57
39 15 0.43
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.56
Consensus pattern (39 bp):
TAATTTAATTGTTAATAACTGTTTTTTTTTATGGATGAT
Found at i:399017 original size:6 final size:6
Alignment explanation
Indices: 398987--399061 Score: 82
Period size: 6 Copynumber: 12.3 Consensus size: 6
398977 AAGAAACATT
* * *
398987 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
399036 ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT
399062 TAGGTGACAG
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
5 3 0.05
6 50 0.86
7 3 0.05
8 2 0.03
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:399037 original size:37 final size:37
Alignment explanation
Indices: 398996--399095 Score: 128
Period size: 37 Copynumber: 2.7 Consensus size: 37
398986 TATCAGAACT
*
398996 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGAC
* * *
399033 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGAC
* * * *
399070 AGAATTAGAATCAGAATTAGTATCAG
1 AGAATCAAAATCAGAATCAGAATCAG
399096 GTAACAGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAAGTGAC
Found at i:399045 original size:31 final size:31
Alignment explanation
Indices: 399008--399117 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
398998 AATCAAAATG
399008 AGAATCAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
*
399039 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATC---A--A-GTGACAGAATC
* * * *
399076 AGAATCAGAATTAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
* *
399107 AAAATTAGAAT
1 AGAATCAGAAT
399118 GTGAAGGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
31 36 0.55
34 2 0.03
36 1 0.02
37 26 0.40
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAGTGACAGAATC
Found at i:399113 original size:37 final size:36
Alignment explanation
Indices: 398996--399117 Score: 119
Period size: 37 Copynumber: 3.5 Consensus size: 36
398986 TATCAGAACT
* *
398996 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAAAATTAGAATCAGAATCAGAATCAGGT-AC
* * *
399033 AGAATCAGAATCAGAATCAGAATCAGAATTAGGT--
1 AGAATCAAAATTAGAATCAGAATCAGAATCAGGTAC
* * *
399067 -G-A-CAGAATTAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATTAGAATCAGAATCAGAATCAGGT-AC
399101 AGAATCAAAATTAGAAT
1 AGAATCAAAATTAGAAT
399118 GTGAAGGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 25 0.36
32 1 0.01
33 1 0.01
35 1 0.01
36 1 0.01
37 41 0.59
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.20
Consensus pattern (36 bp):
AGAATCAAAATTAGAATCAGAATCAGAATCAGGTAC
Found at i:412467 original size:27 final size:27
Alignment explanation
Indices: 412437--412820 Score: 446
Period size: 27 Copynumber: 14.2 Consensus size: 27
412427 TAACACCCTA
** *
412437 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* * *
412464 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
412491 AAGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
412518 AGGGTAAAATAGTAATTTTGCAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* * * *
412545 AGTGTAAAACAGTAATTCTATAAATCA
1 AGGGTAAAACAGTAATTTTGTAAATCG
* * *
412572 AAGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
412599 AAGGTAAAAC-GATAATTCTGTAAATCG
1 AGGGTAAAACAG-TAATTTTGTAAATCG
* *
412626 AGGGTAAAACGGTAATTTTGTAAATTG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* * * *
412653 AGGGTAAAATAGTAACTCTGTAAATTG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
412680 AGGGTAAAACAATAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* * *
412707 ATGGTAAAACGGTAATTTTGTAAATTG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
412734 AGGGTAAAACAGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
* *
412761 AAGGTAAAACAATAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
*
412788 AGGGTAAAACAGTAATTTTGTAATTCG
1 AGGGTAAAACAGTAATTTTGTAAATCG
412815 AGGGTA
1 AGGGTA
412821 CTTTGATAAT
Statistics
Matches: 306, Mismatches: 49, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 304 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTTTGTAAATCG
Found at i:412872 original size:27 final size:27
Alignment explanation
Indices: 412842--412966 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 27
412832 TTACATGTCA
* *
412842 AGGGTATTTCAGTAATTTTGCAAACTG
