Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 215 of 378
Found at i:63884146 original size:50 final size:49
Alignment explanation
Indices: 63883969--63884200 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
63883959 TCTATTGTGA
* * *
63883969 GGTCATGTCTGTATTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
63884018 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGGGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * **
63884068 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
63884118 AGGTCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTATCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
63884168 GGTCGCATGTGTAGTACTAAATGCAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
63884201 TGCATACCAG
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 68 0.45
50 47 0.31
51 37 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:63884212 original size:99 final size:100
Alignment explanation
Indices: 63883978--63884200 Score: 245
Period size: 101 Copynumber: 2.2 Consensus size: 100
63883968 AGGTCATGTC
* * * * ** * *
63883978 TGTATTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTAGTACTAAGTGC
1 TGTAGTACTAAATGCAGGCTACTAC-AGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
* * *
63884042 AGGCTACTATGGGTACCCGATAACTTCGATCACGTG
65 AGGCTAATACGGGTACCCGATAACTTCGATCACATG
* *
63884078 TGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAATGCAGGCTACTACA-GTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
* * * * *
63884143 AGGCTAATACGTGTATCGGATAA-TT-GGTCGCATG
65 AGGCTAATACGGGTACCCGATAACTTCGATCACATG
63884177 TGTAGTACTAAATGCAGGCTACTA
1 TGTAGTACTAAATGCAGGCTACTA
63884201 TGCATACCAG
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
99 29 0.28
100 35 0.34
101 40 0.38
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
TGTAGTACTAAATGCAGGCTACTACAGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCA
GGCTAATACGGGTACCCGATAACTTCGATCACATG
Found at i:63886709 original size:49 final size:49
Alignment explanation
Indices: 63886656--63886753 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
63886646 CAATCACCTA
* *
63886656 AGCTCACATATAACACCATACTTTCATTCAATTTGGTAATCAAAACAAT
1 AGCTCACATATAAAACCATACTTTCATTCAATTTGGAAATCAAAACAAT
63886705 AGCTCACATATAAAACCATACTTTCATTCAATTTGGAAATCAAAACAAT
1 AGCTCACATATAAAACCATACTTTCATTCAATTTGGAAATCAAAACAAT
63886754 CATTTCAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (49 bp):
AGCTCACATATAAAACCATACTTTCATTCAATTTGGAAATCAAAACAAT
Found at i:63890095 original size:40 final size:40
Alignment explanation
Indices: 63890050--63890217 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
63890040 CGGAATATAA
63890050 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
63890090 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
63890130 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
63890170 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
63890210 CCGGATAT
1 CCGGATAT
63890218 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63890200 original size:80 final size:80
Alignment explanation
Indices: 63890066--63890215 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
63890056 ATAATCACGT
*
63890066 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
63890130 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
63890146 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
63890209 CCCGGAT
64 CCCGGAT
63890216 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:63898098 original size:40 final size:40
Alignment explanation
Indices: 63898053--63898220 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
63898043 CGGAATATAA
63898053 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
63898093 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
63898133 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
63898173 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
63898213 CCGGATAT
1 CCGGATAT
63898221 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63898203 original size:80 final size:80
Alignment explanation
Indices: 63898069--63898218 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
63898059 ATAATCACGT
*
63898069 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
63898133 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
63898149 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
63898212 CCCGGAT
64 CCCGGAT
63898219 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:63901863 original size:20 final size:20
Alignment explanation
Indices: 63901838--63901946 Score: 125
Period size: 20 Copynumber: 5.5 Consensus size: 20
63901828 TATAAACTAC
*
63901838 AATTCATTCATATAACCAGT
1 AATTCATCCATATAACCAGT
*
63901858 AGTTCATCCATATAACCAGT
1 AATTCATCCATATAACCAGT
63901878 AATTCATCCATATAACCAGT
1 AATTCATCCATATAACCAGT
63901898 AATTCAT-CAGTAATAA-CAGT
1 AATTCATCCA-T-ATAACCAGT
* **
63901918 AATTTATCTGTATCAA-CAGT
1 AATTCATCCATAT-AACCAGT
63901938 AATTCATCC
1 AATTCATCC
63901947 GTAACAATAG
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.05
20 69 0.90
21 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (20 bp):
AATTCATCCATATAACCAGT
Found at i:63901883 original size:40 final size:40
Alignment explanation
Indices: 63901838--63901964 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
63901828 TATAAACTAC
* *
63901838 AATTCATTCATATAACCAGTAGTTCATCCA-T-ATAACCAGT
1 AATTCATCCATATAACCAGTAATTCAT-CAGTAATAA-CAGT
63901878 AATTCATCCATATAACCAGTAATTCATCAGTAATAACAGT
1 AATTCATCCATATAACCAGTAATTCATCAGTAATAACAGT
* ** * * *
63901918 AATTTATCTGTATCAA-CAGTAATTCATCCGTAACAATAGT
1 AATTCATCCATAT-AACCAGTAATTCATCAGTAATAACAGT
63901958 AATTCAT
1 AATTCAT
63901965 TCATTTCAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.03
40 67 0.89
41 6 0.08
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (40 bp):
AATTCATCCATATAACCAGTAATTCATCAGTAATAACAGT
Found at i:63901958 original size:20 final size:20
Alignment explanation
Indices: 63901894--63901964 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
63901884 TCCATATAAC
*
63901894 CAGTAATTCATCAGTAATAA
1 CAGTAATTCATCAGTAACAA
* * *
63901914 CAGTAATTTATCTGTATCAA
1 CAGTAATTCATCAGTAACAA
*
63901934 CAGTAATTCATCCGTAACAA
1 CAGTAATTCATCAGTAACAA
*
63901954 TAGTAATTCAT
1 CAGTAATTCAT
63901965 TCATTTCAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (20 bp):
CAGTAATTCATCAGTAACAA
Found at i:63901978 original size:20 final size:20
Alignment explanation
Indices: 63901930--63901993 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
63901920 TTTATCTGTA
* * *
63901930 TCAACAGTAATTCATCCGTA
1 TCAAAAGTAATTCATCCATT
* * *
63901950 ACAATAGTAATTCATTCATT
1 TCAAAAGTAATTCATCCATT
*
63901970 TCAAAAGTAATTTATCCATT
1 TCAAAAGTAATTCATCCATT
63901990 TCAA
1 TCAA
63901994 CATAGGTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (20 bp):
TCAAAAGTAATTCATCCATT
Found at i:63901979 original size:40 final size:40
Alignment explanation
Indices: 63901895--63901986 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
63901885 CCATATAACC
* * * *
63901895 AGTAATTCATCAGTAATAACAGTAATTTATCTGTATCAAC
1 AGTAATTCATCCGTAACAACAGTAATTCATCTGTATCAAA
*
63901935 AGTAATTCATCCGTAACAATAGTAATTCATTCAT-T-TCAAA
1 AGTAATTCATCCGTAACAACAGTAATTCA-TC-TGTATCAAA
*
63901975 AGTAATTTATCC
1 AGTAATTCATCC
63901987 ATTTCAACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
40 40 0.91
41 3 0.07
42 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (40 bp):
AGTAATTCATCCGTAACAACAGTAATTCATCTGTATCAAA
Found at i:63902216 original size:22 final size:22
Alignment explanation
Indices: 63902161--63902309 Score: 169
Period size: 22 Copynumber: 6.6 Consensus size: 22
63902151 TGAGTTGATA
* * *
63902161 AACATTAAGCTCTATTGAGTTG
1 AACAGTAAGCTCTATCGAGCTG
63902183 AA-ATGGTAAGCTCTATCGAGCTG
1 AACA--GTAAGCTCTATCGAGCTG
63902206 AACAGTAAGCTCTATCGAGCTG
1 AACAGTAAGCTCTATCGAGCTG
63902228 AACAGTAAGCTCTATCGAGCTG
1 AACAGTAAGCTCTATCGAGCTG
63902250 AACAGTAAGCT-TATACGAGCTG
1 AACAGTAAGCTCTAT-CGAGCTG
* *
63902272 AATCTGTAAGCTCCAAT-GAGCTG
1 AA-CAGTAAGCT-CTATCGAGCTG
63902295 AAAACAGTAAGCTCT
1 --AACAGTAAGCTCT
63902310 TACGAGATGA
Statistics
Matches: 111, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.04
22 62 0.56
23 32 0.29
24 9 0.08
25 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (22 bp):
AACAGTAAGCTCTATCGAGCTG
Found at i:63902282 original size:67 final size:67
Alignment explanation
Indices: 63902160--63902309 Score: 173
Period size: 67 Copynumber: 2.2 Consensus size: 67
63902150 CTGAGTTGAT
* * * *
63902160 AAACATTAAGCTCTATTGAGTTGAAATGGTAAGCTCTATCGAGCTGAACAGTAAGCT-CTATCGA
1 AAACAGTAAGCTCTATCGAGCTGAAA-GGTAAGCTCTATCGAGCTGAACAGTAAGCTCCAAT-GA
63902224 GCTG
64 GCTG
*
63902228 -AACAGTAAGCTCTATCGAGCTGAACA-GTAAGCT-TATACGAGCTGAATCTGTAAGCTCCAATG
1 AAACAGTAAGCTCTATCGAGCTGAA-AGGTAAGCTCTAT-CGAGCTGAA-CAGTAAGCTCCAATG
63902290 AGCTG
63 AGCTG
63902295 AAAACAGTAAGCTCT
1 -AAACAGTAAGCTCT
63902310 TACGAGATGA
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
65 3 0.04
66 16 0.23
67 35 0.49
68 4 0.06
69 13 0.18
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (67 bp):
AAACAGTAAGCTCTATCGAGCTGAAAGGTAAGCTCTATCGAGCTGAACAGTAAGCTCCAATGAGC
TG
Found at i:63903832 original size:104 final size:104
Alignment explanation
Indices: 63903661--63903886 Score: 366
Period size: 104 Copynumber: 2.2 Consensus size: 104
63903651 ACCAATTAGG
* *
63903661 CCGTGTAGGCCACATG-GGCATGTGGGCCCATATTGGTGCACACATGGGCATGTGGAATTTTGGG
1 CCGTGTGGGCCACACGAGGCATGTGGGCCCATATTGGTGCACACATGGGCATGTGGAATTTTGGG
*
63903725 CTAGGCCATGTGATCCACACGGCCAAGGCCAATTTGGGC
66 CTAGGCCATGTGATCCACACGACCAAGGCCAATTTGGGC
* * *
63903764 CCGTGTGGGCCACACGAGGCGTGT-GGCCCATATTGGTGCACCACATGGGCGTGTGGAATTTTGT
1 CCGTGTGGGCCACACGAGGCATGTGGGCCCATATTGGTGCA-CACATGGGCATGTGGAATTTTGG
63903828 GCTAGGCCATGTGATCCACACGACCAAGGCCAATTTGGGC
65 GCTAGGCCATGTGATCCACACGACCAAGGCCAATTTGGGC
63903868 CCGTGTGGGCTCACACGAG
1 CCGTGTGGGC-CACACGAG
63903887 CAAGCCACAT
Statistics
Matches: 114, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
103 30 0.26
104 76 0.67
105 8 0.07
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.22
