Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 54 of 144
Found at i:10602125 original size:35 final size:35
Alignment explanation
Indices: 10602080--10602155 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
10602070 CACCATGGTG
* * *
10602080 CCTTCGATGTGCCGGTGCCTCGGACACCATCGGCA
1 CCTTGGATGTGCCGGAGCATCGGACACCATCGGCA
* *
10602115 TCTTGGATGTGCGGGAGCATCGGACACCATCGGCA
1 CCTTGGATGTGCCGGAGCATCGGACACCATCGGCA
10602150 CCTTGG
1 CCTTGG
10602156 TGCCTTGGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (35 bp):
CCTTGGATGTGCCGGAGCATCGGACACCATCGGCA
Found at i:10609951 original size:3 final size:3
Alignment explanation
Indices: 10609943--10609979 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10609933 TCTAAGCAAA
10609943 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10609980 AATTTGATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10610052 original size:3 final size:3
Alignment explanation
Indices: 10610046--10610080 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10610036 ATAATAATAA
* *
10610046 TAT TAT TAT TAT TAC TAT TAT TAT TAT TAC TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10610081 GTAACTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:10610066 original size:15 final size:15
Alignment explanation
Indices: 10610046--10610080 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
10610036 ATAATAATAA
10610046 TATTATTATTATTAC
1 TATTATTATTATTAC
10610061 TATTATTATTATTAC
1 TATTATTATTATTAC
10610076 TATTA
1 TATTA
10610081 GTAACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:10610366 original size:43 final size:43
Alignment explanation
Indices: 10610244--10611141 Score: 431
Period size: 43 Copynumber: 20.9 Consensus size: 43
10610234 GAGCTCCGTC
* * * * *
10610244 GGTGCCCTGGATGTGCTGGATCATCGGACACCATCGGCAACTT
1 GGTGCCATCGATGTGCGGGACCATCGGACACCATCGGCACCTT
* ***
10610287 GG-GCCGATGGATGTGCGGGACCATCAGGA-GGTATCGGCACCTT
1 GGTGCC-ATCGATGTGCGGGACCATC-GGACACCATCGGCACCTT
* * * * * *
10610330 GGTGCCTTCGATGTGCGGGAGCGTCGAACACCATCGGCAACTC
1 GGTGCCATCGATGTGCGGGACCATCGGACACCATCGGCACCTT
* * * *
10610373 AG-GCCGAT-GGTGGTGCGGGACCGTCGGGA-AGCATCGGCACCTT
1 GGTGCC-ATCGAT-GTGCGGGACCATC-GGACACCATCGGCACCTT
* ** *
10610416 GGTGCC-TAGGATGTGCAAGAGCATCGGACACCATCGGCTA-CTT
1 GGTGCCAT-CGATGTGCGGGACCATCGGACACCATCGGC-ACCTT
* * * *
10610459 AG-GCCGAT-GGTGGTGCGCGACCATCGGGA-ACCATCGACACCTT
1 GGTGCC-ATCGAT-GTGCGGGACCATC-GGACACCATCGGCACCTT
** *
10610502 GGTGCC-TCGGATGTGCGGGACCATCGGGA-AGTATCTGCACCTT
1 GGTGCCATC-GATGTGCGGGACCATC-GGACACCATCGGCACCTT
* * * * *
10610545 GGTGCCTTCGATGTGCGGGAGCATCGAACACCATCGGCAACTA
1 GGTGCCATCGATGTGCGGGACCATCGGACACCATCGGCACCTT
* * * *
10610588 AG-GCCGAT-GGTGGTGCGGGACCATCGGGAAAGCATCGGCACCTT
1 GGTGCC-ATCGAT-GTGCGGGACCATC-GGACACCATCGGCACCTT
* * * * **
10610632 GGTGCC-TCGGATGTGCGAGAGCATCGGGCACCATCGGCAACAA
1 GGTGCCATC-GATGTGCGGGACCATCGGACACCATCGGCACCTT
* * * * ** *
10610675 AG-GCCGAT-GGTGGTGCGGGACCATCGAAAAGTATCGGCACCAT
1 GGTGCC-ATCGAT-GTGCGGGACCATCGGACACCATCGGCACCTT
* ** * *
10610718 GGTGCCTTCGATGTGCGGGGGCATCGGACACCATCGGCAACTA
1 GGTGCCATCGATGTGCGGGACCATCGGACACCATCGGCACCTT
* * * * *
10610761 AG-GCCGAT-GGTGGTACGAGACCATCGGGA-AGCATCGGCACCTT
1 GGTGCC-ATCGAT-GTGCGGGACCATC-GGACACCATCGGCACCTT
* * * * **
10610804 GGTGCC-TCGGATGTGCGAGAGCATCGGGCACCATCGGCAACAA
1 GGTGCCATC-GATGTGCGGGACCATCGGACACCATCGGCACCTT
* * ** *
10610847 AG-GCCGAT-GGTGGTGCGGGACCATCGGGA-AGTATCGGCACCCT
1 GGTGCC-ATCGAT-GTGCGGGACCATC-GGACACCATCGGCACCTT
* * *
10610890 GGTGCCTTCGATGTGCGGGACCATCGGACACCATCGGCAACTA
1 GGTGCCATCGATGTGCGGGACCATCGGACACCATCGGCACCTT
* * *
10610933 AG-GCCGATAG-TGGTGCGGGACCATCGGGA-AGCATCGGCACCTT
1 GGTGCC-ATCGAT-GTGCGGGACCATC-GGACACCATCGGCACCTT
* *
10610976 GGTGCC-TCGAATGTGCGGGAGCATCGGACACCATCGGCACCTA
1 GGTGCCATCG-ATGTGCGGGACCATCGGACACCATCGGCACCTT
* *
10611019 GGTGCC-TCGGATGTGCGGGAGCATCGGACACCATCGGCAACTT
1 GGTGCCATC-GATGTGCGGGACCATCGGACACCATCGGCACCTT
* * * * *
10611062 TG-GCCGAT-GGTGGTGCGGGACCATCGGGA-AGCATCGGGACCTA
1 GGTGCC-ATCGAT-GTGCGGGACCATC-GGACACCATCGGCACCTT
* * * *
10611105 GGTGCC-TTGCATGTGCGGGAGCATGGGACACCGTCGG
1 GGTGCCATCG-ATGTGCGGGACCATCGGACACCATCGG
10611142 GCCAAAAAAA
Statistics
Matches: 635, Mismatches: 157, Indels: 126
0.69 0.17 0.14
Matches are distributed among these distances:
42 67 0.11
43 475 0.75
44 88 0.14
45 5 0.01
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (43 bp):
GGTGCCATCGATGTGCGGGACCATCGGACACCATCGGCACCTT
Found at i:10610871 original size:172 final size:172
Alignment explanation
Indices: 10610514--10611014 Score: 867
Period size: 172 Copynumber: 2.9 Consensus size: 172
10610504 TGCCTCGGAT
* * *
10610514 GTGCGGGACCATCGGGAAGTATCTGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCATGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
10610579 CGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAAGCATCGGCACCTTGGTGCCTCGGAT
66 CGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGG-AAGCATCGGCACCTTGGTGCCTCGGAT
10610644 GTGCGAGAGCATCGGGCACCATCGGCAACAAAGGCCGATGGTG
130 GTGCGAGAGCATCGGGCACCATCGGCAACAAAGGCCGATGGTG
** *
10610687 GTGCGGGACCATCGAAAAGTATCGGCACCATGGTGCCTTCGATGTGCGGGGGCATCGGACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCATGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
* *
10610752 CGGCAACTAAGGCCGATGGTGGTACGAGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGATG
66 CGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGATG
10610817 TGCGAGAGCATCGGGCACCATCGGCAACAAAGGCCGATGGTG
131 TGCGAGAGCATCGGGCACCATCGGCAACAAAGGCCGATGGTG
* *
10610859 GTGCGGGACCATCGGGAAGTATCGGCACCCTGGTGCCTTCGATGTGCGGGACCATCGGACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCATGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
* *
10610924 CGGCAACTAAGGCCGATAGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGAATG
66 CGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGATG
* *
10610989 TGCGGGAGCATCGGACACCATCGGCA
131 TGCGAGAGCATCGGGCACCATCGGCA
10611015 CCTAGGTGCC
Statistics
Matches: 309, Mismatches: 19, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
172 215 0.70
173 94 0.30
ACGTcount: A:0.22, C:0.27, G:0.35, T:0.17
Consensus pattern (172 bp):
GTGCGGGACCATCGGGAAGTATCGGCACCATGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
CGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGATG
TGCGAGAGCATCGGGCACCATCGGCAACAAAGGCCGATGGTG
Found at i:10611038 original size:86 final size:85
Alignment explanation
Indices: 10610514--10611014 Score: 720
Period size: 86 Copynumber: 5.8 Consensus size: 85
10610504 TGCCTCGGAT
* * *
10610514 GTGCGGGACCATCGGGAAGTATCTGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCAT
1 GTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
10610579 CGGCAACTAAGGCCGATGGTG
66 CGGCAACTAAGGCC-ATGGTG
* *
10610600 GTGCGGGACCATCGGGAAAGCATCGGCACCTTGGTGCC-TCGGATGTGCGAGAGCATCGGGCACC
1 GTGCGGGACCATCGGG-AAGCATCGGCACCTTGGTGCCTTC-GATGTGCGGGAGCATCGGACACC
*
10610664 ATCGGCAACAAAGGCCGATGGTG
64 ATCGGCAACTAAGGCC-ATGGTG
** * * *
10610687 GTGCGGGACCATCGAAAAGTATCGGCACCATGGTGCCTTCGATGTGCGGGGGCATCGGACACCAT
1 GTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
10610752 CGGCAACTAAGGCCGATGGTG
66 CGGCAACTAAGGCC-ATGGTG
* * * *
10610773 GTACGAGACCATCGGGAAGCATCGGCACCTTGGTGCC-TCGGATGTGCGAGAGCATCGGGCACCA
1 GTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTTC-GATGTGCGGGAGCATCGGACACCA
*
10610837 TCGGCAACAAAGGCCGATGGTG
65 TCGGCAACTAAGGCC-ATGGTG
* * *
10610859 GTGCGGGACCATCGGGAAGTATCGGCACCCTGGTGCCTTCGATGTGCGGGACCATCGGACACCAT
1 GTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
*
10610924 CGGCAACTAAGGCCGATAGTG
66 CGGCAACTAAGGCC-ATGGTG
10610945 GTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCC-TCGAATGTGCGGGAGCATCGGACACCA
1 GTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTTCG-ATGTGCGGGAGCATCGGACACCA
10611009 TCGGCA
65 TCGGCA
10611015 CCTAGGTGCC
Statistics
Matches: 373, Mismatches: 36, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
85 5 0.01
86 289 0.77
87 79 0.21
ACGTcount: A:0.22, C:0.27, G:0.35, T:0.17
Consensus pattern (85 bp):
GTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
CGGCAACTAAGGCCATGGTG
Found at i:10611088 original size:172 final size:172
Alignment explanation
Indices: 10610471--10611046 Score: 747
Period size: 172 Copynumber: 3.3 Consensus size: 172
10610461 GCCGATGGTG
* * * *
10610471 GTGCGCGACCATCGGGA-ACCATCGACACCTTGGTGCC-TCGGATGTGCGGGACCATCGGGAAGT
1 GTGCGAGAGCATC-GGACACCATCGGCACCTAGGTGCCATCGGATGTGCGGGACCATC-GGAAGT
* * * *
10610534 ATCTGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCATCGGCAACTAAGGCCGATGGT
64 ATCGGCACCTTGGTGCCTTCGATGTGCGGGACCATCGGACACCATCGGCAACTAAGGCCGATAGT
* *
10610599 GGTGCGGGACCATCGGGAAAGCATCGGCACCTTGGTGCCTCGGAT
129 GGTGCGAGACCATCGGG-AAGCATCGGCACCTTGGTGCCTCGAAT
* * * * *
10610644 GTGCGAGAGCATCGGGCACCATCGGCAACAAAG-GCCGAT-GG-TGGTGCGGGACCATCGAAAAG
1 GTGCGAGAGCATCGGACACCATCGGCACCTAGGTGCC-ATCGGAT-GTGCGGGACCATCG-GAAG
* ** *
10610706 TATCGGCACCATGGTGCCTTCGATGTGCGGGGGCATCGGACACCATCGGCAACTAAGGCCGATGG
63 TATCGGCACCTTGGTGCCTTCGATGTGCGGGACCATCGGACACCATCGGCAACTAAGGCCGATAG
* *
10610771 TGGTACGAGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGAT
128 TGGTGCGAGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGAAT
* * * *
10610816 GTGCGAGAGCATCGGGCACCATCGGCAACAAAG-GCCGAT-GG-TGGTGCGGGACCATCGGGAAG
1 GTGCGAGAGCATCGGACACCATCGGCACCTAGGTGCC-ATCGGAT-GTGCGGGACCATC-GGAAG
*
10610878 TATCGGCACCCTGGTGCCTTCGATGTGCGGGACCATCGGACACCATCGGCAACTAAGGCCGATAG
63 TATCGGCACCTTGGTGCCTTCGATGTGCGGGACCATCGGACACCATCGGCAACTAAGGCCGATAG
*
10610943 TGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGAAT
128 TGGTGCGAGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGAAT
* *
10610988 GTGCGGGAGCATCGGACACCATCGGCACCTAGGTGCC-TCGGATGTGCGGGAGCATCGGA
1 GTGCGAGAGCATCGGACACCATCGGCACCTAGGTGCCATCGGATGTGCGGGACCATCGGA
10611047 CACCATCGGC
Statistics
Matches: 365, Mismatches: 29, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
171 4 0.01
172 238 0.65
173 122 0.33
174 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (172 bp):
GTGCGAGAGCATCGGACACCATCGGCACCTAGGTGCCATCGGATGTGCGGGACCATCGGAAGTAT
CGGCACCTTGGTGCCTTCGATGTGCGGGACCATCGGACACCATCGGCAACTAAGGCCGATAGTGG
TGCGAGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGAAT
Found at i:10611838 original size:43 final size:43
Alignment explanation
Indices: 10611777--10611869 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
10611767 TGTTCCAGAC
10611777 ATGTGCGAGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
1 ATGTGCGAGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
* *
10611820 ATGTGCGGGAGCCTCGGACACCATCGTCACCTTGGTGCCTCGG
1 ATGTGCGAGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
10611863 ATGTGCG
1 ATGTGCG
10611870 TTTTTAAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
Found at i:10615922 original size:12 final size:12
Alignment explanation
Indices: 10615907--10615937 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10615897 AATATAGTAT
*
10615907 TAATATTTTTAA
1 TAATAATTTTAA
10615919 TAATAATTTTAA
1 TAATAATTTTAA
10615931 TAATAAT
1 TAATAAT
10615938 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAATTTTAA
Found at i:10616981 original size:162 final size:162
Alignment explanation
Indices: 10616781--10617114 Score: 533
Period size: 162 Copynumber: 2.1 Consensus size: 162
10616771 TTCAATTTAG
* * * * * * * *
10616781 TCCTTTGACTGTTTGGCTACGCTAGAGGTTGTCACGTGTCACTTTTTTGCTTATTTCTGTATCTA
1 TCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTGGCATATTTATGTATCTA
* *
