Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
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: 4148933
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:1582826 original size:45 final size:45
Alignment explanation
Indices: 1582772--1582885 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 45
1582762 GGGAGCTTTT
* ** **
1582772 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCT-TCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTGT-AGTGCA
1582817 TGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTGTAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTGTAGTGCA
*
1582862 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
1582886 AGCTTTTTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
45 47 0.78
46 5 0.08
47 8 0.13
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTGTAGTGCA
Found at i:1582845 original size:121 final size:121
Alignment explanation
Indices: 1582696--1583194 Score: 773
Period size: 121 Copynumber: 4.1 Consensus size: 121
1582686 CGGGAGCTTT
* * *
1582696 TGATATTTTCAAAACCTTCGGGTTATCCATAAGACCTGCAGTCCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
1582761 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
66 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1582817 TGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTGTAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
* * *
1582882 CGGGAGCTTTTTGATATTTTCAACACCTTCGTGTCATCTATAAGCCCTTCAGTGCA
66 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
**
1582938 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
* * * * *
1583003 TGGCATCTTTTTGATATTTTCAAAACCATCGGGTCAACTGTAAGCCCTTCAGTGCA
66 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1583059 TGATGTTTTCAAAACCTTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTATAAAAAAAGT
1 TGATGTTTTCAAAACC-TTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTT-T-CAAAAAG-
* * * * *
1583124 CCTTCGAGAGCATTTTGATATTTTCAAAACATTTGGGTTATCTGTAAGCCCTTCAGTGCA
62 CCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1583184 TGATGTTTTCA
1 TGATGTTTTCA
1583195 GGACCTCTGG
Statistics
Matches: 343, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
121 240 0.70
122 35 0.10
123 1 0.00
124 6 0.02
125 61 0.18
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (121 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1582902 original size:76 final size:74
Alignment explanation
Indices: 1582817--1582959 Score: 189
Period size: 76 Copynumber: 1.9 Consensus size: 74
1582807 CTTCAGTGCA
*
1582817 TGATGTTTTCAAAACCTTCGGGTCATCCATAAAACCTGT-AGTGCAGGATGTTTTCAAAAAGCCT
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAAACCT-TCAGTGCAGGATGTTTTC-AAAA-CCT
1582881 TCGGGAGCTTTT
63 TCGGGAGCTTTT
* * * ** *
1582893 TGATATTTTCAACACCTTCGTGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTTCAGTGCAGGATGTTTTCAAAACCTTCG
1582958 GG
66 GG
1582960 TCATCCATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
74 8 0.14
75 5 0.08
76 46 0.78
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (74 bp):
TGATATTTTCAAAACCTTCGGGTCATCCATAAAACCTTCAGTGCAGGATGTTTTCAAAACCTTCG
GGAGCTTTT
Found at i:1582947 original size:45 final size:45
Alignment explanation
Indices: 1582893--1582996 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
1582883 GGGAGCTTTT
* * * * *
1582893 TGATATTTTCAACACCTTCGTGTCATCTATAAGCCCT-TCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTAT-AGTGCA
1582938 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCA
*
1582983 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
1582997 AGCCTTTGGC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTATAGTGCA
Found at i:1583070 original size:45 final size:46
Alignment explanation
Indices: 1583014--1583112 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 46
1583004 GGCATCTTTT
* ** * *
1583014 TGATATTTTCAAAACC-ATCGGGTCAACTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTATCGGGTCAACCATAAGACCTGCAGTGCA
* *
1583059 TGATGTTTTCAAAACCTTTCGGGTCATCCATAAGACCTGCAGTGCA
1 TGATGTTTTCAAAACCTATCGGGTCAACCATAAGACCTGCAGTGCA
*
1583105 GGATGTTT
1 TGATGTTT
1583113 ATAAAAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 15 0.33
46 30 0.67
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (46 bp):
TGATGTTTTCAAAACCTATCGGGTCAACCATAAGACCTGCAGTGCA
Found at i:1587941 original size:106 final size:106
Alignment explanation
Indices: 1587756--1587957 Score: 307
Period size: 106 Copynumber: 1.9 Consensus size: 106
1587746 CACAATGAGC
*
1587756 TGCCAAAAGATTAATCATGATACAACTCACCTATTGCCAGCTCACTTTCAGCTCAATCACTTTAA
1 TGCCAAAAGATTAATCATGATACAACTCACCTATTGCCAACTCACTTTCAGCTCAATCACTTTAA
* *
1587821 AACTAGCTCAATCATGGAAGGTTACCTTCCACACATGGAGA
66 AACTAGCTCAATCATGAAAGATTACCTTCCACACATGGAGA
* * * *
1587862 TGCCAAAAGATTCATCATGATACAACTCACTTA-TGACCAACTCACTTTTAGCTCAATCACTTTG
1 TGCCAAAAGATTAATCATGATACAACTCACCTATTG-CCAACTCACTTTCAGCTCAATCACTTTA
* *
1587926 GAACTATCTCAATCATGAAAGATTACCTTCCA
65 AAACTAGCTCAATCATGAAAGATTACCTTCCA
1587958 AACTTTGTGA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 2 0.02
106 84 0.98
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (106 bp):
TGCCAAAAGATTAATCATGATACAACTCACCTATTGCCAACTCACTTTCAGCTCAATCACTTTAA
AACTAGCTCAATCATGAAAGATTACCTTCCACACATGGAGA
Found at i:1590601 original size:50 final size:50
Alignment explanation
Indices: 1590496--1590602 Score: 114
Period size: 50 Copynumber: 2.1 Consensus size: 50
1590486 TCGCACTCCA
* * *
1590496 ATTTGCCTTTTCATCGCGACTAGGAGGGTTGATTAGAGCCATATTATCATG
1 ATTTTCCTTTTCATCGCGACTAGGAGGCTTGATTAGAG-CACATTATCATG
*
1590547 -TTTTCCTTTTCATTGCGACTAGGACGGCTTGA-TAG-G-ACATTATCCATCG
1 ATTTTCCTTTTCATCGCGACTAGGA-GGCTTGATTAGAGCACATTAT-CAT-G
1590596 ATTTTCC
1 ATTTTCC
1590603 ACATATCCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
47 6 0.12
48 3 0.06
49 2 0.04
50 31 0.65
51 6 0.12
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (50 bp):
ATTTTCCTTTTCATCGCGACTAGGAGGCTTGATTAGAGCACATTATCATG
Found at i:1591108 original size:11 final size:11
Alignment explanation
Indices: 1591090--1591114 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1591080 CAAAAAACCC
1591090 AAAAAAAAACA
1 AAAAAAAAACA
1591101 AAAAAAAAACA
1 AAAAAAAAACA
1591112 AAA
1 AAA
1591115 GAGCCAAAAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:1595370 original size:20 final size:20
Alignment explanation
Indices: 1595345--1595396 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1595335 TTGTGGGCTT
1595345 ATGAGCTAAGAATGCATGTC
1 ATGAGCTAAGAATGCATGTC
*
1595365 ATGAGCTAATAATGCATGTC
1 ATGAGCTAAGAATGCATGTC
1595385 ATGAGCTAAGAA
1 ATGAGCTAAGAA
1595397 CTATAGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (20 bp):
ATGAGCTAAGAATGCATGTC
Found at i:1604055 original size:17 final size:17
Alignment explanation
Indices: 1604033--1604065 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1604023 ATCTTACCTT
*
1604033 TACCATATCCATTTCTA
1 TACCATAACCATTTCTA
1604050 TACCATAACCATTTCT
1 TACCATAACCATTTCT
1604066 TTTAGCCGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (17 bp):
TACCATAACCATTTCTA
Found at i:1608459 original size:24 final size:23
Alignment explanation
Indices: 1608432--1608478 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
1608422 ATTCTTGGAT
*
1608432 CTTCAAATGGCACATTCTTTTGAA
1 CTTCAAATCGCACA-TCTTTTGAA
* *
1608456 CTTCAAGTCGTACATCTTTTGAA
1 CTTCAAATCGCACATCTTTTGAA
1608479 ATGTCAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (23 bp):
CTTCAAATCGCACATCTTTTGAA
Found at i:1612231 original size:24 final size:23
Alignment explanation
Indices: 1612204--1612249 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
1612194 TTCTTGGATT
1612204 TTCAAATGGCACATCATTTTGAAC
1 TTCAAATGGCACATC-TTTTGAAC
* *
1612228 TTCAAGTGGTACATCTTTTGAA
1 TTCAAATGGCACATCTTTTGAA
1612250 ATGTAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (23 bp):
TTCAAATGGCACATCTTTTGAAC
Found at i:1620352 original size:18 final size:20
Alignment explanation
Indices: 1620316--1620352 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
1620306 AGAGGTTTTT
*
1620316 TATATATATATATATTACAG
1 TATATATATATATAATACAG
1620336 TATAT-TATAT-TAATACA
1 TATATATATATATAATACA
1620353 AAACAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.38
19 5 0.31
20 5 0.31
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (20 bp):
TATATATATATATAATACAG
Found at i:1620884 original size:14 final size:15
Alignment explanation
Indices: 1620849--1620881 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1620839 CCGAAATACA
1620849 GAAATCAAATATCAG
1 GAAATCAAATATCAG
1620864 GAAATC-AATATTCAG
1 GAAATCAAATA-TCAG
1620879 GAA
1 GAA
1620882 TCACGTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (15 bp):
GAAATCAAATATCAG
Found at i:1621682 original size:29 final size:29
Alignment explanation
Indices: 1621634--1621756 Score: 138
Period size: 29 Copynumber: 4.2 Consensus size: 29
1621624 TTATAGAAAG
* * * *
1621634 AGCACCCTTTTTAAAATAATTACCAAAAT
1 AGCACCCATTTCAAATTAATTCCCAAAAT
** *
1621663 AGCACCCATTTTGAATTAATTCTCAAAAT
1 AGCACCCATTTCAAATTAATTCCCAAAAT
** *
1621692 ATAACCTATTTCAAATTAATTCCCAAAAT
1 AGCACCCATTTCAAATTAATTCCCAAAAT
*
1621721 AGCACCCATTTCGAATTAATTCCCAAAAT
1 AGCACCCATTTCAAATTAATTCCCAAAAT
*
1621750 ATCACCC
1 AGCACCC
1621757 GGTCAACAGT
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 78 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.31
Consensus pattern (29 bp):
AGCACCCATTTCAAATTAATTCCCAAAAT
Found at i:1628826 original size:29 final size:29
Alignment explanation
Indices: 1628789--1628968 Score: 197
Period size: 29 Copynumber: 6.2 Consensus size: 29
1628779 CCATTTTACA
* * *
1628789 AAAATAGCACCCTTTTAAAAATAATTACC
1 AAAATAGCACCCTTTTAGAATTAATTCCC
* *
1628818 AAAATAGCACTCTTTTCGAATTAATTCCC
1 AAAATAGCACCCTTTTAGAATTAATTCCC
* * *
1628847 AAAATAG-AACATTTTTGAATTGAATTCCC
1 AAAATAGCACCCTTTTAGAATT-AATTCCC
1628876 AAAATAGCA-CCTATTTCA-AATTAATTCCC
1 AAAATAGCACCCT-TTT-AGAATTAATTCCC
*
1628905 AAAATAGCACCCATTTAGAATTAATTCCC
1 AAAATAGCACCCTTTTAGAATTAATTCCC
* *
1628934 AAAATAACA-CCTATTTCGAATTAATTCCC
1 AAAATAGCACCCT-TTTAGAATTAATTCCC
1628963 AAAATA
1 AAAATA
1628969 TCTCCCGATC
Statistics
Matches: 129, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
28 13 0.10
29 106 0.82
30 10 0.08
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.31
Consensus pattern (29 bp):
AAAATAGCACCCTTTTAGAATTAATTCCC
Found at i:1628879 original size:58 final size:58
Alignment explanation
Indices: 1628789--1628968 Score: 231
Period size: 58 Copynumber: 3.1 Consensus size: 58
1628779 CCATTTTACA
* * * * *
1628789 AAAATAGCACCCTTTTAAAAATAATTACCAAAATAGCACTCT-TTTCGAATTAATTCCC
1 AAAATAGCACACATTTAGAATTAATTCCCAAAATAGCAC-CTATTTCGAATTAATTCCC
* *
1628847 AAAATAG-A-ACATTTTTGAATTGAATTCCCAAAATAGCACCTATTTCAAATTAATTCCC