Consensus pattern (104 bp):
CCGTGTGGGCCACACGAGGCATGTGGGCCCATATTGGTGCACACATGGGCATGTGGAATTTTGGG
CTAGGCCATGTGATCCACACGACCAAGGCCAATTTGGGC
Found at i:63905245 original size:22 final size:23
Alignment explanation
Indices: 63905197--63905248 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
63905187 GATGTGTAAT
*
63905197 GCTCCCTTTAATTGATGATAACA
1 GCTCCCTTTAATTGAAGATAACA
*
63905220 GCTCCTTTTAA-TGAAGAATAAC-
1 GCTCCCTTTAATTGAAG-ATAACA
63905242 GCTCCCT
1 GCTCCCT
63905249 CTTATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (23 bp):
GCTCCCTTTAATTGAAGATAACA
Found at i:63905651 original size:50 final size:52
Alignment explanation
Indices: 63905548--63905656 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 52
63905538 ATGAGTTATT
** *
63905548 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATGGGAGTTACA
1 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATGAAAGTCACA
* * *
63905600 TAATGCAAGTCATT-ATTT-ATGATGCATACTT-AACTAACATGAAAGTCACA
1 TAATGCAAGAC-TTAATTTAATAATGCAGACTTAAACTAACATGAAAGTCACA
63905650 TAATGCA
1 TAATGCA
63905657 TTACTTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 23 0.46
51 11 0.22
52 14 0.28
53 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (52 bp):
TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATGAAAGTCACA
Found at i:63907333 original size:18 final size:18
Alignment explanation
Indices: 63907285--63907349 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
63907275 GTTTCTTGGA
63907285 AACTTTCTTTTCTTTCTTC
1 AACTTTCTTTTCTTT-TTC
*
63907304 AA-TCTCTCTTTCTTTTTC
1 AACTTTCT-TTTCTTTTTC
*
63907322 AACTTTCTTTTCTTTCTC
1 AACTTTCTTTTCTTTTTC
*
63907340 -ACATTCTTTT
1 AACTTTCTTTT
63907350 TCGCTCTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.22
18 18 0.45
19 13 0.32
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (18 bp):
AACTTTCTTTTCTTTTTC
Found at i:63924541 original size:27 final size:27
Alignment explanation
Indices: 63924511--63924565 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
63924501 ACTCACACTG
63924511 AGCTCTTTTGGCTTGCAACTCACTATC
1 AGCTCTTTTGGCTTGCAACTCACTATC
63924538 AGCTCTTTTGGCTTGCAACTCACTATC
1 AGCTCTTTTGGCTTGCAACTCACTATC
63924565 A
1 A
63924566 TCTTTCTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (27 bp):
AGCTCTTTTGGCTTGCAACTCACTATC
Found at i:63925193 original size:12 final size:12
Alignment explanation
Indices: 63925176--63925204 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
63925166 CTATCATGGA
63925176 AAATCCCTCTAC
1 AAATCCCTCTAC
63925188 AAATCCCTCTAC
1 AAATCCCTCTAC
63925200 AAATC
1 AAATC
63925205 GTCTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATCCCTCTAC
Found at i:63931841 original size:13 final size:15
Alignment explanation
Indices: 63931823--63931861 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
63931813 GAAGATGGAT
63931823 AAATAAA-AAAA-AG
1 AAATAAATAAAATAG
63931836 AAATAAATAAAATAG
1 AAATAAATAAAATAG
63931851 AATATAAATAA
1 AA-ATAAATAA
63931862 GATAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 4 0.17
16 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (15 bp):
AAATAAATAAAATAG
Found at i:63935445 original size:18 final size:18
Alignment explanation
Indices: 63935422--63935464 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
63935412 TCCTTTCCCC
*
63935422 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
63935440 TTCTTTCATTTATTTATT
1 TTCTTTCATTTATTTATT
*
63935458 TGCTTTC
1 TTCTTTC
63935465 TTTTTATGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:63937752 original size:32 final size:32
Alignment explanation
Indices: 63937711--63937772 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
63937701 CATCTATTTT
63937711 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
63937743 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
63937773 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:63939238 original size:23 final size:23
Alignment explanation
Indices: 63939207--63939252 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
63939197 TATATTTTGA
63939207 GTTCATATATAACTAGTCAATAT
1 GTTCATATATAACTAGTCAATAT
*
63939230 GTTCGTATATAACTAGTCAATAT
1 GTTCATATATAACTAGTCAATAT
63939253 CTAATATCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (23 bp):
GTTCATATATAACTAGTCAATAT
Found at i:63939618 original size:7 final size:7
Alignment explanation
Indices: 63939592--63939625 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
63939582 TATTCTATTA
63939592 TATTCTAT
1 TATT-TAT
63939600 TATTTAAT
1 TATTT-AT
63939608 TATTTAT
1 TATTTAT
63939615 TATTTAT
1 TATTTAT
63939622 TATT
1 TATT
63939626 ATAAATTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.56
8 11 0.44
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (7 bp):
TATTTAT
Found at i:63951206 original size:37 final size:36
Alignment explanation
Indices: 63951156--63951242 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
63951146 TACGAAGTCT
63951156 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
63951192 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
63951229 TCACCCGGAACATA
1 T-ACCCGG-ACATA
63951243 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:63951380 original size:49 final size:49
Alignment explanation
Indices: 63951306--63951885 Score: 406
Period size: 49 Copynumber: 12.2 Consensus size: 49
63951296 TCGGCTTTAC
* * * *
63951306 CACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATAT--ACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
63951357 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
63951406 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
*
63951455 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
63951504 CACATATACATATACTTTCGCATTCACCACATCGGCC--TA---ATTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * * * *
63951548 -AC-TTTCGCAT-TCAC---CACA-TCGGCCA-TTAGGCC-TTA-TCACAT-AT
1 CACATAT-ACATAT-ACTTTCGCATTC-ACCACATCGGCCATTAGGC-C-TCAT
* *** * * * * * * *
63951591 -ACATATACTTTCGCATTCACCACATCGGCCA-TTAGGCC-TTA-TCACAT-AT
1 CACATATACATATACTTTC-GCA-TTC-ACCACATCGGCCATTAGGC-C-TCAT
* *
63951640 -ACATA--C--AT--TTTCGCATTCATCGCATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
63951682 CACATATATATACATTTTCGCATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
63951731 CACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * * *
63951780 CACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
63951829 CACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
63951878 CACATATA
1 CACATATA
63951886 TATACATTTT
Statistics
Matches: 454, Mismatches: 48, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
39 7 0.02
40 9 0.02
41 8 0.02
42 11 0.02
43 23 0.05
44 7 0.02
46 1 0.00
47 6 0.01
49 371 0.82
51 11 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
Found at i:63951457 original size:98 final size:98
Alignment explanation
Indices: 63951291--63951898 Score: 511
Period size: 98 Copynumber: 5.9 Consensus size: 98
63951281 ATTCACATTA
* * * * * *
63951291 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCGCATTCATCACATCGGCCATTAGGCCTCA
63951356 TCACATATACATACACTTTCACATTCACCACATCG
64 TCACATATACATACACTTTCACATTCACCACATCG
* *
63951391 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
63951456 ACATATACATATACTTTCGCATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* **
63951489 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAATTATACTTTC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCC--ATTAGGC---C
* * * *
63951554 GCATTCACCACATCGGCCATTAGGC-CTTATCACATATACATATACTTTCGCATTC-
61 TCA-TCA-CATAT---ACA-TA--CACTT-TCACAT-T-C----AC---CACA-TCG
* * * * * *
63951609 ACCACATCGGCCATTAGGC-CTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATT
1 GCCA-TTAGGCC-TTA-TCACATAT-AC--AT--ATAC--TTTCGCATTCATCACATCGGCCATT
* * * *
63951673 AGGCCTCATCACATATATATACATTTTCGCATTCATCACATCG
56 AGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
63951716 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* * *
63951781 ACATATATATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* * * *
63951814 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
63951879 ACATATATATACATTTTCAC
66 ACATATACATACACTTTCAC
63951899 GAATCTTGAT
Statistics
Matches: 424, Mismatches: 47, Indels: 76
0.78 0.09 0.14
Matches are distributed among these distances:
98 265 0.62
100 30 0.07
102 2 0.00
103 3 0.01
104 6 0.01
105 11 0.03
106 7 0.02
107 6 0.01
108 2 0.00
109 2 0.00
110 4 0.01
111 5 0.01
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 6 0.01
117 4 0.01
118 2 0.00
119 1 0.00
120 6 0.01
121 7 0.02
122 11 0.03
123 6 0.01
124 3 0.01
125 2 0.00
127 9 0.02
129 20 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCG
Found at i:63951575 original size:129 final size:129
Alignment explanation
Indices: 63951416--63951669 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
63951406 CACATATACA
63951416 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
*
63951481 CCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAAT
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
*
63951545 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
* * *
63951610 CCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCC
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCC
63951670 ATTAGGCCTC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (129 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
Found at i:63951598 original size:80 final size:80
Alignment explanation
Indices: 63951465--63951620 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
63951455 CACATATACA
63951465 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
63951530 CCACATCGGCCTAAT
66 CCACATCGGCCTAAT
63951545 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
63951610 CCACATCGGCC
66 CCACATCGGCC
63951621 ATTAGGCCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (80 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
CCACATCGGCCTAAT
Found at i:63951898 original size:49 final size:49
Alignment explanation