10616846 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACACAATT
66 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTCATTTAATTACAAAATT
*
10616911 GGCCCAATAATTTTTCAAGATTTATAAATTAA
131 GGCCCAAGAATTTTTCAAGATTTATAAATTAA
*
10616943 TCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCATATTTATGTATCTA
1 TCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTGGCATATTTATGTATCTA
*
10617008 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTCATTTAATTACAAAATT
66 GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTCATTTAATTACAAAATT
* *
10617073 GGCCCGAGAATTTTTCAAGATTTATAAATTAG
131 GGCCCAAGAATTTTTCAAGATTTATAAATTAA
10617105 TCCTTTGACT
1 TCCTTTGACT
10617115 TCTGGGTACC
Statistics
Matches: 157, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
162 157 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (162 bp):
TCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTGGCATATTTATGTATCTA
GTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTCATTTAATTACAAAATT
GGCCCAAGAATTTTTCAAGATTTATAAATTAA
Found at i:10617249 original size:30 final size:28
Alignment explanation
Indices: 10617206--10617373 Score: 119
Period size: 29 Copynumber: 5.7 Consensus size: 28
10617196 AAACTTTCTT
10617206 AAATTCCATTTTTAACCCTAATTTAACCAA
1 AAATTCCA-TTTTAACCCTAATTT-ACCAA
* *
10617236 AAATTACCATTTTACCCCCAAACTTT-CC-A
1 AAATT-CCATTTTA-ACCCTAA-TTTACCAA
**
10617265 AAATTCCATTTTAAACCCCGATTTCACCAA
1 AAATTCCATTTT-AACCCTAATTT-ACCAA
* *
10617295 AAATTACCATTTTACCCCTGAATTTTCC-A
1 AAATT-CCATTTTAACCCT-AATTTACCAA
* *
10617324 AAATTCCATTTTTAACCCCAGTTTCACCAA
1 AAATTCCA-TTTTAACCCTAATTT-ACCAA
*
10617354 AAATTACCA-TTTACCCCTAA
1 AAATT-CCATTTTAACCCTAA
10617374 ACTTTCCAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 27
0.72 0.11 0.18
Matches are distributed among these distances:
27 3 0.03
28 18 0.17
29 33 0.30
30 30 0.28
31 22 0.20
32 3 0.03
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
AAATTCCATTTTAACCCTAATTTACCAA
Found at i:10617366 original size:29 final size:29
Alignment explanation
Indices: 10617206--10617365 Score: 136
Period size: 30 Copynumber: 5.4 Consensus size: 29
10617196 AAACTTTCTT
*
10617206 AAATT-CCATTTTTAACCCTAATTTAACCAA
1 AAATTACCA-TTTTAACCCCAATTT-ACCAA
*
10617236 AAATTACCATTTTACCCCCAAACTTT-CC-A
1 AAATTACCATTTTAACCCC-AA-TTTACCAA
*
10617265 AAATT-CCATTTTAAACCCCGATTTCACCAA
1 AAATTACCATTTT-AACCCCAATTT-ACCAA
*
10617295 AAATTACCATTTT-ACCCCTGAATTTTCC-A
1 AAATTACCATTTTAACCCC--AATTTACCAA
*
10617324 AAATT-CCATTTTTAACCCCAGTTTCACCAA
1 AAATTACCA-TTTTAACCCCAATTT-ACCAA
10617354 AAATTACCATTT
1 AAATTACCATTT
10617366 ACCCCTAAAC
Statistics
Matches: 107, Mismatches: 8, Indels: 30
0.74 0.06 0.21
Matches are distributed among these distances:
27 3 0.03
28 15 0.14
29 30 0.28
30 37 0.35
31 19 0.18
32 3 0.03
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
AAATTACCATTTTAACCCCAATTTACCAA
Found at i:10617438 original size:116 final size:117
Alignment explanation
Indices: 10617179--10617481 Score: 419
Period size: 116 Copynumber: 2.6 Consensus size: 117
10617169 TAGGTCCCCG
* * ** *
10617179 ATTATCATTTTACCCCTAAACTTTCTTAAATTCCATTTTTAACCCTAATTTAACCAAAAATTACC
1 ATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTAACCAAAAATTACC
*
10617244 ATTTTACCCCCAAACTTTCCAAAATTCCATTTTAAACCCCGATTTCACCAAAA
66 A-TTTACCCCCAAACTTTCCAAAATTCCATTTTAAACCCCGATTCCACCAAAA
* * *
10617297 ATTACCATTTTACCCCTGAATTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAAAAATTACC
1 ATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTAACCAAAAATTACC
* ** * * * *
10617362 ATTTACCCCTAAACTTTCC-AAATTCTGTTTTTAACCTCGGTTCCATCAAAA
66 ATTTACCCCCAAACTTTCCAAAATTCCATTTTAAACCCCGATTCCACCAAAA
* * *
10617413 ATTACCATTTTACCCCTGAACTTTCCAAAATTCTATTTTTAACCCCAATTTTACCGAAAATTACC
1 ATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTAACCAAAAATTACC
10617478 ATTT
66 ATTT
10617482 TGCCCCTGGG
Statistics
Matches: 164, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
116 89 0.54
117 17 0.10
118 58 0.35
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.37
Consensus pattern (117 bp):
ATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTAACCAAAAATTACC
ATTTACCCCCAAACTTTCCAAAATTCCATTTTAAACCCCGATTCCACCAAAA
Found at i:10617452 original size:29 final size:29
Alignment explanation
Indices: 10617186--10617458 Score: 115
Period size: 29 Copynumber: 9.3 Consensus size: 29
10617176 CCGATTATCA
* **
10617186 TTTTACCCCTAAACTTTCTTAAATTCCAT
1 TTTTACCCCTGAACTTTCCAAAATTCCAT
*
10617215 TTTTAACCCT-AA-TTTAACCAAAAATTACCA-
1 TTTTACCCCTGAACTTT--CC-AAAATT-CCAT
**
10617245 TTTTACCCCCAAACTTTCCAAAATTCCAT
1 TTTTACCCCTGAACTTTCCAAAATTCCAT
*
10617274 TTTAAACCCC-G-A-TTTCACCAAAAATTACCA-
1 TTT-TACCCCTGAACTTT--CC-AAAATT-CCAT
*
10617304 TTTTACCCCTGAATTTTCCAAAATTCCAT
1 TTTTACCCCTGAACTTTCCAAAATTCCAT
*
10617333 TTTTAACCCC---AGTTTCACCAAAAATTACCA-
1 TTTT-ACCCCTGAACTTT--CC-AAAATT-CCAT
* **
10617363 -TTTACCCCTAAACTTTCC-AAATTCTGT
1 TTTTACCCCTGAACTTTCCAAAATTCCAT
* * ** ** *
10617390 TTTTAACCTCGGTTCCATCAAAAATTACCA-
1 TTTT-ACCCCTGAACTTTCCAAAATT-CCAT
*
10617420 TTTTACCCCTGAACTTTCCAAAATTCTAT
1 TTTTACCCCTGAACTTTCCAAAATTCCAT
10617449 TTTTAACCCC
1 TTTT-ACCCC
10617459 AATTTTACCG
Statistics
Matches: 183, Mismatches: 30, Indels: 61
0.67 0.11 0.22
Matches are distributed among these distances:
26 1 0.01
27 15 0.08
28 19 0.10
29 68 0.37
30 57 0.31
31 17 0.09
32 6 0.03
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (29 bp):
TTTTACCCCTGAACTTTCCAAAATTCCAT
Found at i:10617489 original size:59 final size:59
Alignment explanation
Indices: 10617179--10617488 Score: 399
Period size: 59 Copynumber: 5.3 Consensus size: 59
10617169 TAGGTCCCCG
* ** * *
10617179 ATTATCATTTTACCCCTAAACTTTCTTAAATTCCATTTTTAACCCTAATTTAACCAAAA
1 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
* * *
10617238 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTAAACCCCGATTTCACCAAAA
1 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
* * *
10617297 ATTACCATTTTACCCCTGAATTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAAAA
1 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
** * ** * *
10617356 ATTACCA-TTTACCCCTAAACTTTCC-AAATTCTGTTTTTAACCTCGGTTCCATCAAAA
1 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
* * * *
10617413 ATTACCATTTTACCCCTGAACTTTCCAAAATTCTATTTTTAACCCCAATTTTACCGAAA
1 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
*
10617472 ATTACCATTTTGCCCCT
1 ATTACCATTTTACCCCT
10617489 GGGTATCCAA
Statistics
Matches: 217, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
57 33 0.15
58 33 0.15
59 151 0.70
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.36
Consensus pattern (59 bp):
ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
Found at i:10622990 original size:27 final size:28
Alignment explanation
Indices: 10622949--10623019 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
10622939 AAGGTGCTAA
* * *
10622949 GTTAGGTATCGAATTGAACCCAAAAAAT
1 GTTAGGTACCAAATTGAACACAAAAAAT
* *
10622977 G-TAGGTACCAAATTGAGCATAAAAAAT
1 GTTAGGTACCAAATTGAACACAAAAAAT
*
10623004 GTTTACGTACCAAATT
1 G-TTAGGTACCAAATT
10623020 AAAAAAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
27 22 0.63
28 1 0.03
29 12 0.34
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (28 bp):
GTTAGGTACCAAATTGAACACAAAAAAT
Found at i:10623188 original size:20 final size:19
Alignment explanation
Indices: 10623154--10623193 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
10623144 CGAAATATTC
10623154 TAAAATTTTAAATATTTTT
1 TAAAATTTTAAATATTTTT
*
10623173 TAAAACTTTTATATATTTTT
1 TAAAA-TTTTAAATATTTTT
10623193 T
1 T
10623194 TGAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TAAAATTTTAAATATTTTT
Found at i:10623337 original size:18 final size:17
Alignment explanation
Indices: 10623311--10623350 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
10623301 TTACATAATT
*
10623311 TTTTAATAATGTTTTTA
1 TTTTAATAATATTTTTA
10623328 TTTTATATAATATTTTTA
1 TTTTA-ATAATATTTTTA
*
10623346 ATTTA
1 TTTTA
10623351 GATTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTAATAATATTTTTA
Found at i:10628322 original size:23 final size:24
Alignment explanation
Indices: 10628270--10628326 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
10628260 ATTTTATATG
*
10628270 ATTTTTATAGTTTCTAATAATTTA
1 ATTTTTATAGTTTCTAATAAATTA
*
10628294 ATTTTTTATA-TTT-TAATAAAATTC
1 A-TTTTTATAGTTTCTAAT-AAATTA
10628318 ATTTTTATA
1 ATTTTTATA
10628327 AATTTCCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 12 0.41
24 9 0.31
25 8 0.28
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTTATAGTTTCTAATAAATTA
Found at i:10634267 original size:2 final size:2
Alignment explanation
Indices: 10634260--10634308 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
10634250 TACATAGGAA
*
10634260 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10634302 AT AT AT A
1 AT AT AT A
10634309 AATCTTAGCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10641516 original size:21 final size:21
Alignment explanation
Indices: 10641492--10641543 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
10641482 ACAAAAGTGA
10641492 CTTCTACTGAAACAATTCATG
1 CTTCTACTGAAACAATTCATG
*
10641513 CTTCTACTGAAATAATTCATG
1 CTTCTACTGAAACAATTCATG
10641534 CTTCTACTGA
1 CTTCTACTGA
10641544 TACTAAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.37
Consensus pattern (21 bp):
CTTCTACTGAAACAATTCATG
Found at i:10642354 original size:27 final size:25
Alignment explanation
Indices: 10642312--10642431 Score: 123
Period size: 25 Copynumber: 4.5 Consensus size: 25
10642302 GAACATCACA
*
10642312 CTTACGAGCCAGACAAAACATATCGCT
1 CTTACGAGCCAAAC-AAA-ATATCGCT
*
10642339 CTTATGAGCCAAACAAAATATCGCT
1 CTTACGAGCCAAACAAAATATCGCT
* * *
10642364 CTTAAGAGCCAGAATTCGGAATATATCTCT
1 CTTACGAGCCA-AA--C--AAAATATCGCT
*
10642394 CTTACGAGCCAAACAGAATATCGCT
1 CTTACGAGCCAAACAAAATATCGCT
10642419 CTTACGAGCCAAA
1 CTTACGAGCCAAA
10642432 ATTCAGAGCG
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
25 39 0.49
26 5 0.06
27 13 0.16
28 1 0.01
29 2 0.03
30 19 0.24
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.23
Consensus pattern (25 bp):
CTTACGAGCCAAACAAAATATCGCT
Found at i:10642403 original size:55 final size:55
Alignment explanation
Indices: 10642331--10642435 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
10642321 CAGACAAAAC
* *
10642331 ATATCGCTCTTATGAGCCAAACAAAATATCGCTCTTAAGAGCCAGAATTCGGAAT
1 ATATCGCTCTTACGAGCCAAACAAAATATCGCTCTTAAGAGCCAAAATTCGGAAT
* * *
10642386 ATATCTCTCTTACGAGCCAAACAGAATATCGCTCTTACGAGCCAAAATTC
1 ATATCGCTCTTACGAGCCAAACAAAATATCGCTCTTAAGAGCCAAAATTC
10642436 AGAGCGTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (55 bp):
ATATCGCTCTTACGAGCCAAACAAAATATCGCTCTTAAGAGCCAAAATTCGGAAT
Found at i:10646227 original size:15 final size:14
Alignment explanation
Indices: 10646204--10646238 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
10646194 TATACATATA
10646204 TTTTTTCTTTTCCC
1 TTTTTTCTTTTCCC
*
10646218 TTTTTCTCTTTTCTC
1 TTTTT-TCTTTTCCC
10646233 TTTTTT
1 TTTTTT
10646239 TTATATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTCTTTTCCC
Found at i:10663599 original size:34 final size:34
Alignment explanation
Indices: 10663561--10663626 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
10663551 TAAAATCCAT
10663561 TTCATACATATACTTTGCATACTTAGGCTAATGC
1 TTCATACATATACTTTGCATACTTAGGCTAATGC
* *
10663595 TTCATACATATACTTTGCATGCTTAGGTTAAT
1 TTCATACATATACTTTGCATACTTAGGCTAAT
10663627 TTGCATTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (34 bp):
TTCATACATATACTTTGCATACTTAGGCTAATGC