1 AAAATAGCACACA-TTTAGAATT-AATTCCCAAAATAGCACCTATTTCGAATTAATTCCC
* *
1628905 AAAATAGCACCCATTTAGAATTAATTCCCAAAATAACACCTATTTCGAATTAATTCCC
1 AAAATAGCACACATTTAGAATTAATTCCCAAAATAGCACCTATTTCGAATTAATTCCC
1628963 AAAATA
1 AAAATA
1628969 TCTCCCGATC
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
56 1 0.01
57 9 0.08
58 85 0.80
59 9 0.08
60 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.31
Consensus pattern (58 bp):
AAAATAGCACACATTTAGAATTAATTCCCAAAATAGCACCTATTTCGAATTAATTCCC
Found at i:1628935 original size:87 final size:87
Alignment explanation
Indices: 1628789--1628968 Score: 240
Period size: 87 Copynumber: 2.1 Consensus size: 87
1628779 CCATTTTACA
* * *
1628789 AAAATAGCACCCTTTTAAAAATAATTACCAAAATAGCACTCTTTTCGAATTAATTCCCAAAATAG
1 AAAATAGCACCCTTTTAAAAATAATTACCAAAATAGCACCCATTTAGAATTAATTCCCAAAATA-
*
1628854 A-ACAT-TTTTGAATTGAATTCCC
65 ACACATATTTCGAATT-AATTCCC
* * *
1628876 AAAATAGCA-CCTATTTCAAATTAATTCCCAAAATAGCACCCATTTAGAATTAATTCCCAAAATA
1 AAAATAGCACCCT-TTTAAAAATAATTACCAAAATAGCACCCATTTAGAATTAATTCCCAAAATA
*
1628940 ACACCTATTTCGAATTAATTCCC
65 ACACATATTTCGAATTAATTCCC
1628963 AAAATA
1 AAAATA
1628969 TCTCCCGATC
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
86 4 0.05
87 70 0.85
88 8 0.10
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.31
Consensus pattern (87 bp):
AAAATAGCACCCTTTTAAAAATAATTACCAAAATAGCACCCATTTAGAATTAATTCCCAAAATAA
CACATATTTCGAATTAATTCCC
Found at i:1630069 original size:13 final size:12
Alignment explanation
Indices: 1630045--1630083 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
1630035 TCAAGTACTC
1630045 AGAAAAAA-AAA
1 AGAAAAAAGAAA
1630056 AGAATAAAAGAAA
1 AGAA-AAAAGAAA
1630069 AGAAAGAAAGAAA
1 AGAAA-AAAGAAA
1630082 AG
1 AG
1630084 TTGAAAGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
13 16 0.64
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (12 bp):
AGAAAAAAGAAA
Found at i:1631261 original size:24 final size:24
Alignment explanation
Indices: 1631226--1631276 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1631216 TCACTTCAAG
* *
1631226 TTGAAGATTCAATAAACATGTCTT
1 TTGAAGAATCAATAAACATGACTT
*
1631250 TTGAAGAATCAATAAACGTGACTT
1 TTGAAGAATCAATAAACATGACTT
1631274 TTG
1 TTG
1631277 GTGATCCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (24 bp):
TTGAAGAATCAATAAACATGACTT
Found at i:1633963 original size:88 final size:89
Alignment explanation
Indices: 1633825--1633988 Score: 312
Period size: 88 Copynumber: 1.9 Consensus size: 89
1633815 CATAAAAAAG
*
1633825 AAGAAAAGAAAAGAAAGAAAAGTTGAAACCCATAACAACAATTCTCATCACCAAGCCATTCAAGT
1 AAGAAAAGAAAAGAAAGAAAAGTTGAAACCCATAACAACAAATCTCATCACCAAGCCATTCAAGT
1633890 AAGCCGTTAAAGAAAAAAGAAGAA
66 AAGCCGTTAAAGAAAAAAGAAGAA
1633914 AAGAAAAG-AAAGAAAGAAAAGTTGAAACCCATAACAACAAATCTCATCACCAAGCCATTCAAGT
1 AAGAAAAGAAAAGAAAGAAAAGTTGAAACCCATAACAACAAATCTCATCACCAAGCCATTCAAGT
1633978 AAGCCGTTAAA
66 AAGCCGTTAAA
1633989 TTGATTGTGG
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
88 66 0.89
89 8 0.11
ACGTcount: A:0.54, C:0.18, G:0.14, T:0.14
Consensus pattern (89 bp):
AAGAAAAGAAAAGAAAGAAAAGTTGAAACCCATAACAACAAATCTCATCACCAAGCCATTCAAGT
AAGCCGTTAAAGAAAAAAGAAGAA
Found at i:1635118 original size:24 final size:24
Alignment explanation
Indices: 1635083--1635133 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1635073 TCACTTCAAG
* *
1635083 TTGAAGATTCAAGAAACATGTCTT
1 TTGAAGAATCAAGAAACATGACTT
* *
1635107 TTGAAGAATCAATAAACGTGACTT
1 TTGAAGAATCAAGAAACATGACTT
1635131 TTG
1 TTG
1635134 GTGATCCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (24 bp):
TTGAAGAATCAAGAAACATGACTT
Found at i:1635182 original size:24 final size:21
Alignment explanation
Indices: 1635148--1635190 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1635138 TCCACAAGAC
*
1635148 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
1635170 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1635191 AGAATGTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:1638753 original size:24 final size:24
Alignment explanation
Indices: 1638721--1638767 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1638711 CTTTAAGTTA
* *
1638721 AAGATTCAATAAACATGTCTTTTG
1 AAGAATCAATAAACATGACTTTTG
*
1638745 AAGAATCAATAAACGTGACTTTT
1 AAGAATCAATAAACATGACTTTT
1638768 AGTGATCCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (24 bp):
AAGAATCAATAAACATGACTTTTG
Found at i:1661451 original size:59 final size:59
Alignment explanation
Indices: 1661352--1661488 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 59
1661342 CAGCAGGCTG
** * *
1661352 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
1661411 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1661470 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
1661489 CGGTGCTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:1661684 original size:47 final size:45
Alignment explanation
Indices: 1661589--1661714 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
1661579 GTAAGCATAT
* * *
1661589 AAATAAGCTTACGAGCTTTTGGAAT-AATGGAAAGTATATGGGTT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
1661633 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
1661680 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1661715 GGATATATTA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:1667005 original size:45 final size:45
Alignment explanation
Indices: 1666950--1667038 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
1666940 GAGACAAATC
* * *
1666950 TTAGGAAATAAGTTGGGTAAT-ACTGGTAATAGCTCTAACATAGTA
1 TTAGGAAATAAATTGGGTAATGA-TGGTAATAACTCCAACATAGTA
* *
1666995 TTAGGGAATAAATTGGTTAATGATGGTAATAACTCCAACATAGT
1 TTAGGAAATAAATTGGGTAATGATGGTAATAACTCCAACATAGT
1667039 GAGAGAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.31
Consensus pattern (45 bp):
TTAGGAAATAAATTGGGTAATGATGGTAATAACTCCAACATAGTA
Found at i:1671899 original size:81 final size:81
Alignment explanation
Indices: 1671762--1672262 Score: 750
Period size: 81 Copynumber: 6.2 Consensus size: 81
1671752 CTGTTTTAAA
* * *
1671762 TAAAAGATTAATTGCATAGTTGTGCATTTGATAGAAAGGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
1671827 ATTAAATGCCTTTCAG
66 GTTAAATGCCTTTGAG
* *
1671843 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAATGGTGTCAATTAAGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1671908 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* *
1671924 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTATATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
1671989 GTTAAATACCTTTGAG
66 GTTAAATGCCTTTGAG
* * ** *
1672005 TAAAAGATTAATTACCTAGTTGGGTTTTTGACAGAAAGGTGTCCATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
1672070 GTTAAATGCCTCTGAG
66 GTTAAATGCCTTTGAG
* * * * *
1672086 TAGAAGATTAATTGCCTAGCTGTGCATTTGACAAAAATGTGTCAATTATGCCAGATAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1672151 GTTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
* * * * *
1672167 TAAAAGATTAACTACCTAGTTGTGCATTTGATAGAAAGGTTTTAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
1672232 ATTAAATGCCTTTGAG
66 GTTAAATGCCTTTGAG
*
1672248 TAAAAGGTTAATTGC
1 TAAAAGATTAATTGC
1672263 TTAACAATGG
Statistics
Matches: 374, Mismatches: 46, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 374 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATGCCTTTGAG
Found at i:1677187 original size:13 final size:13
Alignment explanation
Indices: 1677139--1677189 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
1677129 TTATTTTTGA
*
1677139 TTTTTTTCTTACT
1 TTTTTTTCTTTCT
*
1677152 TTTTCTCTCTTTCT
1 TTTT-TTTCTTTCT
**
1677166 TTTCATTCTTTCT
1 TTTTTTTCTTTCT
1677179 TTTTTTTCTTT
1 TTTTTTTCTTT
1677190 TTCTCCCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTCTTTCT
Found at i:1681931 original size:23 final size:23
Alignment explanation
Indices: 1681901--1681959 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
1681891 AATAGAGTTT
1681901 TTATTGATCAATCTTGCTTAGTG
1 TTATTGATCAATCTTGCTTAGTG
1681924 TTATTGATCAATCTTGCTTAGTG
1 TTATTGATCAATCTTGCTTAGTG
*
1681947 TTATCGATCAATC
1 TTATTGATCAATC
1681960 CTATTTAGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (23 bp):
TTATTGATCAATCTTGCTTAGTG
Found at i:1681967 original size:23 final size:23
Alignment explanation
Indices: 1681901--1681969 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
1681891 AATAGAGTTT
* * *
1681901 TTATTGATCAATCTTGCTTAGTG
1 TTATCGATCAATCCTACTTAGTG
* * *
1681924 TTATTGATCAATCTTGCTTAGTG
1 TTATCGATCAATCCTACTTAGTG
*
1681947 TTATCGATCAATCCTATTTAGTG
1 TTATCGATCAATCCTACTTAGTG
1681970 CATTGTGCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.46
Consensus pattern (23 bp):
TTATCGATCAATCCTACTTAGTG
Found at i:1687249 original size:24 final size:23
Alignment explanation
Indices: 1687160--1687251 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 23
1687150 TCAATCCTAT
*
1687160 TTAGTGCATTGTGCACTCCAGTA
1 TTAGTGCATTGTGCACTCTAGTA
*
1687183 TTAGTGCATTTCTTGCACTC-ATGTA
1 TTAGTGCA-TT-GTGCACTCTA-GTA
* *
1687208 TTAGTGCCTTGATACACTCTAGTA
1 TTAGTGCATTG-TGCACTCTAGTA
*
1687232 ATAGTGCATTCGTGCACTCT
1 TTAGTGCATT-GTGCACTCT
1687252 TATAACAGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
23 8 0.14
24 29 0.52
25 19 0.34
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (23 bp):
TTAGTGCATTGTGCACTCTAGTA
Found at i:1695803 original size:15 final size:17
Alignment explanation
Indices: 1695778--1695811 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1695768 TAAAGGTCCT
1695778 AAATAACTAATAAA-TA
1 AAATAACTAATAAACTA
1695794 AAATAA-TAATAAACTA
1 AAATAACTAATAAACTA
1695810 AA
1 AA
1695812 CATGTCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAACTAATAAACTA
Found at i:1703057 original size:24 final size:24
Alignment explanation
Indices: 1702965--1703067 Score: 107
Period size: 24 Copynumber: 4.3 Consensus size: 24
1702955 GCATTGATGA
1702965 ACTCCTATATTAGTACATATGTGT
1 ACTCCTATATTAGTACATATGTGT
* * *
1702989 ACTCCTATACTAGTACATACGTGC
1 ACTCCTATATTAGTACATATGTGT
* * * * *
1703013 ACTCATGTATTAGTACCTTTGGGT
1 ACTCCTATATTAGTACATATGTGT
* * *
1703037 ACTCCTATATTAGTACTTTTGTAT
1 ACTCCTATATTAGTACATATGTGT
1703061 ACTCCTA
1 ACTCCTA
1703068 GAACTATATG
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (24 bp):
ACTCCTATATTAGTACATATGTGT
Found at i:1709350 original size:81 final size:81
Alignment explanation
Indices: 1709210--1709690 Score: 646
Period size: 81 Copynumber: 5.9 Consensus size: 81
1709200 GCTTTTAACC
1709210 GTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATT
1 GTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATT
1709275 AATCTTTTACTCAGA-G
66 AATCTTTTACTCA-ACG
* *
1709291 GTATTTAACCGTTCATCTAACTGGCGTAATTGACACTTTTCTGCCAAATGCACAACTAGGCCATT
1 GTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATT
1709356 AATCTTTTACTCAACG
66 AATCTTTTACTCAACG
* * *
1709372 GTATTTAACAGTTCTTCTAACTGTCATAATTGACACATCTTT-T-CCAAATGCACAGCTAGGCCA
1 GTATTTAACCGTTCATCTAACTGGCATAATTGACAC-T-TTTCTGCCAAATGCACAGCTAGGCCA
* *
1709435 TTAATCTTTTACTTAACA
64 TTAATCTTTTACTCAACG
* ** * * ** *
1709453 ATATTTAATTGTTCATCTAACTGGTATAATTGATACTTTTCTGCCAAATAAACAGCTAGGCCACT
1 GTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATT
*
1709518 AATATTTTACTCAACG
66 AATCTTTTACTCAACG
* **
1709534 GTATTTAACCGTTCATCTAACTAGCATAATTGACACTTTTCTGCCAAATGCACAGCTAACCCATT
1 GTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATT
*
1709599 AATATTTTACTCAACG
66 AATCTTTTACTCAACG
* * * * ** * *
1709615 ATATTTAACAGGTCATCTAGCCT-GCATAATTGACACCGTTCTGCCAAATGCACAACTAGGCAAT
1 GTATTTAACCGTTCATCTA-ACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCAT
1709679 TAATCTTTTACT
65 TAATCTTTTACT
1709691 TTAGAACTGT
Statistics
Matches: 350, Mismatches: 44, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
79 3 0.01
80 3 0.01
81 337 0.96
82 4 0.01
83 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (81 bp):
GTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATT
AATCTTTTACTCAACG
Found at i:1713950 original size:22 final size:23
Alignment explanation
Indices: 1713908--1713952 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1713898 TTCCATACAA
*
1713908 CATCAATACCATCAACCATCTTC
1 CATCAAGACCATCAACCATCTTC
*
1713931 CATCAAGACCA-CCACCATCTTC
1 CATCAAGACCATCAACCATCTTC
1713953 ATTTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.22
Consensus pattern (23 bp):
CATCAAGACCATCAACCATCTTC
Found at i:1716210 original size:47 final size:49
Alignment explanation
Indices: 1716133--1716265 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 49
1716123 CTTTTTCCTT
* * *
1716133 TATGACATCCATTCATACCAATTATTCATTGTTGTAC-A-TTATATAT-A
1 TATGGCATCC-TTCATACCACTTATGCATTGTTGTACTATTTATATATAA
1716180 TATGGCATCCTTCCATACCACTTATGCATTGTTGTACATTATTTATATATACA
1 TATGGCATCCTT-CATACCACTTATGCATTGTTGTAC--TATTTATATATA-A
*
1716233 TATGGCAACCTTTCATACCACTTATGCATTGTT
1 TATGGCATCC-TTCATACCACTTATGCATTGTT
1716266 TATATCAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
46 2 0.03
47 31 0.42
50 1 0.01
51 8 0.11
53 30 0.41
54 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.41
Consensus pattern (49 bp):
TATGGCATCCTTCATACCACTTATGCATTGTTGTACTATTTATATATAA
Found at i:1716409 original size:81 final size:81
Alignment explanation
Indices: 1716295--1716951 Score: 877
Period size: 81 Copynumber: 8.1 Consensus size: 81
1716285 ATTCCTTTAG
* * * * * *
1716295 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATAATTGACACTTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1716360 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
1716376 TCTTTTACTCAATGGTATTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1716441 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * ** * * *
1716457 TCTTTTACTCAACGGTATTTAACCATTCATCTAGTTGGCATAATTGATACATTTTTGCCAAATGT
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
*
1716522 ACATCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
1716538 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGATACATTTCTGCTAAATGC
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
*
1716603 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
1716619 TCTTTTACTCAAAGATATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1716684 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * * * *
1716700 ACGTTTACTCAACGGTATTTAACTGTTCATCTAACTGGCGTAATTGACACCA-TTCTACCAAATG
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CATTTCTGCCAAATG
1716764 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * * * *
1716781 TATTTTACTCAAAGGTATTTAACCGTTCATCTAACTAGTATAATTGACAC-CTTCTTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTC-TGCCAAATG
* *
1716845 CACAGCTTGGCTATTAA
65 CACAGCTAGGCCATTAA
* * * * *
1716862 TCTTTTACTCAATGGTATTTAATCATTCATCTAACTGGCATAATTGACACATTTCTACCAAATGT
1 TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
* *
1716927 ACAACTATGCCATTAA
66 ACAGCTAGGCCATTAA
*
1716943 CCTTTTACT
1 TCTTTTACT
1716952 TTAGAACTAT
Statistics
Matches: 505, Mismatches: 67, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
80 4 0.01
81 497 0.98
82 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
ACAGCTAGGCCATTAA
Found at i:1717203 original size:57 final size:57
Alignment explanation
Indices: 1717119--1717254 Score: 209
Period size: 57 Copynumber: 2.4 Consensus size: 57
1717109 TATAATTTTT
* *
1717119 TAACTTTTTGCACACCAAGTGCTCATATGAAAATTCATAAACTAATTATGAATTTCA
1 TAACTTTTTGCACACAAAGTGCACATATGAAAATTCATAAACTAATTATGAATTTCA
* * * *
1717176 TAACTTTTTGCACATAAAGTGCACATATGGAAATTTATAAACTAATTATGAATTTCT
1 TAACTTTTTGCACACAAAGTGCACATATGAAAATTCATAAACTAATTATGAATTTCA
*
1717233 TAACTTTTAGCACACAAAGTGC
1 TAACTTTTTGCACACAAAGTGC
1717255 CCTTTGGGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 71 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (57 bp):
TAACTTTTTGCACACAAAGTGCACATATGAAAATTCATAAACTAATTATGAATTTCA
Found at i:1737906 original size:17 final size:16
Alignment explanation
Indices: 1737886--1737938 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
1737876 ATTAAAGAGT
*
1737886 TAGTTAGATTAATTAAC
1 TAGTTA-ATTAATGAAC
*
1737903 TAGTTAAATAAATGAAC
1 TAGTT-AATTAATGAAC
1737920 TAGTTTAATTAATGAAC
1 TAG-TTAATTAATGAAC
1737937 TA
1 TA
1737939 ACTTTATAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 28 0.90
18 3 0.10
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (16 bp):
TAGTTAATTAATGAAC
Found at i:1745205 original size:53 final size:53
Alignment explanation
Indices: 1745123--1745279 Score: 271
Period size: 53 Copynumber: 3.0 Consensus size: 53
1745113 TGTACTATCA
* *
1745123 ACACTATGTGTTCATCCATGGAATTCATAATGAGTTTGTGAATTACCATTTCTG
1 ACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTC-G
*
1745177 -TACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTCG
1 ACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTCG
1745229 ACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTT
1 ACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTT
1745280 TGGCACTTAG
Statistics
Matches: 98, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
52 1 0.01
53 97 0.99
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (53 bp):
ACACTATGTGTGCAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTCG
Found at i:1752243 original size:47 final size:45
Alignment explanation
Indices: 1752150--1752274 Score: 150
Period size: 47 Copynumber: 2.8 Consensus size: 45
1752140 GTAAGTATGC
* *
1752150 AAATAAGCTTACGAGCTTAT-GAAT-AATGGCAAGTATATTGATA
1 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGATA
*
1752193 AAATAAGCTTACAAGCTTATGGAATTTAAATGGTAAGTAGT-TTGGTA
1 AAATAAGCTTACAAGCTTATGGAA--TAAATGGTAAGTA-TATTGATA
*
1752240 AAATAAGCTTA-AGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACA-AGCTTATGGAATAAATGGTAAG
1752275 AGATTTTATA
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
43 19 0.26
44 3 0.04
45 11 0.15
46 2 0.03
47 36 0.50
48 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGATA
Found at i:1757806 original size:45 final size:45
Alignment explanation
Indices: 1757674--1757843 Score: 220
Period size: 45 Copynumber: 3.8 Consensus size: 45
1757664 GTAAGTATGC
* * * * *
1757674 AAATATGCTTACAAGCTTAT-GAAT-AATGGCAAGTA-TATTGATA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTAGT-TTGGTA
* *
1757717 AGATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTAGTTTGGTA
1 AAATAAGCTTACGAGCTTATGGGA--TAAATGGTAAGTAGTTTGGTA
*
1757764 AAATAAGCTTACGAACTTATGGGATAAATGGTAAGTAGTTTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTAGTTTGGTA
1757809 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1757844 AGATTTTATA
Statistics
Matches: 113, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
43 17 0.15
44 3 0.03
45 55 0.49
46 1 0.01
47 36 0.32
48 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTAGTTTGGTA
Found at i:1759101 original size:90 final size:90
Alignment explanation
Indices: 1758945--1759122 Score: 284
Period size: 90 Copynumber: 2.0 Consensus size: 90
1758935 CCTAACATAC
* * *
1758945 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATAAGGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
1759010 ATTTAATTAATTGTAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* * *
1759035 CCTTTTATATCCTAGTTACCCTAATCATATAAGGGATTTTATTATTTCAAATTAATTAAATTTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATAAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1759100 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
1759123 TTCAGGATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATAAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:1762422 original size:53 final size:53
Alignment explanation
Indices: 1762347--1762504 Score: 226
Period size: 53 Copynumber: 3.0 Consensus size: 53
1762337 TACTATCGGC
* * *
1762347 ACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACTATTTCTAA
1 ACTATGTGTCCAACCATGGAATTCATAATGAGTTTGTGAATTACTATTTCGAA
* * * *
1762400 ACTATGTGTCCAGCCATAGAATTCATAATGAGTTTGTGAATTACCATTTCGGA
1 ACTATGTGTCCAACCATGGAATTCATAATGAGTTTGTGAATTACTATTTCGAA
* * *
1762453 ACTATCTGTCCAACCATGGAATTCACAATGAGCTTGTGAATTACTATTTCGA
1 ACTATGTGTCCAACCATGGAATTCATAATGAGTTTGTGAATTACTATTTCGA
1762505 CTCTTAGGTG
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 92 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (53 bp):
ACTATGTGTCCAACCATGGAATTCATAATGAGTTTGTGAATTACTATTTCGAA
Found at i:1764169 original size:36 final size:36
Alignment explanation
Indices: 1764129--1764204 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
1764119 TAGAGCTTTT
1764129 AAAGGATTAAGATGTGAACATTGATTATCATCTAGG
1 AAAGGATTAAGATGTGAACATTGATTATCATCTAGG
1764165 AAAGGATTAAGATGTGAACATTGATTATCATCTAGG
1 AAAGGATTAAGATGTGAACATTGATTATCATCTAGG
1764201 AAAG
1 AAAG
1764205 TTTACAACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (36 bp):
AAAGGATTAAGATGTGAACATTGATTATCATCTAGG
Found at i:1764190 original size:18 final size:18
Alignment explanation
Indices: 1764133--1764191 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
1764123 GCTTTTAAAG
1764133 GATTAAGATGTGAACATT
1 GATTAAGATGTGAACATT
** * *
1764151 GATTATCATCTAGGAA-A-G
1 GATTAAGATGT--GAACATT
1764169 GATTAAGATGTGAACATT
1 GATTAAGATGTGAACATT
1764187 GATTA
1 GATTA
1764192 TCATCTAGGA
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
16 3 0.10
17 1 0.03
18 21 0.72
19 1 0.03
20 3 0.10
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (18 bp):
GATTAAGATGTGAACATT
Found at i:1769513 original size:47 final size:44
Alignment explanation
Indices: 1769414--1769530 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 44