Indices: 63951550--63951896 Score: 550
Period size: 49 Copynumber: 7.1 Consensus size: 49
63951540 CTAATTATAC
* * *
63951550 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATAC
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
*
63951599 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * *
63951648 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
63951697 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
63951746 TTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
*
63951795 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
63951844 TTTCACATTCATCACATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
63951893 TTTC
1 TTTC
63951897 ACGAATCTTG
Statistics
Matches: 277, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 277 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
Found at i:63955877 original size:79 final size:79
Alignment explanation
Indices: 63955740--63955922 Score: 296
Period size: 79 Copynumber: 2.3 Consensus size: 79
63955730 CCAGCATGAT
* * *
63955740 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
63955805 CATCACTAGCACGAA
65 CATCACTAGCACGAA
*
63955820 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
*
63955884 CATCACTAGCACGGA
65 CATCACTAGCACGAA
63955899 TGCTCTTCGGAACTTAGCCGGATA
1 TGCTCTTCGGAACTTAGCCGGATA
63955923 AAACCACAAG
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 7 0.07
79 58 0.60
80 31 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
ATCACTAGCACGAA
Found at i:63955946 original size:79 final size:79
Alignment explanation
Indices: 63955772--63955947 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 79
63955762 ATGCATCACT
63955772 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
1 AGCAC-AATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAG
* * *
63955837 TCCGGATACATCACT
65 TCCGGATAAACCACA
* * *
63955852 AGCAGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAG-
1 AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
63955916 CCGGATAAAACCACA
66 CCGGAT-AAACCACA
63955931 AGCACAATTGC-CTTCGG
1 AGCACAA-TGCTCTTCGG
63955948 GTCTTAACCC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 6 0.07
79 74 0.85
80 7 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
AGCACAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCCTCGGAACTTAGT
CCGGATAAACCACA
Found at i:63955947 original size:39 final size:40
Alignment explanation
Indices: 63955740--63955922 Score: 298
Period size: 40 Copynumber: 4.6 Consensus size: 40
63955730 CCAGCATGAT
* * * *
63955740 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
63955780 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
63955820 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
63955859 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
63955899 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
63955923 AAACCACAAG
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 45 0.33
40 90 0.67
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:63955985 original size:40 final size:40
Alignment explanation
Indices: 63955931--63956043 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
63955921 TAAAACCACA
* * *
63955931 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATA-ACAACT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATAC-ACT
* *
63955971 CA-CACAAATACCTTCGGGTCTTAGCCCGGATATATTCACT
1 -AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
* * *
63956011 AGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 AGCACAAATACCTTCGGGTCTTAGCCCGGGTAT
63956044 CATTCAAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 58 0.95
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCACAAATACCTTCGGGTCTTAGCCCGGGTATATACACT
Found at i:63955986 original size:119 final size:118
Alignment explanation
Indices: 63955742--63956036 Score: 289
Period size: 119 Copynumber: 2.5 Consensus size: 118
63955732 AGCATGATTG
* * *
63955742 CTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATAAA
* * ** *
63955807 TCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCAGAATG
65 CCACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
* * *
63955861 CTCTTCGGAACTTAGTCCGGATACATCACTAGCACGGATGCTCTTCGGAACTTAGCCGGATAAAA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGAT-AAA
* **
63955926 CCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCAC-A-CA-AATA
65 CCACAAGCACGAA-TGCTCCTCGGAACTTAACCC-GG-AT-AC-A-TCACTAGCAGAATA
* * ** *
63955981 C-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
63956037 CGGGTATCAT
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
118 19 0.13
119 98 0.67
120 19 0.13
121 4 0.03
122 2 0.01
123 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (118 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAAAC
CACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAATA
Found at i:63957951 original size:37 final size:36
Alignment explanation
Indices: 63957901--63957987 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
63957891 TACGAAGTCT
63957901 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
63957937 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
63957974 TCACCCGGAACATA
1 T-ACCCGG-ACATA
63957988 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:63958125 original size:49 final size:49
Alignment explanation
Indices: 63958051--63958630 Score: 406
Period size: 49 Copynumber: 12.2 Consensus size: 49
63958041 TCGGCTTTAC
* * * *
63958051 CACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATAT--ACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
63958102 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
63958151 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
*
63958200 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* *
63958249 CACATATACATATACTTTCGCATTCACCACATCGGCC--TA---ATTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * * * *
63958293 -AC-TTTCGCAT-TCAC---CACA-TCGGCCA-TTAGGCC-TTA-TCACAT-AT
1 CACATAT-ACATAT-ACTTTCGCATTC-ACCACATCGGCCATTAGGC-C-TCAT
* *** * * * * * * *
63958336 -ACATATACTTTCGCATTCACCACATCGGCCA-TTAGGCC-TTA-TCACAT-AT
1 CACATATACATATACTTTC-GCA-TTC-ACCACATCGGCCATTAGGC-C-TCAT
* *
63958385 -ACATA--C--AT--TTTCGCATTCATCGCATCGGCCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
63958427 CACATATATATACATTTTCGCATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
63958476 CACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * * *
63958525 CACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
* * * * *
63958574 CACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCAT
1 CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
63958623 CACATATA
1 CACATATA
63958631 TATACATTTT
Statistics
Matches: 454, Mismatches: 48, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
39 7 0.02
40 9 0.02
41 8 0.02
42 11 0.02
43 23 0.05
44 7 0.02
46 1 0.00
47 6 0.01
49 371 0.82
51 11 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
CACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCAT
Found at i:63958202 original size:98 final size:98
Alignment explanation
Indices: 63958036--63958643 Score: 511
Period size: 98 Copynumber: 5.9 Consensus size: 98
63958026 ATTCACATTA
* * * * * *
63958036 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATACATAT--ACTTTCGCATTCATCACATCGGCCATTAGGCCTCA
63958101 TCACATATACATACACTTTCACATTCACCACATCG
64 TCACATATACATACACTTTCACATTCACCACATCG
* *
63958136 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
63958201 ACATATACATATACTTTCGCATTCACCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* **
63958234 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAATTATACTTTC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCC--ATTAGGC---C
* * * *
63958299 GCATTCACCACATCGGCCATTAGGC-CTTATCACATATACATATACTTTCGCATTC-
61 TCA-TCA-CATAT---ACA-TA--CACTT-TCACAT-T-C----AC---CACA-TCG
* * * * * *
63958354 ACCACATCGGCCATTAGGC-CTTATCACATATACATACATTTTCGCATTCATCGCATCGGCCATT
1 GCCA-TTAGGCC-TTA-TCACATAT-AC--AT--ATAC--TTTCGCATTCATCACATCGGCCATT
* * * *
63958418 AGGCCTCATCACATATATATACATTTTCGCATTCATCACATCG
56 AGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
63958461 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* * *
63958526 ACATATATATACATTTTCACATTCATCACATCG
66 ACATATACATACACTTTCACATTCACCACATCG
* * * *
63958559 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACATCGACCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
* *
63958624 ACATATATATACATTTTCAC
66 ACATATACATACACTTTCAC
63958644 GAATCTTGAT
Statistics
Matches: 424, Mismatches: 47, Indels: 76
0.78 0.09 0.14
Matches are distributed among these distances:
98 265 0.62
100 30 0.07
102 2 0.00
103 3 0.01
104 6 0.01
105 11 0.03
106 7 0.02
107 6 0.01
108 2 0.00
109 2 0.00
110 4 0.01
111 5 0.01
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 6 0.01
117 4 0.01
118 2 0.00
119 1 0.00
120 6 0.01
121 7 0.02
122 11 0.03
123 6 0.01
124 3 0.01
125 2 0.00
127 9 0.02
129 20 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (98 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCATCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCG
Found at i:63958320 original size:129 final size:129
Alignment explanation
Indices: 63958161--63958414 Score: 463
Period size: 129 Copynumber: 2.0 Consensus size: 129
63958151 CACATATACA
63958161 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
*
63958226 CCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAAT
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
*
63958290 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
* * *
63958355 CCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCC
66 CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCC
63958415 ATTAGGCCTC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (129 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
CCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
Found at i:63958343 original size:80 final size:80
Alignment explanation
Indices: 63958210--63958365 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
63958200 CACATATACA