Found at i:10665282 original size:17 final size:17
Alignment explanation
Indices: 10665214--10665293 Score: 79
Period size: 17 Copynumber: 4.6 Consensus size: 17
10665204 CTCTAAATTA
10665214 CAATGACAATTGGAAATG
1 CAATGACAA-TGGAAATG
* *
10665232 CAATGATAATGCAAATG
1 CAATGACAATGGAAATG
**
10665249 CAATGACAATTAAAATG
1 CAATGACAATGGAAATG
* *
10665266 TAATGACAATGGGAATG
1 CAATGACAATGGAAATG
**
10665283 TGATGACAATG
1 CAATGACAATG
10665294 CATACTAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
17 44 0.85
18 8 0.15
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (17 bp):
CAATGACAATGGAAATG
Found at i:10671559 original size:25 final size:25
Alignment explanation
Indices: 10671501--10671590 Score: 117
Period size: 25 Copynumber: 3.5 Consensus size: 25
10671491 CGAAACATTG
* *
10671501 CTCTTACAAGCCAGATAGAATATATCA
1 CTCTTACGAGCCAGACAG-A-ATATCA
*
10671528 CTTTTACGAGCCAGACAGAATATCA
1 CTCTTACGAGCCAGACAGAATATCA
* *
10671553 CTCTTACGAGCTAGACAGAATATCG
1 CTCTTACGAGCCAGACAGAATATCA
10671578 CTCTTACGAGCCA
1 CTCTTACGAGCCA
10671591 AAATTCAGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 40 0.71
26 1 0.02
27 15 0.27
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (25 bp):
CTCTTACGAGCCAGACAGAATATCA
Found at i:10680810 original size:97 final size:97
Alignment explanation
Indices: 10680635--10680828 Score: 318
Period size: 97 Copynumber: 2.0 Consensus size: 97
10680625 AACCTTGAAA
*
10680635 AAGGGTATTCGATTATCCCAGTTTGAAGAAAACTCGCGCCTAATAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCAGTTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAATTTTCA
*
10680700 AAACCAGAGATAAAGAAACATTGCCTCGATTT
66 AAACCAGAAATAAAGAAACATTGCCTCGATTT
* *
10680732 AAGGGTATTCGATTATCCCAGTTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTTA
1 AAGGGTATTCGATTATCCCAGTTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAATTTTCA
* *
10680797 AAACTC-GAAATAAAGGAATATTGCCTCGATTT
66 AAAC-CAGAAATAAAGAAACATTGCCTCGATTT
10680829 TAAATATTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 89 0.99
98 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCAGTTTGAAGAAAAATCGCGCCTAATAAGTTAAGGCACAAATTTTCA
AAACCAGAAATAAAGAAACATTGCCTCGATTT
Found at i:10681203 original size:58 final size:59
Alignment explanation
Indices: 10681136--10681388 Score: 160
Period size: 58 Copynumber: 4.3 Consensus size: 59
10681126 GAAAGCTTTA
* *
10681136 GGGGTAAAAATATCATTTTAGGAAAATTT-AGGGTAAAAATGTAATTATT-AAAAGTTCG
1 GGGGTAAAAATATAATTTTAGG-AAATTTGAGGGAAAAAATGTAATTATTGAAAAGTTCG
* * * * * * *
10681194 GGGGCAAAAATGTGATTTTTGGAAGTTTGAGGGAAAAAATGTAATTTTTGAGAAGTTCG
1 GGGGTAAAAATATAATTTTAGGAAATTTGAGGGAAAAAATGTAATTATTGAAAAGTTCG
* * * * ** * * **
10681253 AGGGTAAAAACATAATTTT-TGAAAGTT-AGGGGGCAAAATGTAATTTTTG-GAAGTTTA
1 GGGGTAAAAATATAATTTTAGGAAATTTGA-GGGAAAAAATGTAATTATTGAAAAGTTCG
* * * * * * * *
10681310 AGGGCAAAAATGTAATTTTTGAGAAGTTT-A-GGAGCAAAATGTAATTTTTGAGAAGTTCG
1 GGGGTAAAAATATAATTTTAG-GAAATTTGAGGGA-AAAAATGTAATTATTGAAAAGTTCG
* *
10681369 TGGGTAAAAATGTAATTTTA
1 GGGGTAAAAATATAATTTTA
10681389 AAAGTTCGGG
Statistics
Matches: 156, Mismatches: 32, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
57 30 0.19
58 75 0.48
59 51 0.33
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (59 bp):
GGGGTAAAAATATAATTTTAGGAAATTTGAGGGAAAAAATGTAATTATTGAAAAGTTCG
Found at i:10681307 original size:116 final size:115
Alignment explanation
Indices: 10681171--10681492 Score: 420
Period size: 115 Copynumber: 2.8 Consensus size: 115
10681161 ATTTAGGGTA
* ** * * *
10681171 AAAATGTAATTATTAAAAGTTCGGGGGCAAAAATGTGATTTTTG-GAAGTTTGAGGGAAAAAATG
1 AAAATGTAATTTTTGGAAGTTAGGGGGCAAAAATGTAATTTTTGAGAAGTTT-AGGGACAAAATG
*
10681235 TAATTTTTGAGAAGTTCGAGGGTAAAAACATAATTTTTGAAAGTTAGGGGGC
65 TAATTTTTGAGAAGTTCGAGGGTAAAAACATAA-TTTTAAAAGTTAGGGGGC
*
10681287 AAAATGTAATTTTTGGAAGTTTA-AGGGCAAAAATGTAATTTTTGAGAAGTTTA-GGAGCAAAAT
1 AAAATGTAATTTTTGGAAG-TTAGGGGGCAAAAATGTAATTTTTGAGAAGTTTAGGGA-CAAAAT
* ** * *
10681350 GTAATTTTTGAGAAGTTCGTGGGTAAAAATGTAATTTTAAAAGTTCGGGGGT
64 GTAATTTTTGAGAAGTTCGAGGGTAAAAACATAATTTTAAAAGTTAGGGGGC
* *
10681402 AAAATGTGATTTTTGGAAGTTAGGGGACAAAAATGTAATTTTTGAGAAGTTTAAGGG-CAAAATG
1 AAAATGTAATTTTTGGAAGTTAGGGGGCAAAAATGTAATTTTTGAGAAGTTT-AGGGACAAAATG
*
10681466 TAA-TTTTGAGAAGTTCGAGGGTCAAAA
65 TAATTTTTGAGAAGTTCGAGGGTAAAAA
10681493 TGTGATTTTG
Statistics
Matches: 182, Mismatches: 18, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
114 25 0.14
115 73 0.40
116 73 0.40
117 11 0.06
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (115 bp):
AAAATGTAATTTTTGGAAGTTAGGGGGCAAAAATGTAATTTTTGAGAAGTTTAGGGACAAAATGT
AATTTTTGAGAAGTTCGAGGGTAAAAACATAATTTTAAAAGTTAGGGGGC
Found at i:10681394 original size:87 final size:86
Alignment explanation
Indices: 10681112--10681480 Score: 283
Period size: 87 Copynumber: 4.2 Consensus size: 86
10681102 GTTTAGGGTT
* * * * * * *
10681112 AAAATGCAATTTTGGAAAGCTTTAGGGGTAAAAATATCATTTTAG-GAAAATTTAGGGTA-AAAA
1 AAAATGTAATTTTGG-AAG-TTTAAGGGAAAAAATGTAATTTTTGAG-AAGTTTAGGG-ACAAAA
* *
10681175 TGTAATTATT-AAAAGTTCGGGGGCA
62 TGTAATTTTTGAGAAGTTC-GGGGCA
* * * *
10681200 AAAATGTGATTTTTGGAAGTTTGAGGGAAAAAATGTAATTTTTGAGAAGTTCGAGGGTA-AAAAC
1 AAAATGT-AATTTTGGAAGTTTAAGGGAAAAAATGTAATTTTTGAGAAGTT-TAGGG-ACAAAAT
* *
10681264 ATAATTTTTGA-AAGTTAGGGGGC-
63 GTAATTTTTGAGAAGTT-CGGGGCA
*
10681287 AAAATGTAATTTTTGGAAGTTTAAGGGCAAAAATGTAATTTTTGAGAAGTTTA-GGAGCAAAATG
1 AAAATGTAA-TTTTGGAAGTTTAAGGGAAAAAATGTAATTTTTGAGAAGTTTAGGGA-CAAAATG
*
10681351 TAATTTTTGAGAAGTTCGTGGGTA
64 TAATTTTTGAGAAGTTCG-GGGCA
** ** ** *
10681375 AAAATGTAATTTTAAAAG-TTCGGGGGTAAAATGTGATTTTTG-GAAG-TTAGGGGACAAAAATG
1 AAAATGTAATTTTGGAAGTTTAAGGGAAAAAATGTAATTTTTGAGAAGTTTA-GGGAC-AAAATG
**
10681437 TAATTTTTGAGAAGTTTAAGGGC-
64 TAATTTTTGAGAAG-TTCGGGGCA
10681460 AAAATGTAATTTTGAGAAGTT
1 AAAATGTAATTTTG-GAAGTT
10681481 CGAGGGTCAA
Statistics
Matches: 230, Mismatches: 34, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
84 4 0.02
85 20 0.09
86 65 0.28
87 87 0.38
88 46 0.20
89 8 0.03
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (86 bp):
AAAATGTAATTTTGGAAGTTTAAGGGAAAAAATGTAATTTTTGAGAAGTTTAGGGACAAAATGTA
ATTTTTGAGAAGTTCGGGGCA
Found at i:10681435 original size:86 final size:86
Alignment explanation
Indices: 10681265--10681505 Score: 246
Period size: 86 Copynumber: 2.8 Consensus size: 86
10681255 GGTAAAAACA
* * * ** *
10681265 TAATTTTTGA-AAGTT-AGGGGGCAAAATGTAATTTTTG-GAAGTTTAAGGG-CAAAAATGTAAT
1 TAATTTTTGAGAAGTTCA-AGGGAAAAATGTAA-TTTTGAAAAGTTCGAGGGTC-AAAATGTGAT
10681326 TTTTGAGAAGTTTAGGAGCAAAATG
63 TTTTG-GAAGTTTAGGAGCAAAATG
** *
10681351 TAATTTTTGAGAAGTTCGTGGGTAAAAATGTAATTTT-AAAAGTTCGGGGGT-AAAATGTGATTT
1 TAATTTTTGAGAAGTTCAAGGG-AAAAATGTAATTTTGAAAAGTTCGAGGGTCAAAATGTGATTT
*
10681414 TTGGAAG-TTAGGGGACAAAAATG
65 TTGGAAGTTTAGGAG-C-AAAATG
* * *
10681437 TAATTTTTGAGAAGTTTAAGGGCAAAATGTAATTTTGAGAAGTTCGAGGGTCAAAATGTGA-TTT
1 TAATTTTTGAGAAGTTCAAGGGAAAAATGTAATTTTGAAAAGTTCGAGGGTCAAAATGTGATTTT
10681501 TGGAA
66 TGGAA
10681506 ACGTGTAGGG
Statistics
Matches: 131, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
84 6 0.05
85 18 0.14
86 69 0.53
87 29 0.22
88 9 0.07
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.34
Consensus pattern (86 bp):
TAATTTTTGAGAAGTTCAAGGGAAAAATGTAATTTTGAAAAGTTCGAGGGTCAAAATGTGATTTT
TGGAAGTTTAGGAGCAAAATG
Found at i:10681502 original size:29 final size:30
Alignment explanation
Indices: 10681165--10681501 Score: 292
Period size: 29 Copynumber: 11.6 Consensus size: 30
10681155 AGGAAAATTT
* * *
10681165 AGGGTAAAAATGTAATTATT-AAAAGTTCG
1 AGGGTCAAAATGTAATTTTTGAGAAGTTCG
* * *
10681194 -GGGGCAAAAATGTGATTTTTG-GAAGTTTG
1 AGGGTC-AAAATGTAATTTTTGAGAAGTTCG
**
10681223 AGGGAAAAAATGTAATTTTTGAGAAGTTCG
1 AGGGTCAAAATGTAATTTTTGAGAAGTTCG
* ** *
10681253 AGGGTAAAAACATAATTTTTGA-AAGTTAG
1 AGGGTCAAAATGTAATTTTTGAGAAGTTCG
* **
10681282 -GGGGCAAAATGTAATTTTTG-GAAGTTTA
1 AGGGTCAAAATGTAATTTTTGAGAAGTTCG
*
10681310 AGGG-CAAAAATGTAATTTTTGAGAAGTT-T
1 AGGGTC-AAAATGTAATTTTTGAGAAGTTCG
10681339 AGGAG-CAAAATGTAATTTTTGAGAAGTTCG
1 AGG-GTCAAAATGTAATTTTTGAGAAGTTCG
* * *
10681369 TGGGTAAAAATGTAA-TTTT-AAAAGTTCG
1 AGGGTCAAAATGTAATTTTTGAGAAGTTCG
* * *
10681397 GGGGT-AAAATGTGATTTTTG-GAAGTTAG
1 AGGGTCAAAATGTAATTTTTGAGAAGTTCG
* **
10681425 -GGGACAAAAATGTAATTTTTGAGAAGTTTA
1 AGGGTC-AAAATGTAATTTTTGAGAAGTTCG
10681455 AGGG-CAAAATGTAA-TTTTGAGAAGTTCG
1 AGGGTCAAAATGTAATTTTTGAGAAGTTCG
*
10681483 AGGGTCAAAATGTGATTTT
1 AGGGTCAAAATGTAATTTT
10681502 GGAAACGTGT
Statistics
Matches: 253, Mismatches: 36, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
27 11 0.04
28 63 0.25
29 118 0.47
30 58 0.23
31 3 0.01
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (30 bp):
AGGGTCAAAATGTAATTTTTGAGAAGTTCG
Found at i:10682646 original size:14 final size:14
Alignment explanation
Indices: 10682627--10682659 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10682617 TTGATTATTA
*
10682627 TTAATATTATTTAT
1 TTAATATTATATAT
10682641 TTAATATTATATAT
1 TTAATATTATATAT
10682655 TTAAT
1 TTAAT
10682660 GTAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAATATTATATAT
Found at i:10683262 original size:16 final size:17
Alignment explanation
Indices: 10683241--10683278 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10683231 CATTATTTAT
*
10683241 TTTAAATTTAAA-TAAA
1 TTTAAACTTAAAGTAAA
10683257 TTTAAACTTAAAGTAAA
1 TTTAAACTTAAAGTAAA
*
10683274 CTTAA
1 TTTAA
10683279 GAATGGGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (17 bp):
TTTAAACTTAAAGTAAA
Found at i:10685438 original size:22 final size:22
Alignment explanation
Indices: 10685413--10685454 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10685403 ATTTAAAAAC
*
10685413 AATATCAACTAAATATCATAAT
1 AATATCAACTAAAAATCATAAT
*
10685435 AATATCACCTAAAAATCATA
1 AATATCAACTAAAAATCATA
10685455 TTCAAACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.29
Consensus pattern (22 bp):
AATATCAACTAAAAATCATAAT
Found at i:10694192 original size:21 final size:21
Alignment explanation
Indices: 10694168--10694235 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
10694158 CTTGAACCGA
*
10694168 TAGAA-GAGTCACTTGTATCAG
1 TAGAACGA-TCACTTGTATCGG
* *
10694189 TAGAACTATCACTTGTATTGG
1 TAGAACGATCACTTGTATCGG
*
10694210 TAGAACTATCACTTGTATCGG
1 TAGAACGATCACTTGTATCGG
10694231 TAGAA
1 TAGAA
10694236 GTCCTGAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (21 bp):
TAGAACGATCACTTGTATCGG
Found at i:10696338 original size:158 final size:158
Alignment explanation
Indices: 10696057--10696370 Score: 434
Period size: 158 Copynumber: 2.0 Consensus size: 158
10696047 GATTTACATG
* * *
10696057 TTATATGGGTGCTGGTCTTAAAGTTCCTACCGATGGCTGAGATCCGGCATTTGTTTCGGATTCTC
1 TTATATGGGTGCTGGTATTAAAGTTCCTACCGATGGCTGAGATCCGGCATTGGTTGCGGATTCTC
* **** * *
10696122 CACAGCTCATGTGAGCAGCATTGTGTAGCCTAACATCTCGACCTACAGCTCGTGTGAGCAGGCCC
66 CACAGCTCATGTAAGCAGCATCACATAGCCTAACATCTCAACCCACAGCTCGTGTGAGCAGGCCC
* *
10696187 ACTTT-ACAGCTCGTGTGAGCATTACAGT
131 A-TTTCACAACTCGTGTGAGCACTACAGT
* * *
10696215 TTATATGGGTGCTGGTATTAGA-TGTCCTACCGATGGCTGAGGTCCTGCATTGGTTGCGGATTCT
1 TTATATGGGTGCTGGTATTAAAGT-TCCTACCGATGGCTGAGATCCGGCATTGGTTGCGGATTCT
* *
10696279 CCACAGCTCGTGTAAGCAGCATCACATAGCCTAACATCTCAACCCATAGCTCGTGTGAGCAGGCC
65 CCACAGCTCATGTAAGCAGCATCACATAGCCTAACATCTCAACCCACAGCTCGTGTGAGCAGGCC
*
10696344 CATTTCACAACTTGTGTGAGCACTACA
130 CATTTCACAACTCGTGTGAGCACTACA
10696371 TGATATAGGA
Statistics
Matches: 136, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
157 4 0.03
158 132 0.97
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (158 bp):
TTATATGGGTGCTGGTATTAAAGTTCCTACCGATGGCTGAGATCCGGCATTGGTTGCGGATTCTC