1769404 GTAAGTATGC
1769414 AAATAAGCTTACGAGCTTAT-GAATAATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGATA
* *
1769457 AAATAAGCTTACGACCTTATGGAATTTAAATTGG-AAGTAGT-TTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--T-AA-TGGCAAGTA-TATTGATA
*
1769504 AAATAAGCTTACGAGCTTATGGGATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
1769531 ATGGTAAGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 19 0.30
44 5 0.08
45 1 0.02
46 1 0.02
47 34 0.53
48 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGATA
Found at i:1775886 original size:47 final size:45
Alignment explanation
Indices: 1775787--1775916 Score: 162
Period size: 47 Copynumber: 2.9 Consensus size: 45
1775777 GTAAGTATGC
*
1775787 AAATAAGCTTACGAGCTAAT-GAAT-AAT-GTCAAGTA-TATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGT-AAGTAGT-TTGATA
*
1775830 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTAGTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTAGTTTGATA
*
1775877 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG-AGTTT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAGTTT
1775917 TTATATTATT
Statistics
Matches: 78, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
43 19 0.24
44 8 0.10
45 11 0.14
46 1 0.01
47 36 0.46
48 3 0.04
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAGTTTGATA
Found at i:1798943 original size:47 final size:45
Alignment explanation
Indices: 1798873--1798998 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
1798863 TATAAAATCT
*
1798873 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1798918 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1798965 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1798999 GGATGGTAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1809334 original size:243 final size:241
Alignment explanation
Indices: 1808906--1809454 Score: 721
Period size: 243 Copynumber: 2.3 Consensus size: 241
1808896 AACTAGTAGC
* *
1808906 GCATTTGGTAGAGAGGTGTCAATTATGCCAGTTAGATGAAGAGTTAAAGACCATTGAGTAAAACA
1 GCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAG-GTTAAAGACCTTTGAGTAAAACA
* *
1808971 TAAATGGCCTAGCTGTGCATTTGGAAAAAATGTGTTAATTATGCTAGTTAGATGAACAGTTAAAG
65 TAAATGGCCTAGCTGTGCATTTGGAAAAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAAG
* * *
1809036 ACCGTTGAGTAAAAGATAGATGGTCGAGTTGTGCATTTGGTAAAAAGGTGTCAATTATGCCAGTT
130 ACAGTTGAGTAAAAGATAGATGGCCGAGTTGTGCATTTGGTAAAAAGGTGTCAATTATACCAGTT
* * * *
1809101 AGATGAACGGTTAAAGAGC-GTTGAGTAAAAG-ATAGGTGGCATAGCTGT
195 AGATGAACAGTTAAAGA-CTATTGAGTAAAAGAAAAAG-GGC-TAGCTGT
*
1809149 GCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAAGACCTTTGAGTAAAAGA
1 GCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA-GGTTAAAGACCTTTGAGTAAAACA
* * * * *
1809214 TAAATGGCCTAGTTTTGCATTT-GACAGAAATGTGTCAATTATGCCAGTTTGATGAACGGTTAAA
65 TAAATGGCCTAGCTGTGCATTTGGA-AAAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAA
* * *
1809278 TACAGTTGAGTAAAAGATAGATGGCCTAGTTGTGCATTTGG-AAGAAAGGTGTCAATTATACTAG
129 GACAGTTGAGTAAAAGATAGATGGCCGAGTTGTGCATTTGGTAA-AAAGGTGTCAATTATACCAG
* *
1809342 TTAGATGAACAGTTAAATACTATTGAGTAAAAGAAAAAAGGGCTAGTTGT
193 TTAGATGAACAGTTAAAGACTATTGAGTAAAAG-AAAAAGGGCTAGCTGT
* * * * * *
1809392 GCATTTGGAAGAAAAGTGTCAATCATGCAAGTTAGATGAAAGGGTAAATG-CCTTTGGGTAAAA
1 GCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATG-AAGGTTAAA-GACCTTTGAGTAAAA
1809455 TGGAATTATA
Statistics
Matches: 270, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
242 5 0.02
243 255 0.94
244 7 0.03
245 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.29
Consensus pattern (241 bp):
GCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAGGTTAAAGACCTTTGAGTAAAACAT
AAATGGCCTAGCTGTGCATTTGGAAAAAATGTGTCAATTATGCCAGTTAGATGAACAGTTAAAGA
CAGTTGAGTAAAAGATAGATGGCCGAGTTGTGCATTTGGTAAAAAGGTGTCAATTATACCAGTTA
GATGAACAGTTAAAGACTATTGAGTAAAAGAAAAAGGGCTAGCTGT
Found at i:1809454 original size:81 final size:81
Alignment explanation
Indices: 1808883--1809439 Score: 629
Period size: 81 Copynumber: 6.9 Consensus size: 81
1808873 TTCTAAGAGG
** * * * *
1808883 AAAAGGATAAATGAACTAGTAGCGCATTTGGTAGAGAGGTGTCAATTATGCCAGTTAGATG-AAG
1 AAAA-GATAAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
1808947 AGTTAAAGACCATTGAGT
65 -GTTAAAGACCGTTGAGT
* * * * * *
1808965 AAAACATAAATGGCCTAGCTGTGCATTTGGAAAAAATGTGTTAATTATGCTAGTTAGATGAACA-
1 AAAAGATAAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA-AG
1809029 GTTAAAGACCGTTGAGT
65 GTTAAAGACCGTTGAGT
* * * *
1809046 AAAAGATAGATGGTCGAGTTGTGCATTTGGTAA-AAAGGTGTCAATTATGCCAGTTAGATGAACG
1 AAAAGATAAATGGCCTAGTTGTGCATTTGG-AAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
1809110 GTTAAAGAGCGTTGAGT
65 GTTAAAGACCGTTGAGT
** * * * *
1809127 AAAAGATAGGTGGCATAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAATGG
1 AAAAGATAAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
1809192 TTAAAGACCTTTGAGT
66 TTAAAGACCGTTGAGT
* * * *
1809208 AAAAGATAAATGGCCTAGTTTTGCATTT-GACAGAAATGTGTCAATTATGCCAGTTTGATGAACG
1 AAAAGATAAATGGCCTAGTTGTGCATTTGGA-AGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
1809272 GTTAAATACAGTTGAGT
65 GTTAAAGACCGTTGAGT
* * *
1809289 AAAAGATAGATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATACTAGTTAGATGAACA-
1 AAAAGATAAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA-AG
* **
1809353 GTTAAATACTATTGAGT
65 GTTAAAGACCGTTGAGT
* * * * * *
1809370 AAAAGAAAAAAGGGCTAGTTGTGCATTTGGAAGAAAAGTGTCAATCATGCAAGTTAGATGAAAGG
1 AAAAGATAAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
*
1809435 GTAAA
66 TTAAA
1809440 TGCCTTTGGG
Statistics
Matches: 404, Mismatches: 62, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.01
81 391 0.97
82 9 0.02
83 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (81 bp):
AAAAGATAAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
TTAAAGACCGTTGAGT
Found at i:1809594 original size:46 final size:46
Alignment explanation
Indices: 1809493--1809614 Score: 122
Period size: 46 Copynumber: 2.6 Consensus size: 46
1809483 GGTGCATTAG
* * * *
1809493 TGGTATGAAAGGATGTCATATAGATATAAAATGTACAACAATGCATAAT
1 TGGTATGAAAGGAT-TCATAAAG-GA-AAAACGTACAACAATACATAAT
*
1809542 TGGTATGAATGGATATCATAAAGGAAAAACGTA-AACAATACATAA-
1 TGGTATGAAAGGAT-TCATAAAGGAAAAACGTACAACAATACATAAT
* *
1809587 TGTGTATGAAAGGATTCCTAAATGAAAA
1 TG-GTATGAAAGGATTCATAAAGGAAAA
1809615 TACAAAATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
45 13 0.21
46 22 0.35
47 7 0.11
48 1 0.02
49 20 0.32
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (46 bp):
TGGTATGAAAGGATTCATAAAGGAAAAACGTACAACAATACATAAT
Found at i:1813558 original size:20 final size:19
Alignment explanation
Indices: 1813513--1813568 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
1813503 TTGATTCAAG
* *
1813513 TGGTATCGATACCAAGAGG
1 TGGTATCGATACCATGAGA
*
1813532 GGAGTATCGATACCATGAGAA
1 TG-GTATCGATACCATGAG-A
1813553 TGGTATCGATACCATG
1 TGGTATCGATACCATG
1813569 GATCACAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (19 bp):
TGGTATCGATACCATGAGA
Found at i:1814367 original size:81 final size:81
Alignment explanation
Indices: 1814209--1814763 Score: 700
Period size: 81 Copynumber: 6.9 Consensus size: 81
1814199 TTCTAAGAGA
* * * * *
1814209 AAAAGGATAAATGGACTAGCTGTGAATTTGGCAGAAAGATGTCAATTATGC-AGTTAGATGAACA
1 AAAA-GATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAAGTTAGATGAACG
*
1814273 GTTAAAGATCGTTGAGT
65 GTTAAAGACCGTTGAGT
* * * *
1814290 AAAAGATAAATGGCCTAACTATGCATTTGGTAGAAAGGTGTCAATTATGCTAGTTAGATGAATGG
1 AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAAGTTAGATGAACGG
1814355 TTAAAGACCGTTGAGT
66 TTAAAGACCGTTGAGT
* * * * * *
1814371 AAAAGATAAATGGCCCAGTTGTGCATTTGGTAGAAATGTATCAATTATGCCAGTTAGATGAACGA
1 AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAAGTTAGATGAACGG
*
1814436 TTAAAGACAGTTGAGT
66 TTAAAGACCGTTGAGT
* *
1814452 AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCGAGTTAGATGAATGG
1 AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAAGTTAGATGAACGG
* *
1814517 TAAAATACCGTTGAGT
66 TTAAAGACCGTTGAGT
* * * *
1814533 AAAAGATAAAAGGACTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATACAAG-TAGATGAACGG
1 AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAAGTTAGATGAACGG
* **
1814597 TTAAATACTATTGAGT
66 TTAAAGACCGTTGAGT
* * * * * *
1814613 AAAATATTAATGGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGG
1 AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAAGTTAGATGAACGG
* *
1814678 TTAAATACCATTGAGT
66 TTAAAGACCGTTGAGT
* * * * * * *
1814694 AAAAGATAAATGGCCTAGCTATGCATTTGGAAGAAAAGTGGCAATCATTCAAGTTAGATGAAAGG
1 AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAAGTTAGATGAACGG
1814759 TTAAA
66 TTAAA
1814764 TGCCTTTAGG
Statistics
Matches: 414, Mismatches: 58, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
80 108 0.26
81 306 0.74
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.28
Consensus pattern (81 bp):
AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAAGTTAGATGAACGG
TTAAAGACCGTTGAGT
Found at i:1814480 original size:162 final size:161
Alignment explanation
Indices: 1814209--1814755 Score: 699
Period size: 161 Copynumber: 3.4 Consensus size: 161
1814199 TTCTAAGAGA
* *
1814209 AAAAGGATAAATGGACTAGCTGTGAATTTGGCAGAAAGATGTCAATTATG-CAGTTAGATGAAC-
1 AAAA-GATAAATGGACTAGCTGTGCATTTGGTAGAAAG-TGTCAATTATGCCAGTTAGATGAACG
* *
1814272 AGTTAAAGATC-GTTGAGTAAAAGATAAATGGCCTAACTATGCATTTGGTAGAAAGGTGTCAATT
64 A-TTAAAGA-CAGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATT
* *
1814336 ATGCTAGTTAGATGAATGGTTAAAGACCGTTGAGT
127 ATGCCAGTTAGATGAATGGTTAAATACCGTTGAGT
* * * *
1814371 AAAAGATAAATGGCCCAGTTGTGCATTTGGTAGAAATGTATCAATTATGCCAGTTAGATGAACGA
1 AAAAGATAAATGGACTAGCTGTGCATTTGGTAGAAA-GTGTCAATTATGCCAGTTAGATGAACGA
1814436 TTAAAGACAGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATG
65 TTAAAGACAGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATG
* *
1814501 CGAGTTAGATGAATGGTAAAATACCGTTGAGT
130 CCAGTTAGATGAATGGTTAAATACCGTTGAGT
* * * * *
1814533 AAAAGATAAAAGGACTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATACAAG-TAGATGAACGG
1 AAAAGATAAATGGACTAGCTGTGCATTTGGTAGAAA-GTGTCAATTATGCCAGTTAGATGAACGA
* * * * * *
1814597 TTAAATACTA-TTGAGTAAAATATTAATGGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTAT
65 TTAAAGAC-AGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTAT
* *
1814661 GCCAGTTAGATGAACGGTTAAATACCATTGAGT
129 GCCAGTTAGATGAATGGTTAAATACCGTTGAGT
* * * * * * *
1814694 AAAAGATAAATGGCCTAGCTATGCATTTGGAAGAAAAGTGGCAATCATTCAAGTTAGATGAA
1 AAAAGATAAATGGACTAGCTGTGCATTTGGTAG-AAAGTGTCAATTATGCCAGTTAGATGAA
1814756 AGGTTAAATG
Statistics
Matches: 341, Mismatches: 37, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
161 174 0.51
162 166 0.49
163 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (161 bp):