63958210 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
63958275 CCACATCGGCCTAAT
66 CCACATCGGCCTAAT
63958290 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
63958355 CCACATCGGCC
66 CCACATCGGCC
63958366 ATTAGGCCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (80 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
CCACATCGGCCTAAT
Found at i:63958643 original size:49 final size:49
Alignment explanation
Indices: 63958295--63958641 Score: 550
Period size: 49 Copynumber: 7.1 Consensus size: 49
63958285 CTAATTATAC
* * *
63958295 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATAC
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
*
63958344 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * *
63958393 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
63958442 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
63958491 TTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
*
63958540 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
63958589 TTTCACATTCATCACATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
63958638 TTTC
1 TTTC
63958642 ACGAATCTTG
Statistics
Matches: 277, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 277 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (49 bp):
TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
Found at i:63961474 original size:53 final size:53
Alignment explanation
Indices: 63961406--63961612 Score: 184
Period size: 53 Copynumber: 3.8 Consensus size: 53
63961396 TTCCTTTTTA
* * *
63961406 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * ** * * **
63961459 AACTCACCATTGCCATGCCTTCCCATAGTCTTACATGGGATATTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
** * * * *
63961513 CAGTTTATCAATGCCAT-CTCTTGACATGGTCTTACATGATTTCCTTGCACTGTA-A
1 -AACTTACCAATGCCATGC-CTTGACATGGTCTTACATGGTATCCTTGC-CT-TATG
* *
63961568 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
63961613 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 30, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
53 43 0.36
54 38 0.32
55 33 0.28
56 2 0.02
57 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:63966566 original size:16 final size:16
Alignment explanation
Indices: 63966545--63966595 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
63966535 AAAAACATAA
63966545 AAATAAATATTAAAAC
1 AAATAAATATTAAAAC
*
63966561 AAATAAA-A--ATAA-
1 AAATAAATATTAAAAC
63966573 AAATAAATATTAAAAC
1 AAATAAATATTAAAAC
63966589 AAATAAA
1 AAATAAA
63966596 AATAATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 7 0.24
13 4 0.14
15 4 0.14
16 14 0.48
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATATTAAAAC
Found at i:63966566 original size:22 final size:22
Alignment explanation
Indices: 63966525--63966611 Score: 72
Period size: 28 Copynumber: 3.8 Consensus size: 22
63966515 AGAAGAAATC
* *
63966525 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
63966545 AAATAAATATTAAAACAAATAAAAATAA
1 AAATAAATATTAAAAC-----AA-ATAA
63966573 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
63966595 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
63966612 TTCTTAAAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
20 7 0.12
21 18 0.32
22 8 0.14
23 2 0.04
27 1 0.02
28 20 0.36
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:63966596 original size:21 final size:22
Alignment explanation
Indices: 63966567--63966611 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
63966557 AAACAAATAA
*
63966567 AAAT-AAAAATAAATATTAAAAC
1 AAATAAAAAAT-AATACTAAAAC
63966589 AAAT-AAAAATAATACTAAAAC
1 AAATAAAAAATAATACTAAAAC
63966610 AA
1 AA
63966612 TTCTTAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (22 bp):
AAATAAAAAATAATACTAAAAC
Found at i:63966607 original size:28 final size:28
Alignment explanation
Indices: 63966536--63966600 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
63966526 AATATATTTA
63966536 AAAACATAAAAATAAATATTAAAACAAAT
1 AAAA-ATAAAAATAAATATTAAAACAAAT
63966565 AAAAATAAAAATAAATATTAAAACAAAT
1 AAAAATAAAAATAAATATTAAAACAAAT
63966593 AAAAATAA
1 AAAAATAA
63966601 TACTAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 32 0.89
29 4 0.11
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (28 bp):
AAAAATAAAAATAAATATTAAAACAAAT
Found at i:63966688 original size:15 final size:16
Alignment explanation
Indices: 63966658--63966690 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
63966648 AAATAGTTAT
63966658 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
63966675 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
63966690 A
1 A
63966691 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:63968364 original size:27 final size:27
Alignment explanation
Indices: 63968329--63968467 Score: 201
Period size: 27 Copynumber: 5.2 Consensus size: 27
63968319 CTAGACCCCC
63968329 TATGTGGTAAAATGACTGTTTTGCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCT
*
63968356 TATGTGGTAAAATGACTGTTTTGCCTT
1 TATGTGGTAAAATGACTGTTTTGCCCT
63968383 TATGTGGTAAAATGACTGTTTTGCCC-
1 TATGTGGTAAAATGACTGTTTTGCCCT
* *
63968409 TATGTGGTAAAATGACTATTTTTCCCT
1 TATGTGGTAAAATGACTGTTTTGCCCT
* * * *
63968436 TATATGGTAAGATGATTGCTTTGCCC-
1 TATGTGGTAAAATGACTGTTTTGCCCT
63968462 TATGTG
1 TATGTG
63968468 ATGTATATAT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 29 0.29
27 71 0.71
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.42
Consensus pattern (27 bp):
TATGTGGTAAAATGACTGTTTTGCCCT
Found at i:63968444 original size:53 final size:53
Alignment explanation
Indices: 63968333--63968467 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 53
63968323 ACCCCCTATG
* * *
63968333 TGGTAAAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCTTTATG
1 TGGTAAAATGACTGTTTTGCCC-TATGTGGTAAAATGACTATTTTGCCCTTATA
*
63968387 TGGTAAAATGACTGTTTTGCCCTATGTGGTAAAATGACTATTTTTCCCTTATA
1 TGGTAAAATGACTGTTTTGCCCTATGTGGTAAAATGACTATTTTGCCCTTATA
* * *
63968440 TGGTAAGATGATTGCTTTGCCCTATGTG
1 TGGTAAAATGACTGTTTTGCCCTATGTG
63968468 ATGTATATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 52 0.70
54 22 0.30
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.41
Consensus pattern (53 bp):
TGGTAAAATGACTGTTTTGCCCTATGTGGTAAAATGACTATTTTGCCCTTATA
Found at i:63972070 original size:26 final size:26
Alignment explanation
Indices: 63972041--63972154 Score: 147
Period size: 26 Copynumber: 4.3 Consensus size: 26
63972031 TACCTAGACC
*
63972041 CCCTATGTGGTAAAATGACTGTTTTG
1 CCCTATGTGGTAAAATAACTGTTTTG
*
63972067 CCCTATGTGGTAAAATAACTGTTTTA
1 CCCTATGTGGTAAAATAACTGTTTTG
*
63972093 CCCTATGTGGTAAAATAACTATTTTG
1 CCCTATGTGGTAAAATAACTGTTTTG
* * * * *
63972119 CCCTTATATGGTAAGATGATTGCTTTG
1 CCC-TATGTGGTAAAATAACTGTTTTG
63972146 CCCTATGTG
1 CCCTATGTG
63972155 ATGTATTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
26 56 0.74
27 20 0.26
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (26 bp):
CCCTATGTGGTAAAATAACTGTTTTG
Found at i:63974474 original size:12 final size:12
Alignment explanation
Indices: 63974459--63974645 Score: 132
Period size: 12 Copynumber: 15.2 Consensus size: 12
63974449 AAGAAACATT
63974459 ATCAGAA-CTAGA
1 ATCAGAATC-AGA
* *
63974471 ATCAAAATGAGA
1 ATCAGAATCAGA
63974483 ATCAGAATCAGA
1 ATCAGAATCAGA
*
63974495 ATCAG-GTGACAGA
1 ATCAGAAT--CAGA
*
63974508 ATCAAAATCAGA
1 ATCAGAATCAGA
*
63974520 ATCAAAATCAGA
1 ATCAGAATCAGA
*
63974532 ATTAGGTAA-CAGA
1 ATCA-G-AATCAGA
*
63974545 ATCAGAATCAGT
1 ATCAGAATCAGA
63974557 ATCAGGTAA-CAGA
1 ATCA-G-AATCAGA
63974570 ATCAGAATCAGA
1 ATCAGAATCAGA
*
63974582 AGCAGAATCAGA
1 ATCAGAATCAGA
*
63974594 ATTAGGTAA-CAGA
1 ATCA-G-AATCAGA
*
63974607 ATCAAAATCAGA
1 ATCAGAATCAGA
* *
63974619 ATCAGGTAGCAGA
1 ATCA-GAATCAGA
*
63974632 ATCAAAATCAGA
1 ATCAGAATCAGA
63974644 AT
1 AT
63974646 GTGAATGCAA
Statistics
Matches: 138, Mismatches: 23, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
11 7 0.05
12 84 0.61
13 40 0.29
14 7 0.05
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (12 bp):
ATCAGAATCAGA
Found at i:63974514 original size:37 final size:37
Alignment explanation
Indices: 63974468--63974595 Score: 136
Period size: 37 Copynumber: 3.5 Consensus size: 37
63974458 TATCAGAACT
* *
63974468 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* *
63974505 AGAATCAAAATCAGAATCAAAATCAGAATTAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* *
63974542 AGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAGGTAA-C
* *
63974579 AGAAGCAGAATCAGAAT
1 AGAATCAAAATCAGAAT
63974596 TAGGTAACAG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
36 2 0.03
37 67 0.86
38 7 0.09
39 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:63974544 original size:25 final size:25
Alignment explanation
Indices: 63974516--63974582 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
63974506 GAATCAAAAT
* *
63974516 CAGAATCAAAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
63974541 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
63974566 CAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
63974583 GCAGAATCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:63974551 original size:62 final size:61
Alignment explanation
Indices: 63974480--63974645 Score: 260
Period size: 62 Copynumber: 2.7 Consensus size: 61
63974470 AATCAAAATG
63974480 AGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAGAATCAAAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGT-ACAGAATCAAAATCAGAATCAAAATCAGAATTAGGTAAC
* * * *
63974542 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAGCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGT-ACAGAATCAAAATCAGAATCAAAATCAGAATTAGGTAAC
*
63974604 AGAATCAAAATCAGAATCAGGTAGCAGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAATCAGGTA-CAGAATCAAAATCAGAAT
63974646 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
61 1 0.01
62 93 0.99
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.17
Consensus pattern (61 bp):
AGAATCAGAATCAGAATCAGGTACAGAATCAAAATCAGAATCAAAATCAGAATTAGGTAAC
Found at i:63974601 original size:37 final size:37
Alignment explanation