CACAGCTCATGTAAGCAGCATCACATAGCCTAACATCTCAACCCACAGCTCGTGTGAGCAGGCCC
ATTTCACAACTCGTGTGAGCACTACAGT
Found at i:10700445 original size:16 final size:16
Alignment explanation
Indices: 10700424--10700455 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10700414 ACTCCCTATT
10700424 GCTCTTCATTCTTTAA
1 GCTCTTCATTCTTTAA
10700440 GCTCTTCATTCTTTAA
1 GCTCTTCATTCTTTAA
10700456 CTTTGTGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (16 bp):
GCTCTTCATTCTTTAA
Found at i:10702307 original size:30 final size:31
Alignment explanation
Indices: 10702254--10702323 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
10702244 AATAATTATT
*
10702254 TAATTATTATTATTATTAAAAAATAATTTTAA
1 TAATT-TTATTATTATTAAAAAATAATGTTAA
10702286 TAATTTTA-TATT-TTAAAAAAATAATGTTAA
1 TAATTTTATTATTATT-AAAAAATAATGTTAA
10702316 TAATTTTA
1 TAATTTTA
10702324 AAATCATTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 2 0.06
30 26 0.72
31 3 0.08
32 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (31 bp):
TAATTTTATTATTATTAAAAAATAATGTTAA
Found at i:10703957 original size:42 final size:42
Alignment explanation
Indices: 10703910--10704006 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
10703900 TTAAGATATG
* *
10703910 ATTCGCATGTTAAGCATGTC-AGTTATTTTGAATATAAATTCA
1 ATTCGCATGTTAAGCATGTCGA-TGATATTGAATATAAATTCA
* **
10703952 ATTCGCATGTTAAGCATGTCGATGATATTGATTATAAATTTG
1 ATTCGCATGTTAAGCATGTCGATGATATTGAATATAAATTCA
*
10703994 ATTTGCATGTTAA
1 ATTCGCATGTTAA
10704007 AATGTCCACT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (42 bp):
ATTCGCATGTTAAGCATGTCGATGATATTGAATATAAATTCA
Found at i:10704116 original size:24 final size:24
Alignment explanation
Indices: 10704089--10704137 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
10704079 TTTACTGCAA
* *
10704089 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTGCCTTGACCACAACGT
10704113 TATTGAGTGCCTTGACCACAACGT
1 TATTGAGTGCCTTGACCACAACGT
10704137 T
1 T
10704138 CAACTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (24 bp):
TATTGAGTGCCTTGACCACAACGT
Found at i:10704161 original size:63 final size:63
Alignment explanation
Indices: 10704078--10704236 Score: 257
Period size: 63 Copynumber: 2.5 Consensus size: 63
10704068 ACTTTGGCAG
10704078 TTTTACTGCAATATTGAGTGGCTTGGCCACAACGTTATTGAGTGCCTTGACCACAACGT-TCAAC
1 TTTT-CTGCAATATTGAGTGGCTTGGCCACAACGTTATTGAGTGCCTTGACCACAACGTGT-AAC
* * **
10704142 TTTTCTGCAATATTGAGTGGCTTGGTCAAAACGTTATTGAGTGGTTTGACCACAACGTGTAAC
1 TTTTCTGCAATATTGAGTGGCTTGGCCACAACGTTATTGAGTGCCTTGACCACAACGTGTAAC
10704205 TTTTCTGCAATATTGAGTGGCTTGGCCACAAC
1 TTTTCTGCAATATTGAGTGGCTTGGCCACAAC
10704237 ATGCTACTTG
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
63 83 0.94
64 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (63 bp):
TTTTCTGCAATATTGAGTGGCTTGGCCACAACGTTATTGAGTGCCTTGACCACAACGTGTAAC
Found at i:10704198 original size:24 final size:24
Alignment explanation
Indices: 10704152--10704199 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10704142 TTTTCTGCAA
**
10704152 TATTGAGTGGCTTGGTCAAAACGT
1 TATTGAGTGGCTTGACCAAAACGT
* *
10704176 TATTGAGTGGTTTGACCACAACGT
1 TATTGAGTGGCTTGACCAAAACGT
10704200 GTAACTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCAAAACGT
Found at i:10704234 original size:39 final size:39
Alignment explanation
Indices: 10704176--10704306 Score: 165
Period size: 39 Copynumber: 3.4 Consensus size: 39
10704166 GTCAAAACGT
* * *
10704176 TATTGAGTGGTTTGACCACAACGTGTAACTTTTCTGCAA
1 TATTGAGTGGCTTGACCACAACGTGTAACTTGTCTACAA
* * *
10704215 TATTGAGTGGCTTGGCCACAACATGCT-ACTTGTCTACGA
1 TATTGAGTGGCTTGACCACAACGTG-TAACTTGTCTACAA
* * *
10704254 TATTGAGTGGCTTGATCACAACGTGCAGCTTGTCTACAA
1 TATTGAGTGGCTTGACCACAACGTGTAACTTGTCTACAA
10704293 TATTGAGTGGCTTG
1 TATTGAGTGGCTTG
10704307 GCCATAACAT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 77 0.99
40 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (39 bp):
TATTGAGTGGCTTGACCACAACGTGTAACTTGTCTACAA
Found at i:10706563 original size:69 final size:70
Alignment explanation
Indices: 10706473--10706643 Score: 222
Period size: 69 Copynumber: 2.5 Consensus size: 70
10706463 GTAAAGGTTT
* * * * *
10706473 TTCCCACCATGTTGATGGTGCAAAGTTCGGAAT-AGACCTTCTTTTAGCCATGTTGAGGATGCAA
1 TTCCCACCATGTTGATGGTGCAAAGTTCGAAATAAG-CCCTCCTCTAGCCATGTTAAGGATGCAA
*
10706537 AACTTC
65 AAATTC
* *
10706543 -TCCCACCATGTTGATGGTGCAAAGTTC-AAATAAGCCCTCCTCTAGTCATGTTAAGGGTGCAAA
1 TTCCCACCATGTTGATGGTGCAAAGTTCGAAATAAGCCCTCCTCTAGCCATGTTAAGGATGCAAA
10706606 AATTC
66 AATTC
* *
10706611 TTCTCACCATGTTGATGGTGTAAAGTTCGAAAT
1 TTCCCACCATGTTGATGGTGCAAAGTTCGAAAT
10706644 GAGCTCTGCT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
68 30 0.34
69 54 0.61
70 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (70 bp):
TTCCCACCATGTTGATGGTGCAAAGTTCGAAATAAGCCCTCCTCTAGCCATGTTAAGGATGCAAA
AATTC
Found at i:10707022 original size:67 final size:67
Alignment explanation
Indices: 10706932--10707124 Score: 235
Period size: 67 Copynumber: 2.8 Consensus size: 67
10706922 CTTCTTCTCG
* * * * *
10706932 CCATATTGATGATACAAATTTCAAAATGGGTCCTCTCACAATTTTGAAGTTGCAAAGGT-TCTTC
1 CCATGTTGATGTTACAAAGTTCAAAATGGGTCCTCTCACCATGTTGAAGTTGCAAAGGTGT-TTC
10706996 CCA
65 CCA
* * * *
10706999 CCATGTTGATTTTACAAAGTTCAAAATGGATCCTCTCGCCATGTTGAAGTTACAAAGGTGTTTCC
1 CCATGTTGATGTTACAAAGTTCAAAATGGGTCCTCTCACCATGTTGAAGTTGCAAAGGTGTTTCC
*
10707064 CG
66 CA
* *
10707066 CCATGTTGATGTTGCAAAGTTCAGAATGGGTCCCCCTCTCACCATGTTGAAGTTGCAAA
1 CCATGTTGATGTTACAAAGTTCAAAATGGGT---CCTCTCACCATGTTGAAGTTGCAAA
10707125 AGATTTCCTC
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
67 82 0.77
68 1 0.01
70 23 0.22
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (67 bp):
CCATGTTGATGTTACAAAGTTCAAAATGGGTCCTCTCACCATGTTGAAGTTGCAAAGGTGTTTCC
CA
Found at i:10707027 original size:154 final size:157
Alignment explanation
Indices: 10706598--10707035 Score: 382
Period size: 158 Copynumber: 2.8 Consensus size: 157
10706588 TCATGTTAAG
* * * * * ** * * * *
10706598 GGTGCAAAAATTCTTCTCACCATGTTGATGGTGTAAAGTTCGAAATGAGCTCTGCTCACACTATG
1 GGTGCAAAACTTCTTCCCACCATATTAATGATACAAAGTTCAAAATGAGCCCTTCTCAC-CAATG
* * * * * * *
10706663 TTGAAGTTACAAGGGTTCTTCCTA--TTGTAATGATGTTGCAAAATTCAAAATGGGTCCTCCCCT
65 TTCAAGTTGCAAAGGTTCTTCCCACCATGT--TGATGTTACAAAATTCAAAATGGGTCCTCTCCT
* *
10706726 CGCCATGTCGAAGTCTCTCATCATGTTGAG
128 CGCCATGTCGAAGTCTCTCATCATGCTGAA
* * * * * *
10706756 GGTTCAAAACTTTTTCCCACCTTATTAATGATGCAAAGTTCAGAATGAGCCCTTCTCACGCCATG
1 GGTGCAAAACTTCTTCCCACCATATTAATGATACAAAGTTCAAAATGAGCCCTTCTCAC-CAATG
* * * * * *
10706821 TTCAAGTTGTAAGGGTTCTTCCCACCATGTTGATGTTGCAAATTTCAGAATGGGTCCTCTCCTTG
65 TTCAAGTTGCAAAGGTTCTTCCCACCATGTTGATGTTACAAAATTCAAAATGGGTCCTCTCCTCG
* * * *
10706886 GCATGTTGAAGTTTTTCA-CATGCTGAA
130 CCATGTCGAAGTCTCTCATCATGCTGAA
* * * * * * *
10706913 GGTGCAAAACTTCTTCTCGCCATATTGATGATACAAATTTCAAAATGGGTCC-TCTCA-CAATTT
1 GGTGCAAAACTTCTTCCCACCATATTAATGATACAAAGTTCAAAATGAGCCCTTCTCACCAATGT
* * * *
10706976 TGAAGTTGCAAAGGTTCTTCCCACCATGTTGATTTTACAAAGTTCAAAATGGATCCTCTC
66 TCAAGTTGCAAAGGTTCTTCCCACCATGTTGATGTTACAAAATTCAAAATGGGTCCTCTC
10707036 GCCATGTTGA
Statistics
Matches: 227, Mismatches: 51, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
154 56 0.25
156 5 0.02
157 48 0.21
158 115 0.51
160 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (157 bp):
GGTGCAAAACTTCTTCCCACCATATTAATGATACAAAGTTCAAAATGAGCCCTTCTCACCAATGT
TCAAGTTGCAAAGGTTCTTCCCACCATGTTGATGTTACAAAATTCAAAATGGGTCCTCTCCTCGC
CATGTCGAAGTCTCTCATCATGCTGAA
Found at i:10710719 original size:16 final size:16
Alignment explanation
Indices: 10710698--10710746 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
10710688 TTTACACAAA
10710698 AAGCAATGATTGGTCT
1 AAGCAATGATTGGTCT
10710714 AAGCAATGATTGGTCT
1 AAGCAATGATTGGTCT
10710730 AAGCAATGATTGGTCT
1 AAGCAATGATTGGTCT
10710746 A
1 A
10710747 GTGATGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (16 bp):
AAGCAATGATTGGTCT
Found at i:10712662 original size:7 final size:7
Alignment explanation
Indices: 10712638--10712687 Score: 75
Period size: 7 Copynumber: 7.0 Consensus size: 7
10712628 TATAATTAAT
10712638 TAAATTAA
1 TAAA-TAA
10712646 TAAA-AGA
1 TAAATA-A
10712653 TAAATAA
1 TAAATAA
10712660 TAAATAA
1 TAAATAA
10712667 TAAATAA
1 TAAATAA
10712674 TAAATAA
1 TAAATAA
10712681 TAAATAA
1 TAAATAA
10712688 AGGAGTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 1 0.03
7 34 0.85
8 5 0.12
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (7 bp):
TAAATAA
Found at i:10714544 original size:18 final size:18
Alignment explanation
Indices: 10714521--10714563 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10714511 GAATAATTTT
10714521 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
10714539 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
10714557 TTAATTA
1 TTAATTA
10714564 CAACTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:10715054 original size:16 final size:16
Alignment explanation
Indices: 10715033--10715071 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10715023 AAAGGTTTTT
*
10715033 TTAAAATTTATTAAAA
1 TTAAAATTTAATAAAA
10715049 TTAAAA-TTAATAAAA
1 TTAAAATTTAATAAAA
*
10715064 ATAAAATT
1 TTAAAATT
10715072 ACAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAAATTTAATAAAA
Found at i:10717052 original size:17 final size:17
Alignment explanation
Indices: 10717032--10717064 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10717022 CATTTTAATC
*
10717032 TTTTAAATTTTTAAAAA
1 TTTTAAATTATTAAAAA
10717049 TTTTAAATTATTAAAA
1 TTTTAAATTATTAAAA
10717065 GTAAAATTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAAATTATTAAAAA
Found at i:10717691 original size:2 final size:2
Alignment explanation
Indices: 10717635--10717671 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10717625 CTCAGACATC
*
10717635 CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
10717672 CCTATCTGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:10722626 original size:20 final size:21
Alignment explanation
Indices: 10722601--10722643 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
10722591 ATTCAAGGGA
* *
10722601 TGAAATATATTT-TTTATAAT
1 TGAAATAAATTTCTGTATAAT
10722621 TGAAATAAATTTCTGTATAAT
1 TGAAATAAATTTCTGTATAAT
10722642 TG
1 TG
10722644 TAAAACGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (21 bp):
TGAAATAAATTTCTGTATAAT
Found at i:10730059 original size:29 final size:28
Alignment explanation
Indices: 10730002--10730059 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
10729992 GGCTCAAAAT
* *
10730002 ATTTTTTTATCAATTTTTAATGGACCTA
1 ATTTTTTTATCAATTTTTAAAGAACCTA
* *
10730030 ATTTTTGTTTTCAATTTTTAAAGAATCTA
1 ATTTTT-TTATCAATTTTTAAAGAACCTA
10730059 A
1 A
10730060 AACTCCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (28 bp):
ATTTTTTTATCAATTTTTAAAGAACCTA
Found at i:10735608 original size:25 final size:25
Alignment explanation
Indices: 10735580--10735645 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
10735570 AATTATCACC
*
10735580 AACCCAATAACCCAAATTCTTTAAA
1 AACCCAATAACCCAAATCCTTTAAA
10735605 AACCCAATAACCCAAATCCTTTAAA
1 AACCCAATAACCCAAATCCTTTAAA
10735630 AACCCAATAACCCAAA
1 AACCCAATAACCCAAA
10735646 CCTAACTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (25 bp):
AACCCAATAACCCAAATCCTTTAAA
Found at i:10735692 original size:27 final size:26
Alignment explanation
Indices: 10735628--10735706 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 26
10735618 AAATCCTTTA
*
10735628 AAAACCCAATAACCCAAACCTAACTTGAAC
1 AAAACCC-A-AACCCAAACC-AA-GTGAAC
10735658 AAAACCCAAACCCCAAACCAAGTGAAC
