Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold416
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: 497255
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.30
Warning! 57273 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1846 original size:28 final size:27
Alignment explanation
Indices: 1815--1870 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
1805 AAAAATATAT
1815 AGAA-AAAAGAAAAAAAAGAGAACAAAAA
1 AGAACAAAA-AAAAAAAAGA-AACAAAAA
*
1843 AGAACAAAAAACAAAAAGAAACAAAAA
1 AGAACAAAAAAAAAAAAGAAACAAAAA
1870 A
1 A
1871 ACCTCTACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 9 0.35
28 13 0.50
29 4 0.15
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (27 bp):
AGAACAAAAAAAAAAAAGAAACAAAAA
Found at i:1852 original size:10 final size:10
Alignment explanation
Indices: 1817--1853 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
1807 AAATATATAG
*
1817 AAAAAAGAAA
1 AAAAAAGAAC
1827 AAAAAGAGAAC
1 AAAAA-AGAAC
1838 AAAAAAGAAC
1 AAAAAAGAAC
1848 AAAAAA
1 AAAAAA
1854 CAAAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAC
Found at i:1857 original size:17 final size:17
Alignment explanation
Indices: 1839--1870 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1829 AAAGAGAACA
1839 AAAAAG-AACAAAAAAC
1 AAAAAGAAACAAAAAAC
1855 AAAAAGAAACAAAAAA
1 AAAAAGAAACAAAAAA
1871 ACCTCTACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAGAAACAAAAAAC
Found at i:1864 original size:10 final size:10
Alignment explanation
Indices: 1818--1869 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
1808 AATATATAGA
1818 AAAAAGAAA-
1 AAAAAGAAAC
1827 AAAAAGAGAAC
1 AAAAAGA-AAC
1838 AAAAA-AGAAC
1 AAAAAGA-AAC
1848 --AAA-AAAC
1 AAAAAGAAAC
1855 AAAAAGAAAC
1 AAAAAGAAAC
1865 AAAAA
1 AAAAA
1870 AACCTCTACC
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.08
8 4 0.11
9 10 0.26
10 16 0.42
11 5 0.13
ACGTcount: A:0.83, C:0.08, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAC
Found at i:3722 original size:44 final size:43
Alignment explanation
Indices: 3674--3810 Score: 114
Period size: 44 Copynumber: 3.1 Consensus size: 43
3664 CTGACAACGA
*
3674 AGCAGATCAAAGACACCAGTCTTGCCTCCCTGGGTTTACAGCGG
1 AGCAGA-CAAAGACACCAGTCTTGCCTCCCTGAGTTTACAGCGG
* * * * * * * * *
3718 AGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTA-CTGACAACGA
1 AGCAGAC-AAAGACACCAG-TCTTGCCTCCCTG-AGTTTACAGCGG
* *
3763 AGCAGACCAAAGACACCAGCCTTGCCTCCCTGAGTTTACAGCAG
1 AGCAGA-CAAAGACACCAGTCTTGCCTCCCTGAGTTTACAGCGG
3807 AGCA
1 AGCA
3811 CACTGAAGAT
Statistics
Matches: 67, Mismatches: 21, Indels: 10
0.68 0.21 0.10
Matches are distributed among these distances:
43 2 0.03
44 33 0.49
45 31 0.46
46 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (43 bp):
AGCAGACAAAGACACCAGTCTTGCCTCCCTGAGTTTACAGCGG
Found at i:3756 original size:89 final size:89
Alignment explanation
Indices: 3601--3883 Score: 422
Period size: 89 Copynumber: 3.2 Consensus size: 89
3591 GGTGTAACTT
* * *
3601 CAGCCTTGCCTTCCTGAGTTTGCAGCAGAGCAGACTGAATATAGCAGATCTTGCCTTCTTGTACT
1 CAGCCTTGCCTCCCTGAGTTTACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACT
3666 GACAACGAAGCAGATCAAAGACAC
66 GACAACGAAGCAGATCAAAGACAC
* * *
3690 CAGTCTTGCCTCCCTGGGTTTACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACT
1 CAGCCTTGCCTCCCTGAGTTTACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACT
*
3755 GACAACGAAGCAGACCAAAGACAC
66 GACAACGAAGCAGATCAAAGACAC
* * * * *
3779 CAGCCTTGCCTCCCTGAGTTTACAGCAGAGCACACTGAAGATAGCGGACCTTGCCTTCCTGTATT
1 CAGCCTTGCCTCCCTGAGTTTACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACT
* * *
3844 GACAGCGAAGCAGATCGAAGATAC
66 GACAACGAAGCAGATCAAAGACAC
*
3868 CAGCCTTGTCTCCCTG
1 CAGCCTTGCCTCCCTG
3884 GGCAGCAGCT
Statistics
Matches: 174, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 174 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (89 bp):
CAGCCTTGCCTCCCTGAGTTTACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACT
GACAACGAAGCAGATCAAAGACAC
Found at i:3849 original size:45 final size:44
Alignment explanation
Indices: 3604--3875 Score: 155
Period size: 45 Copynumber: 6.1 Consensus size: 44
3594 GTAACTTCAG
*
3604 CCTTGCCTTCCTG-AGTTTG-CAGCAGAGCAGACTGAATATAGCAGA
1 CCTTGCCTTCCTGTA--TTGACAGC-GAGCAGACTGAAGATAGCAGA
* * * * * * *
3649 TCTTGCCTTCTTGTACTGACAACGAAGCAGA-TCAAAGACACCAG-
1 CCTTGCCTTCCTGTATTGACAGCG-AGCAGACT-GAAGATAGCAGA
* * ** *
3693 TCTTGCCTCCCTGGGTTTACAGCGGAGCAGACTGAAGATAGCAGA
1 CCTTGCCTTCCTGTATTGACAGC-GAGCAGACTGAAGATAGCAGA
* * * * ** * *
3738 TCTTGCCTTCTTGTACTGACAACGAAGCAGACCAAAGACACCAG-
1 CCTTGCCTTCCTGTATTGACAGCG-AGCAGACTGAAGATAGCAGA
* * * *
3782 CCTTGCCTCCCTG-AGTTTACAGCAGAGCACACTGAAGATAGCGGA
1 CCTTGCCTTCCTGTA-TTGACAGC-GAGCAGACTGAAGATAGCAGA
*
3827 CCTTGCCTTCCTGTATTGACAGCGAAGCAGA-TCGAAGATACCAG-
1 CCTTGCCTTCCTGTATTGACAGCG-AGCAGACT-GAAGATAGCAGA
3871 CCTTG
1 CCTTG
3876 TCTCCCTGGG
Statistics