Indices: 63974541--63974619 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
63974531 AATTAGGTAA
* * *
63974541 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAAGCAGAATCAGAATCAGGTAACAGAATCAAAAT
*
63974578 CAGAAGCAGAATCAGAATTAGGTAACAGAATCAAAAT
1 CAGAAGCAGAATCAGAATCAGGTAACAGAATCAAAAT
63974615 CAGAA
1 CAGAA
63974620 TCAGGTAGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.16
Consensus pattern (37 bp):
CAGAAGCAGAATCAGAATCAGGTAACAGAATCAAAAT
Found at i:63974615 original size:25 final size:25
Alignment explanation
Indices: 63974566--63974645 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
63974556 TATCAGGTAA
* *
63974566 CAGAATCA-G-AATCAGAAGCAGAAT
1 CAGAATCAGGTAA-CAGAATCAAAAT
*
63974590 CAGAATTAGGTAACAGAATCAAAAT
1 CAGAATCAGGTAACAGAATCAAAAT
*
63974615 CAGAATCAGGTAGCAGAATCAAAAT
1 CAGAATCAGGTAACAGAATCAAAAT
63974640 CAGAAT
1 CAGAAT
63974646 GTGAATGCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 7 0.14
25 40 0.82
26 2 0.04
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.16
Consensus pattern (25 bp):
CAGAATCAGGTAACAGAATCAAAAT
Found at i:63975187 original size:27 final size:27
Alignment explanation
Indices: 63975157--63975325 Score: 160
Period size: 27 Copynumber: 6.3 Consensus size: 27
63975147 GGGGTAAAAT
* * *
63975157 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63975184 GGTAATTCTACCTTA-TAGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* * *
63975211 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
63975238 AGTATTTCTACCCAATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
63975265 GGTAATTCTACCCCACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
63975292 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
63975319 GGTAATT
1 GGTAATT
63975326 TTGTAAACTA
Statistics
Matches: 114, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.03
27 109 0.96
28 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:63975223 original size:54 final size:53
Alignment explanation
Indices: 63975157--63975325 Score: 212
Period size: 54 Copynumber: 3.1 Consensus size: 53
63975147 GGGGTAAAAT
* * * **
63975157 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTATAGGAGTATTTC
1 GGTAATTCTACCCCACAGGGGTATTTTAGTAATTCTACCTTATAGG-GTATTTC
* * * **
63975211 AGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCAATAAGGGTATTTC
1 GGTAATTCTACCCCACAGGGGTATTTTAGTAATTCTACCTTAT-AGGGTATTTC
*
63975265 GGTAATTCTACCCCACAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCCACAGGGGTATTTTAGTAATTCTACCTTATA-GGGTATTTC
63975319 GGTAATT
1 GGTAATT
63975326 TTGTAAACTA
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 93 0.96
55 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (53 bp):
GGTAATTCTACCCCACAGGGGTATTTTAGTAATTCTACCTTATAGGGTATTTC
Found at i:63975338 original size:81 final size:79
Alignment explanation
Indices: 63975173--63975352 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 79
63975163 TTTACCCCAC
* ** * *
63975173 AAGGGTATCTCGGTAATTCTACCTTATAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTT
1 AAGGGTATTTCGGTAATTCTACCCCACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
63975238 AGTATTTCTACCCAAT
66 AGTATTTCTA--CAAT
* * *
63975254 AAGGGTATTTCGGTAATTCTACCCCACAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCCACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
63975319 GGTAATTTTGTA-AACT
66 AGT-A-TTTCTACAA-T
*
63975335 AAGGGTATTTTGGTAATT
1 AAGGGTATTTCGGTAATT
63975353 TTACAAACCA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 2 0.02
81 77 0.91
82 1 0.01
83 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (79 bp):
AAGGGTATTTCGGTAATTCTACCCCACAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
AGTATTTCTACAAT
Found at i:63975341 original size:54 final size:54
Alignment explanation
Indices: 63975283--63975444 Score: 209
Period size: 54 Copynumber: 3.0 Consensus size: 54
63975273 TACCCCACAG
** *
63975283 GGGTATTTTAGTAATTCTACCTTA-CAGGGGTATTTCGGTAATTTTGTAAACTAA
1 GGGTATTTTAGTAATTCTA-CAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
* * * * *
63975337 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTCTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
** *
63975391 GGGTATTTTAGTGGTTCTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTAA
1 GGGTATTTTAGTAATTCTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
63975445 AGTATTCTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 2 0.02
54 89 0.98
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTCTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
Found at i:63975441 original size:27 final size:27
Alignment explanation
Indices: 63975307--63975434 Score: 148
Period size: 27 Copynumber: 4.7 Consensus size: 27
63975297 TTCTACCTTA
* *
63975307 CAGGGGTATTTCGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * *
63975334 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
*
63975361 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * ** * *
63975388 CAAGGGTATTTTAGTGGTTCTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
63975415 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
63975435 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTATAAAC
Found at i:63977441 original size:6 final size:6
Alignment explanation
Indices: 63977411--63977547 Score: 102
Period size: 6 Copynumber: 22.3 Consensus size: 6
63977401 AAGAAACATT
* * *
63977411 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATTAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
63977459 ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA AT-AGA ATTAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* * *
63977509 ACCAGA ATCAGA ATTAGGTA A-CAAA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
63977548 ATGAATGTAA
Statistics
Matches: 103, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
5 8 0.08
6 82 0.80
7 7 0.07
8 6 0.06
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:63977474 original size:25 final size:25
Alignment explanation
Indices: 63977444--63977509 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
63977434 AATCAGAATT
*
63977444 AGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
63977469 AGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGGTAAC
*
63977494 AGAATTAGAATCAGAA
1 AGAATCAGAATCAGAA
63977510 CCAGAATCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:63977479 original size:31 final size:31
Alignment explanation
Indices: 63977437--63977547 Score: 129
Period size: 31 Copynumber: 3.6 Consensus size: 31
63977427 AAATGAGAAT
*
63977437 CAGAATTAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGAATTAGGTAA
*
63977468 CAGAATCAGAATCAGTATCAGGTAA-TA-G-AA
1 CAGAATCAGAATCAGAATCA-G-AATTAGGTAA
* *
63977498 TTAGAATCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCAGAATTAGGTAA
*
63977530 CAAAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
63977548 ATGAATGTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
29 2 0.03
30 5 0.08
31 52 0.79
32 5 0.08
33 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATTAGGTAA
Found at i:63977528 original size:37 final size:37
Alignment explanation
Indices: 63977468--63977546 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
63977458 AATTAGGTAA
* * * * *
63977468 CAGAATCAGAATCAGTATCAGGTAATAGAATTAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAAAATCAGAAT
*
63977505 CAGAACCAGAATCAGAATTAGGTAACAAAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAAAATCAGAAT
63977542 CAGAA
1 CAGAA
63977547 TATGAATGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATCAGGTAACAAAATCAGAAT
Found at i:63978109 original size:27 final size:27
Alignment explanation
Indices: 63978059--63978227 Score: 178
Period size: 27 Copynumber: 6.3 Consensus size: 27
63978049 GGGGTAAAAT
* * *
63978059 GGTAATTTTATCCC-ACAAGGGTATCTC
1 GGTAATTCTA-CCCTACAGGGGTATTTC
* * *
63978086 GGTAATTCTACCTTACAGGAGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
63978113 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
63978140 GTTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63978167 GGTAATTCTACCCCACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63978194 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
63978221 GGTAATT
1 GGTAATT
63978228 TTGTAAACCA
Statistics
Matches: 116, Mismatches: 25, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
26 2 0.02
27 114 0.98
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:63978185 original size:81 final size:81
Alignment explanation
Indices: 63978073--63978221 Score: 235
Period size: 81 Copynumber: 1.8 Consensus size: 81
63978063 ATTTTATCCC
** * *
63978073 ACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTTAGTAATTCTACCTTATAGGGGTATT
1 ACAAGGGTATCTCGGTAATTCTACCCCACAGGAGTATTTTAGTAATTCTACCCTACAGGGGTATT
63978138 TCGTTATTTCTACCCT
66 TCGTTATTTCTACCCT
* * *
63978154 ACAAGGGTATTTTGGTAATTCTACCCCACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATCTCGGTAATTCTACCCCACAGGAGTATTTTAGTAATTCTACCCTACAGGGGTATT
63978219 TCG
66 TCG
63978222 GTAATTTTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
ACAAGGGTATCTCGGTAATTCTACCCCACAGGAGTATTTTAGTAATTCTACCCTACAGGGGTATT
TCGTTATTTCTACCCT
Found at i:63978240 original size:81 final size:80
Alignment explanation
Indices: 63978072--63978254 Score: 233
Period size: 81 Copynumber: 2.3 Consensus size: 80
63978062 AATTTTATCC
* * ** * *
63978072 CACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTTAGTAATTCTACCTTATAGGGGTAT
1 CACAAGGGTATTTTGGTAATTCTACCCCACAGGAGTATTTTAGTAATTCTACCCTACAGGGGTAT
* **
63978137 TTCGTTATTTCTACC
66 TTCGTAATTTCTAAA
*
63978152 CTACAAGGGTATTTTGGTAATTCTACCCCACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTA
1 C-ACAAGGGTATTTTGGTAATTCTACCCCACAGGAGTATTTTAGTAATTCTACCCTACAGGGGTA
*
63978217 TTTCGGTAATTTTGTAAA
65 TTTC-GTAA-TTTCTAAA
63978235 C-CAAGGGTATTTTGGTAATT
1 CACAAGGGTATTTTGGTAATT
63978255 TTACAAACTA
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.01
81 79 0.89
82 3 0.03
83 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (80 bp):
CACAAGGGTATTTTGGTAATTCTACCCCACAGGAGTATTTTAGTAATTCTACCCTACAGGGGTAT