1 AAAACCCAAA-CCCAAACCAAGTGAAC
* *
10735685 CAAGCCCAAACCCAAACCAAGT
1 AAAACCCAAACCCAAACCAAGT
10735707 CAGACCGTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 12 0.27
27 13 0.29
28 4 0.09
29 9 0.20
30 7 0.16
ACGTcount: A:0.49, C:0.37, G:0.06, T:0.08
Consensus pattern (26 bp):
AAAACCCAAACCCAAACCAAGTGAAC
Found at i:10735736 original size:21 final size:21
Alignment explanation
Indices: 10735712--10735776 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
10735702 CAAGTCAGAC
*
10735712 CGTTAACCGTTGATAGTTGAT
1 CGTTAACCGTTGACAGTTGAT
* *
10735733 CGTTGACCGTTGACCGTTGAT
1 CGTTAACCGTTGACAGTTGAT
* * *
10735754 CATTGA-CTTTGACAGTTGA-
1 CGTTAACCGTTGACAGTTGAT
10735773 CGTT
1 CGTT
10735777 TTTTGAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
19 3 0.08
20 11 0.30
21 23 0.62
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (21 bp):
CGTTAACCGTTGACAGTTGAT
Found at i:10735743 original size:7 final size:7
Alignment explanation
Indices: 10735709--10735752 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
10735699 AACCAAGTCA
10735709 GACCGTT
1 GACCGTT
*
10735716 AACCGTT
1 GACCGTT
**
10735723 GATAGTT
1 GACCGTT
*
10735730 GATCGTT
1 GACCGTT
10735737 GACCGTT
1 GACCGTT
10735744 GACCGTT
1 GACCGTT
10735751 GA
1 GA
10735753 TCATTGACTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (7 bp):
GACCGTT
Found at i:10739133 original size:69 final size:69
Alignment explanation
Indices: 10739047--10739178 Score: 255
Period size: 69 Copynumber: 1.9 Consensus size: 69
10739037 AGCTTTGGAT
*
10739047 AAGTCGAAAGCCTAGTCTAAAACACTTTCACATTTGGGGATGTCCAGTTGAGGCAAGGCCTTATA
1 AAGTCGAAAGCCTAGTCTAAAACACTTTCACATTTGGCGATGTCCAGTTGAGGCAAGGCCTTATA
10739112 AGAC
66 AGAC
10739116 AAGTCGAAAGCCTAGTCTAAAACACTTTCACATTTGGCGATGTCCAGTTGAGGCAAGGCCTTA
1 AAGTCGAAAGCCTAGTCTAAAACACTTTCACATTTGGCGATGTCCAGTTGAGGCAAGGCCTTA
10739179 CAGGCCACAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (69 bp):
AAGTCGAAAGCCTAGTCTAAAACACTTTCACATTTGGCGATGTCCAGTTGAGGCAAGGCCTTATA
AGAC
Found at i:10747833 original size:29 final size:30
Alignment explanation
Indices: 10747807--10747863 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10747797 CAATAAAAGT
*
10747807 TATAAAATTA-TTAAATTTTAATAAAAAAC
1 TATAAAAATATTTAAATTTTAATAAAAAAC
*
10747836 TATAAAAATATTTAAATTTTATTAAAAA
1 TATAAAAATATTTAAATTTTAATAAAAA
10747864 TGAGGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
TATAAAAATATTTAAATTTTAATAAAAAAC
Found at i:10748202 original size:20 final size:21
Alignment explanation
Indices: 10748148--10748203 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
10748138 TTTTTATACA
**
10748148 TTTTATAATTTTT-TTATTAT
1 TTTTATAATTTTTACAATTAT
**
10748168 TTTTATAAAAGTTTACAATT-T
1 TTTTAT-AATTTTTACAATTAT
10748189 TTTTATAATTTTTAC
1 TTTTATAATTTTTAC
10748204 GGTTTTTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 13 0.46
21 12 0.43
22 3 0.11
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTATAATTTTTACAATTAT
Found at i:10748281 original size:28 final size:28
Alignment explanation
Indices: 10748219--10748271 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10748209 TTATAAAAAA
* *
10748219 AAATTCTA-TTTTTAATAAATTTTAAAT
1 AAATTATATTTTTTAATAAAATTTAAAT
10748246 AAATTATATTTTTTAATAAAATTTAA
1 AAATTATATTTTTTAATAAAATTTAA
10748272 TAGTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
AAATTATATTTTTTAATAAAATTTAAAT
Found at i:10748669 original size:18 final size:18
Alignment explanation
Indices: 10748640--10748692 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
10748630 TTTGAGAAAG
10748640 TTAAA-ATAAAAATTAGT
1 TTAAATATAAAAATTAGT
*
10748657 TTAAATTTAAAAAATTAGT
1 TTAAATAT-AAAAATTAGT
* *
10748676 TTAGATAAAAAAATTAG
1 TTAAATATAAAAATTAG
10748693 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 5 0.17
18 10 0.33
19 15 0.50
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
TTAAATATAAAAATTAGT
Found at i:10748671 original size:19 final size:18
Alignment explanation
Indices: 10748647--10748692 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
10748637 AAGTTAAAAT
*
10748647 AAAAATTAGTTTAAATTTA
1 AAAAATTAGTTTAAA-TAA
*
10748666 AAAAATTAGTTTAGATAA
1 AAAAATTAGTTTAAATAA
10748684 AAAAATTAG
1 AAAAATTAG
10748693 AATCATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
AAAAATTAGTTTAAATAA
Found at i:10748787 original size:16 final size:16
Alignment explanation
Indices: 10748763--10748804 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
10748753 TTTAAGTTTA
10748763 TAATATTTTATATTATG
1 TAAT-TTTTATATTATG
*
10748780 TTATTTTTATATTATG
1 TAATTTTTATATTATG
10748796 TAATTTTTA
1 TAATTTTTA
10748805 ACTCATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
TAATTTTTATATTATG
Found at i:10751480 original size:38 final size:38
Alignment explanation
Indices: 10751429--10751505 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
10751419 TTCTGTTCTT
10751429 AATTTTGGGCGCAATTCTGAACAGTCTCATGCAGCGAC
1 AATTTTGGGCGCAATTCTGAACAGTCTCATGCAGCGAC
10751467 AATTTTGGGCGCAATTCTGAACAGTCTCATGCAGCGAC
1 AATTTTGGGCGCAATTCTGAACAGTCTCATGCAGCGAC
10751505 A
1 A
10751506 TTAGTAGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (38 bp):
AATTTTGGGCGCAATTCTGAACAGTCTCATGCAGCGAC
Found at i:10751737 original size:20 final size:18
Alignment explanation
Indices: 10751690--10751738 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
10751680 CAAGATAAAC
10751690 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10751707 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
10751727 ATTAAATTAATA
1 ATTAAATTAATA
10751739 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10754200 original size:24 final size:26
Alignment explanation
Indices: 10754173--10754220 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
10754163 AGAGAAATGT
10754173 AAATG-TG-ATATATGAAATTATGAG
1 AAATGATGAATATATGAAATTATGAG
* *
10754197 AAATGATGAATATGTGAGATTATG
1 AAATGATGAATATATGAAATTATG
10754221 CCCATGTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 2 0.10
26 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (26 bp):
AAATGATGAATATATGAAATTATGAG
Found at i:10754314 original size:23 final size:22
Alignment explanation
Indices: 10754283--10754405 Score: 129
Period size: 23 Copynumber: 5.4 Consensus size: 22
10754273 ACACTAGCAC
*
10754283 GCCTACTGTTTAGCACTGTGTAT
1 GCCT-CTGTTTAGCACTGTGTGT
*
10754306 GCCCTCTGTTCAGCACTGTGTGT
1 G-CCTCTGTTTAGCACTGTGTGT
*
10754329 GCCCTCTGTTCAGCACTGTGTGT
1 G-CCTCTGTTTAGCACTGTGTGT
* * *
10754352 GCTTCTGGTTAGCACTATGTGT
1 GCCTCTGTTTAGCACTGTGTGT
* *
10754374 GCTTCTGTTTAGCACTTTGTGT
1 GCCTCTGTTTAGCACTGTGTGT
*
10754396 ACCTACTGTT
1 GCCT-CTGTT
10754406 GCCCAACACT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 39 0.44
23 46 0.52
24 3 0.03
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (22 bp):
GCCTCTGTTTAGCACTGTGTGT
Found at i:10764007 original size:24 final size:24
Alignment explanation
Indices: 10763980--10764038 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
10763970 TTTAGCCAAC
10763980 ACGAGCCCAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
*
10764004 ACGAGCCCAAAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
10764028 ACGAGCCCAGA
1 ACGAGCCCAGA
10764039 CAGAGTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (24 bp):
ACGAGCCCAGAATGATTAGCTCTT
Found at i:10768427 original size:24 final size:24
Alignment explanation
Indices: 10768400--10768479 Score: 133
Period size: 24 Copynumber: 3.3 Consensus size: 24
10768390 AGCCAACACG
10768400 AGCCCAGAATGATTAGCTCTTACA
1 AGCCCAGAATGATTAGCTCTTACA
10768424 AGCCCAGAATGATTAGCTCTTACA
1 AGCCCAGAATGATTAGCTCTTACA
* **
10768448 AACCCAGAATGATTAGCTCTTATG
1 AGCCCAGAATGATTAGCTCTTACA
10768472 AGCCCAGA
1 AGCCCAGA
10768480 CAGAGTTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (24 bp):
AGCCCAGAATGATTAGCTCTTACA
Found at i:10777850 original size:21 final size:21
Alignment explanation
Indices: 10777824--10777872 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10777814 CTTCCTTCAC
*
10777824 TTCTTCTTTCTCCTCTTTCTT
1 TTCTTCTTTCTCCTCTTCCTT
* *
10777845 TTCTTCCTTCTTCTCTTCCTT
1 TTCTTCTTTCTCCTCTTCCTT
*
10777866 CTCTTCT
1 TTCTTCT
10777873 ATTGCAGGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (21 bp):
TTCTTCTTTCTCCTCTTCCTT
Found at i:10787675 original size:15 final size:15
Alignment explanation
Indices: 10787655--10787687 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10787645 ATGAAAAGAA
*
10787655 AAAAGAAAGGAAAGG
1 AAAAGAAAGGAAAAG
10787670 AAAAGAAAGGAAAAG
1 AAAAGAAAGGAAAAG
10787685 AAA
1 AAA
10787688 GCCTAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGGAAAAG
Found at i:10787677 original size:10 final size:10
Alignment explanation
Indices: 10787659--10787688 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10787649 AAAGAAAAAA
*
10787659 GAAAGGAAAG
1 GAAAAGAAAG
10787669 GAAAAGAAAG
1 GAAAAGAAAG
10787679 GAAAAGAAAG
1 GAAAAGAAAG
10787689 CCTAACCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GAAAAGAAAG
Found at i:10791907 original size:42 final size:43
Alignment explanation
Indices: 10791828--10792191 Score: 333
Period size: 43 Copynumber: 8.5 Consensus size: 43
10791818 TTATGAGGAA
* * * * *
10791828 AAACACCGCTATAGAACATGGTCTTTAGCTGTGCTT-TTCCATC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCCA-C
* * * * *
10791871 -AACGTCACTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCCAC
* * * *
10791913 AAACACCGCTGAAGAACATGATCTTTAGTGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCCAC
* * *
10791956 AAACCCCGCTAAAGAACATGGTCTCTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCCAC
* * *
10791999 AAACGCCGCTAAAGAACATGCTCTTTAACGGTGCTTCTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCCAC
*** * * * * *
10792042 AAATATCGATAAAGAACTTGGTCTTTAACAGCACTTCTCCCGA-
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCC-AC
* * * *
10792085 AAACGTCAG-TAAAAAACATAGTCTTTAGCGACGCTTCTCCCAC
1 AAACG-CCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCCAC
* * *
10792128 AAATGCCGCTAAAGAACATGGTCTTTAGCGGTGCTTAC-CCCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTT-CTCCCAC
*
10792171 AAACGCCGTTAAAGAACATGG
1 AAACGCCGCTAAAGAACATGG
10792192 ATTTTAGTTT
Statistics
Matches: 255, Mismatches: 59, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
42 31 0.12
43 221 0.87
44 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTCTCCCAC
Found at i:10792341 original size:15 final size:15
Alignment explanation
Indices: 10792321--10792353 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10792311 TTTTCCTGTA
10792321 AATTCAAATCCAACC
1 AATTCAAATCCAACC
10792336 AATTCAAATCCAACC
1 AATTCAAATCCAACC
10792351 AAT
1 AAT
10792354 AACTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.21
Consensus pattern (15 bp):
AATTCAAATCCAACC
Found at i:10798182 original size:26 final size:26
Alignment explanation
Indices: 10798142--10798199 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
10798132 AAAATTTAAG
*
10798142 CCTATAGTGTCATATGACACCTCTAA
1 CCTATAGTGTAATATGACACCTCTAA
*
10798168 CCTATAGTGTAATATGACACCTCTAG
1 CCTATAGTGTAATATGACACCTCTAA
10798194 CCTATA
1 CCTATA
10798200 ATGTTGGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (26 bp):
CCTATAGTGTAATATGACACCTCTAA
Found at i:10798281 original size:43 final size:46
Alignment explanation
Indices: 10798234--10798345 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 46
10798224 ACTTATATGC
* *
10798234 ACTAATTAAATAATTAAATATTTGGGTT-ATTTT-TTAA-TAAATA
1 ACTAATTGAATAATTAAATATTTGGGTTCATTTTAATAATTAAATA