1 AGGGTATTTCGGTAATTTTACAAACTG
*
412869 AGGGTATTTCGGTAATTTTACAAA-TCA
1 AGGGTATTTCGGTAATTTTACAAACT-G
* * * *
412896 AGGATATTTGGGTAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTACAAACTG
*
412923 GGGGTACTTT-GGTAATTTTAC-AACTG
1 AGGGTA-TTTCGGTAATTTTACAAACTG
* *
412949 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
412967 GGTAAATTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
25 3 0.04
26 18 0.22
27 57 0.70
28 3 0.04
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAACTG
Found at i:412872 original size:54 final size:53
Alignment explanation
Indices: 412797--412966 Score: 164
Period size: 54 Copynumber: 3.2 Consensus size: 53
412787 GAGGGTAAAA
* * * **
412797 CAGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTACATGTCAAGGGTATTT
1 CAGTAATTTTGAAACT-GAGGGTACTTTGGTAATTTTACAAATCAAGGGTATTT
*
412851 CAGTAATTTTGCAAACTGAGGGTA-TTTCGGTAATTTTACAAATCAAGGATATTT
1 CAGTAATTTTG-AAACTGAGGGTACTTT-GGTAATTTTACAAATCAAGGGTATTT
** * * * * **
412905 GGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTT
1 CAGTAATTTT-GAAACTGAGGGTACTTTGGTAATTTTACAAATCAAGGGTATTT
412958 CAGTAATTT
1 CAGTAATTT
412967 GGTAAATTAA
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
53 17 0.18
54 72 0.76
55 6 0.06
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (53 bp):
CAGTAATTTTGAAACTGAGGGTACTTTGGTAATTTTACAAATCAAGGGTATTT
Found at i:415508 original size:37 final size:37
Alignment explanation
Indices: 415449--415550 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
415439 AGCTCAGACG
* *
415449 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
415486 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
415523 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
415551 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:423598 original size:24 final size:25
Alignment explanation
Indices: 423571--423627 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
423561 AAGGAAATGA
*
423571 AGAAAAATG-GTAGAGAA-TGAAGAG
1 AGAAAAATGAG-AGAGAAGTAAAGAG
423595 AGAAAAATGAGAGAGAAGTAAAGAG
1 AGAAAAATGAGAGAGAAGTAAAGAG
423620 ATGAAAAA
1 A-GAAAAA
423628 AGTTGAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 15 0.52
25 8 0.28
26 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.11
Consensus pattern (25 bp):
AGAAAAATGAGAGAGAAGTAAAGAG
Found at i:428003 original size:93 final size:93
Alignment explanation
Indices: 427895--428065 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
427885 GCCCCTAAGT
* * *
427895 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
427960 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
427988 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
428053 CGAGTTCGGATGC
66 CGAGTTCGGATGC
428066 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:428062 original size:46 final size:46
Alignment explanation
Indices: 427890--428062 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
427880 AACCCGCCCC
* * * *
427890 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
427936 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
427984 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
428029 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
428063 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:428523 original size:30 final size:30
Alignment explanation
Indices: 428489--428549 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
428479 CATTTAATAC
428489 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
428519 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
428549 A
1 A
428550 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:430208 original size:27 final size:27
Alignment explanation
Indices: 430175--430433 Score: 157
Period size: 27 Copynumber: 9.6 Consensus size: 27
430165 TTGGTAAATC
430175 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
430202 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * * *
430230 TAGAAAGTCAAGAGTATTTCTGTAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** ** * **
430258 TGTAAATTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** *
430285 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*