TTCGTAATTTCTAAA
Found at i:63978343 original size:27 final size:27
Alignment explanation
Indices: 63978209--63978335 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
63978199 TTCTACCCTA
* *
63978209 CAGGGGTATTTCGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* *
63978236 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* *
63978263 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * *
63978290 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
63978317 CAGGGGTATTTTGGTAATT
1 CAGGGGTATTTTGGTAATT
63978336 CGGTAAACTA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTATAAAC
Found at i:63978343 original size:54 final size:54
Alignment explanation
Indices: 63978158--63978343 Score: 207
Period size: 54 Copynumber: 3.4 Consensus size: 54
63978148 TACCCTACAA
** * **
63978158 GGGTATTTTGGTAATTC--TACCCCACAGGGGTATTTTAGTAATTCTACCCTA-CAG
1 GGGTATTTTGGTAATTCTGTAAACCA-A-GGGTATTTTAGTAATTTTA-CAAACCAG
* * * *
63978212 GGGTATTTCGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTCTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
63978266 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTCTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
63978320 GGGTATTTTGGTAATTCGGTAAAC
1 GGGTATTTTGGTAATTCTGTAAAC
63978344 TAAAGTATTC
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
53 2 0.02
54 103 0.93
55 1 0.01
56 5 0.05
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (54 bp):
GGGTATTTTGGTAATTCTGTAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:63983899 original size:40 final size:38
Alignment explanation
Indices: 63983855--63984073 Score: 208
Period size: 40 Copynumber: 5.5 Consensus size: 38
63983845 GCTCGATTGT
* *
63983855 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAA-TGC
*
63983895 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCAC-AATGC
* *
63983935 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCAC-AATGC
* *
63983975 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCAC-AATGC
* * * *
63984015 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCAC-AATGC
63984056 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
63984074 ACACCATTCG
Statistics
Matches: 157, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.01
40 125 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (38 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAATGC
Found at i:63983953 original size:80 final size:77
Alignment explanation
Indices: 63983841--63984074 Score: 234
Period size: 80 Copynumber: 2.9 Consensus size: 77
63983831 GGATATAGCG
* * * * * *
63983841 ACTCGCTCGATTGTCTTCGGGACATTGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGAC-TTACCCGGTT-TAGTAATTCGCACAA-TGCCTTCGGGACTT
63983906 AGCCCGGATTTAGTA
63 AGCCCGGATTTAGTA
* *
63983921 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACGAATGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGGACTT-ACCCGG-TTTAGTAATTCGCAC-AATGCCTTCGGGACTT
* * *
63983986 AACCCGGTTTTGGTA
63 AGCCCGGATTTAGTA
* * * * *
63984001 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACT
1 ACTCGCACGAATGCCTTCGGGACTT-ACCCGG-TTTAGT-AATTCGCAC-AATGCCTTCGGGACT
63984066 TAGCCCGGA
62 TAGCCCGGA
63984075 CACCATTCGA
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
79 2 0.02
80 94 0.74
81 31 0.24
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.27
Consensus pattern (77 bp):
ACTCGCACGAATGCCTTCGGGACTTACCCGGTTTAGTAATTCGCACAATGCCTTCGGGACTTAGC
CCGGATTTAGTA
Found at i:63991987 original size:40 final size:39
Alignment explanation
Indices: 63991943--63992160 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 39
63991933 GCTCGATTGT
* * *
63991943 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
63991983 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
63992023 CTTCGGGACTTAACCCGGTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
* *
63992062 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
63992102 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
63992143 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
63992161 ACACCATTCG
Statistics
Matches: 155, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 39 0.25
40 88 0.57
41 27 0.17
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:63992061 original size:39 final size:40
Alignment explanation
Indices: 63991971--63992161 Score: 249
Period size: 40 Copynumber: 4.8 Consensus size: 40
63991961 TTATAGTGAT
* * *
63991971 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* *
63992011 TCGCACGAATGCCTTCGGGACTTAACCCGG-TTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* *
63992050 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
63992090 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
63992130 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGACTTAACCCGGA
63992162 CACCATTCGA
Statistics
Matches: 133, Mismatches: 16, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 37 0.28
40 70 0.53
41 26 0.20
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
Found at i:63992089 original size:79 final size:81
Alignment explanation
Indices: 63991970--63992161 Score: 262
Period size: 79 Copynumber: 2.4 Consensus size: 81
63991960 GTTATAGTGA
* * * *
63991970 TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
*
63992035 ACCCGG-TTTGGTAAC
66 ACCCGGATTTAGTAAC
* * * *
63992050 -TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTG
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
*
63992114 ACCCGGATTTAGTCAC
66 ACCCGGATTTAGTAAC
* *
63992130 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGA
63992162 CACCATTCGA
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 62 0.65
80 7 0.07
81 27 0.28
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
ACCCGGATTTAGTAAC
Found at i:63995057 original size:40 final size:40
Alignment explanation
Indices: 63994991--63995134 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
63994981 AAATTGAATG
* * *
63994991 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
63995030 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
63995070 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
63995110 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
63995135 TTCGTGCACG
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.19
40 69 0.81
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:63995155 original size:40 final size:40
Alignment explanation
Indices: 63995028--63995157 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
63995018 ATGCTGGAAA
* *
63995028 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
63995068 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
63995108 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
63995148 TTATATCCGG
1 TTATATCCGG
63995158 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:63998169 original size:24 final size:24
Alignment explanation
Indices: 63998139--63998301 Score: 216
Period size: 23 Copynumber: 7.1 Consensus size: 24
63998129 GAATGTGACT
* *
63998139 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
63998163 ATAGCAAATCGCACACATA-TGCC
1 ATAGTAAATCGCACACATAGTGCC
63998186 A-A-TAAATCGCACA-ATAGT-CC
1 ATAGTAAATCGCACACATAGTGCC
**
63998206 ATAGTGTATCGCACACATA-TGCC
1 ATAGTAAATCGCACACATAGTGCC
63998229 ATAGTAAATCGCACACATAGT-CC
1 ATAGTAAATCGCACACATAGTGCC
63998252 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
63998276 ATAGTGAATCGCACACATA-TGCC
1 ATAGTAAATCGCACACATAGTGCC
63998299 ATA
1 ATA
63998302 TGTCTTTGCA
Statistics
Matches: 125, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.05
21 12 0.10
22 11 0.09
23 56 0.45
24 40 0.32
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:63998316 original size:70 final size:66
Alignment explanation
Indices: 63998145--63998301 Score: 226
Period size: 70 Copynumber: 2.3 Consensus size: 66
63998135 GACTATAGCA
* *
63998145 AATCGCACACATAGTGCTATAGCAAATCGCACACATATGCCAATAAATCGCACAATAGTCCATAG
1 AATCGCACACATA-TGCCATAGTAAATCGCACACATATGCCAATAAATCGCACAATAGTCCATAG
63998210 TG
65 TG
*
63998212 TATCGCACACATATGCCATAGTAAATCGCACACATA-GTCCATAGTAAATCGCACACATAGTGCC
1 AATCGCACACATATGCCATAGTAAATCGCACACATATG-CCA-A-TAAATCGCACA-ATAGT-CC
63998276 ATAGTG
61 ATAGTG
63998282 AATCGCACACATATGCCATA
1 AATCGCACACATATGCCATA
63998302 TGTCTTTGCA
Statistics
Matches: 81, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
65 1 0.01
66 24 0.30
67 13 0.16
68 11 0.14
69 5 0.06
70 27 0.33
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.22
Consensus pattern (66 bp):
AATCGCACACATATGCCATAGTAAATCGCACACATATGCCAATAAATCGCACAATAGTCCATAGT
G
Found at i:64006041 original size:24 final size:24
Alignment explanation
Indices: 64006011--64006181 Score: 288
Period size: 24 Copynumber: 7.1 Consensus size: 24
64006001 GAATGTGACT
* *
64006011 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
64006035 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64006059 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
**
64006083 ATAGTGTATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64006107 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64006131 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
64006155 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
64006179 ATA
1 ATA
64006182 TGGTCTTTGC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:64009304 original size:22 final size:22
Alignment explanation
Indices: 64009274--64009318 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
64009264 TCATATGCTT
* *
64009274 TTGTGAAGTACATTTATCGAAA
1 TTGTAAAGTACATTTATCCAAA
64009296 TTGTAAAGTACATTTATCCAAA
1 TTGTAAAGTACATTTATCCAAA
64009318 T
1 T
64009319 CATATGCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (22 bp):
TTGTAAAGTACATTTATCCAAA
Found at i:64010400 original size:16 final size:16
Alignment explanation
Indices: 64010379--64010423 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
64010369 AATACTAACA
* *
64010379 ATTTAGGTATTTGAGG
1 ATTTAGGGATTTGAAG
64010395 ATTTAGGGATTTGAAG
1 ATTTAGGGATTTGAAG
64010411 ATTGTTAGGGATT
1 A-T-TTAGGGATT