AAAAGATAAATGGACTAGCTGTGCATTTGGTAGAAAGTGTCAATTATGCCAGTTAGATGAACGAT
TAAAGACAGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGC
CAGTTAGATGAATGGTTAAATACCGTTGAGT
Found at i:1814639 original size:242 final size:242
Alignment explanation
Indices: 1814209--1814764 Score: 758
Period size: 242 Copynumber: 2.3 Consensus size: 242
1814199 TTCTAAGAGA
* * * *
1814209 AAAAGGATAAATGGACTAGCTGTGAATTTGGCAGAAAGATGTCAATTATGCAGTTAGATGAACA-
1 AAAA-GATAAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCAGTTAGATGAA-AG
* * * *
1814273 GTTAAAGATCGTTGAGTAAAAGATAAATGGCCTAACTATGCATTTGGTAGAAAGGTGTCAATTAT
64 GTTAAATACCGTTGAGTAAAAGATAAAAGGACTAACTATGCATTTGGTAGAAAGGTGTCAATTAT
* * * * *
1814338 GCTAGTTAGATGAATGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCCAGTTGTGCATTTGGTA
129 ACAAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAATGGCCCAGTTGTGCATTTGGCA
1814403 GAAATGTATCAATTATGCCAGTTAGATGAACGATTAAAGA-CAGTTGAGT
194 GAAATGTATCAATTATGCCAGTTAGATGAACGATTAAAGACCA-TTGAGT
* *
1814452 AAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCGAGTTAGATGAATGG
1 AAAAGATAAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGC-AGTTAGATGAAAGG
* ** *
1814517 TAAAATACCGTTGAGTAAAAGATAAAAGGACTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATA
65 TTAAATACCGTTGAGTAAAAGATAAAAGGACTAACTATGCATTTGGTAGAAAGGTGTCAATTATA
* * * * *
1814582 CAAG-TAGATGAACGGTTAAATACTATTGAGTAAAATATTAATGGCCTAGTTGTGCATTTGGCAG
130 CAAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAATGGCCCAGTTGTGCATTTGGCAG
* * *
1814646 AAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCATTGAGT
195 AAATGTATCAATTATGCCAGTTAGATGAACGATTAAAGACCATTGAGT
* * * * *
1814694 AAAAGATAAATGGCCTAGCTATGCATTTGGAAGAAAAGTGGCAATCATTCAAGTTAGATGAAAGG
1 AAAAGATAAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGC-AGTTAGATGAAAGG
1814759 TTAAAT
65 TTAAAT
1814765 GCCTTTAGGT
Statistics
Matches: 275, Mismatches: 35, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
242 198 0.72
243 77 0.28
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (242 bp):
AAAAGATAAATGGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCAGTTAGATGAAAGGT
TAAATACCGTTGAGTAAAAGATAAAAGGACTAACTATGCATTTGGTAGAAAGGTGTCAATTATAC
AAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAATGGCCCAGTTGTGCATTTGGCAGA
AATGTATCAATTATGCCAGTTAGATGAACGATTAAAGACCATTGAGT
Found at i:1823464 original size:26 final size:25
Alignment explanation
Indices: 1823427--1823477 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
1823417 TAAATTAAAG
*
1823427 ATAAGGTTGTGCCTACCATAATACAC
1 ATAAGGTCGTGCCTACCAT-ATACAC
1823453 ATAAGGTCGTGCCTACCATATACAC
1 ATAAGGTCGTGCCTACCATATACAC
1823478 TTTAGTGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (25 bp):
ATAAGGTCGTGCCTACCATATACAC
Found at i:1825041 original size:30 final size:31
Alignment explanation
Indices: 1825001--1825064 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
1824991 AATTACCATT
*
1825001 AAACCGAGACACCTAA-CCTTATCATCTTCC
1 AAACCAAGACACCTAACCCTTATCATCTTCC
*
1825031 AAACCAAGACACCTAACCCTTATCATCTTTC
1 AAACCAAGACACCTAACCCTTATCATCTTCC
1825062 AAA
1 AAA
1825065 AGTCAAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.38, C:0.34, G:0.05, T:0.23
Consensus pattern (31 bp):
AAACCAAGACACCTAACCCTTATCATCTTCC
Found at i:1830258 original size:17 final size:18
Alignment explanation
Indices: 1830226--1830260 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1830216 TAGGTTAAGG
1830226 TAGAAAGAATAGAAGAAA
1 TAGAAAGAATAGAAGAAA
*
1830244 TAGAAAGGA-AGAAGAAA
1 TAGAAAGAATAGAAGAAA
1830261 GGATTCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (18 bp):
TAGAAAGAATAGAAGAAA
Found at i:1836975 original size:26 final size:25
Alignment explanation
Indices: 1836946--1836998 Score: 97
Period size: 26 Copynumber: 2.1 Consensus size: 25
1836936 AGTACATTAG
1836946 ACATAAGGTCATGCCCACCATAATAC
1 ACATAAGGTCATGCCCACCAT-ATAC
1836972 ACATAAGGTCATGCCCACCATATAC
1 ACATAAGGTCATGCCCACCATATAC
1836997 AC
1 AC
1836999 TTAATGTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.19
Consensus pattern (25 bp):
ACATAAGGTCATGCCCACCATATAC
Found at i:1837919 original size:30 final size:29
Alignment explanation
Indices: 1837876--1837939 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
1837866 CATGCAAAAC
* ** *
1837876 TTTTCAAAAATTACTAATTTGGTTCCTAAA
1 TTTTTAAAAATTAC-AAAATGGTCCCTAAA
*
1837906 TTTTTAAATATTACAAAATGGTCCCTAAA
1 TTTTTAAAAATTACAAAATGGTCCCTAAA
1837935 TTTTT
1 TTTTT
1837940 CTAAGTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (29 bp):
TTTTTAAAAATTACAAAATGGTCCCTAAA
Found at i:1838669 original size:30 final size:31
Alignment explanation
Indices: 1838633--1838696 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
1838623 AATTACCATT
1838633 AAACCAAGACACCTAA-CCTTATCATCTTCC
1 AAACCAAGACACCTAACCCTTATCATCTTCC
*
1838663 AAACCAAGACACCTAACCCTTATCATCTTTC
1 AAACCAAGACACCTAACCCTTATCATCTTCC
1838694 AAA
1 AAA
1838697 AGTCAAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.39, C:0.34, G:0.03, T:0.23
Consensus pattern (31 bp):
AAACCAAGACACCTAACCCTTATCATCTTCC
Found at i:1843694 original size:24 final size:24
Alignment explanation
Indices: 1843649--1843695 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1843639 GTTTGTAATT
**
1843649 TTTTTTTAAATTTTTGGTTTTTTG
1 TTTTTTTAAATTTTTGCCTTTTTG
*
1843673 TTTTTTTAATTTTTTGCCTTTTT
1 TTTTTTTAAATTTTTGCCTTTTT
1843696 TTGAAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.77
Consensus pattern (24 bp):
TTTTTTTAAATTTTTGCCTTTTTG
Found at i:1858119 original size:17 final size:17
Alignment explanation
Indices: 1858099--1858151 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
1858089 TAAAAAGTTT
*
1858099 GTTAGATTAATGAACTA
1 GTTAAATTAATGAACTA
* * *
1858116 GTTAAATGAGTGAAGTA
1 GTTAAATTAATGAACTA
1858133 GTTTATAATTAATGAACTA
1 G-TTA-AATTAATGAACTA
1858152 ACTTTGTTGA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 14 0.52
18 3 0.11
19 10 0.37
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.36
Consensus pattern (17 bp):
GTTAAATTAATGAACTA
Found at i:1858231 original size:17 final size:17
Alignment explanation
Indices: 1858193--1858240 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1858183 AAGTAGCTTA
1858193 CTAAATGAACTAGATTC
1 CTAAATGAACTAGATTC
* *
1858210 ATAAATGAACTA-CTTCC
1 CTAAATGAACTAGATT-C
*
1858227 CTAAATAAACTAGA
1 CTAAATGAACTAGA
1858241 AGCTTAAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (17 bp):
CTAAATGAACTAGATTC
Found at i:1864824 original size:18 final size:19
Alignment explanation
Indices: 1864801--1864839 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
1864791 ATATGTTCAT
1864801 AAATGTTAGGG-TTTATGA
1 AAATGTTAGGGTTTTATGA
1864819 AAATGTTAGGGTTTTATGA
1 AAATGTTAGGGTTTTATGA
1864838 AA
1 AA
1864840 TGATGATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (19 bp):
AAATGTTAGGGTTTTATGA
Found at i:1865490 original size:18 final size:19
Alignment explanation
Indices: 1865467--1865505 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1865457 ATATGTTCAT
*
1865467 AAATGTTATGG-TTTATGA
1 AAATGTTAGGGTTTTATGA
1865485 AAATGTTAGGGTTTTATGA
1 AAATGTTAGGGTTTTATGA
1865504 AA
1 AA
1865506 TGATGATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (19 bp):
AAATGTTAGGGTTTTATGA
Found at i:1867236 original size:29 final size:29
Alignment explanation
Indices: 1867204--1867259 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
1867194 ATATGCCAAT
* *
1867204 AAGGAATGTGATAAATGATGTTTCCATAA
1 AAGGAAAGTGATAAATGATGATTCCATAA
*
1867233 AAGGAAAGTGATAAGTGATGATTCCAT
1 AAGGAAAGTGATAAATGATGATTCCAT
1867260 GATACACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (29 bp):
AAGGAAAGTGATAAATGATGATTCCATAA
Found at i:1867560 original size:24 final size:24
Alignment explanation
Indices: 1867520--1867608 Score: 92
Period size: 24 Copynumber: 3.7 Consensus size: 24
1867510 AGTGCCTAGT
1867520 TGCACTC-TAGTAATAGTGCAT-TCG
1 TGCACTCTTA-TAATAGTGCATAT-G
* * *
1867544 TGCACTCTTATATTAGTACCTATG
1 TGCACTCTTATAATAGTGCATATG
* * *
1867568 TGTACTCTTGTACTAGTGCATATG
1 TGCACTCTTATAATAGTGCATATG
1867592 TGCACTCTTATAATAGT
1 TGCACTCTTATAATAGT
1867609 ACCTATGGGT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 49 0.94
25 3 0.06
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (24 bp):
TGCACTCTTATAATAGTGCATATG
Found at i:1867575 original size:48 final size:48
Alignment explanation
Indices: 1867523--1867622 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
1867513 GCCTAGTTGC
* *
1867523 ACTCTAGTAATAGTGCAT-TCGTGCACTCTTATATTAGTACCTATGTGT
1 ACTCTAGTAATAGTGCATAT-GTGCACTCTTATAATAGTACCTATGGGT
* *
1867571 ACTCTTGTACTAGTGCATATGTGCACTCTTATAATAGTACCTATGGGT
1 ACTCTAGTAATAGTGCATATGTGCACTCTTATAATAGTACCTATGGGT
1867619 ACTC
1 ACTC
1867623 CTGTATTAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (48 bp):
ACTCTAGTAATAGTGCATATGTGCACTCTTATAATAGTACCTATGGGT
Found at i:1867622 original size:24 final size:24
Alignment explanation
Indices: 1867547--1867646 Score: 92
Period size: 24 Copynumber: 4.2 Consensus size: 24
1867537 GCATTCGTGC
*
1867547 ACTCTTATATTAGTACCTATGTGT
1 ACTCTTATAATAGTACCTATGTGT
* * * * *
1867571 ACTCTTGTACTAGTGCATATGTGC
1 ACTCTTATAATAGTACCTATGTGT
*
1867595 ACTCTTATAATAGTACCTATGGGT
1 ACTCTTATAATAGTACCTATGTGT
* * * * *
1867619 ACTCCTGTATTAGTACTTTTGTGT
1 ACTCTTATAATAGTACCTATGTGT
1867643 ACTC
1 ACTC
1867647 CTTGTACTGT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (24 bp):
ACTCTTATAATAGTACCTATGTGT
Found at i:1873818 original size:416 final size:416
Alignment explanation
Indices: 1873272--1874055 Score: 1127
Period size: 416 Copynumber: 1.9 Consensus size: 416
1873262 TTTCGCGCCG
* * * * *
1873272 AAAAAGTCTTATAGTGACAAATTTTGTAACTATAAGTGTTGATAATTATTACAAAAACATTGTTA
1 AAAAAGTCATATAGTAACAAATTTTGTAAATATAAGTGTTGATAAATATTACAAAAACATTGTCA
*
1873337 CAAAAAATAATGATATTCATGTTTTGTGACAAATAATATTTGTAGTTATAAATTTTAACTATAGT
66 CAAAAAATAATGATATTCATGTTTTGTGACAAATAATACTTGTAGTTATAAATTTTAACTATAGT
* * *
1873402 GAT-AGCACATATTAATTGTCATAAATATTTTTCACCAC-TTTTTTG-TTTCAAA-AGTTATATT
131 GATAAG-ACATATT-A-TG--ATAAATAGTTTTCACCACTTTTTTTGTTTTCAAAGAGCTACATT
* * * *
1873463 GACAATTTTTTTAATTATAATTTATAGTTATTGTTATAGAAAAAATTATCACATCAAATAATAAA
191 GACAAGTTTTGTAATTATAATTTATAGTTATTATTATAGAAAAAATTATCACACCAAATAATAAA
*
1873528 ATTCAAG-TTTTTGTAATAAATTA-TTTTTTACTTATTTATTTTAATCATTATGAAAAATTATAC
256 ATTCAAGTTTTTTGTAATAAATTATTTTTTTACTTATATATTTTAATCATTATGAAAAATTATAC
* *
1873591 TATC-AAAACCATTTCTCCCTATTTTTTACTGTCAAAAATATTATATAATAAAAATGTATTGTCA
321 TATCGAAAA-CATTTATCCCTATTTTTTACTGCCAAAAATATTATATAATAAAAATGTATTGTCA
1873655 TAAAGATTTTTCTCCATATTTTTTTGTTCCAC
385 TAAAGATTTTTCTCCATATTTTTTTGTTCCAC
* *
1873687 AAAAA-TCATATAGTAACAATTTTTGTAAATATAAGTGTTTATAAATATTACAAAAAACATTGTC