430312 CACAAACC-AGTGGTATTTCAGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
* * **
430339 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * ** *
430366 TACAAACTATGGGTATTTTGGTAATTC
1 TACAAACCAAGGGTATTTCAGTAATTT
**
430393 TATCCTA-CAAGGGTATTTCAGTAATTT
1 TA-CAAACCAAGGGTATTTCAGTAATTT
* *
430420 CAC-AATCAAGGGTA
1 TACAAACCAAGGGTA
430434 AAATGGTAAT
Statistics
Matches: 183, Mismatches: 41, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.01
26 11 0.06
27 140 0.77
28 18 0.10
29 13 0.07
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:430358 original size:81 final size:81
Alignment explanation
Indices: 430238--430460 Score: 238
Period size: 81 Copynumber: 2.8 Consensus size: 81
430228 TTTAGAAAGT
* * ** * *
430238 CAAGAGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTT
430303 CGGTAATT-TCA-CAAA
66 CGGTAATTCT-ATCAAA
*
430318 CCAGTGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT-ATGGGTAT
1 CAAG-GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTGA-GGGTAT
* **
430382 TTTGGTAATTCTATCCTA
64 TTCGGTAATTCTATCAAA
* * * *** *
430400 CAAGGGTATTTCAGTAATTTCACAATC-AAGGGTAAAATGGTAATTTTATAAACTGAGGGTA
1 CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTGAGGGTA
430461 AAATGGTAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
80 31 0.26
81 83 0.69
82 6 0.05
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTT
CGGTAATTCTATCAAA
Found at i:430461 original size:27 final size:27
Alignment explanation
Indices: 430423--430620 Score: 272
Period size: 27 Copynumber: 7.3 Consensus size: 27
430413 GTAATTTCAC
* *
430423 AATCAAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
430450 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
*
430477 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
430504 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
430531 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
430558 AATCGAGAGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
430585 AATCGATGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
430612 AATCGAGGG
1 AATCGAGGG
430621 CATTTCAGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:430468 original size:80 final size:81
Alignment explanation
Indices: 430323--430471 Score: 185
Period size: 80 Copynumber: 1.9 Consensus size: 81
430313 ACAAACCAGT
* * *** ***
430323 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTATGGGTATTTTGGT
1 GGTATTTCAGTAATTTCACAAACTAAGGGTAAAATGGTAATTTTACAAACTATGGGTAAAATGGT
430388 AATTCTATCCTACAAG
66 AATTCTATCCTACAAG
* *
430404 GGTATTTCAGTAATTTCACAATC-AAGGGTAAAATGGTAATTTTATAAACTGA-GGGTAAAATGG
1 GGTATTTCAGTAATTTCACAAACTAAGGGTAAAATGGTAATTTTACAAACT-ATGGGTAAAATGG
430467 TAATT
65 TAATT
430472 TTGTAAATCG
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
80 35 0.61
81 22 0.39
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (81 bp):
GGTATTTCAGTAATTTCACAAACTAAGGGTAAAATGGTAATTTTACAAACTATGGGTAAAATGGT
AATTCTATCCTACAAG
Found at i:430539 original size:81 final size:81
Alignment explanation
Indices: 430423--430620 Score: 326
Period size: 81 Copynumber: 2.4 Consensus size: 81
430413 GTAATTTCAC
* * *
430423 AATCAAGGGTAAAATGGTAATTTTATAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTTGTAAATCGAGAGT
430487 AAAACGGTAATTCTATA
65 AAAACGGTAATTCTATA
*
430504 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGAGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGAGTA
430569 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
* *
430585 AATCGATGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
430621 CATTTCAGTA
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 109 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGAGTA
AAACGGTAATTCTATA
Found at i:438400 original size:122 final size:120
Alignment explanation
Indices: 438185--438408 Score: 335
Period size: 122 Copynumber: 1.9 Consensus size: 120
438175 CACAATAACA
* *
438185 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTTAATTTAACACAGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTTAATTTAACACAGAATGT
438250 ATGATAACTAACCTAGAAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
66 ATGATAACTAACCTAGAAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
* * * * *