Matches: 167, Mismatches: 46, Indels: 29
0.69 0.19 0.12
Matches are distributed among these distances:
43 1 0.01
44 70 0.42
45 94 0.56
46 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (44 bp):
CCTTGCCTTCCTGTATTGACAGCGAGCAGACTGAAGATAGCAGA
Found at i:4949 original size:15 final size:15
Alignment explanation
Indices: 4929--4964 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
4919 TGAAAAATTT
4929 AAAGAAAATACGAA-A
1 AAAGAAAATAC-AAGA
4944 AAAGAAAATACAAGA
1 AAAGAAAATACAAGA
4959 AAAGAA
1 AAAGAA
4965 TAAACAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.75, C:0.06, G:0.14, T:0.06
Consensus pattern (15 bp):
AAAGAAAATACAAGA
Found at i:6954 original size:17 final size:17
Alignment explanation
Indices: 6918--6950 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6908 AATCTGTATA
*
6918 ATTTAAATATTATCAAT
1 ATTTAAATATTATAAAT
6935 ATTTAAA-ATTATAAAT
1 ATTTAAATATTATAAAT
6951 TATTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAATATTATAAAT
Found at i:7380 original size:15 final size:15
Alignment explanation
Indices: 7345--7386 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
7335 CTAAAGCAGT
7345 CTAAACCCCAAA-TC
1 CTAAACCCCAAACTC
*
7359 TTAAACCCCAAACTC
1 CTAAACCCCAAACTC
*
7374 CTAAACCCTAAAC
1 CTAAACCCCAAAC
7387 CCAAAACACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (15 bp):
CTAAACCCCAAACTC
Found at i:7891 original size:115 final size:112
Alignment explanation
Indices: 7735--8283 Score: 351
Period size: 115 Copynumber: 4.8 Consensus size: 112
7725 TAAAGATCTT
* * *
7735 TTGCGGCGCTTATAAAAAAGTGCCGCTAATAATATGATTTAGCGGCGATTTCTTGTGAA-CGCCA
1 TTGCGGCGCTT-TAAGAAAGCGCCGCTAATAATAT-ATTTAGCGGCGTTTTCTTGT-AAGCGCCA
* * * * *
7799 CTAATTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGT-TAATATATC
63 CTAATTCTAATATACATCAAGA-CTAAACGCAGCGTTTCGGTGT-ACATACC
* ***
7850 TTGCGGCGCTTCTAAGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTCCAATAAGCGCCAC
1 TTGCGGCGCTT-TAAGAAAGCGCCGCTAATAATATA-TTTAGCGGCGTTTTCTTGTAAGCGCCAC
* * * * * *
7915 TAATTCTAATATACCTCAATACTAAACTCTGCGTTTTGGTGTGCATACC
64 TAATTCTAATATACATCAAGACTAAACGCAGCGTTTCGGTGTACATACC
* *
7964 TTGCGGCGC-TTAACTGAAAGCGCCGCTAATACTGATATTTAGCGGCGTTTTATTGTAAGCGCCA
1 TTGCGGCGCTTTAA--GAAAGCGCCGCTAATAAT-ATATTTAGCGGCGTTTTCTTGTAAGCGCCA
* * * ** * * * **
8028 CTAATTATATTATACATCAAGACCAAAACGTTGAGTTTTGGT-TA-AGAAA
63 CTAATTCTAATATACATCAAGA-CTAAACGCAGCGTTTCGGTGTACATACC
* * * * * *
8077 TATAGCAGCGCTTCTCCA-AACGCGCCGCTAATAGTACTCTTTAGCGGCGTTTT-TCCGTAAGCG
1 T-T-GCGGCGCTT-T-AAGAAAGCGCCGCTAATAATA-TATTTAGCGGCGTTTTCT-TGTAAGCG
* * * * * * * * *
8140 CCACTAATCCTAATATACCTCAAGACCAAACTCTGTGTTTTGGTGTGCATATC
60 CCACTAATTCTAATATACATCAAGACTAAACGCAGCGTTTCGGTGTACATACC
* * * ** **
8193 TTGCGGCGATTATAAAAAATCGCCGCTAATTTTATACTTTAGCGGCGTTTT-TAACTAA-CGCCA
1 TTGCGGCGCTT-TAAGAAAGCGCCGCTAATAATATA-TTTAGCGGCGTTTTCT-TGTAAGCGCCA
* * * *
8256 CTAATTGTATTATACATCGAGACCAAAC
63 CTAATTCTAATATACATCAAGACTAAAC
8284 CGCTCCGTTT
Statistics
Matches: 345, Mismatches: 71, Indels: 38
0.76 0.16 0.08
Matches are distributed among these distances:
112 3 0.01
113 34 0.10
114 148 0.43
115 154 0.45
116 4 0.01
117 1 0.00
118 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (112 bp):
TTGCGGCGCTTTAAGAAAGCGCCGCTAATAATATATTTAGCGGCGTTTTCTTGTAAGCGCCACTA
ATTCTAATATACATCAAGACTAAACGCAGCGTTTCGGTGTACATACC
Found at i:8121 original size:229 final size:228
Alignment explanation
Indices: 7869--8300 Score: 595
Period size: 229 Copynumber: 1.9 Consensus size: 228
7859 TTCTAAGAAA
*
7869 GCGCCGCTAATAGTATACTTTAGCGGCG-TTTTCCAATAAGCGCCACTAATTCTAATATACCTCA
1 GCGCCGCTAATAGTATACTTTAGCGGCGTTTTTCC-ATAAGCGCCACTAATCCTAATATACCTCA
* * * **
7933 ATACTAAACTCTGCGTTTTGGTGTGCATACCTTGCGGCGCTTA-ACTGAAAGCGCCGCTAATACT
65 AGACCAAACTCTGCGTTTTGGTGTGCATACCTTGCGGCGATTATA-AAAAAGCGCCGCTAAT-CT
** *
7997 GATA-TTTAGCGGCG-TTTTATTGTAAGCGCCACTAATTATATTATACATCAAGACCAAAACGTT
128 GATACTTTAGCGGCGTTTTTA-ACTAA-CGCCACTAATTATATTATACATCAAGACCAAAACGCT
*
8060 GAGTTTTGGTTAAGAAATATAGCAGCGCTTCTCCAAAC
191 CAGTTTTGGTTAAGAAATATAGCAGCGCTTCTCCAAAC
*
8098 GCGCCGCTAATAGTACT-CTTTAGCGGCGTTTTTCCGTAAGCGCCACTAATCCTAATATACCTCA
1 GCGCCGCTAATAGTA-TACTTTAGCGGCGTTTTTCCATAAGCGCCACTAATCCTAATATACCTCA
* * * * *
8162 AGACCAAACTCTGTGTTTTGGTGTGCATATCTTGCGGCGATTATAAAAAATCGCCGCTAATTTTA
65 AGACCAAACTCTGCGTTTTGGTGTGCATACCTTGCGGCGATTATAAAAAAGCGCCGCTAATCTGA
* * * *
8227 TACTTTAGCGGCGTTTTTAACTAACGCCACTAATTGTATTATACATCGAGACCAAACCGCTCCGT
130 TACTTTAGCGGCGTTTTTAACTAACGCCACTAATTATATTATACATCAAGACCAAAACGCTCAGT
8292 TTTGGTTAA
195 TTTGGTTAA
8301 CATTTTTTGC
Statistics
Matches: 178, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
228 48 0.27
229 117 0.66
230 13 0.07
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (228 bp):
GCGCCGCTAATAGTATACTTTAGCGGCGTTTTTCCATAAGCGCCACTAATCCTAATATACCTCAA
GACCAAACTCTGCGTTTTGGTGTGCATACCTTGCGGCGATTATAAAAAAGCGCCGCTAATCTGAT