1 AAAAAGTCATATAGTAACAAATTTTGTAAATATAAGTGTTGATAAATATTAC-AAAAACATTGTC
* * * *
1873751 ACAAAAAATAATGGTATTCACAT-TTTTGTGAGAAATTATACTTGTAGTTATAAATTTTAATTAT
65 ACAAAAAATAATGATATT--CATGTTTTGTGACAAATAATACTTGTAGTTATAAATTTTAACTAT
** *
1873815 AGTGATAAGATGTATTATGATAAATAGTTTTCTCCACTTTTTTTTGTTTTCAAAGAGCTACATTG
128 AGTGATAAGACATATTATGATAAATAGTTTTCACCAC-TTTTTTTGTTTTCAAAGAGCTACATTG
* *
1873880 ATAAGTTTTGTAATTATAATTTATAGTTATTATTATAGAAAAATTTATCACACCAAATAATAAAA
192 ACAAGTTTTGTAATTATAATTTATAGTTATTATTATAGAAAAAATTATCACACCAAATAATAAAA
* * *
1873945 TTTAAGTTTTTTGTAATCAATTATTTTTTTAGTTATATATTTTAATCATTATGAAAAATTATACT
257 TTCAAGTTTTTTGTAATAAATTATTTTTTTACTTATATATTTTAATCATTATGAAAAATTATACT
**
1874010 ATCGAAAACATTTATCCCTATTTTTTGGTGCCAAAAATATTATATA
322 ATCGAAAACATTTATCCCTATTTTTTACTGCCAAAAATATTATATA
1874056 GTTAAAATTG
Statistics
Matches: 326, Mismatches: 32, Indels: 19
0.86 0.08 0.05
Matches are distributed among these distances:
412 16 0.05
414 49 0.15
415 41 0.13
416 120 0.37
417 20 0.06
418 76 0.23
419 4 0.01
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (416 bp):
AAAAAGTCATATAGTAACAAATTTTGTAAATATAAGTGTTGATAAATATTACAAAAACATTGTCA
CAAAAAATAATGATATTCATGTTTTGTGACAAATAATACTTGTAGTTATAAATTTTAACTATAGT
GATAAGACATATTATGATAAATAGTTTTCACCACTTTTTTTGTTTTCAAAGAGCTACATTGACAA
GTTTTGTAATTATAATTTATAGTTATTATTATAGAAAAAATTATCACACCAAATAATAAAATTCA
AGTTTTTTGTAATAAATTATTTTTTTACTTATATATTTTAATCATTATGAAAAATTATACTATCG
AAAACATTTATCCCTATTTTTTACTGCCAAAAATATTATATAATAAAAATGTATTGTCATAAAGA
TTTTTCTCCATATTTTTTTGTTCCAC
Found at i:1880400 original size:21 final size:22
Alignment explanation
Indices: 1880376--1880419 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1880366 TGTGCAGTAT
*
1880376 AGTATCCTGC-TTCAAGTTTAA
1 AGTATCCTGCTTTCAAATTTAA
**
1880397 AGTATTGTGCTTTCAAATTTAA
1 AGTATCCTGCTTTCAAATTTAA
1880419 A
1 A
1880420 TGAATTAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (22 bp):
AGTATCCTGCTTTCAAATTTAA
Found at i:1881997 original size:16 final size:15
Alignment explanation
Indices: 1881976--1882015 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
1881966 GATATACTCT
1881976 TAATAATATTATTAAA
1 TAATAAT-TTATTAAA
*
1881992 TAATAATTTTTTAAA
1 TAATAATTTATTAAA
1882007 TAAATAATT
1 T-AATAATT
1882016 AATTTAGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATTTATTAAA
Found at i:1882356 original size:2 final size:2
Alignment explanation
Indices: 1882349--1882398 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
1882339 GTTACGTAGC
1882349 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1882391 AT -T AT AT A
1 AT AT AT AT A
1882399 CACATTACAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1883612 original size:18 final size:20
Alignment explanation
Indices: 1883576--1883647 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 20
1883566 GATTTAGTCC
*
1883576 TTTTATTATTATTATTATTT
1 TTTTATTATTTTTATTATTT
1883596 TTTTATT-TTTTTA-TATTT
1 TTTTATTATTTTTATTATTT
* *
1883614 ATTTATTA-TTTT-TTAATT
1 TTTTATTATTTTTATTATTT
*
1883632 TCTTATTATCTTTTAT
1 TTTTATTAT-TTTTAT
1883648 CTAATATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 25 0.60
19 5 0.12
20 11 0.26
21 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTATTATTTTTATTATTT
Found at i:1883616 original size:28 final size:29
Alignment explanation
Indices: 1883576--1883640 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
1883566 GATTTAGTCC
*
1883576 TTTTATTATTA-TTATTATTTTTTTATTT
1 TTTTATTATTATTTATTATTTTTTAATTT
1883604 TTTTA-TATTTATTTATTATTTTTTAA-TT
1 TTTTATTA-TTATTTATTATTTTTTAATTT
*
1883632 TCTTATTAT
1 TTTTATTAT
1883641 CTTTTATCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 2 0.06
28 15 0.47
29 15 0.47
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTATTATTATTTATTATTTTTTAATTT
Found at i:1883632 original size:8 final size:9
Alignment explanation
Indices: 1883576--1883647 Score: 51
Period size: 8 Copynumber: 7.7 Consensus size: 9
1883566 GATTTAGTCC
1883576 TTTTATTATT
1 TTTTA-TATT
1883586 ATTATTAT-TT
1 -TT-TTATATT
1883596 TTTTAT-TT
1 TTTTATATT
1883604 TTTTATATT
1 TTTTATATT
1883613 TATTTATTATT
1 T-TTTA-TATT
1883624 TTTTA-ATT
1 TTTTATATT
* *
1883632 TCTTATTATC
1 TTTTA-TATT
1883642 TTTTAT
1 TTTTAT
1883648 CTAATATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
8 19 0.37
9 6 0.12
10 16 0.31
11 8 0.15
12 3 0.06
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTATATT
Found at i:1883646 original size:28 final size:26
Alignment explanation
Indices: 1883576--1883647 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 26
1883566 GATTTAGTCC
* *
1883576 TTTTATTATTATTATTATTTTTTTAT
1 TTTTATTATTTTTATTATTTTTTAAT
*
1883602 TTTTTTATATTTATTTATTATTTTTTAAT
1 TTTTAT-TA-TT-TTTATTATTTTTTAAT
1883631 TTCTTATTATCTTTTAT
1 TT-TTATTAT-TTTTAT
1883648 CTAATATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 5 0.14
27 2 0.05
28 8 0.22
29 19 0.51
30 3 0.08
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTATTATTTTTATTATTTTTTAAT
Found at i:1883755 original size:11 final size:11
Alignment explanation
Indices: 1883739--1883778 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1883729 CACGAATATA
*
1883739 TTTATTATTCT
1 TTTATTATTGT
1883750 TTTATTATTGT
1 TTTATTATTGT
1883761 TTT-TTACTTGT
1 TTTATTA-TTGT
1883772 TTTATTA
1 TTTATTA
1883779 AACACTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 3 0.12
11 20 0.77
12 3 0.12
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.72
Consensus pattern (11 bp):
TTTATTATTGT
Found at i:1883809 original size:9 final size:8
Alignment explanation
Indices: 1883797--1884000 Score: 80
Period size: 9 Copynumber: 23.8 Consensus size: 8
1883787 ATTATATATA
1883797 TATTATTTT
1 TATT-TTTT
1883806 TATTTTTT
1 TATTTTTT
* *
1883814 AACTTTTT
1 TATTTTTT
* *
1883822 TGTTTTAT
1 TATTTTTT
*
1883830 T-TTTGTT
1 TATTTTTT
*
1883837 TCTGTTTTT
1 TAT-TTTTT
*
1883846 TATTTTAT
1 TATTTTTT
1883854 TACTTTTTT
1 TA-TTTTTT
1883863 CT-TTGTTTT
1 -TATT-TTTT
1883872 TATTTTTT
1 TATTTTTT
1883880 CT-TTTCTTT
1 -TATTT-TTT
1883889 TATTTTGTT
1 TATTTT-TT
1883898 T-TATTTTT
1 TAT-TTTTT
1883906 TATTTTGTT
1 TATTTT-TT
*
1883915 T-TGTTTT
1 TATTTTTT
1883922 TATTTATTT
1 TATTT-TTT
1883931 TACCATTTTATT
1 T---ATTTT-TT
1883943 TATTTTATT
1 TATTTT-TT
1883952 T-TTATTTT
1 TATT-TTTT
*
1883960 TACTTATTT
1 TA-TTTTTT
*
1883969 TATTATTTG
1 TATT-TTTT
1883978 TATTTTTT
1 TATTTTTT
1883986 T-TTGTTTAT
1 TATT-TTT-T
1883995 TATTTT
1 TATTTT
1884001 CATATTTACG
Statistics
Matches: 151, Mismatches: 18, Indels: 52
0.68 0.08 0.24
Matches are distributed among these distances:
7 10 0.07
8 60 0.40
9 68 0.45
10 5 0.03
11 1 0.01
12 7 0.05
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (8 bp):
TATTTTTT
Found at i:1883851 original size:40 final size:42
Alignment explanation
Indices: 1883802--1883894 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 42
1883792 ATATATATTA
*
1883802 TTTTTATTTT-TTAACTTTTTTGTTT-TATTT-TTGTTTCTGT
1 TTTTTATTTTATT-ACTTTTTTCTTTGTATTTATTGTTTCTGT
* * *
1883842 TTTTTATTTTATTACTTTTTTCTTTGTTTTTATTTTTTCTTT
1 TTTTTATTTTATTACTTTTTTCTTTGTATTTATTGTTTCTGT
1883884 TCTTTTATTTT
1 T-TTTTATTTT
1883895 GTTTTATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
40 21 0.47
41 6 0.13
42 9 0.20
43 9 0.20
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.80
Consensus pattern (42 bp):
TTTTTATTTTATTACTTTTTTCTTTGTATTTATTGTTTCTGT
Found at i:1883869 original size:27 final size:24
Alignment explanation
Indices: 1883824--1883926 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 24
1883814 AACTTTTTTG
1883824 TTTTA-TTTTTGTTTCTGTTTTTTATT
1 TTTTACTTTTT-TTT-TG-TTTTTATT
1883850 TTATTACTTTTTTCTTTGTTTTTATT
1 TT-TTACTTTTTT-TTTGTTTTTATT
*
1883876 TTTT-CTTTTCTTTTATTTTGTTTTATT
1 TTTTAC-TTT-TTTT-TTGT-TTTTATT
*
1883903 TTTTA-TTTTGTTTTGTTTTTATT
1 TTTTACTTTTTTTTTGTTTTTATT
1883926 T
1 T
1883927 ATTTTACCAT
Statistics
Matches: 66, Mismatches: 3, Indels: 19
0.75 0.03 0.22
Matches are distributed among these distances:
23 8 0.12
24 4 0.06
25 9 0.14
26 21 0.32
27 17 0.26
28 7 0.11
ACGTcount: A:0.09, C:0.05, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTTACTTTTTTTTTGTTTTTATT
Found at i:1883877 original size:17 final size:15
Alignment explanation
Indices: 1883802--1884000 Score: 92
Period size: 17 Copynumber: 11.7 Consensus size: 15
1883792 ATATATATTA
**
1883802 TTTTTATTTTTTAACT
1 TTTTTATTTTTT-TTT
*
1883818 TTTTTGTTTTATTTTT
1 TTTTTATTTT-TTTTT
* * *
1883834 GTTTCTGTTTTTTATT
1 -TTTTTATTTTTTTTT
*
1883850 TTATTACTTTTTTCTTT
1 TTTTTA-TTTTTT-TTT
1883867 GTTTTTATTTTTTCTTT
1 -TTTTTATTTTTT-TTT
1883884 TCTTTTATTTTGTTTTAT
1 T-TTTTATTTT-TTTT-T
*
1883902 TTTTTATTTTGTTTTG
1 TTTTTATTTT-TTTTT
1883918 TTTTTATTTATTTTACCATT
1 TTTTTATTT-TTTT----TT
1883938 TTATTTATTTTATTTTT
1 TT-TTTATTTT-TTTTT
*
1883955 ATTTTTACTTATTTTATTA
1 -TTTTTA-TT-TTTT-TTT
*
1883974 TTTGTATTTTTTTTT
1 TTTTTATTTTTTTTT
1883989 GTTTATTATTTT
1 -TTT-TTATTTT
1884001 CATATTTACG
Statistics
Matches: 146, Mismatches: 16, Indels: 41
0.72 0.08 0.20
Matches are distributed among these distances:
15 5 0.03
16 40 0.27
17 63 0.43
18 20 0.14
19 4 0.03
20 4 0.03
21 10 0.07
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.78
Consensus pattern (15 bp):
TTTTTATTTTTTTTT
Found at i:1883923 original size:33 final size:34
Alignment explanation
Indices: 1883819--1883926 Score: 96
Period size: 38 Copynumber: 3.1 Consensus size: 34
1883809 TTTTTAACTT
*
1883819 TTTTGTTTTATTTTTGT-TTCTGTTTTTTATTTTA
1 TTTTGTTTTATTTTT-TATTTTGTTTTTTATTTTA
* * *
1883853 TTACTTTTTTCTTTGTTTTTATTTT-TTCTTTTCTTTTA
1 TT--TTGTTT-TAT-TTTTTATTTTGTT-TTTTATTTTA
*
1883891 TTTTGTTTTATTTTTTATTTTGTTTTGT-TTTTA
1 TTTTGTTTTATTTTTTATTTTGTTTTTTATTTTA
1883924 TTT
1 TTT
1883927 ATTTTACCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
33 8 0.13
34 15 0.25
35 4 0.07
36 10 0.17
37 5 0.08
38 18 0.30
ACGTcount: A:0.08, C:0.05, G:0.06, T:0.81
Consensus pattern (34 bp):
TTTTGTTTTATTTTTTATTTTGTTTTTTATTTTA
Found at i:1883969 original size:38 final size:38
Alignment explanation
Indices: 1883904--1883995 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
1883894 TGTTTTATTT
* * *
1883904 TTTATTTTGTTTTGTTTTTATTTATTTTACCATTT-TA
1 TTTATTTTTTTTTATTTTTACTTATTTTACCATTTGTA
**
1883941 TTTATTTTATTTTTATTTTTACTTATTTTATTATTTGTA
1 TTTATTTT-TTTTTATTTTTACTTATTTTACCATTTGTA
1883980 TTT-TTTTTTGTTTATT
1 TTTATTTTTT-TTTATT
1883996 ATTTTCATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 10 0.21
38 32 0.68
39 5 0.11
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.76
Consensus pattern (38 bp):
TTTATTTTTTTTTATTTTTACTTATTTTACCATTTGTA
Found at i:1883984 original size:15 final size:14
Alignment explanation
Indices: 1883886--1883984 Score: 51
Period size: 15 Copynumber: 6.7 Consensus size: 14
1883876 TTTTCTTTTC
*
1883886 TTTTATTTTGTTTTA
1 TTTTATTTT-TATTA