438305 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACGC-GAAA
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAAT--CTTAATTTAACACAG-AA
438369 TGTATGATAACTAACCTA-AGAATGCAAATTAAATGATAGA
63 TGTATGATAACTAACCTAGA-AATGCAAATTAAATGATAGA
438409 AAAATGAAAA
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
120 40 0.43
121 2 0.02
122 51 0.55
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTTAATTTAACACAGAATGT
ATGATAACTAACCTAGAAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
Found at i:446538 original size:27 final size:27
Alignment explanation
Indices: 446507--446558 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
446497 GAAAGTTGAA
446507 AGAGATATTGTTCAAACTTCAAAGCCG
1 AGAGATATTGTTCAAACTTCAAAGCCG
*
446534 AGAGATATTGTTCAACCTTCAAAGC
1 AGAGATATTGTTCAAACTTCAAAGC
446559 TAAGCAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
AGAGATATTGTTCAAACTTCAAAGCCG
Found at i:449856 original size:42 final size:42
Alignment explanation
Indices: 449757--449865 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
449747 ATACTAGTGT
* *
449757 CATATCCCAGATATGGTCTTACATGAAATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACATGAAATATCGTACCGATGC
* * * * * *
449799 CAAAGCCTAGCTATGGTTTTACATGAAGTATCGTACCGATGC
1 CATATCCCAGATATGGTCTTACATGAAATATCGTACCGATGC
* *
449841 TATATCCCATATATGGTCTTACATG
1 CATATCCCAGATATGGTCTTACATG
449866 TAATCTCAGT
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACATGAAATATCGTACCGATGC
Found at i:456160 original size:24 final size:24
Alignment explanation
Indices: 456133--456188 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
456123 TTCGGAGCTA
*
456133 CCCATTATTGGCTCGCATGAATTT
1 CCCATTATTGGCTCGCATGAACTT
**
456157 CCCAATTA-TGGCTCTTATGAACTT
1 CCC-ATTATTGGCTCGCATGAACTT
*
456181 CCCGTTAT
1 CCCATTAT
456189 ACAGCCCAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.12
24 19 0.73
25 4 0.15
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (24 bp):
CCCATTATTGGCTCGCATGAACTT
Found at i:460122 original size:20 final size:18
Alignment explanation
Indices: 460085--460135 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
460075 CTATAGCAAC
460085 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
460102 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
460122 TTACAACTTTACAA
1 TCACAA-TTTACAA
460136 AATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:466913 original size:22 final size:21
Alignment explanation
Indices: 466883--466932 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
466873 CTACGTTCAA
* **
466883 GCTACGTCTCAACACTTGAGTT
1 GCTATGTCTCAACACAAG-GTT
466905 GCTATGTCTCAACACAAGGTT
1 GCTATGTCTCAACACAAGGTT
466926 GCTATGT
1 GCTATGT
466933 TGCAACATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (21 bp):
GCTATGTCTCAACACAAGGTT
Found at i:466928 original size:21 final size:22
Alignment explanation
Indices: 466883--466945 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
466873 CTACGTTCAA
* **
466883 GCTACGTCTCAACACTTGAGTT
1 GCTATGTCTCAACACAAGAGTT
466905 GCTATGTCTCAACACAAG-GTT
1 GCTATGTCTCAACACAAGAGTT
*
466926 GCTATGT-TGCAACATAAGAG
1 GCTATGTCT-CAACACAAGAG
466946 GCGTGTCGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 18 0.51
22 16 0.46
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (22 bp):
GCTATGTCTCAACACAAGAGTT
Found at i:467349 original size:25 final size:26
Alignment explanation
Indices: 467308--467357 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
467298 GGCAGGTCAG
*
467308 TAATCAATGTTCCTATTA-CATTATA
1 TAATCAATGTTCATATTATCATTATA
467333 TAATCAAT-TTGCATATTATCATTAT
1 TAATCAATGTT-CATATTATCATTAT
467358 TAACTCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 2 0.09
25 14 0.64
26 6 0.27
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (26 bp):
TAATCAATGTTCATATTATCATTATA
Found at i:470988 original size:20 final size:20
Alignment explanation
Indices: 470963--471000 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
470953 TACGGGCCCA
* *
470963 TTGGCCCTACATGGCCCAGT
1 TTGGCCCAAAATGGCCCAGT
470983 TTGGCCCAAAATGGCCCA
1 TTGGCCCAAAATGGCCCA
471001 ATACCAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (20 bp):
TTGGCCCAAAATGGCCCAGT
Done.