ACTTTAGCGGCGTTTTTAACTAACGCCACTAATTATATTATACATCAAGACCAAAACGCTCAGTT
TTGGTTAAGAAATATAGCAGCGCTTCTCCAAAC
Found at i:8294 original size:114 final size:114
Alignment explanation
Indices: 7735--8297 Score: 443
Period size: 114 Copynumber: 4.9 Consensus size: 114
7725 TAAAGATCTT
* * *
7735 TTGCGGCGCTTATAAAAAAGTGCCGCTAATAATATGA-TTTAGCGGCGATTTCTT--GTGAA-CG
1 TTGCGGCGCTTATAAAAAAGCGCCGCTAATAGTAT-ACTTTAGCGGCG-TTT-TTAACT-AAGCG
* * ** * * **
7796 CCACTAATTCCAGTATACATCAAGATTTAAACGCAGCGTTTCGGT-TAATATATC
62 CCACTAATTCTAATATACATCAAGA-CCAAACGCTGCGTTTTGGTGT-GCATATC
* * *
7850 TTGCGGCGCTTCTAAGAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTCCAA-TAAGCGCCA
1 TTGCGGCGCTTATAAAAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTT-TAACTAAGCGCCA
* * * * *
7914 CTAATTCTAATATACCTCAATACTAAACTCTGCGTTTTGGTGTGCATACC
65 CTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTGTGCATATC
** * **
7964 TTGCGGCGCTTA-ACTGAAAGCGCCGCTAATACTGATA-TTTAGCGGCG-TTTTATTGTAAGCGC
1 TTGCGGCGCTTATA-AAAAAGCGCCGCTAATAGT-ATACTTTAGCGGCGTTTTTA-ACTAAGCGC
* * * * * *
8026 CACTAATTATATTATACATCAAGACCAAAACGTTGAGTTTTGGT-TAAG-AAATA
63 CACTAATTCTAATATACATCAAGACC-AAACGCTGCGTTTTGGTGT--GCATATC
* * * ** * *
8079 TAGCAGCGCTTCTCCAAACGCGCCGCTAATAGTACT-CTTTAGCGGCGTTTTT-CCGTAAGCGCC
1 TTGCGGCGCTTATAAAAAAGCGCCGCTAATAGTA-TACTTTAGCGGCGTTTTTAAC-TAAGCGCC
* * * *
8142 ACTAATCCTAATATACCTCAAGACCAAACTCTGTGTTTTGGTGTGCATATC
64 ACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTGTGCATATC
* * **
8193 TTGCGGCGATTATAAAAAATCGCCGCTAATTTTATACTTTAGCGGCGTTTTTAACTAA-CGCCAC
1 TTGCGGCGCTTATAAAAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTAACTAAGCGCCAC
* * * *
8257 TAATTGTATTATACATCGAGACCAAACCGCTCCGTTTTGGT
66 TAATTCTAATATACATCAAGACCAAA-CGCTGCGTTTTGGT
8298 TAACATTTTT
Statistics
Matches: 355, Mismatches: 70, Indels: 47
0.75 0.15 0.10
Matches are distributed among these distances:
112 1 0.00
113 34 0.10
114 164 0.46
115 151 0.43
116 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (114 bp):
TTGCGGCGCTTATAAAAAAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTAACTAAGCGCCAC
TAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGGTGTGCATATC
Found at i:8368 original size:75 final size:75
Alignment explanation
Indices: 8249--8410 Score: 207
Period size: 75 Copynumber: 2.2 Consensus size: 75
8239 GTTTTTAACT
* * * * *
8249 AACGCCACTAATTGTATTATACATCGAGACCAAACCGCTCCGTTTTGGTTAACATTTTTTGCGGC
1 AACGCCACTAATTCTAATATACATCAAGACCAAAACGCTCCGTTTTGGTTAACATATTTTGCGGC
*
8314 ACTTCTATTA
66 ACTTCTAGTA
* * * * *
8324 AGCGCCACTAATTCTAATATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGCGGC
1 AACGCCACTAATTCTAATATACATCAAGACCAAAACGCTCCGTTTTGGTTAACATATTTTGCGGC
*
8389 ACTTTTAGTA
66 ACTTCTAGTA
*
8399 AACGCCGCTAAT
1 AACGCCACTAAT
8411 ACTTGTTTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (75 bp):
AACGCCACTAATTCTAATATACATCAAGACCAAAACGCTCCGTTTTGGTTAACATATTTTGCGGC
ACTTCTAGTA
Found at i:8519 original size:112 final size:113
Alignment explanation
Indices: 8322--8594 Score: 282
Period size: 112 Copynumber: 2.4 Consensus size: 113
8312 GCACTTCTAT
* * ** * *
8322 TAAGCGCCACTAATTCTAATATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGCG
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTCGTTAACATATTTTGCG
** * * * * **
8387 GCACTTTTAGTAAACGCCGCTAATACTTGTTTTACTGGC-TTTTTTTG
66 GCACTTCCAGCAAACGCCGCTAATACTTGCTTTACGGGCGTTTTATCA
* *
8434 TAAGCGCCACTAATTCTAATATACATCGATACCAAAACGATGCGTTTTCGTTAAGAT-TTTTGCG
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTCGTTAACATATTTTGCG
* * * *
8498 GCGCTTCCCA-CAATGCGCCGCTATTACTTGCTTTAGGGGCGTTTTATCA
66 GCACTT-CCAGCAA-ACGCCGCTAATACTTGCTTTACGGGCGTTTTATCA
* * ** *
8547 TAATCGCCACTAATTATTGTATACATCAATACAAAAACGATGCGTTTT
1 TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTT
8595 GGTCTTGAGA
Statistics
Matches: 132, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
111 14 0.11
112 71 0.54
113 47 0.36
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (113 bp):
TAAGCGCCACTAATTCTAATATACATCAATACCAAAACGATGCGTTTTCGTTAACATATTTTGCG
GCACTTCCAGCAAACGCCGCTAATACTTGCTTTACGGGCGTTTTATCA
Found at i:8989 original size:30 final size:30
Alignment explanation
Indices: 8948--9006 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
8938 ACCCCTTATT
*
8948 CATCCTATCGATTGGTACGGATAAGAGATC
1 CATCCTATCGATTAGTACGGATAAGAGATC
*
8978 CATCCTGTCGATTAGTACGGATAAGAGAT
1 CATCCTATCGATTAGTACGGATAAGAGAT
9007 GTTACCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (30 bp):
CATCCTATCGATTAGTACGGATAAGAGATC
Found at i:16171 original size:43 final size:43
Alignment explanation
Indices: 15883--16168 Score: 301
Period size: 43 Copynumber: 6.7 Consensus size: 43
15873 TTTTAGAAAT
* * * * *
15883 AAACGCCGCTTAAGACCAAGACATTAAGCGGCG-CTTTCACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCCTTTC-CGAC
** ** *
15926 AAACGCCGCTAAAGGTCATGGTCTTTAGCGGCGCTTTTCCGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCCTTTCCGAC
* * * *
15969 AAACGCCACTAAAGACCATGACCTATAGCGGCGCATATCCGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCCTTTCCGAC
*
16012 AAATGCCGCTAAAGACCATGACCTTTAGCGGCG-CTTATCCGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCCTT-TCCGAC
* *
16055 AAACGCCGCTAAAGACAATGACCTTTAGCGGCG-CTTTCCAAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCCTTTCC-GAC
** * * *
16098 AAACGCCGCTAAAGACCCCGATCTTTAGTGGCGCCTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCCTTTCCGAC
*
16141 AAACGTCGC-AAATGACCATGACCTTTAG
1 AAACGCCGCTAAA-GACCATGACCTTTAG
16169 TGGAGTTTTT
Statistics
Matches: 202, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
42 7 0.03
43 185 0.92
44 10 0.05
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCCTTTCCGAC
Found at i:16548 original size:21 final size:21
Alignment explanation
Indices: 16500--16557 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
16490 TTATGCTATT
* * *
16500 CTACTTCCCTCGCTGTAGCCT
1 CTACTTCCCTCGCTGCAACCG
16521 CTACTTCCCTCGCTGCAACCG
1 CTACTTCCCTCGCTGCAACCG
* *
16542 CTGCTTCTCTCGCTGC
1 CTACTTCCCTCGCTGC
16558 CGCATCTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.09, C:0.45, G:0.16, T:0.31
Consensus pattern (21 bp):
CTACTTCCCTCGCTGCAACCG
Found at i:20751 original size:9 final size:9
Alignment explanation
Indices: 20734--21194 Score: 184
Period size: 9 Copynumber: 53.7 Consensus size: 9
20724 TATGTATTAA
*
20734 GTAAATTAT
1 GTAAGTTAT
20743 GTAAGTTAT
1 GTAAGTTAT
20752 GT-A-TTAT
1 GTAAGTTAT
*
20759 ATAAGTTAT
1 GTAAGTTAT
*
20768 TTAAGTTAT
1 GTAAGTTAT
20777 GT-A-TTAT
1 GTAAGTTAT
**
20784 GTAACCTAT
1 GTAAGTTAT
20793 GTAAGTTAT
1 GTAAGTTAT
20802 GTAAGTGT-T
1 GTAAGT-TAT
20811 GT-A-TTAT
1 GTAAGTTAT
**
20818 GTAAAGAAAAT
1 GT-AAG-TTAT
20829 -TAAGTTAT
1 GTAAGTTAT
* *
20837 GTAGGCTAT
1 GTAAGTTAT
20846 GT-A-TTAT
1 GTAAGTTAT
*
20853 GCAAGTTAT
1 GTAAGTTAT
* *
20862 TTAAGTTGT
1 GTAAGTTAT
20871 GTAAGTGT-T
1 GTAAGT-TAT
20880 GT-A-TTAT
1 GTAAGTTAT
**
20887 GTAAGACAAAT
1 GTAAG--TTAT
20898 -TAAGTTAT
1 GTAAGTTAT
20906 GT-AGTCTAT
1 GTAAGT-TAT
20915 GT-A-TTAT
1 GTAAGTTAT
*
20922 GCAAGTTAT
1 GTAAGTTAT
* *
20931 TTAAGTTGT
1 GTAAGTTAT
20940 GTAAGTGT-T
1 GTAAGT-TAT
*
20949 GTATTA-TGTAA
1 GTA--AGT-TAT
20960 GTAAGTTAT
1 GTAAGTTAT
20969 GT-A-TTAT
1 GTAAGTTAT
20976 GTAAGTTTTAT
1 GTAAG--TTAT
**
20987 GTAAAATAT
1 GTAAGTTAT
20996 GTAAG-T-T
1 GTAAGTTAT
**
21003 GTATTTTAT
1 GTAAGTTAT
*
21012 GAAAGTTAT
1 GTAAGTTAT
*
21021 ATAAGTTAT
1 GTAAGTTAT
* *
21030 GTAGGCTAT
1 GTAAGTTAT
*
21039 GT--TTTAT
1 GTAAGTTAT
*
21046 GCAAGTTAT
1 GTAAGTTAT
* * *
21055 TTAATTTCT
1 GTAAGTTAT
21064 GTAAGTGT-T
1 GTAAGT-TAT
21073 GT-A-TTAT
1 GTAAGTTAT
*
21080 ATAAGTTAT
1 GTAAGTTAT
21089 GT-A-TTAT
1 GTAAGTTAT
*
21096 GTAAGATAT
1 GTAAGTTAT
*
21105 GTAAGTTCT
1 GTAAGTTAT
*
21114 GT--TTTAT
1 GTAAGTTAT
21121 GTAAGTTAT
1 GTAAGTTAT
21130 GT-A-TTAT
1 GTAAGTTAT
*
21137 GTATGTTAT
1 GTAAGTTAT
*
21146 GTAAGTAAT
1 GTAAGTTAT
*
21155 G--ATTTAT
1 GTAAGTTAT
*
21162 GTAAGCTAT
1 GTAAGTTAT
21171 GTAAGTTAT
1 GTAAGTTAT
21180 GTAAGTTAT
1 GTAAGTTAT
*
21189 TTAAGT
1 GTAAGT
21195 GGTGTATTAA
Statistics
Matches: 333, Mismatches: 71, Indels: 96
0.67 0.14 0.19
Matches are distributed among these distances:
6 3 0.01
7 66 0.20
8 26 0.08
9 209 0.63
10 13 0.04
11 16 0.05
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:20757 original size:16 final size:16
Alignment explanation
Indices: 20723--21148 Score: 119
Period size: 16 Copynumber: 25.4 Consensus size: 16
20713 TGATATATAT
* *
20723 TTATGTATTAAGTAAA
1 TTATGTATTATGTAAG
20739 TTATGTAAGTTATGT-A-
1 TTATGT-A-TTATGTAAG
* *
20755 TTATATAAGTTATTTAAG
1 TTATGT-A-TTATGTAAG
*
20773 TTATGTATTATGTAAC
1 TTATGTATTATGTAAG
*
20789 CTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAG
20807 TGT-TGTATTATGTAAAG
1 T-TATGTATTATGT-AAG
** *
20824 AAAAT-TAAGTTATGTAGG
1 -TTATGT-A-TTATGTAAG
* *
20842 CTATGTATTATGCAAG
1 TTATGTATTATGTAAG
* *
20858 TTATTTAAGTTGTGTAAG
1 TTATGT-A-TTATGTAAG
20876 TGT-TGTATTATGTAAG
1 T-TATGTATTATGTAAG
**
20892 ACAAAT-TAAGTTATGT-AG
1 --TTATGT-A-TTATGTAAG
*
20910 TCTATGTATTATGCAAG
1 T-TATGTATTATGTAAG
* *
20927 TTATTTAAGTTGTGTAAG
1 TTATGT-A-TTATGTAAG
20945 TGT-TGTATTATGTAAGTAAG
1 T-TATGTATTA--T--GTAAG
20965 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
20981 TTTTATGTAAAATATGTAAG
1 --TTATGT--ATTATGTAAG
* * * *
21001 TTGTATTTTATGAAAG
1 TTATGTATTATGTAAG
* *
21017 TTATATAAGTTATGTAGG
1 TTATGT-A-TTATGTAAG
* * *
21035 CTATGTTTTATGCAAG
1 TTATGTATTATGTAAG
* *
21051 TTATTTAATTTCTGTAAG
1 TTATGT-A-TTATGTAAG
*
21069 TGT-TGTATTATATAAG
1 T-TATGTATTATGTAAG
21085 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
21099 --A-G-A-TATGTAAG
1 TTATGTATTATGTAAG
* *
21110 TTCTGTTTTATGTAAG
1 TTATGTATTATGTAAG
*
21126 TTATGTATTATGTATG
1 TTATGTATTATGTAAG
21142 TTATGTA
1 TTATGTA
21149 AGTAATGATT
Statistics
Matches: 300, Mismatches: 61, Indels: 98