* *
1883901 TTTT-TTATT-TTG
1 TTTTATTTTTATTA
*
1883913 TTTTGTTTTTATTTA
1 TTTTATTTTTA-TTA
*
1883928 TTTTACCATTTTATTTA
1 TTTTA--TTTTTA-TTA
*
1883945 TTTTATTTTTATTT
1 TTTTATTTTTATTA
1883959 TTACTTA-TTTTATTA
1 TT--TTATTTTTATTA
1883974 TTTGTATTTTT
1 TTT-TATTTTT
1883985 TTTTGTTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
12 6 0.09
13 6 0.09
14 9 0.14
15 28 0.42
16 3 0.05
17 14 0.21
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:1885705 original size:14 final size:14
Alignment explanation
Indices: 1885686--1885721 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1885676 GATTGTAACC
1885686 AGGTGCCTAAAGTA
1 AGGTGCCTAAAGTA
*
1885700 AGGTGCCTGAAGTA
1 AGGTGCCTAAAGTA
1885714 AGGTGCCT
1 AGGTGCCT
1885722 TCAGGGTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (14 bp):
AGGTGCCTAAAGTA
Found at i:1887335 original size:18 final size:18
Alignment explanation
Indices: 1887293--1887338 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1887283 TGGTTTGATT
*
1887293 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
1887311 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
1887329 AATGAACTAA
1 AATGAACTAA
1887339 ATGTATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:1888524 original size:21 final size:21
Alignment explanation
Indices: 1888500--1888539 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1888490 CTCATTTTCA
1888500 CTCTCAAT-TCTCTTTTCAATG
1 CTCTCAATGTCT-TTTTCAATG
1888521 CTCTCAATGTCTTTTTCAA
1 CTCTCAATGTCTTTTTCAA
1888540 CTATCGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (21 bp):
CTCTCAATGTCTTTTTCAATG
Found at i:1889422 original size:12 final size:12
Alignment explanation
Indices: 1889405--1889434 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1889395 ATTTATTTTC
1889405 TTTTTTTC-GAA
1 TTTTTTTCTGAA
1889416 TTTTTTTCTGAA
1 TTTTTTTCTGAA
1889428 TTTTTTT
1 TTTTTTT
1889435 ACTAACCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTTTTCTGAA
Found at i:1900976 original size:3 final size:3
Alignment explanation
Indices: 1900968--1901058 Score: 69
Period size: 3 Copynumber: 29.7 Consensus size: 3
1900958 TTTAGTCCTT
* *
1900968 TTA TTA TTA TTTA TTA TTTA TTA TTA TTA TTA TTA TTT TTA TTT TTA
1 TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
1901015 TTT TTA TT- TTT TTA TTTC TTA TTA TTT TTA TCTA ATA TT- TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
1901059 TATACGTTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
2 4 0.06
3 55 0.80
4 10 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:1901039 original size:48 final size:50
Alignment explanation
Indices: 1900966--1901059 Score: 124
Period size: 48 Copynumber: 1.9 Consensus size: 50
1900956 GATTTAGTCC
*
1900966 TTTTATTATTATTTATTATTTATTATTATTAT-TATTATTTTTATTTTTAT
1 TTTTATTATTATTTATTATTTATTATTATTATCTAATA-TTTTATTTTTAT
*
1901016 TTTTATT-TT-TTTATT-TCTTATTATTTTTATCTAATATTTTATTT
1 TTTTATTATTATTTATTAT-TTATTATTATTATCTAATATTTTATTT
1901060 ATACGTTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
47 1 0.03
48 26 0.65
49 6 0.15
50 7 0.17
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (50 bp):
TTTTATTATTATTTATTATTTATTATTATTATCTAATATTTTATTTTTAT
Found at i:1907545 original size:6 final size:6
Alignment explanation
Indices: 1907530--1907578 Score: 55
Period size: 6 Copynumber: 7.7 Consensus size: 6
1907520 CCTAAATTGA
1907530 AAAAATG AAAAAG AAAAAGTG AAAAGAG AAAAAG AAAAAG -AAAAG AAAA
1 AAAAA-G AAAAAG AAAAA--G AAAA-AG AAAAAG AAAAAG AAAAAG AAAA
1907579 TAAGGAGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.13
6 17 0.45
7 10 0.26
8 5 0.13
9 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:1907547 original size:14 final size:14
Alignment explanation
Indices: 1907528--1907573 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
1907518 ACCCTAAATT
1907528 GAAAAAATGAAAAA
1 GAAAAAATGAAAAA
*
1907542 GAAAAAGTG-AAAA
1 GAAAAAATGAAAAA
1907555 GAGAAAAA-GAAAAA
1 GA-AAAAATGAAAAA
1907569 GAAAA
1 GAAAA
1907574 GAAAATAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (14 bp):
GAAAAAATGAAAAA
Found at i:1907560 original size:21 final size:22
Alignment explanation
Indices: 1907527--1907569 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1907517 CACCCTAAAT
1907527 TGAAAAAATGAAAAAGAAAAAG
1 TGAAAAAATGAAAAAGAAAAAG
*
1907549 TGAAAAGA-GAAAAAGAAAAAG
1 TGAAAAAATGAAAAAGAAAAAG
1907570 AAAAGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (22 bp):
TGAAAAAATGAAAAAGAAAAAG
Found at i:1909368 original size:7 final size:7
Alignment explanation
Indices: 1909349--1909421 Score: 75
Period size: 7 Copynumber: 11.1 Consensus size: 7
1909339 ATTTAGTCCT
1909349 TTTATTA
1 TTTATTA
1909356 -TTATTA
1 TTTATTA
1909362 TTTATTA
1 TTTATTA
1909369 -TTATT-
1 TTTATTA
1909374 TTTA-TA
1 TTTATTA
*
1909380 TTTATTG
1 TTTATTA
*
1909387 TTTATTG
1 TTTATTA
*
1909394 TTTATTG
1 TTTATTA
*
1909401 TTTATTT
1 TTTATTA
1909408 TTTATTA
1 TTTATTA
1909415 TTT-TTA
1 TTTATTA
1909421 T
1 T
1909422 CTAATATTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
5 1 0.02
6 22 0.37
7 36 0.61
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:1909623 original size:5 final size:5
Alignment explanation
Indices: 1909615--1909772 Score: 56
Period size: 5 Copynumber: 29.4 Consensus size: 5
1909605 TTTGTTTCTG
** *
1909615 TTTTA TTTTA TTTTA TTCCA TTACTT- TTTTC TTTGT- TTTTA TTTTTTA
1 TTTTA TTTTA TTTTA TTTTA TT--TTA TTTTA TTT-TA TTTTA -T-TTTA
* * *
1909663 TTTTA CTTTTGA TTTGTT TTTTA TTTTTA TTTTTA TTTTG TTTTG TTTTA
1 TTTTA -TTTT-A TTT-TA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA
* *
1909713 TTTT- TATTTA TGTTACAA TTTTA -TTTA TTTTG TTTTA TTTTTA TTTT-
1 TTTTA T-TTTA T-TT--TA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA
*
1909760 TACTTA TTTTA TT
1 T-TTTA TTTTA TT
1909773 ATTTGTCTTT
Statistics
Matches: 119, Mismatches: 15, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
4 9 0.08
5 65 0.55
6 35 0.29
7 8 0.07
8 2 0.02
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:1909666 original size:6 final size:6
Alignment explanation
Indices: 1909650--1909761 Score: 61
Period size: 6 Copynumber: 18.0 Consensus size: 6
1909640 TTTTTCTTTG
* *
1909650 TTTTTA TTTTT- TATTTTA CTTTTGA TTTGT- TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA T-TTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* ** * *
1909698 TTTTGTTT TGTTTTA TTTTTA --TTTA TGTTACA ATTTTA TTTATTT TGTTTTA
1 -TTT-TTA T-TTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTT-TTA T-TTTTA
1909750 TTTTTA TTTTTA
1 TTTTTA TTTTTA
1909762 CTTATTTTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
4 4 0.05
5 5 0.06
6 45 0.56
7 19 0.24
8 7 0.09
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:1909671 original size:23 final size:23
Alignment explanation
Indices: 1909652--1909723 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
1909642 TTTCTTTGTT
1909652 TTTATTTTTTATTTTACTTTTGA
1 TTTATTTTTTATTTTACTTTTGA
* *
1909675 TTTGTTTTTTATTTTTA-TTTTTA
1 TTTATTTTTTA-TTTTACTTTTGA
* * *
1909698 TTT-TGTTTTGTTTTA-TTTTTA
1 TTTATTTTTTATTTTACTTTTGA
1909719 TTTAT
1 TTTAT
1909724 GTTACAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
21 14 0.33
22 6 0.14
23 18 0.42
24 5 0.12
ACGTcount: A:0.14, C:0.01, G:0.06, T:0.79
Consensus pattern (23 bp):
TTTATTTTTTATTTTACTTTTGA
Found at i:1909679 original size:29 final size:28
Alignment explanation
Indices: 1909646--1909721 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
1909636 TACTTTTTTC
1909646 TTTGTTTTTATTTTTTATTTTACTTTTGA
1 TTTGTTTTTATTTTTTATTTTA-TTTTGA
*
1909675 TTTGTTTTT-TATTTTTATTTTTATTTTGT
1 TTTGTTTTTAT-TTTTTA-TTTTATTTTGA
1909704 TTTG-TTTTA-TTTTTATTT
1 TTTGTTTTTATTTTTTATTT
1909722 ATGTTACAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 3 0.07
27 6 0.14
28 5 0.12
29 24 0.56
30 5 0.12
ACGTcount: A:0.12, C:0.01, G:0.07, T:0.80
Consensus pattern (28 bp):
TTTGTTTTTATTTTTTATTTTATTTTGA
Found at i:1909750 original size:94 final size:95
Alignment explanation
Indices: 1909583--1909764 Score: 218
Period size: 94 Copynumber: 1.9 Consensus size: 95
1909573 TTATTTTTAC
*
1909583 TTTTTTACTTTTTTGTTTTATTTTTGTTTCTGTTTTATTTTATTTTATTCCATTACTTTTTTCTT
1 TTTTTTACTTTTTTGTTTTATTTTTGTTTCTGTTTTATTTTATTTTATTCAATTA-TTTTTTCTT
1909648 TGTTTTTATTTTT-TATTTTACTTTTGATTTG
65 TGTTTTTATTTTTAT-TTTTACTTTTGATTTG
*
1909679 TTTTTTA-TTTTTAT-TTTTA-TTTTGTTT-TGTTTTATTTTTATTTATGTTACAATT-TTATTT
1 TTTTTTACTTTTT-TGTTTTATTTTTGTTTCTGTTTTA-TTTTATTT-TATT-CAATTATT-TTT
1909739 AT-TTTG-TTTTATTTTTATTTTTACTT
61 -TCTTTGTTTTTATTTTTATTTTTACTT
1909765 ATTTTATTAT
Statistics
Matches: 77, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
93 7 0.09
94 36 0.47
95 21 0.27
96 13 0.17
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (95 bp):
TTTTTTACTTTTTTGTTTTATTTTTGTTTCTGTTTTATTTTATTTTATTCAATTATTTTTTCTTT
GTTTTTATTTTTATTTTTACTTTTGATTTG
Found at i:1909759 original size:11 final size:11
Alignment explanation
Indices: 1909562--1909721 Score: 71
Period size: 11 Copynumber: 14.1 Consensus size: 11
1909552 AAACACTATA
*
1909562 TTATTTTTATA
1 TTATTTTTATT
1909573 TTATTTTTACTTTT
1 TTATTTTTA---TT
*
1909587 TTACTTTTTTGTT
1 TTA--TTTTTATT
*
1909600 TTATTTTTGTT
1 TTATTTTTATT
*
1909611 TCT-GTTTTATT
1 T-TATTTTTATT
1909622 TTA-TTTTATT
1 TTATTTTTATT
** *
1909632 CCATTACTT-TT
1 TTATT-TTTATT
* *
1909643 TTCTTTGT-TT
1 TTATTTTTATT
1909653 TTATTTTTTATT
1 TTA-TTTTTATT
*
1909665 TTACTTTTGATT
1 TTA-TTTTTATT
1909677 TGT-TTTTTATTT
1 T-TATTTTTA-TT
1909689 TTATTTTTATT
1 TTATTTTTATT
* *
1909700 TT-GTTTTGTT
1 TTATTTTTATT
1909710 TTATTTTTATT
1 TTATTTTTATT
1909721 T
1 T
1909722 ATGTTACAAT
Statistics
Matches: 113, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
10 22 0.19
11 51 0.45
12 25 0.22
13 6 0.05
14 4 0.04
16 5 0.04
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:1909771 original size:21 final size:20
Alignment explanation
Indices: 1909681--1909772 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 20
1909671 TTGATTTGTT
1909681 TTTTATTTTTATTTTTATT-
1 TTTTATTTTTATTTTTATTA
*
1909700 TTGTTTTGTTTTATTTTTATTTA
1 TT-TTAT-TTTTATTTTTA-TTA
* * *
1909723 TGTTACAATTTTATTTATT-TTG
1 T-TT-TATTTTTATTT-TTATTA
1909745 TTTTATTTTTATTTTTACTTA
1 TTTTATTTTTATTTTTA-TTA
1909766 TTTTATT
1 TTTTATT
1909773 ATTTGTCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
19 4 0.07
20 12 0.21
21 22 0.39
22 5 0.09
23 10 0.18
24 3 0.05
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTATTTTTATTTTTATTA
Found at i:1909787 original size:43 final size:42
Alignment explanation
Indices: 1909681--1909790 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
1909671 TTGATTTGTT
* *
1909681 TTTTATT-TTTATTTTTATTTTGTTTTGTTTTATTTTTATTTA
1 TTTTATTATTT-TATTTATTTTGTTTTGTTTTATTTTTACTTA
* ** *