10798277 ACTAATTGAATAATTAAATATATTTGGGTTCATTTTAATAATTAAATA
1 ACTAATTGAATAATT-AA-ATATTTGGGTTCATTTTAATAATTAAATA
**
10798325 TTTAATTGAATATATTAAATA
1 ACTAATTGAATA-ATTAAATA
10798346 ATTAAATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
43 14 0.24
44 2 0.03
45 11 0.19
46 5 0.08
47 6 0.10
48 18 0.31
49 3 0.05
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (46 bp):
ACTAATTGAATAATTAAATATTTGGGTTCATTTTAATAATTAAATA
Found at i:10798365 original size:14 final size:14
Alignment explanation
Indices: 10798346--10798376 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10798336 ATATTAAATA
*
10798346 ATTAAATATTTTGG
1 ATTAAATATTTTCG
10798360 ATTAAATATTTTCG
1 ATTAAATATTTTCG
10798374 ATT
1 ATT
10798377 GTTATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (14 bp):
ATTAAATATTTTCG
Found at i:10798368 original size:29 final size:29
Alignment explanation
Indices: 10798285--10798369 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
10798275 TAACTAATTG
* * *
10798285 AATAATTAAATATATTTGGGTT-CAT-TTT
1 AATAATTAAATAT-TTTGGATTAAATATTA
*
10798313 AATAATTAAATA-TTT-AATTGAATATATTA
1 AATAATTAAATATTTTGGATT-AA-ATATTA
10798342 AATAATTAAATATTTTGGATTAAATATT
1 AATAATTAAATATTTTGGATTAAATATT
10798370 TTCGATTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
25 2 0.04
26 3 0.07
28 14 0.30
29 19 0.41
30 5 0.11
31 3 0.07
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (29 bp):
AATAATTAAATATTTTGGATTAAATATTA
Found at i:10798461 original size:56 final size:57
Alignment explanation
Indices: 10798338--10798467 Score: 190
Period size: 56 Copynumber: 2.3 Consensus size: 57
10798328 AATTGAATAT
* * *
10798338 ATTAAATAATTAAATATTTTGGATTAAATATTTTCGATTGTTATTAATAAATAGCTA
1 ATTAAATAATTAAATATTTTGAATTAAAGATTTTCGATTGTTATTAATAAATAACTA
* * * *
10798395 ATTAAATAATTAAATATTTTGAATTAAAGA-TTTGGGTTGTTTTTAATAATTAACTA
1 ATTAAATAATTAAATATTTTGAATTAAAGATTTTCGATTGTTATTAATAAATAACTA
10798451 ATTAAATAATTAAATAT
1 ATTAAATAATTAAATAT
10798468 AATTAAATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
56 38 0.58
57 28 0.42
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.45
Consensus pattern (57 bp):
ATTAAATAATTAAATATTTTGAATTAAAGATTTTCGATTGTTATTAATAAATAACTA
Found at i:10798464 original size:8 final size:8
Alignment explanation
Indices: 10798439--10798568 Score: 69
Period size: 8 Copynumber: 16.5 Consensus size: 8
10798429 GGTTGTTTTT
10798439 AATAATTA
1 AATAATTA
*
10798447 ACTAATTA
1 AATAATTA
10798455 AATAATTAA
1 AATAATT-A
10798464 ATATAATTA
1 A-ATAATTA
10798473 AATAATTA
1 AATAATTA
10798481 AAT-ATT-
1 AATAATTA
* * *
10798487 -TTGAGTAA
1 AAT-AATTA
*
10798495 AATATTTA
1 AATAATTA
* *
10798503 ATTAACTA
1 AATAATTA
*
10798511 ATACAATT-
1 A-ATAATTA
*
10798519 TATAATTA
1 AATAATTA
10798527 AAT-ATT-
1 AATAATTA
10798533 --TAATTA
1 AATAATTA
10798539 AATAATTAA
1 AATAATT-A
10798548 ATATAATTA
1 A-ATAATTA
10798557 AATAATTA
1 AATAATTA
10798565 AATA
1 AATA
10798569 TTTTTTTATT
Statistics
Matches: 91, Mismatches: 17, Indels: 28
0.67 0.12 0.21
Matches are distributed among these distances:
4 1 0.01
5 4 0.04
7 12 0.13
8 50 0.55
9 12 0.13
10 12 0.13
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (8 bp):
AATAATTA
Found at i:10798472 original size:18 final size:18
Alignment explanation
Indices: 10798449--10798569 Score: 105
Period size: 18 Copynumber: 7.1 Consensus size: 18
10798439 AATAATTAAC
10798449 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
10798467 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
* *
10798485 T--TT---TGAGTAAA-A
1 TAATTAAATAATTAAATA
* * *
10798497 TATTTAATTAACT-AATA
1 TAATTAAATAATTAAATA
* *
10798514 CAATT-TATAATTAAATA
1 TAATTAAATAATTAAATA
10798531 TTTAATTAAATAATTAAATA
1 --TAATTAAATAATTAAATA
10798551 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
10798569 T
1 T
10798570 TTTTTTATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
12 2 0.02
13 6 0.07
14 2 0.02
16 8 0.10
17 11 0.13
18 38 0.46
19 4 0.05
20 11 0.13
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATTAAATAATTAAATA
Found at i:10798530 original size:32 final size:30
Alignment explanation
Indices: 10798494--10798565 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 30
10798484 ATTTTGAGTA
*
10798494 AAATATTTAATTAACTAA-TACAATTTATAATT
1 AAATATTTAATTAAATAATTA-AA--TATAATT
10798526 AAATATTTAATTAAATAATTAAATATAATT
1 AAATATTTAATTAAATAATTAAATATAATT
*
10798556 AAATAATTAA
1 AAATATTTAA
10798566 ATATTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 16 0.43
32 19 0.51
33 2 0.05
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATATTTAATTAAATAATTAAATATAATT
Found at i:10798630 original size:26 final size:26
Alignment explanation
Indices: 10798599--10798665 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
10798589 TAACTAATTG
10798599 AATAATTAAATATTTGAGTTCATTTT
1 AATAATTAAATATTTGAGTTCATTTT
*
10798625 AATAATTAAATATTGGAGTTCATTTT
1 AATAATTAAATATTTGAGTTCATTTT
10798651 AATAATTAAATATTT
1 AATAATTAAATATTT
10798666 AATTGAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (26 bp):
AATAATTAAATATTTGAGTTCATTTT
Found at i:10798765 original size:56 final size:56
Alignment explanation
Indices: 10798699--10798808 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
10798689 ATATTTTTTA
*
10798699 TTGTTATTAATAAATAACTAATTAAATAATTAAATATTTTGAATTAAAGATTTAGG
1 TTGTTATTAATAAATAACTAATTAAATAATTAAATATCTTGAATTAAAGATTTAGG
* * *
10798755 TTGTTTTTAATAATTAACTAATTAAATAATTAAATATCTTGAATTAAATATTTA
1 TTGTTATTAATAAATAACTAATTAAATAATTAAATATCTTGAATTAAAGATTTA
10798809 ATTAACTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (56 bp):
TTGTTATTAATAAATAACTAATTAAATAATTAAATATCTTGAATTAAAGATTTAGG
Found at i:10798834 original size:32 final size:30
Alignment explanation
Indices: 10798796--10798869 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 30
10798786 AAATATCTTG
* **
10798796 AATTAAATATTTAATTAACTAATAATGTTTAT
1 AATTAAATATTTAATTAAAT-ATAAT-TAAAT
*
10798828 AATTAAACATTTAATTAAATATAATTAAAT
1 AATTAAATATTTAATTAAATATAATTAAAT
10798858 AATTAAATATTT
1 AATTAAATATTT
10798870 TGAGTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 14 0.38
31 5 0.14
32 18 0.49
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (30 bp):
AATTAAATATTTAATTAAATATAATTAAAT
Found at i:10798854 original size:76 final size:76
Alignment explanation
Indices: 10798773--10798980 Score: 353
Period size: 76 Copynumber: 2.7 Consensus size: 76
10798763 AATAATTAAC
* *
10798773 TAATTAAATAATTAAATATCTTGAATTAAATATTTAATTAACTAATAATGTTTATAATTAAACAT
1 TAATTAAATAATTAAATATTTTGAATTAAATATTTAATTAACTAATACTGTTTATAATTAAACAT
*
10798838 TTAATTAAATA
66 TTAACTAAATA
* * *
10798849 TAATTAAATAATTAAATATTTTGAGTAAAATATTTAATTAACTAATACTGTTTATAATTAAATAT
1 TAATTAAATAATTAAATATTTTGAATTAAATATTTAATTAACTAATACTGTTTATAATTAAACAT
10798914 TTAACTAAATA
66 TTAACTAAATA
*
10798925 TAATTAAACAATTAAATATTTTGAATTAAATATTTAATTAACTAATACTGTTTATA
1 TAATTAAATAATTAAATATTTTGAATTAAATATTTAATTAACTAATACTGTTTATA
10798981 TACATATATA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 123 1.00
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (76 bp):
TAATTAAATAATTAAATATTTTGAATTAAATATTTAATTAACTAATACTGTTTATAATTAAACAT
TTAACTAAATA
Found at i:10798961 original size:22 final size:22
Alignment explanation
Indices: 10798901--10798961 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
10798891 TAATACTGTT
*
10798901 TATAATTAAATATTTAACTAAA
1 TATAATTAAATATTTAAATAAA
* * *
10798923 TATAATTAAACAATTAAAT-AT
1 TATAATTAAATATTTAAATAAA
*
10798944 TTTGAATTAAATATTTAA
1 TAT-AATTAAATATTTAA
10798962 TTAACTAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (22 bp):
TATAATTAAATATTTAAATAAA
Found at i:10800139 original size:2 final size:2
Alignment explanation
Indices: 10800132--10800159 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10800122 CATTGCAACT
10800132 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10800160 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10803039 original size:41 final size:41
Alignment explanation
Indices: 10802973--10803117 Score: 175
Period size: 41 Copynumber: 3.5 Consensus size: 41
10802963 GTTTATGTAA
* * * * **
10802973 AAACGCCGCTATTGCAAT-ACTTTTAGTGGCGTTTTTAACAT
1 AAACGCCGCTATTG-ATTGACCTTTAGCGGTGTTTTTCTCAT
* * *
10803014 AAACACCGCTATTGTTTGACCTTTAGCGGTATTTTTCTCAT
1 AAACGCCGCTATTGATTGACCTTTAGCGGTGTTTTTCTCAT
* *
10803055 AAACGCTGCTATTGCTTGACCTTTAGCGGTGTTTTTCTCAT
1 AAACGCCGCTATTGATTGACCTTTAGCGGTGTTTTTCTCAT
10803096 AAACGCCGCTATTGATTGACCT
1 AAACGCCGCTATTGATTGACCT
10803118 CTAATTTTTA
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 87 0.99
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (41 bp):
AAACGCCGCTATTGATTGACCTTTAGCGGTGTTTTTCTCAT
Found at i:10803188 original size:22 final size:21
Alignment explanation
Indices: 10803157--10803198 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
10803147 TCTTAAAATT
10803157 TTTAGAAATTTTATAATATTTAA
1 TTTAGAAATTTTA-AA-ATTTAA
10803180 TTTA-AAATTTTAAAATTTA
1 TTTAGAAATTTTAAAATTTA
10803199 TAAAAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 8 0.42
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTAGAAATTTTAAAATTTAA
Found at i:10805005 original size:41 final size:41
Alignment explanation
Indices: 10804960--10805440 Score: 568
Period size: 41 Copynumber: 11.8 Consensus size: 41
10804950 TCTATTGTAT
* *
10804960 AACGCCGCTAATGCTCTGACTTTTAGCGACGCTTTTTCATA
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATA
* * * *
10805001 AACGCCGCTAATGCTCCGACTTTTAGCTGCGTTTTTTCATA
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATA
*
10805042 AATGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATA
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATA
* * *
10805083 AATGCCGCTGATGCT-TCGACCTTTAGCGGCGCTTCTTCATA
1 AACGCCGCTAATGCTCT-GACCTTTAGCGGCGCTTTTTCATA
*
10805124 AACACCGCTAATGCT-TCGACCTTTAGCGGCG-TTTTATCATA
1 AACGCCGCTAATGCTCT-GACCTTTAGCGGCGCTTTT-TCATA
* *
10805165 AACGCCGCTACTGCT-TCAACCTTTAGCGGCGC-TTTTCTATA
1 AACGCCGCTAATGCTCT-GACCTTTAGCGGCGCTTTTTC-ATA
*
10805206 AACGCCGCTAATGCTCTGACCTTTAGCGGCAC-TTTTC-TAA
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCAT-A
* * *
10805246 AACGCCGCTAATACTCTGACCTTTACCGGCGCTTTATCATA
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATA
**
10805287 AACGCCGCTAATGCTCTGACCTTTAGCGGCGC-TTCCCAATA
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTC-ATA
* ** *
10805328 AACGCCGCTAATGCTCAGACCTTTAGCGGCGCTTTGCCCTA
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATA
*
10805369 AACGCCGCTAATGCTCTAACCTTTAGCGGCG-TTTTTCCTATA
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTT-C-ATA
* * *
10805411 AACGCCGCTATTGCT-TTACCTTTTGCGGCG
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCG
10805441 TTTATGGTAA
Statistics
Matches: 388, Mismatches: 40, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.00
40 42 0.11
41 323 0.83
42 22 0.06
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.31
Consensus pattern (41 bp):
AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATA
Found at i:10805311 original size:204 final size:205
Alignment explanation
Indices: 10804960--10805439 Score: 616
Period size: 204 Copynumber: 2.3 Consensus size: 205
10804950 TCTATTGTAT
* * * * *
10804960 AACGCCGCTAATGCTCTGACTTTTAGCGACGCTTTT-TCATAAACGCCGCTAATGCTCCGACTTT
1 AACGCCGCTAATGCTCTAACCTTTAGCGGCGCTTTTCT-ATAAACGCCGCTAATGCTCTGACCTT
* * * * * * * *
10805024 TAGCTGCGTTTTTTCATAAATGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATAAATGCC
65 TAGCGGCCTTTTCTCATAAACGCCGCTAATACTCTGACCTTTACCGGCGCTTTATCATAAACGCC
* *
10805089 GCTGATGCTTCGACCTTTAGCGGCGCTTCTTC-ATAAACACCGCTAATGCTTC-GACCTTTAGCG