64010424 CAATGAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 1 0.04
18 9 0.36
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (16 bp):
ATTTAGGGATTTGAAG
Found at i:64018079 original size:48 final size:48
Alignment explanation
Indices: 64017862--64018124 Score: 285
Period size: 48 Copynumber: 5.6 Consensus size: 48
64017852 TGATCCTGTA
* **
64017862 TAAGACCATGTCTGGGACATGGCA-CTGGTGTCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATC-AGCATCGTTATGTGAGCCAGTG
* **
64017910 TAAGACCATGTCTGGGACATGGCATCGGTGTCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCAGCATCGTTATGTGAGCCAGTG
* * *
64017958 TAAGACCATGTCTGGGACATGGCATAAACATCGTTATGTGATCCCA-TG
1 TAAGACCATGTCTGGGACATGGCATCAGCATCGTTATGTGA-GCCAGTG
** * *
64018006 TAAGAATATGTCTAGGACATGGCATCAGCATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCAGCATCGTTATGTGAGCCAGTG
* * *
64018054 TAAGACCATATCTGGGACATGGCATCGGTATCG---T-T-A---AGTG
1 TAAGACCATGTCTGGGACATGGCATCAGCATCGTTATGTGAGCCAGTG
*
64018094 TAAGACCATGTCTGGGACATGGCATCGGCAT
1 TAAGACCATGTCTGGGACATGGCATCAGCAT
64018125 GAGGCATCGT
Statistics
Matches: 190, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
40 33 0.17
43 1 0.01
44 1 0.01
45 1 0.01
47 3 0.02
48 147 0.77
49 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCAGCATCGTTATGTGAGCCAGTG
Found at i:64018151 original size:42 final size:40
Alignment explanation
Indices: 64018050--64018151 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
64018040 TATGTGAGCC
* * * **
64018050 AGTGTAAGACCATATCTGGGACATGGCATCGGTATCGTTA
1 AGTGTAAGACCATAGCTGGGACATGGCATCGGCATAGGCA
64018090 AGTGTAAGACCAT-GTCTGGGACATGGCATCGGCATGAGGCA
1 AGTGTAAGACCATAG-CTGGGACATGGCATCGGCAT-AGGCA
*
64018131 TCGTGTAAGACCATAGCTGGG
1 -AGTGTAAGACCATAGCTGGG
64018152 CTATTGGCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
40 32 0.62
41 2 0.04
42 17 0.33
43 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (40 bp):
AGTGTAAGACCATAGCTGGGACATGGCATCGGCATAGGCA
Found at i:64039763 original size:28 final size:28
Alignment explanation
Indices: 64039732--64039799 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
64039722 ATATACGTGC
*
64039732 GACACTTAGTGTGCAAAATATTGGGAAT
1 GACACTTAGTGTGCAAAATATTGAGAAT
* * *
64039760 GACACTTGGTGTGCAATATATTGAGTAT
1 GACACTTAGTGTGCAAAATATTGAGAAT
*
64039788 GGCACTTAGTGT
1 GACACTTAGTGT
64039800 CTGAGACATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (28 bp):
GACACTTAGTGTGCAAAATATTGAGAAT
Found at i:64041541 original size:32 final size:31
Alignment explanation
Indices: 64041496--64041563 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
64041486 CCATATGGGT
* * *
64041496 GTGTGTCACCACACGGCTTAACCTACACGGGC
1 GTGTGTCACCACACAGCCT-ACCCACACGGGC
* *
64041528 GTGTGTGATCACACAGCCTACCCACACGGGC
1 GTGTGTCACCACACAGCCTACCCACACGGGC
64041559 GTGTG
1 GTGTG
64041564 ACCCTGTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.21, C:0.32, G:0.28, T:0.19
Consensus pattern (31 bp):
GTGTGTCACCACACAGCCTACCCACACGGGC
Found at i:64046520 original size:21 final size:21
Alignment explanation
Indices: 64046494--64046536 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
64046484 GTCAAGGTCA
64046494 TCCGTAATCCTTTCTGTGGCC
1 TCCGTAATCCTTTCTGTGGCC
64046515 TCCGTAATCCTTTCTGTGGCC
1 TCCGTAATCCTTTCTGTGGCC
64046536 T
1 T
64046537 TAGTCCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.33, G:0.19, T:0.40
Consensus pattern (21 bp):
TCCGTAATCCTTTCTGTGGCC
Found at i:64047354 original size:18 final size:17
Alignment explanation
Indices: 64047331--64047367 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
64047321 GTCAAGATAT
64047331 CTTGTTCATTGTTAATAA
1 CTTGTTCATTGTTAA-AA
64047349 CTTGTTCATTGTTAAAA
1 CTTGTTCATTGTTAAAA
64047366 CT
1 CT
64047368 CCGGTTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.49
Consensus pattern (17 bp):
CTTGTTCATTGTTAAAA
Found at i:64048068 original size:11 final size:11
Alignment explanation
Indices: 64048052--64048076 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64048042 CCGTACCTAG
64048052 AAGAAAAAAAA
1 AAGAAAAAAAA
64048063 AAGAAAAAAAA
1 AAGAAAAAAAA
64048074 AAG
1 AAG
64048077 GCTTCATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:64050138 original size:49 final size:49
Alignment explanation
Indices: 64050066--64050325 Score: 370
Period size: 49 Copynumber: 5.4 Consensus size: 49
64050056 AATAGCTCGT
*
64050066 AGTGTATATATATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64050115 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64050164 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
64050213 AGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * ** * * * * *
64050260 AGTG--TAGATATGTGATAGGGCAGAGTGGCCAACGTGTTGGATGTGAA
1 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64050307 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
64050326 TCCCGAAGGG
Statistics
Matches: 198, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 94 0.47
48 1 0.01
49 103 0.52
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:64050240 original size:47 final size:47
Alignment explanation
Indices: 64050072--64050325 Score: 355
Period size: 47 Copynumber: 5.3 Consensus size: 47
64050062 TCGTAGTGTA
*
64050072 TATATATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
64050119 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
64050168 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
64050217 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * ** * * * * *
64050264 TAGATATGTGATAGGGCAGAGTGGCCAACGTGTTGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
64050311 TATAAATGTGATAAG
1 TATATATGTGATAAG
64050326 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 97 0.51
49 95 0.49
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:64053697 original size:40 final size:40
Alignment explanation
Indices: 64053638--64053845 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
64053628 CAATTGAATG
* * * *
64053638 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
64053678 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
64053718 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
64053758 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
64053798 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
64053838 ATATCCGG
1 ATATCCGG
64053846 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:64053776 original size:80 final size:80
Alignment explanation
Indices: 64053639--64053845 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
64053629 AATTGAATGA
* * ** * * *
64053639 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
64053704 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
64053717 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
64053782 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
64053799 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
64053846 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:64057828 original size:43 final size:43
Alignment explanation
Indices: 64057747--64057832 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
64057737 AAGTTGTACA
**
64057747 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
64057790 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATATCG
64057833 GAATGACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:64061965 original size:40 final size:40
Alignment explanation
Indices: 64061887--64062094 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
64061877 TCTTCAGAAT
* ** *
64061887 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
64061926 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTAGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
64061966 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
64062006 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
64062046 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
64062086 TTAGCCCGG
1 TTAGCCCGG
64062095 GTATCATTCA
Statistics
Matches: 150, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 146 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:64069874 original size:2 final size:2
Alignment explanation
Indices: 64069867--64069900 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
64069857 AGTATAGTTG
* *
64069867 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64069901 TCGGCCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:64070579 original size:29 final size:29
Alignment explanation
Indices: 64070544--64070617 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
64070534 GTTGTGAGAT
* *
64070544 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
64070573 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
64070602 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
64070618 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:64088521 original size:44 final size:46
Alignment explanation
Indices: 64088472--64088586 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 46
64088462 TTTGCATGCT
64088472 GATGCATGTCCCAGACATGTCTTACATTAGCATAACTCT-T-A-GCC
1 GATGCATGTCCCAGACATGTCTTACATTAGC-TAACTCTGTCAGGCC
* * * *
64088516 GATGCATGTCCCAGACACGCCTTACATTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACATTAGCTAACTCTGTC-AGGCC
*
64088563 AATGCATGTCCCAGACATGTCTTA
1 GATGCATGTCCCAGACATGTCTTA
64088587 TTCTGCCACT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 6 0.10
44 29 0.48
46 1 0.02
47 24 0.40
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACATTAGCTAACTCTGTCAGGCC
Found at i:64091992 original size:23 final size:23
Alignment explanation
Indices: 64091955--64092002 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
64091945 AAATCGTGTT
* *
64091955 TATATGTTTTTAATTGAAATATA
1 TATATGTTATGAATTGAAATATA
**
64091978 TATATGTTATGAATTGTCATATA
1 TATATGTTATGAATTGAAATATA
64092001 TA
1 TA
64092003 ATTACCGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (23 bp):
TATATGTTATGAATTGAAATATA
Found at i:64092236 original size:25 final size:25
Alignment explanation
Indices: 64092169--64092223 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
64092159 AATACACCAC
* *