0.65 0.13 0.21
Matches are distributed among these distances:
9 5 0.02
10 2 0.01
11 1 0.00
12 1 0.00
14 1 0.00
15 2 0.01
16 140 0.47
17 25 0.08
18 84 0.28
19 17 0.06
20 22 0.07
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:20883 original size:34 final size:34
Alignment explanation
Indices: 20748--20961 Score: 188
Period size: 34 Copynumber: 6.3 Consensus size: 34
20738 ATTATGTAAG
* *
20748 TTATGT-A-TTATATAAGTTATTTAAGT-TATGTA
1 TTATGTAAGTTATTTAAGTTATGTAAGTGT-TGTA
** *
20780 TTATGTAACCTATGTAAGTTATGTAAGTGTTGTA
1 TTATGTAAGTTATTTAAGTTATGTAAGTGTTGTA
** *
20814 TTATGTAAAGAAAATTAAGTTATGT-AG-GCTATGTA
1 TTATGT-AAGTTATTTAAGTTATGTAAGTG-T-TGTA
* *
20849 TTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTA
1 TTATGTAAGTTATTTAAGTTATGTAAGTGTTGTA
** * *
20883 TTATGTAAGACAAATTAAGTTATGT-AGTCTATGTA
1 TTATGTAAG-TTATTTAAGTTATGTAAGTGT-TGTA
* *
20918 TTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTA
1 TTATGTAAGTTATTTAAGTTATGTAAGTGTTGTA
20952 TTATGTAAGT
1 TTATGTAAGT
20962 AAGTTATGTA
Statistics
Matches: 145, Mismatches: 26, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
32 6 0.04
33 2 0.01
34 83 0.57
35 53 0.37
36 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (34 bp):
TTATGTAAGTTATTTAAGTTATGTAAGTGTTGTA
Found at i:20960 original size:69 final size:68
Alignment explanation
Indices: 20760--20960 Score: 305
Period size: 69 Copynumber: 2.9 Consensus size: 68
20750 ATGTATTATA
* * ** * *
20760 TAAGTTATTTAAGT-TATGTATTATGTAACCTATGTAAGTTATGTAAGTGTTGTATTATGTAAAG
1 TAAGTTATGT-AGTCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGT-AAG
20824 AAAAT
64 AAAAT
*
20829 TAAGTTATGTAGGCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAGAC
1 TAAGTTATGTAGTCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAGA-
20894 AAAT
65 AAAT
20898 TAAGTTATGTAGTCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAG
1 TAAGTTATGTAGTCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAG
20961 TAAGTTATGT
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
68 6 0.05
69 116 0.95
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.44
Consensus pattern (68 bp):
TAAGTTATGTAGTCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGTTGTATTATGTAAGAA
AAT
Found at i:21031 original size:34 final size:34
Alignment explanation
Indices: 20993--21069 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 34
20983 TTATGTAAAA
*
20993 TATGTAAGTTGTATTTTATGAAAGTTATATAAGT
1 TATGTAAGTTATATTTTATGAAAGTTATATAAGT
* * * * * *
21027 TATGTAGGCTATGTTTTATGCAAGTTATTTAATT
1 TATGTAAGTTATATTTTATGAAAGTTATATAAGT
*
21061 TCTGTAAGT
1 TATGTAAGT
21070 GTTGTATTAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.48
Consensus pattern (34 bp):
TATGTAAGTTATATTTTATGAAAGTTATATAAGT
Found at i:21109 original size:25 final size:26
Alignment explanation
Indices: 20723--21194 Score: 152
Period size: 25 Copynumber: 18.7 Consensus size: 26
20713 TGATATATAT
* *
20723 TTATGTA-TTAAGTAAATTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
* *
20748 TTATGTA-TTATATAAGTTATTTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
**
20773 TTATGTA-TTATGTAACCTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
20798 TTATGTAAGTGT-TGT-A-TTATGTAAAG
1 TTATGT-AGT-TATGTAAGTTATGT-AAG
** * *
20824 AAAAT-TAAGTTATGTAGGCTATGT-A-
1 -TTATGT-AGTTATGTAAGTTATGTAAG
* * *
20849 TTATGCAAGTTATTTAAGTTGTGTAAG
1 TTATG-TAGTTATGTAAGTTATGTAAG
**
20876 TGT-TGTA-TTATGTAAGACAAAT-TAAG
1 T-TATGTAGTTATGTAAG--TTATGTAAG
*
20902 TTATGTAGTCTATGT-A-TTATGCAAG
1 TTATGTAGT-TATGTAAGTTATGTAAG
* *
20927 TTATTTAAGTTGTGTAAGTGT-TGT-A-
1 TTATGT-AGTTATGTAAGT-TATGTAAG
20952 TTATGTA---A-GTAAGTTATGT-A-
1 TTATGTAGTTATGTAAGTTATGTAAG
**
20972 TTATGTAAGTTTTATGTAAAATATGTAAG
1 TTATGT-AG--TTATGTAAGTTATGTAAG
* * *
21001 -T-TGTATTTTATGAAAGTTATATAAG
1 TTATGTA-GTTATGTAAGTTATGTAAG
* * *
21026 TTATGTAGGCTATGT--TTTATGCAAG
1 TTATGTA-GTTATGTAAGTTATGTAAG
* * *
21051 TTATTTAATTTCTGTAAGTGT-TGT-A-
1 TTATGT-AGTTATGTAAGT-TATGTAAG
*
21076 TTATATAAGTTATGT-A-TTATGTAAG
1 TTATGT-AGTTATGTAAGTTATGTAAG
* * *
21101 ATATGTAAGTTCTGT--TTTATGTAAG
1 TTATGT-AGTTATGTAAGTTATGTAAG
*
21126 TTATGTA-TTATGTATGTTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
* * *
21151 TAATG-ATTTATGTAAGCTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
*
21176 TTATGTAAGTTATTTAAGT
1 TTATGT-AGTTATGTAAGT
21195 GGTGTATTAA
Statistics
Matches: 329, Mismatches: 69, Indels: 96
0.67 0.14 0.19
Matches are distributed among these distances:
19 1 0.00
20 16 0.05
21 1 0.00
22 1 0.00
23 9 0.03
24 9 0.03
25 194 0.59
26 35 0.11
27 47 0.14
28 16 0.05
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (26 bp):
TTATGTAGTTATGTAAGTTATGTAAG
Found at i:21126 original size:41 final size:40
Alignment explanation
Indices: 21063--21194 Score: 147
Period size: 41 Copynumber: 3.2 Consensus size: 40
21053 ATTTAATTTC
* * *