1909723 TGTTACAATTTTATTTATTTTGTTTTATTTTTATTTTTACTTA
1 TTTTATTATTTTATTTATTTTGTTTT-GTTTTATTTTTACTTA
*
1909766 TTTTATTATTTGTCTTT-TTTTGTTT
1 TTTTATTATTT-TATTTATTTTGTTT
1909791 ATTATTTTCA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 18 0.33
43 33 0.60
44 4 0.07
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.76
Consensus pattern (42 bp):
TTTTATTATTTTATTTATTTTGTTTTGTTTTATTTTTACTTA
Found at i:1912329 original size:3 final size:3
Alignment explanation
Indices: 1912321--1912377 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
1912311 TTTTACTTAA
*
1912321 ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT-T ATT
1912366 A-T ATT ATT ATT A
1 ATT ATT ATT ATT A
1912378 AATAATTACA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1912369 original size:25 final size:22
Alignment explanation
Indices: 1912321--1912377 Score: 84
Period size: 20 Copynumber: 2.7 Consensus size: 22
1912311 TTTTACTTAA
1912321 ATTATTATTATTATTATTAAAT
1 ATTATTATTATTATTATTAAAT
*
1912343 ATTATTATTA-TATTA-TATAT
1 ATTATTATTATTATTATTAAAT
1912363 ATTA-TATTATTATTA
1 ATTATTATTATTATTA
1912378 AATAATTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 5 0.15
20 13 0.39
21 5 0.15
22 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATTATTATTATTATTAAAT
Found at i:1912385 original size:11 final size:12
Alignment explanation
Indices: 1912317--1912385 Score: 51
Period size: 11 Copynumber: 6.0 Consensus size: 12
1912307 TTCATTTTAC
1912317 TTAAAT-TATTA
1 TTAAATATATTA
1912328 TT--AT-TATTA
1 TTAAATATATTA
1912337 TTAAATATTATTA
1 TTAAATA-TATTA
*
1912350 TTATATTATATATA
1 TTA-AATATAT-TA
*
1912364 TTATAT-TATTA
1 TTAAATATATTA
1912375 TTAAATA-ATTA
1 TTAAATATATTA
1912386 CAAGCCCAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
9 9 0.19
11 15 0.32
12 3 0.06
13 12 0.26
14 8 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAAATATATTA
Found at i:1919909 original size:17 final size:18
Alignment explanation
Indices: 1919889--1919930 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1919879 AAACAAGATG
1919889 AAAAAGG-AAAAATGAAA
1 AAAAAGGAAAAAATGAAA
*
1919906 AAAAAGGAAAAAATGGAA
1 AAAAAGGAAAAAATGAAA
1919924 AAAAAGG
1 AAAAAGG
1919931 GAGGGGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (18 bp):
AAAAAGGAAAAAATGAAA
Found at i:1919910 original size:18 final size:19
Alignment explanation
Indices: 1919889--1919928 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1919879 AAACAAGATG
1919889 AAAAAGG-AAAAAT-GAAA
1 AAAAAGGAAAAAATGGAAA
1919906 AAAAAGGAAAAAATGGAAA
1 AAAAAGGAAAAAATGGAAA
1919925 AAAA
1 AAAA
1919929 GGGAGGGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 6 0.29
19 8 0.38
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (19 bp):
AAAAAGGAAAAAATGGAAA
Found at i:1919916 original size:9 final size:9
Alignment explanation
Indices: 1919889--1919930 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
1919879 AAACAAGATG
1919889 AAAAAGG-A
1 AAAAAGGAA
* *
1919897 AAAATGAAA
1 AAAAAGGAA
1919906 AAAAAGGAA
1 AAAAAGGAA
*
1919915 AAAATGGAA
1 AAAAAGGAA
1919924 AAAAAGG
1 AAAAAGG
1919931 GAGGGGAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
8 5 0.19
9 22 0.81
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (9 bp):
AAAAAGGAA
Found at i:1922295 original size:107 final size:107
Alignment explanation
Indices: 1922107--1922302 Score: 338
Period size: 107 Copynumber: 1.8 Consensus size: 107
1922097 AATAAGGATC
* * * *
1922107 CCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAATCCCAAAAC
1 CCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGGTAGGAACCCCAAAAC
*
1922172 CAATCATTGGATTTGAAAGATGAATTCGCTCATAGTAGAAGA
66 CAATCATTGGAATTGAAAGATGAATTCGCTCATAGTAGAAGA
*
1922214 CCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGGTAGGAACCCCAGAAC
1 CCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGGTAGGAACCCCAAAAC
1922279 CAATCATTGGAATTGAAAGATGAA
66 CAATCATTGGAATTGAAAGATGAA
1922303 CTGCATGATC
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 83 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (107 bp):
CCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTCGGTAGGAACCCCAAAAC
CAATCATTGGAATTGAAAGATGAATTCGCTCATAGTAGAAGA
Found at i:1924855 original size:22 final size:22
Alignment explanation
Indices: 1924827--1924881 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1924817 ATCTACAATC
1924827 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1924849 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1924871 TTCAAAGATGA
1 TTCAAAGATGA
1924882 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1925708 original size:166 final size:167
Alignment explanation
Indices: 1925397--1925723 Score: 523
Period size: 166 Copynumber: 2.0 Consensus size: 167
1925387 AAAATTAGCA
1925397 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAAACAGAATGAGAAAAC
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-AAAAAAACAGAATGAGAAAAC
* ** * *
1925462 GATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
65 GATTTCCATAGTTTCTCATTCAATCGTTTCTAAAATAAAATTGTTGAAAAGTAAGAAAACGATTT
* *
1925527 TCTTATTTTTTTTACTTAGTAAACTATTTCCAACAGCC
130 TCTTAGTTTTTTTACTTAATAAACTATTTCCAACAGCC
** * *
1925565 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAACT
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAATGAGAAAACG
1925628 ATTTCCATAGTTTCTCATTCAATCGTTTCTAAAAATAAAATTGTTGAAAAGTAAGAAAACGATTT
66 ATTTCCATAGTTTCTCATTCAATCGTTTCT-AAAATAAAATTGTTGAAAAGTAAGAAAACGATTT
1925693 TCTTAGTTTTTTTACTTAATAAACTATTTCC
130 TCTTAGTTTTTTTACTTAATAAACTATTTCC
1925724 CACATCTGTA
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
165 38 0.26
166 66 0.45
168 43 0.29
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (167 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCGTTTCTAAAATAAAATTGTTGAAAAGTAAGAAAACGATTTT
CTTAGTTTTTTTACTTAATAAACTATTTCCAACAGCC
Found at i:1925825 original size:76 final size:76
Alignment explanation
Indices: 1925726--1926439 Score: 1383
Period size: 76 Copynumber: 9.4 Consensus size: 76
1925716 CTATTTCCCA
*
1925726 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1925791 AGCCTTAGGGT
66 AGCCTTAGGGT
1925802 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1925867 AGCCTTAGGGT
66 AGCCTTAGGGT
1925878 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1925943 AGCCTTAGGGT
66 AGCCTTAGGGT
1925954 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1926019 AGCCTTAGGGT
66 AGCCTTAGGGT
1926030 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1926095 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1926106 CATCTGTAAGTCCTGCAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1926171 AGCCTTAGGGT
66 AGCCTTAGGGT
*
1926182 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1926247 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
1926258 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1926323 AGCCTTAGGGT
66 AGCCTTAGGGT
1926334 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1926399 AGCCTTAGGGT
66 AGCCTTAGGGT
1926410 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
1926440 TTAAGACCTC
Statistics
Matches: 629, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 629 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:1926610 original size:3 final size:3
Alignment explanation
Indices: 1926604--1926660 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
1926594 TATTATAAAA
* *
1926604 ATT ATT ATT ATT ATT ATT AAAT ATT AAT ATT A-T ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT AT-T ATT
1926649 A-T ATT ATT ATT A
1 ATT ATT ATT ATT A
1926661 AATAATTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 6 0.13
3 34 0.76
4 5 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:1927572 original size:19 final size:18
Alignment explanation
Indices: 1927548--1927586 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1927538 TAAACTCTCT
*
1927548 AAGTTAGAGAGAGGAGAAG
1 AAGTTAG-GAAAGGAGAAG
*
1927567 AAGTTAGGAAATGAGAAG
1 AAGTTAGGAAAGGAGAAG
1927585 AA
1 AA
1927587 TGGCCCTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.36, T:0.13
Consensus pattern (18 bp):
AAGTTAGGAAAGGAGAAG
Found at i:1929097 original size:59 final size:59
Alignment explanation
Indices: 1929034--1929611 Score: 770
Period size: 59 Copynumber: 9.8 Consensus size: 59
1929024 ATGGCACTAA
**
1929034 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTTATATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
*
1929093 GTGTGCTAAAATGGTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
* * * * * *
1929152 GTGTGCTAAAATGTTACGAAATGCATACTAAGTGTATGGATTCCCATATAGGGTACTTA
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
1929211 GTGTGCTAAAAT-TGTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
1 GTGTGCTAAAATGT-TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
* * ** *
1929270 GTGTGCTAAAATGATAAGAAATTCATACTATGCATATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
* * * *
1929329 GTGTGCTAAAATGATAAGAAATTCATACTATGTGTAGGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
* * *
1929388 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTT-CGTTTAGGGCACTAT-
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACT-TC
* ** * *
1929446 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTTTATGAATTTCTGTATTGGGCACTTG
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
* * * * *
1929505 GTGTGCAAAAATGTTAAAAAATTCATACTAAGTGTATGAATTTTCGA-ATTGGGCACTTT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAA-TTTCCATATAGGGCACTTC
* * * * *
1929564 TTGTGC-AAAAAGATAAGAAACTCATACTAAGTTTATGAATTTCCATAT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATAT
1929612 GGGAAATATA
Statistics
Matches: 467, Mismatches: 45, Indels: 15
0.89 0.09 0.03
Matches are distributed among these distances:
57 5 0.01
58 85 0.18
59 373 0.80
60 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTC
Found at i:1929908 original size:68 final size:68
Alignment explanation
Indices: 1929799--1929980 Score: 258
Period size: 68 Copynumber: 2.7 Consensus size: 68
1929789 TAATAGGAGT
1929799 AACTGTGCATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGACG
1 AACTGTGCATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGACG
1929864 CTA
66 CTA
* *
1929867 AACTGTGCATTTGACCGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGG
1 AACTGTGCATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGACG
1929932 CCT-
66 -CTA
* * * * * * * *
1929935 AACTATGCAATTGGCAGGAATGTGTCAATTACGCCAGTTAGATGAA
1 AACTGTGCATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATGAA
1929981 TAGTTAAATA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
68 100 0.98
69 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
AACTGTGCATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGACG
CTA
Done.