130 GCTAATGCTTCGACCTTTAGCGGCGCTTC-CCAATAAACACCGCTAATGC-TCAGACCTTTAGCG
* *
10805152 GCGTTTTATCATA
193 GCGCTTTACCATA
*
10805165 AACGCCGCTACTGCT-TCAACCTTTAGCGGCGCTTTTCTATAAACGCCGCTAATGCTCTGACCTT
1 AACGCCGCTAATGCTCT-AACCTTTAGCGGCGCTTTTCTATAAACGCCGCTAATGCTCTGACCTT
10805229 TAGCGGCACTTTTCT-A-AAACGCCGCTAATACTCTGACCTTTACCGGCGCTTTATCATAAACGC
65 TAGCGGC-CTTTTCTCATAAACGCCGCTAATACTCTGACCTTTACCGGCGCTTTATCATAAACGC
*
10805292 CGCTAATGC-TCTGACCTTTAGCGGCGCTTCCCAATAAACGCCGCTAATGCTCAGACCTTTAGCG
129 CGCTAATGCTTC-GACCTTTAGCGGCGCTTCCCAATAAACACCGCTAATGCTCAGACCTTTAGCG
* *
10805356 GCGCTTTGCCCTA
193 GCGCTTTACCATA
* * *
10805369 AACGCCGCTAATGCTCTAACCTTTAGCGGCGTTTTTCCTATAAACGCCGCTATTGCT-TTACCTT
1 AACGCCGCTAATGCTCTAACCTTTAGCGGCGCTTTT-CTATAAACGCCGCTAATGCTCTGACCTT
*
10805433 TTGCGGC
65 TAGCGGC
10805440 GTTTATGGTA
Statistics
Matches: 241, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
203 5 0.02
204 149 0.62
205 81 0.34
206 6 0.02
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (205 bp):
AACGCCGCTAATGCTCTAACCTTTAGCGGCGCTTTTCTATAAACGCCGCTAATGCTCTGACCTTT
AGCGGCCTTTTCTCATAAACGCCGCTAATACTCTGACCTTTACCGGCGCTTTATCATAAACGCCG
CTAATGCTTCGACCTTTAGCGGCGCTTCCCAATAAACACCGCTAATGCTCAGACCTTTAGCGGCG
CTTTACCATA
Found at i:10805454 original size:82 final size:79
Alignment explanation
Indices: 10804960--10805523 Score: 521
Period size: 82 Copynumber: 6.9 Consensus size: 79
10804950 TCTATTGTAT
* * * *
10804960 AACGCCGCTAATGCTCTGACTTTTAGCGACGCTTTTTCATAAACGCCGCTAATGCTCCGACTTTT
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCG-TTTTTCATAAACGCCGCTAATGCT-TGACCTTT
* *
10805025 AGCTGCGTTTTTTCATA
64 AGCGGCGTTTTCT-ATA
* * *
10805042 AATGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCATAAATGCCGCTGATGCTTCGACCTTT
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCG-TTTTTCATAAACGCCGCTAATGCTT-GACCTTT
10805107 AGCGGCGCTTCTTC-ATA
64 AGCGGCG-TT-TTCTATA
* * *
10805124 AACACCGCTAATGCT-TCGACCTTTAGCGGCGTTTTATCATAAACGCCGCTACTGCTTCAACCTT
1 AACGCCGCTAATGCTCT-GACCTTTAGCGGCGTTTT-TCATAAACGCCGCTAATGCTT-GACCTT
10805188 TAGCGGCGCTTTTCTATA
63 TAGCGGCG-TTTTCTATA
** *
10805206 AACGCCGCTAATGCTCTGACCTTTAGCGGCACTTTTC-TAAAACGCCGCTAATACTCTGACCTTT
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTCAT-AAACGCCGCTAATGCT-TGACCTTT
*
10805270 ACCGGCGCTTTATC-ATA
64 AGCGGCG-TTT-TCTATA
* ** *
10805287 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTCCCAATAAACGCCGCTAATGCTCAGACCTTT
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTC-ATAAACGCCGCTAATGCT-TGACCTTT
* **
10805352 AGCGGCGCTTTGCCCTA
64 AGCGGCG-TTTTCTATA
* * *
10805369 AACGCCGCTAATGCTCTAACCTTTAGCGGCGTTTTTCCTATAAACGCCGCTATTGCTTTACCTTT
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTT-C-ATAAACGCCGCTAATGCTTGACCTTT
* *
10805434 TGCGGCGTTTATGGTA-A
64 AGCGGCGTTT-T-CTATA
* * * * * * * * * * *
10805451 AACGCCACTAATGCT-TTACCTTT-GTGGTGTTTTTGAAAAAATGTCGCTATTGCTTTACCTTTT
1 AACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTT-CATAAACGCCGCTAATGCTTGACCTTTA
10805514 GCGGCGTTTT
65 GCGGCGTTTT
10805524 ATTTCCAAAC
Statistics
Matches: 414, Mismatches: 52, Indels: 36
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.00
79 33 0.08
80 10 0.02
81 88 0.21
82 258 0.62
83 22 0.05
84 2 0.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (79 bp):
AACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTCATAAACGCCGCTAATGCTTGACCTTTAG
CGGCGTTTTCTATA
Found at i:10805466 original size:40 final size:40
Alignment explanation
Indices: 10804960--10805523 Score: 258
Period size: 41 Copynumber: 13.8 Consensus size: 40
10804950 TCTATTGTAT
* * *
10804960 AACGCCGCTAATGCTCTGA-CTTTTAGCGACGCTTTTTCAT-A
1 AACGCCGCTAATGCT-TTACCTTTT-GCGGCG-TTTTTGATAA
** * *
10805001 AACGCCGCTAATGCTCCGA-CTTTTAGCTGCGTTTTTTCAT-A
1 AACGCCGCTAATGCT-TTACCTTTT-GCGGCG-TTTTTGATAA
* * * *
10805042 AATGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTTTCAT-A
1 AACGCCGCTAATGCT-TTACCTTTTGCGGCG-TTTTTGATAA
* * * * * *
10805083 AATGCCGCTGATGCTTCGACCTTTAGCGGCGCTTCTTCAT-A
1 AACGCCGCTAATGCTT-TACCTTTTGCGGCG-TTTTTGATAA
* * * *
10805124 AACACCGCTAATGCTTCGACCTTTAGCGGCGTTTTATCAT-A
1 AACGCCGCTAATGCTT-TACCTTTTGCGGCGTTTT-TGATAA
* * *
10805165 AACGCCGCTACTGCTTCAACCTTTAGCGGCGCTTTTCT-AT-A
1 AACGCCGCTAATGCTT-TACCTTTTGCGGCG-TTTT-TGATAA
* * ** *
10805206 AACGCCGCTAATGCTCTGACCTTTAGCGGCACTTTT-CTAA
1 AACGCCGCTAATGCT-TTACCTTTTGCGGCGTTTTTGATAA
* * ** * *
10805246 AACGCCGCTAATACTCTGACCTTTACCGGCGCTTTATCAT-A
1 AACGCCGCTAATGCT-TTACCTTTTGCGGCG-TTTTTGATAA
* * * ***
10805287 AACGCCGCTAATGCTCTGACCTTTAGCGGCGCTTCCCA-ATA
1 AACGCCGCTAATGCT-TTACCTTTTGCGGCGTTTTTGATA-A
** * * *
10805328 AACGCCGCTAATGCTCAGACCTTTAGCGGCG-CTTTGCCCT-A
1 AACGCCGCTAATGCT-TTACCTTTTGCGGCGTTTTTG--ATAA
* * **
10805369 AACGCCGCTAATGCTCTAACCTTTAGCGGCGTTTTTCCTATA
1 AACGCCGCTAATGCT-TTACCTTTTGCGGCGTTTTTGATA-A
* * *
10805411 AACGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGTAA
1 AACGCCGCTAATGCTTTACCTTTTGCGGCGTTTTTGATAA
* * * *
10805451 AACGCCACTAATGCTTTACC-TTTGTGGTGTTTTTGAAAA
1 AACGCCGCTAATGCTTTACCTTTTGCGGCGTTTTTGATAA
* * *
10805490 AATGTCGCTATTGCTTTACCTTTTGCGGCGTTTT
1 AACGCCGCTAATGCTTTACCTTTTGCGGCGTTTT
10805524 ATTTCCAAAC
Statistics
Matches: 442, Mismatches: 64, Indels: 35
0.82 0.12 0.06
Matches are distributed among these distances:
39 32 0.07
40 73 0.17
41 308 0.70
42 29 0.07
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (40 bp):
AACGCCGCTAATGCTTTACCTTTTGCGGCGTTTTTGATAA
Found at i:10805512 original size:39 final size:39
Alignment explanation
Indices: 10805368--10805522 Score: 130
Period size: 39 Copynumber: 3.8 Consensus size: 39
10805358 GCTTTGCCCT
* * * ** *
10805368 AAACGCCGCTAATGCTCTAACCTTTAGCGGCGTTTTTCCTAT
1 AAACGCCGCTATTGCT-TTACCTTT-GCGGCGTTTAT-GAAA
**
10805410 AAACGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGTA
1 AAACGCCGCTATTGCTTTACC-TTTGCGGCGTTTATGAAA
* * * * *
10805450 AAACGCCACTAATGCTTTACCTTTGTGGTGTTTTTGAAA
1 AAACGCCGCTATTGCTTTACCTTTGCGGCGTTTATGAAA
* *
10805489 AAATGTCGCTATTGCTTTACCTTTTGCGGCGTTT
1 AAACGCCGCTATTGCTTTACC-TTTGCGGCGTTT
10805523 TATTTCCAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 30 0.33
40 29 0.32
41 14 0.15
42 18 0.20
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (39 bp):
AAACGCCGCTATTGCTTTACCTTTGCGGCGTTTATGAAA
Found at i:10808990 original size:268 final size:269
Alignment explanation
Indices: 10808507--10809047 Score: 910
Period size: 268 Copynumber: 2.0 Consensus size: 269
10808497 ATAACTCAGA
*
10808507 AGACAAAATAGACCAGAGAACTGGACATGTATAAACTAATTTTGAGACAGAATATGGATCAAACC
1 AGACAAAATAGACCAGAGAACTAGACATGTATAAACTAATTTTGAGACAGAATATGGATCAAACC
10808572 ATAACTAAAAAATCTCATTACTCAATGCTCAAGTAGAAACTTAAAATTTAAGACCAAAAATAAGA
66 ATAACTAAAAAATCTCATTACTCAATGCTCAAGTAGAAACTTAAAATTTAAGACCAAAAATAAGA
*
10808637 AAGAAAAGTGCATCATATTAATGACAACTAGGAAAATTTTCAATCACTATAGAACCAAGACTGAA
131 AAGAAAAGCGCATCATATTAATGACAACTAGGAAAATTTTCAATCACTATAGAACCAAGACTGAA
*
10808702 AACCCAATCAATGTGAAGGAAACCTTTGTTATCTATATTATTACTTT-A-A-GGATCAGACCTTT
196 AACCCAATCAATGTGAAGGAAACCTTTG-T-TCTATATGATTACTTTAATACGGATCAGACCTTT
10808764 TATCCTATATG
259 TATCCTATATG
*
10808775 AGACAGAATAGACCAGAGAACTAGACATGTATAAACTAATTTTGAGACAGAATATGGA-CTAAAC
1 AGACAAAATAGACCAGAGAACTAGACATGTATAAACTAATTTTGAGACAGAATATGGATC-AAAC
* *
10808839 CATAACTAAAAAATCTCATTACTGAATGTTCAAGTAGAAACTTAAAATTTAAGACCAAAAATAAG
65 CATAACTAAAAAATCTCATTACTCAATGCTCAAGTAGAAACTTAAAATTTAAGACCAAAAATAAG
* **
10808904 AAAGAAAAGCGCATCATATTAATGGCAACTAGGAAAATTTTCAATTGCTATAGAACCAAGACTGA
130 AAAGAAAAGCGCATCATATTAATGACAACTAGGAAAATTTTCAATCACTATAGAACCAAGACTGA
*
10808969 AAACCCAATCAATGTGAAGGAAACCTTTGTTCTGTATGATTACTTTAAATATCCGGATCAGACCT
195 AAACCCAATCAATGTGAAGGAAACCTTTGTTCTATATGATTACTTT-AATA--CGGATCAGACCT
10809034 TTTATCCTATATG
257 TTTATCCTATATG
10809047 A
1 A
10809048 TTAAAAAAAC
Statistics
Matches: 256, Mismatches: 10, Indels: 10
0.93 0.04 0.04
Matches are distributed among these distances:
266 14 0.05
267 2 0.01
268 214 0.84
269 1 0.00
272 25 0.10
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (269 bp):
AGACAAAATAGACCAGAGAACTAGACATGTATAAACTAATTTTGAGACAGAATATGGATCAAACC
ATAACTAAAAAATCTCATTACTCAATGCTCAAGTAGAAACTTAAAATTTAAGACCAAAAATAAGA
AAGAAAAGCGCATCATATTAATGACAACTAGGAAAATTTTCAATCACTATAGAACCAAGACTGAA
AACCCAATCAATGTGAAGGAAACCTTTGTTCTATATGATTACTTTAATACGGATCAGACCTTTTA
TCCTATATG
Found at i:10814606 original size:40 final size:40
Alignment explanation
Indices: 10814525--10814648 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
10814515 TTTTTACAAT
* * **
10814525 ATCACCGGCT-AAAGCCTACTAAGTCGTAGCTTGAAAGAC
1 ATCACCAGCTCAAAGCCTGCTAAGTCGTAGCTTGAATTAC
* ** *
10814564 ATCATC-GACTTGAAGCCTGCTAAATCGTAGCTTGAATTAC
1 ATCACCAG-CTCAAAGCCTGCTAAGTCGTAGCTTGAATTAC
* *
10814604 ATCACCAGCTCAAAACCTGCTAAGCCGTAGCTTGAATTAC
1 ATCACCAGCTCAAAGCCTGCTAAGTCGTAGCTTGAATTAC
10814644 ATCAC
1 ATCAC
10814649 TAACCCATAG
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 7 0.10
40 61 0.87
41 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (40 bp):
ATCACCAGCTCAAAGCCTGCTAAGTCGTAGCTTGAATTAC
Found at i:10817575 original size:29 final size:29
Alignment explanation
Indices: 10817499--10817671 Score: 168
Period size: 29 Copynumber: 6.0 Consensus size: 29
10817489 TTCCCCATTA
* *
10817499 GCCCTCAATTTTAGTAAAATTGTAATAA-
1 GCCCTCAACTTTAGTAAAATTGCAATAAC
* * *
10817527 GCCCTTAACTTTAGTAAAATTGCATTAAT
1 GCCCTCAACTTTAGTAAAATTGCAATAAC
* * * *
10817556 GCTCTCAACTTTAGCAAAATTACAGTAAC
1 GCCCTCAACTTTAGTAAAATTGCAATAAC
* * * *
10817585 ACCCTCAACTTTAATAAAAATGTAATAAC
1 GCCCTCAACTTTAGTAAAATTGCAATAAC
** *
10817614 GCCCTCAACTTTAGTAAAATTAAAATAAT
1 GCCCTCAACTTTAGTAAAATTGCAATAAC
* *
10817643 GCCCTCAGACTTTAGAAAAATTGTAATAA
1 GCCCTCA-ACTTTAGTAAAATTGCAATAA
10817672 AGCTCTAAAA
Statistics
Matches: 116, Mismatches: 27, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
28 24 0.21
29 74 0.64
30 18 0.16
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (29 bp):
GCCCTCAACTTTAGTAAAATTGCAATAAC
Found at i:10833260 original size:17 final size:16
Alignment explanation
Indices: 10833238--10833285 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
10833228 ATAGTTTCCA
10833238 TGCATTCTTATTGTCAC
1 TGCATTCTT-TTGTCAC
*
10833255 TGCATTTTCTTTTGTCAT
1 TGCA--TTCTTTTGTCAC
10833273 TGCATTCCTTTTG
1 TGCATT-CTTTTG
10833286 CTAACTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.07
17 10 0.37
18 10 0.37
19 5 0.19
ACGTcount: A:0.12, C:0.21, G:0.12, T:0.54
Consensus pattern (16 bp):
TGCATTCTTTTGTCAC
Found at i:10833271 original size:18 final size:19
Alignment explanation
Indices: 10833242--10833278 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10833232 TTTCCATGCA
10833242 TTCTTATTGTCACTGCATT
1 TTCTTATTGTCACTGCATT
*
10833261 TTCTT-TTGTCATTGCATT
1 TTCTTATTGTCACTGCATT
10833279 CCTTTTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.14, C:0.19, G:0.11, T:0.57
Consensus pattern (19 bp):
TTCTTATTGTCACTGCATT
Found at i:10839002 original size:173 final size:173
Alignment explanation
Indices: 10838708--10839054 Score: 622
Period size: 173 Copynumber: 2.0 Consensus size: 173
10838698 TATTCTATCT
10838708 TTTTAATGATATTGTATGTGCTTTGATTGAACCGGGATCGACTCATTCATATATTTGCACTGCCT
1 TTTTAATGATATTGTATGTGCTTTGATTGAACCGGGATCGACTCATTCATATATTTGCACTGCCT
10838773 TAGCTACTGATAAGAAACTATTTGTTAAGTCGACTGAATTTGATGTGCAAGTCACAAACCCATTG
66 TAGCTACTGATAAGAAACTATTTGTTAAGTCGACTGAATTTGATGTGCAAGTCACAAACCCATTG
*
10838838 GGTCATAGTCTTATTGTTAACTTGGTATGTAGTAAATGTCCCC
131 GGTCATAATCTTATTGTTAACTTGGTATGTAGTAAATGTCCCC
* *
10838881 TTTTAATGATATTGTGTGTGCTTTGATTGACCCGGGATCGACTCATTCATATATTTGCACTGCCT