21063 TGTAAGTGTTGTATTATATAAGTTATGTATTATGTAAGATA
1 TGTAAGT-TTGTTTTATGTAAGTTATGTATTATGTAAGTTA
*
21104 TGTAAGTTCTGTTTTATGTAAGTTATGTATTATGTATGTTA
1 TGTAAGTT-TGTTTTATGTAAGTTATGTATTATGTAAGTTA
* * *
21145 TGTAAGTAATGATTTATGTAAGCTATGTAAGTTATGTAAGTTA
1 TGTAAGT-TTGTTTTATGTAAGTTATGT-A-TTATGTAAGTTA
*
21188 TTTAAGT
1 TGTAAGT
21195 GGTGTATTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.01
41 59 0.76
42 1 0.01
43 17 0.22
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.48
Consensus pattern (40 bp):
TGTAAGTTTGTTTTATGTAAGTTATGTATTATGTAAGTTA
Found at i:21226 original size:21 final size:21
Alignment explanation
Indices: 21131--21287 Score: 103
Period size: 21 Copynumber: 7.4 Consensus size: 21
21121 GTAAGTTATG
*
21131 TATTATGTATGTTATGTAAGT
1 TATTATGTAAGTTATGTAAGT
*
21152 AATGATTTATGTAAGCTATGTAAG-
1 --T-A-TTATGTAAGTTATGTAAGT
*
21176 --TTATGTAAGTTATTTAAGT
1 TATTATGTAAGTTATGTAAGT
** *
21195 GGTGTAT-TAAGTTATGGAAGT
1 TAT-TATGTAAGTTATGTAAGT
*
21216 TATTATGTAAGTTATGCAAGCT
1 TATTATGTAAGTTATGTAAG-T
*
21238 TA-TATATAAGTTATGTATTATGT
1 TATTATGTAAGTTATGTA--A-GT
*
21261 TATTATGT-A-TTATGTAATT
1 TATTATGTAAGTTATGTAAGT
21280 TATTATGT
1 TATTATGT
21288 TATTATANNN
Statistics
Matches: 109, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
18 16 0.15
19 9 0.08
20 4 0.04
21 39 0.36
22 13 0.12
23 6 0.06
24 6 0.06
25 16 0.15
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (21 bp):
TATTATGTAAGTTATGTAAGT
Found at i:21266 original size:8 final size:7
Alignment explanation
Indices: 21248--21293 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
21238 TATATATAAG
21248 TTATGTA
1 TTATGTA
21255 TTATGTTA
1 TTATG-TA
21263 TTATGTA
1 TTATGTA
21270 TTATGTA
1 TTATGTA
*
21277 --ATTTA
1 TTATGTA
21282 TTATGTTA
1 TTATG-TA
21290 TTAT
1 TTAT
21294 ANNNNNNNNN
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:21268 original size:15 final size:15
Alignment explanation
Indices: 21248--21293 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
21238 TATATATAAG
21248 TTATGTATTATGTTA
1 TTATGTATTATGTTA
21263 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
21277 --ATTTATTATGTTA
1 TTATGTATTATGTTA
21290 TTAT
1 TTAT
21294 ANNNNNNNNN
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:24537 original size:28 final size:26
Alignment explanation
Indices: 24471--24537 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 26
24461 TTAATCCCCA
*
24471 AAATATATATATTAATACGTTAAATT
1 AAATATTTATATTAATACGTTAAATT
*
24497 AAATTTTAATATATTAATACGTTAAATT
1 AAATATT--TATATTAATACGTTAAATT
24525 ATATATATTTATA
1 A-A-ATATTTATA
24538 CGTTAAGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.15
28 24 0.71
29 1 0.03
30 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (26 bp):
AAATATTTATATTAATACGTTAAATT
Found at i:24601 original size:118 final size:118
Alignment explanation
Indices: 24471--25039 Score: 1084
Period size: 118 Copynumber: 4.8 Consensus size: 118
24461 TTAATCCCCA
* * *
24471 AAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
1 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
24536 TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
66 TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
24589 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
1 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
24654 TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
66 TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
24707 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
1 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
24772 TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
66 TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
24825 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
1 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
24890 TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
66 TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
**
24943 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATCAA
1 AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
*
25008 TACGTTAAGTAACTACCCAAATTAAGACTAAT
66 TACGTTAAGTAACTACCGAAATTAAGACTAAT
25040 TCGAACATTT
Statistics
Matches: 445, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 445 1.00
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (118 bp):
AAATATACATATTACTACATTAAATTAAATTTTAATATATTAATACGTTAAATTATATATATTTA
TACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGCTTATATATT
Found at i:24651 original size:22 final size:23
Alignment explanation
Indices: 24613--24661 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
24603 CTACATTAAA
*
24613 TTAAATTTTAATATATTAATACG
1 TTAAATTATAATATATTAATACG
*
24636 TTAAATTAT-ATATATTTATACG
1 TTAAATTATAATATATTAATACG
24658 TTAA
1 TTAA
24662 GTAACTACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAAATTATAATATATTAATACG
Found at i:24769 original size:22 final size:23