64092169 AGCTCGTGTGAGCATACCGATTTAT
1 AGCTCGTGAGAGCATACCGATCTAT
64092194 AGCTCGTGAGAGCATACCGATCTAT
1 AGCTCGTGAGAGCATACCGATCTAT
64092219 AGCTC
1 AGCTC
64092224 AAGTAAGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATCTAT
Found at i:64097240 original size:118 final size:116
Alignment explanation
Indices: 64097034--64097271 Score: 449
Period size: 118 Copynumber: 2.0 Consensus size: 116
64097024 ATCAATAAAA
64097034 TAGGAAAAATTCTCAACAAATCAAAAAATATATATGATATAGGGGTTAAAAGTCAGGGTGAATTA
1 TAGGAAAAATTCTCAACAAATCAAAAAATATATATGATATAGGGGTTAAAAGTCAGGGTGAATTA
64097099 AGAAATGGTTTGTTAAGCTCAAAAGGGTTCACTAAGGGTTAATTATGAAGG
66 AGAAATGGTTTGTTAAGCTCAAAAGGGTTCACTAAGGGTTAATTATGAAGG
*
64097150 TAGGAAAAATTCTCAACGAATCAAAAAATATATATATGATATAGGGGTTAAAAGTCAGGGTGAAT
1 TAGGAAAAATTCTCAACAAATC-AAAAA-ATATATATGATATAGGGGTTAAAAGTCAGGGTGAAT
64097215 TAAGAAATGGTTTGTTAAGCTCAAAAGGGTTCACTAAGGGTTAATTATGAAGG
64 TAAGAAATGGTTTGTTAAGCTCAAAAGGGTTCACTAAGGGTTAATTATGAAGG
64097268 TAGG
1 TAGG
64097272 CTTTTTGTGG
Statistics
Matches: 119, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
116 21 0.18
117 5 0.04
118 93 0.78
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.28
Consensus pattern (116 bp):
TAGGAAAAATTCTCAACAAATCAAAAAATATATATGATATAGGGGTTAAAAGTCAGGGTGAATTA
AGAAATGGTTTGTTAAGCTCAAAAGGGTTCACTAAGGGTTAATTATGAAGG
Found at i:64098064 original size:16 final size:16
Alignment explanation
Indices: 64098018--64098067 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
64098008 ACATAAGTTT
64098018 TAAG-AAAAAAT-AAA
1 TAAGAAAAAAATAAAA
*
64098032 TAAGAGAAAAATGAAAA
1 TAAGAAAAAAAT-AAAA
*
64098049 TAATAAAAAAATAAAA
1 TAAGAAAAAAATAAAA
64098065 TAA
1 TAA
64098068 AATAAATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 4 0.13
15 6 0.20
16 7 0.23
17 13 0.43
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
TAAGAAAAAAATAAAA
Found at i:64101906 original size:49 final size:49
Alignment explanation
Indices: 64101847--64102048 Score: 359
Period size: 49 Copynumber: 4.1 Consensus size: 49
64101837 GTACATAATA
64101847 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
64101896 ACATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
64101945 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
64101994 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
64102043 ATATAT
1 ATATAT
64102049 ATGTGGTAAA
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 147 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:64102172 original size:37 final size:37
Alignment explanation
Indices: 64102117--64102204 Score: 142
Period size: 38 Copynumber: 2.3 Consensus size: 37
64102107 AACTTGGAAA
64102117 TATGTTCCGGGTGAGACCC-GATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCTGATGACTACGTGTGGAGAT
64102155 TATGTCCGGGTACGACCCTGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCTGATGACTACGTGTGGAGAT
64102193 TATGTCCGGGTA
1 TATGTCCGGGTA
64102205 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 1 0.02
37 12 0.25
38 35 0.73
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.27
Consensus pattern (37 bp):
TATGTCCGGGTAGACCCTGATGACTACGTGTGGAGAT
Found at i:64104070 original size:39 final size:39
Alignment explanation
Indices: 64104015--64104096 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
64104005 TGCAAAATGG
64104015 CTAAGCATACTATGTTTAACTCTACGTGTAACGAATCAT
1 CTAAGCATACTATGTTTAACTCTACGTGTAACGAATCAT
* * *
64104054 CTAAGCATACTGTGTTTAGCTCTACGTGTGACGAATCAT
1 CTAAGCATACTATGTTTAACTCTACGTGTAACGAATCAT
64104093 CTAA
1 CTAA
64104097 CTTTCATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (39 bp):
CTAAGCATACTATGTTTAACTCTACGTGTAACGAATCAT
Found at i:64108476 original size:40 final size:40
Alignment explanation
Indices: 64108406--64108595 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
64108396 TGGATGATAA
* * *
64108406 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
*
64108446 CGAAGGCATTTGTGCGAGTTACTATATCCGGCCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
64108486 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
64108526 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
64108565 CGAAGACATTTGAGCGAG-TAGCTATATCCGG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGG
64108596 TAAAATCCCG
Statistics
Matches: 139, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 2 0.01
39 30 0.22
40 106 0.76
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:64110996 original size:20 final size:22
Alignment explanation
Indices: 64110967--64111006 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
64110957 ATTGATTTAT
*
64110967 GGAAATTATA-AT-TATTATTA
1 GGAAAATATATATATATTATTA
64110987 GGAAAATATATATATATTAT
1 GGAAAATATATATATATTAT
64111007 CGTATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
GGAAAATATATATATATTATTA
Found at i:64113573 original size:20 final size:20
Alignment explanation
Indices: 64113548--64113585 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64113538 AATCATATGA
64113548 AACTGTATTGAAATGGGCCT
1 AACTGTATTGAAATGGGCCT
* *
64113568 AACTGTGTTGATATGGGC
1 AACTGTATTGAAATGGGC
64113586 AAGGCCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (20 bp):
AACTGTATTGAAATGGGCCT
Found at i:64113678 original size:60 final size:60
Alignment explanation
Indices: 64113576--64113714 Score: 167
Period size: 60 Copynumber: 2.3 Consensus size: 60
64113566 CTAACTGTGT
* *
64113576 TGATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TGATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATAC
* * * *
64113636 TGATATTGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGGCCCAGATTAATAC
64113696 TGATATGGGCTAAGGCCCA
1 TGATATGGGCT-AGGCCCA
64113715 GTTAACACTA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 52 0.76
61 12 0.18
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (60 bp):
TGATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATAC
Found at i:64124871 original size:12 final size:12
Alignment explanation
Indices: 64124851--64124881 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
64124841 CAAAAATAAG
*
64124851 GCTACTTAGCAA
1 GCTATTTAGCAA
64124863 GCTATTTAGCAA
1 GCTATTTAGCAA
64124875 GCTATTT
1 GCTATTT
64124882 TGCCACCCTT
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:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (12 bp):
GCTATTTAGCAA
Found at i:64128122 original size:25 final size:25
Alignment explanation
Indices: 64128094--64128141 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
64128084 TTATACCATG
* * *
64128094 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
64128119 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
64128142 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:64128210 original size:20 final size:20
Alignment explanation
Indices: 64128185--64128223 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
64128175 TAAATATGGT
64128185 ATGTATGAGATGCACATGAC
1 ATGTATGAGATGCACATGAC
*
64128205 ATGTATGATATGCACATGA
1 ATGTATGAGATGCACATGA
64128224 TGTAATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (20 bp):
ATGTATGAGATGCACATGAC
Found at i:64128301 original size:24 final size:24
Alignment explanation
Indices: 64128274--64128416 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
64128264 GAGGAAGTGA
64128274 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
64128298 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
64128322 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
64128345 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
64128369 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
64128393 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
64128417 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:64128367 original size:47 final size:47
Alignment explanation
Indices: 64128274--64128416 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
64128264 GAGGAAGTGA
64128274 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
64128322 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
64128369 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
64128417 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:64128390 original size:71 final size:72
Alignment explanation
Indices: 64128274--64128417 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
64128264 GAGGAAGTGA
*
64128274 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
64128337 CCAGTTAT
65 CCAGTTAT
** * *
64128345 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
64128410 CAGTTAT
66 CAGTTAT
64128417 A
1 A
64128418 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:64128643 original size:31 final size:31
Alignment explanation
Indices: 64128608--64128671 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
64128598 CGTTTACAGT
64128608 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
64128639 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
64128670 AA
1 AA
64128672 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:64133008 original size:24 final size:24
Alignment explanation
Indices: 64132958--64133009 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
64132948 TTCGTATGTC
* **
64132958 AAATAAATTATTCTAATAAATGGT
1 AAATAAATTATACTAATAAATACT
*
64132982 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
64133006 AAAT
1 AAAT
64133010 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:64134959 original size:24 final size:24
Alignment explanation
Indices: 64134931--64134982 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
64134921 TTCGTAGGTC
* *
64134931 AAATAAATAATGCTAATAAATACT
1 AAATAAATAATACTAATAAACACT
* *
64134955 AAATATATTATACTAATAAACACT
1 AAATAAATAATACTAATAAACACT
64134979 AAAT
1 AAAT
64134983 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAATAATACTAATAAACACT
Found at i:64135910 original size:2 final size:2
Alignment explanation
Indices: 64135903--64135935 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
64135893 ACTCTTAAAC
64135903 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64135936 CAAAAGGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.