1 TTTTAATGATATTGTATGTGCTTTGATTGAACCGGGATCGACTCATTCATATATTTGCACTGCCT
* * * *
10838946 TAGCTACTGATAAGAAACTGTTTGTTGAGTCGATTGAATTTGATGTGCATGTCACAAACCCATTG
66 TAGCTACTGATAAGAAACTATTTGTTAAGTCGACTGAATTTGATGTGCAAGTCACAAACCCATTG
*
10839011 GGTCATAATCTTATTGTTAACTTGGTATGTCGTAAATGTCCCC
131 GGTCATAATCTTATTGTTAACTTGGTATGTAGTAAATGTCCCC
10839054 T
1 T
10839055 GAAAGTCAAG
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 166 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (173 bp):
TTTTAATGATATTGTATGTGCTTTGATTGAACCGGGATCGACTCATTCATATATTTGCACTGCCT
TAGCTACTGATAAGAAACTATTTGTTAAGTCGACTGAATTTGATGTGCAAGTCACAAACCCATTG
GGTCATAATCTTATTGTTAACTTGGTATGTAGTAAATGTCCCC
Found at i:10848685 original size:17 final size:17
Alignment explanation
Indices: 10848647--10848679 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10848637 ATAGAGGAAT
10848647 AAAAACAAATAAATAAC
1 AAAAACAAATAAATAAC
*
10848664 AAAAAGAAATAAATAA
1 AAAAACAAATAAATAA
10848680 ATAAAAATAA
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:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAACAAATAAATAAC
Found at i:10852600 original size:251 final size:251
Alignment explanation
Indices: 10852156--10853055 Score: 1593
Period size: 251 Copynumber: 3.6 Consensus size: 251
10852146 TAACTTGTTT
* * * ** * *
10852156 CAAGTAATTCATTTCCTAAGTCAGTTTGCGTTTAGACACATTCAAAAACATGTATTCACTTCTCT
1 CAAGTAATTCGTTTTCTAGGTCAAATTGCGTTTAGACTCATTC-AAAACATGTATTCACCTCTCT
*
10852221 TTTGGCTTAAGTTATCAATGTATTCTGTCACGACCTTAGAGAGAAGTCATGAATCCCATATCAAT
65 TTAGGCTTAAGTTATCAATGTATTCTGTCACGACCTTAGAGAGAAGTCATGAATCCCATATCAAT
*
10852286 TATGTCTTAAAGTTAGTTTGGATTTTTCCATATTTCTCATCTTTTTGAATTCATCATCTTCACCA
130 TATGTCTTAAAGTTAGTTTGGATTTTCCCATATTTCTCATCTTTTTGAATTCATCATCTTCACCA
*
10852351 ATATCTTAAATATGACTTATTTGTTTATTTTGTTTTTCGTGTTCATTTATGTCAACA
195 ATATCTTAAATATAACTTATTTGTTTATTTTGTTTTTCGTGTTCATTTATGTCAACA
* *
10852408 CAAGTAATTCGTTTTCTAGGTCAGATTACGTTTAGACTCATTCAAAACATGTATTCACCTCTCTT
1 CAAGTAATTCGTTTTCTAGGTCAAATTGCGTTTAGACTCATTCAAAACATGTATTCACCTCTCTT
*
10852473 TAGGCTTAAGTTATCAATGTATTCTGTCATGACCTTAGAGAGAAGTCATGAATCCCATATCAATT
66 TAGGCTTAAGTTATCAATGTATTCTGTCACGACCTTAGAGAGAAGTCATGAATCCCATATCAATT
10852538 ATGTCTTAAAGTTAGTTTGGATTTTCCCATATTTCTCATCTTTTTGAATTCATCATCTTCACCAA
131 ATGTCTTAAAGTTAGTTTGGATTTTCCCATATTTCTCATCTTTTTGAATTCATCATCTTCACCAA
*
10852603 TATCTTAAATATAACTTATTTGTTTATTTTGTTTTTCGTGTTTATTTATGTCAACA
196 TATCTTAAATATAACTTATTTGTTTATTTTGTTTTTCGTGTTCATTTATGTCAACA
10852659 CAAGTAATTCGTTTTCTAGGTCAAATTGCGTTTAGACTCATTCAAAACATGTATTCACCTCTCTT
1 CAAGTAATTCGTTTTCTAGGTCAAATTGCGTTTAGACTCATTCAAAACATGTATTCACCTCTCTT
*
10852724 TAAGCTTAAGTTATCAATGTATTCTGTCACGACCTTAGAGAGAAGTCATGAATCCCATATCAATT
66 TAGGCTTAAGTTATCAATGTATTCTGTCACGACCTTAGAGAGAAGTCATGAATCCCATATCAATT
* *
10852789 ATGTCATAAAGTTAGTTTGGATTTTCCCATATTTCTCATCTGTTTGAATTCATCATCTTCACCAA
131 ATGTCTTAAAGTTAGTTTGGATTTTCCCATATTTCTCATCTTTTTGAATTCATCATCTTCACCAA
*
10852854 TATCTTAAATATAACTTATTTGTTTATTTTGTTTTTCGTGTCCATTTATGTCAACA
196 TATCTTAAATATAACTTATTTGTTTATTTTGTTTTTCGTGTTCATTTATGTCAACA
*
10852910 CAAGTAATTCGTTTTCTAGGTCAAATTGCTTTTAGACTCATTCAAAACATGTATTCACCTCTCTT
1 CAAGTAATTCGTTTTCTAGGTCAAATTGCGTTTAGACTCATTCAAAACATGTATTCACCTCTCTT
* *
10852975 TAGGCTTAAGTTATCAATGTATTTTGTCACGACCTTAGAGAGAAGTTATGAATCCCATATCAATT
66 TAGGCTTAAGTTATCAATGTATTCTGTCACGACCTTAGAGAGAAGTCATGAATCCCATATCAATT
*
10853040 ATGTCTTGAAGTTAGT
131 ATGTCTTAAAGTTAGT
10853056 ATTAGGATAT
Statistics
Matches: 622, Mismatches: 26, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
251 585 0.94
252 37 0.06
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (251 bp):
CAAGTAATTCGTTTTCTAGGTCAAATTGCGTTTAGACTCATTCAAAACATGTATTCACCTCTCTT
TAGGCTTAAGTTATCAATGTATTCTGTCACGACCTTAGAGAGAAGTCATGAATCCCATATCAATT
ATGTCTTAAAGTTAGTTTGGATTTTCCCATATTTCTCATCTTTTTGAATTCATCATCTTCACCAA
TATCTTAAATATAACTTATTTGTTTATTTTGTTTTTCGTGTTCATTTATGTCAACA
Found at i:10858245 original size:3 final size:3
Alignment explanation
Indices: 10858237--10858268 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
10858227 AAATAAAACG
10858237 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
10858269 ATCGTTGGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10860734 original size:30 final size:30
Alignment explanation
Indices: 10860700--10861022 Score: 420
Period size: 30 Copynumber: 10.8 Consensus size: 30
10860690 ACTCGAGGTA
* * *
10860700 AAAATGAAATTTTAGAGAAGTTT-GAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAG-GGGTT
10860730 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * *
10860760 AAAATATGATTTTGGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * *
10860790 AAAATATAATTTTAGAAAAGTTTAAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTT-AGGGGTT
*
10860821 AAAATGTAATTTTGGGAAAAGTTTAGGAGTT
1 AAAATGTAATTTT-GGAAAAGTTTAGGGGTT
*
10860852 AAATATG--ATTTTGGAAAAGTTTAGGGGTC
1 AAA-ATGTAATTTTGGAAAAGTTTAGGGGTT
10860881 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
*
10860911 AAAATGTGATTTTGGAAAAGTTT-GGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
*
10860940 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * * *
10860970 AAAATATGATTTTGGAAAATTTTAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
*
10861000 AAAATGTAATTTTAGAAAAGTTT
1 AAAATGTAATTTTGGAAAAGTTT
10861023 GAGGACCTCT
Statistics
Matches: 259, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.01
29 46 0.18
30 170 0.66
31 28 0.11
32 12 0.05
ACGTcount: A:0.38, C:0.01, G:0.25, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGTT
Found at i:10863095 original size:46 final size:46
Alignment explanation
Indices: 10863017--10863163 Score: 161
Period size: 47 Copynumber: 3.2 Consensus size: 46
10863007 ACACTAGATG
* * * *
10863017 AAGCCTGCTAGGCATAAGACCTAACACGGTACAATACTCCGGCATTA
1 AAGCCTGCTAGGCATAAGGCC-AATACAGTACAATACACCGGCATTA
* * *
10863064 AA-CCTGCTAGGCATAAGGCACGATACAGTACAGTACACCGACATTA
1 AAGCCTGCTAGGCATAAGGC-CAATACAGTACAATACACCGGCATTA
* * * *
10863110 AATCCTACTAGGCACAAGGCCCAATACGGTACAATACACCGGCATTA
1 AAGCCTGCTAGGCATAAGG-CCAATACAGTACAATACACCGGCATTA
10863157 AAGCCTG
1 AAGCCTG
10863164 TTAAGCACAA
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
46 37 0.45
47 44 0.54
48 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (46 bp):
AAGCCTGCTAGGCATAAGGCCAATACAGTACAATACACCGGCATTA
Found at i:10866815 original size:29 final size:29
Alignment explanation
Indices: 10866783--10866954 Score: 177
Period size: 29 Copynumber: 6.0 Consensus size: 29
10866773 TTTTAGAGCT
10866783 TTATTACAATTTT-CTAAAGTTTGAGGGCA
1 TTATTACAATTTTACTAAAG-TTGAGGGCA
** *
10866812 TTATTTTAATTTTACTAAAGTTGAGGGCG
1 TTATTACAATTTTACTAAAGTTGAGGGCA
* * **
10866841 TTATTACATTTTTATTAAAGTTGAGGGTG
1 TTATTACAATTTTACTAAAGTTGAGGGCA
* ** * *
10866870 TTACTGTAATTTTGCTAAAGTTGAGAGCA
1 TTATTACAATTTTACTAAAGTTGAGGGCA
* * *
10866899 TTAATGCAATTTTACTAAAGTTAAGGGC-
1 TTATTACAATTTTACTAAAGTTGAGGGCA
*
10866927 TTATTACAATTTTACTAAAATTGAGGGC
1 TTATTACAATTTTACTAAAGTTGAGGGC
10866955 TAATGGAGAG
Statistics
Matches: 116, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
28 24 0.21
29 86 0.74
30 6 0.05
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (29 bp):
TTATTACAATTTTACTAAAGTTGAGGGCA
Found at i:10866882 original size:87 final size:86
Alignment explanation
Indices: 10866790--10866953 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 86
10866780 GCTTTATTAC
* * ** * *
10866790 AATTTT-CTAAAGTTTGAGGGCATTATTTTAATTTTACTAAAGTTGAGGGCGTTATTACATTTTT
1 AATTTTGCTAAAG-TTGAGAGCATTAATGCAATTTTACTAAAGTTAAGGGC-TTATTACAATTTT
* *
10866854 ATTAAAGTTGAGGGTGTTACTGT
64 ACTAAAATTGAGGGTGTTACTGT
10866877 AATTTTGCTAAAGTTGAGAGCATTAATGCAATTTTACTAAAGTTAAGGGCTTATTACAATTTTAC
1 AATTTTGCTAAAGTTGAGAGCATTAATGCAATTTTACTAAAGTTAAGGGCTTATTACAATTTTAC
10866942 TAAAATTGAGGG
66 TAAAATTGAGGG
10866954 CTAATGGAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 24 0.35
87 38 0.56
88 6 0.09
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (86 bp):
AATTTTGCTAAAGTTGAGAGCATTAATGCAATTTTACTAAAGTTAAGGGCTTATTACAATTTTAC
TAAAATTGAGGGTGTTACTGT
Found at i:10869909 original size:21 final size:21
Alignment explanation
Indices: 10869882--10869937 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
10869872 AGAGTTTTTA
*
10869882 GTATCGGTAGAAGTGAT-ATTT
1 GTATCGGTAGAAGTG-TCACTT
* *
10869903 GTTTCGGTAGAAGAGTCACTT
1 GTATCGGTAGAAGTGTCACTT
10869924 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
10869938 CTGCACTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.34
Consensus pattern (21 bp):
GTATCGGTAGAAGTGTCACTT
Found at i:10881143 original size:17 final size:17
Alignment explanation
Indices: 10881123--10881156 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10881113 ATCACTCGCT
*
10881123 ATTTCAATAGCATTTTC
1 ATTTCAATAACATTTTC
10881140 ATTTCAATAACATTTTC
1 ATTTCAATAACATTTTC
10881157 CATATTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:10882589 original size:20 final size:20
Alignment explanation
Indices: 10882564--10882610 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
10882554 GCACTCACCC
10882564 AGATCTGGTGTGCTCTTCAT
1 AGATCTGGTGTGCTCTTCAT
10882584 AGATCTGGTGTGCTCTTCAT
1 AGATCTGGTGTGCTCTTCAT
*
10882604 AAATCTG
1 AGATCTG
10882611 TAGTTTGTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
AGATCTGGTGTGCTCTTCAT
Found at i:10883318 original size:6 final size:6
Alignment explanation
Indices: 10883309--10883338 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
10883299 TATATATATA
10883309 TTCTTT TTCTTT TTCTTT CTTCTTT TTCTT
1 TTCTTT TTCTTT TTCTTT -TTCTTT TTCTT
10883339 AGTTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTCTTT
Found at i:10883333 original size:13 final size:12
Alignment explanation
Indices: 10883309--10883338 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
10883299 TATATATATA
10883309 TTCTTTTTCTTT
1 TTCTTTTTCTTT
10883321 TTCTTTCTTCTTT
1 TTCTTT-TTCTTT
10883334 TTCTT
1 TTCTT
10883339 AGTTTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTCTTTTTCTTT
Found at i:10886887 original size:132 final size:132
Alignment explanation
Indices: 10886667--10886916 Score: 403
Period size: 132 Copynumber: 1.9 Consensus size: 132
10886657 TTGTGGCAAT
* *
10886667 AAAGTGATCTGATTCTGTCATCGCAATATTTTGTTTAACCTCTTCAGCTGCAGTTTGCTTTTCAG
1 AAAGTGATCTGATTCTGTCATCGCAATATTTTATTTAACCTCTTCAGCTGCAGTTTACTTTTCAG
* * * * *
10886732 ATTGCGTTGACATCTTTCTATTGTTGAGATTTGAATTATCTTTTTTTGCTGTAACATTTGTAACG
66 ATTGCGCTGACATCTGTCCATTGTTGAGATCTGAATTATCTTCTTTTGCTGTAACATTTGTAACG
10886797 AC
131 AC
*
10886799 AAAGTGATCTGATTCTGTC-TCTGCAATGTTTTATTTAACCTCTTCAGCTGCAGTTTACTTTTCA
1 AAAGTGATCTGATTCTGTCATC-GCAATATTTTATTTAACCTCTTCAGCTGCAGTTTACTTTTCA
*
10886863 GGTTGCGCTGACATCTGTCCATTGTTGAGATCTGAATTATCTTCTTTTGCTGTA
65 GATTGCGCTGACATCTGTCCATTGTTGAGATCTGAATTATCTTCTTTTGCTGTA
10886917 GCATCTCTAA
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
131 2 0.02
132 106 0.98
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (132 bp):
AAAGTGATCTGATTCTGTCATCGCAATATTTTATTTAACCTCTTCAGCTGCAGTTTACTTTTCAG
ATTGCGCTGACATCTGTCCATTGTTGAGATCTGAATTATCTTCTTTTGCTGTAACATTTGTAACG
AC
Found at i:10892174 original size:14 final size:13
Alignment explanation
Indices: 10892155--10892193 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
10892145 AGCATAGAAT
10892155 ATAAAAGGAAACAA
1 ATAAAAGGAAA-AA
*
10892169 ATAAAAGTGAAAAG
1 ATAAAAG-GAAAAA
10892183 ATAAAAGGAAA
1 ATAAAAGGAAA
10892194 TGTAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.69, C:0.03, G:0.18, T:0.10
Consensus pattern (13 bp):
ATAAAAGGAAAAA
Done.