Alignment explanation
Indices: 24731--24779 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
24721 CTACATTAAA
*
24731 TTAAATTTTAATATATTAATACG
1 TTAAATTATAATATATTAATACG
*
24754 TTAAATTAT-ATATATTTATACG
1 TTAAATTATAATATATTAATACG
24776 TTAA
1 TTAA
24780 GTAACTACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAAATTATAATATATTAATACG
Found at i:24887 original size:22 final size:23
Alignment explanation
Indices: 24849--24897 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
24839 CTACATTAAA
*
24849 TTAAATTTTAATATATTAATACG
1 TTAAATTATAATATATTAATACG
*
24872 TTAAATTAT-ATATATTTATACG
1 TTAAATTATAATATATTAATACG
24894 TTAA
1 TTAA
24898 GTAACTACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAAATTATAATATATTAATACG
Found at i:25009 original size:22 final size:23
Alignment explanation
Indices: 24967--25015 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
24957 CTACATTAAA
* *
24967 TTAAATTTTAATATATTAATACG
1 TTAAATTATAATATATCAATACG
24990 TTAAATTAT-ATATATCAATACG
1 TTAAATTATAATATATCAATACG
25012 TTAA
1 TTAA
25016 GTAACTACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAAATTATAATATATCAATACG
Found at i:26597 original size:83 final size:82
Alignment explanation
Indices: 26454--26698 Score: 298
Period size: 83 Copynumber: 2.9 Consensus size: 82
26444 TTATGAAGTT
*
26454 CAGAAACGGCGCCGCATTGGGAAAGTTTATATATAAATCATTGCGGCGTTTT-CTTAAAAAACGC
1 CAGAAACGGCGCCGTATTGGGAAA-TTTA-AT-T-AATCATTGCGGCGTTTTCCTT-AAAAACGC
** *
26518 CACTATTCAATTATTTTCCAATA
61 CACTATAAAATT-TTTTCCAACA
26541 CAGAAACGGCGCCGTATTGGGAAATTTAATTAATCATTGCGGCGTTTTCCTTAAAAACGCCACTA
1 CAGAAACGGCGCCGTATTGGGAAATTTAATTAATCATTGCGGCGTTTTCCTTAAAAACGCCACTA
26606 TAAAATTTTTTCCAACA
66 TAAAATTTTTTCCAACA
* * * * *
26623 CTGAAACGGCGCCGCT-TTGGGAAAAGTTAATCAATCATTGCGGC-TTTTCCCCTAAAAATGCCA
1 CAGAAACGGCGCCG-TATTGGG-AAATTTAATTAATCATTGCGGCGTTTT-CCTTAAAAACGCCA
*
26686 CTATCAAATTTTT
63 CTATAAAATTTTT
26699 ATTACTATTA
Statistics
Matches: 144, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
82 31 0.22
83 80 0.56
84 4 0.03
85 2 0.01
86 4 0.03
87 23 0.16
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (82 bp):
CAGAAACGGCGCCGTATTGGGAAATTTAATTAATCATTGCGGCGTTTTCCTTAAAAACGCCACTA
TAAAATTTTTTCCAACA
Found at i:28031 original size:114 final size:113
Alignment explanation
Indices: 27831--28192 Score: 591
Period size: 114 Copynumber: 3.2 Consensus size: 113
27821 ATATAATGCA
* *
27831 TGGTTAAGATATTTTACGGCGCTTTTCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTC
1 TGGTTAAGATATTTTGCGGCACTTTTCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCGTTTT-
27896 CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTACGTTT
65 CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTACGTTT
27945 TGGTTAAGATATTTTGCGGCACTTTTCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCGTTTCT
1 TGGTTAAGATATTTTGCGGCACTTTTCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCGTTT-T
* * *
28010 CCTTAAGCGCCACTAATTCTAATATATCTCAAGACCAAATGCTACGTTT
65 CCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTACGTTT
** * *
28059 TGGTTAAGATATTTTGCAACGA-TTTCCACAAAACGCCGCTAATACTGTGCTTTAGCGGCGTTTT
1 TGGTTAAGATATTTTGCGGC-ACTTTTCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCG-TTT
*
28123 TCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTT
64 TCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTACGTTT
28173 TGGTTAAGATATTTTGCGGC
1 TGGTTAAGATATTTTGCGGC
28193 GCTCTGTGCT
Statistics
Matches: 230, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
114 225 0.98
115 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (113 bp):
TGGTTAAGATATTTTGCGGCACTTTTCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTC
CATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTACGTTT
Found at i:28262 original size:93 final size:93
Alignment explanation
Indices: 28103--28286 Score: 323
Period size: 93 Copynumber: 2.0 Consensus size: 93
28093 GCCGCTAATA
* * *
28103 CTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTG
1 CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTG
*
28168 CGTTTTGGTTAAGATATTTTGCGGCGCT
66 CGTTTTGGTTAAGATATTTTACGGCGCT
28196 CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTG
1 CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTG
*
28261 CGTTTTTGTTAAGATATTTTACGGCG
66 CGTTTTGGTTAAGATATTTTACGGCG
28287 ATTTCCACAA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (93 bp):
CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTG
CGTTTTGGTTAAGATATTTTACGGCGCT
Found at i:28344 original size:207 final size:207
Alignment explanation
Indices: 27989--28400 Score: 700
Period size: 207 Copynumber: 2.0 Consensus size: 207
27979 GCCGCTAATA
* * * *
27989 CTGTGCTTTAGCGGCGTTTCTCCTTAAGCGCCACTAATTCTAATATATCTCAAGACCAAATGCTA
1 CTGTGCTTTAGCGGCGTTTCTCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTA
*
28054 CGTTTTGGTTAAGATATTTTGCAACGATTTCCACAAAACGCCGCTAATACTGTGCTTTAGCGGCG
66 CGTTTTGGTTAAGATATTTTACAACGATTTCCACAAAACGCCGCTAATACTGTGCTTTAGCGGCG
*
28119 TTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATA
131 TTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCATTTTGGTTAAGATA
28184 TTTTGCGGCGCT
196 TTTTGCGGCGCT
28196 CTGTGCTTTAGCGGCGTTGTC-CCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCT
1 CTGTGCTTTAGCGGCGTT-TCTCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCT
* * ** *
28260 GCGTTTTTGTTAAGATATTTTACGGCGATTTCCACAAAGCGCCGCTAATACTGTGCTTTAGCGGC
65 ACGTTTTGGTTAAGATATTTTACAACGATTTCCACAAAACGCCGCTAATACTGTGCTTTAGCGGC
*
28325 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGTTGCATTTTGGTTAAGAT
130 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCATTTTGGTTAAGAT
28390 ATTTTGCGGCG
195 ATTTTGCGGCG
28401 ATTTCAACAA
Statistics
Matches: 192, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
207 190 0.99
208 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (207 bp):
CTGTGCTTTAGCGGCGTTTCTCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTA
CGTTTTGGTTAAGATATTTTACAACGATTTCCACAAAACGCCGCTAATACTGTGCTTTAGCGGCG
TTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCATTTTGGTTAAGATA
TTTTGCGGCGCT
Found at i:28400 original size:114 final size:114
Alignment explanation
Indices: 28196--28628 Score: 695
Period size: 114 Copynumber: 3.8 Consensus size: 114
28186 TTGCGGCGCT
* *
28196 CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTG
1 CTGTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTG
* * *
28261 CGTTTTTGTTAAGATATTTTACGGCGATTTCCACAAAGCGCCGCTAATA
66 CATTTTGGTTAAGATATTTTGCGGCGATTTCCACAAAGCGCCGCTAATA
* *
28310 CTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGTTG
1 CTGTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTG
*
28375 CATTTTGGTTAAGATATTTTGCGGCGATTTCAACAAAGCGCCGCTAATA
66 CATTTTGGTTAAGATATTTTGCGGCGATTTCCACAAAGCGCCGCTAATA
* * * *
28424 CTGTGCTTTAGCGGCGTTTTTCCTTAAGCGCCACTAATTCTAATATACCTCAAAACTAAACGCTG
1 CTGTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTG
* * * *
28489 CATTTTGGTTAAGATATTTTGCGACGCTTTTCACAAAGCGCCACTAATA
66 CATTTTGGTTAAGATATTTTGCGGCGATTTCCACAAAGCGCCGCTAATA
* *
28538 CTGTGCTTTAGCGGCGTTTTCCCATAAGCACCACTAATTCTAATATGCCTCAAGACCAAACGCTG
1 CTGTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTG
*
28603 CGTTTTGGTTAAGATATTTTGCGGCG
66 CATTTTGGTTAAGATATTTTGCGGCG
28629 CTTGAGAGTA
Statistics
Matches: 294, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 294 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (114 bp):
CTGTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTG
CATTTTGGTTAAGATATTTTGCGGCGATTTCCACAAAGCGCCGCTAATA
Found at i:28457 original size:321 final size:321
Alignment explanation
Indices: 27875--28516 Score: 1070
Period size: 321 Copynumber: 2.0 Consensus size: 321
27865 GCCGCTAATA
* *
27875 CTGTGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTA
1 CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTA
* *
27940 CGTTTTGGTTAAGATATTTTGCGGCACTTTTCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCG
66 CGTTTTGGTTAAGATATTTTACGGCACTTTCCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCG
* * * *
28005 TTTCTCCTTAAGCGCCACTAATTCTAATATATCTCAAGACCAAATGCTACGTTTTGGTTAAGATA
131 TTTCTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTACATTTTGGTTAAGATA
*
28070 TTTTGCAACGATTTCCACAAAACGCCGCTAATACTGTGCTTTAGCGGCGTTTTTCCATAAGCGCC
196 TTTTGCAACGATTTCAACAAAACGCCGCTAATACTGTGCTTTAGCGGCGTTTTTCCATAAGCGCC
* * *
28135 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCT
261 ACTAATTCTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGATATTTTGCGACGCT
*
28196 CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTG
1 CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTA
*
28261 CGTTTTTGTTAAGATATTTTACGGCGA-TTTCCACAAAGCGCCGCTAATACTGTGCTTTAGCGGC
66 CGTTTTGGTTAAGATATTTTACGGC-ACTTTCCACAAAGCGCCGCTAATACTGTGCTTTAGCGGC
* * *
28325 GTTTTTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGTTGCATTTTGGTTAAGAT
130 GTTTCTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTACATTTTGGTTAAGAT
** * *
28390 ATTTTGCGGCGATTTCAACAAAGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTCCTTAAGCGC
195 ATTTTGCAACGATTTCAACAAAACGCCGCTAATACTGTGCTTTAGCGGCGTTTTTCCATAAGCGC
*
28455 CACTAATTCTAATATACCTCAAAACTAAACGCTGCATTTTGGTTAAGATATTTTGCGACGCT
260 CACTAATTCTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGATATTTTGCGACGCT
28517 TTTCACAAAG
Statistics
Matches: 298, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
321 297 1.00
322 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (321 bp):
CTGTGCTTTAGCGGCGTTGTCCCATAAGCGCCACTAATTATAATATACCTCAAGACCAAACGCTA
CGTTTTGGTTAAGATATTTTACGGCACTTTCCACAAAGCGCCGCTAATACTGTGCTTTAGCGGCG
TTTCTCCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTACATTTTGGTTAAGATA
TTTTGCAACGATTTCAACAAAACGCCGCTAATACTGTGCTTTAGCGGCGTTTTTCCATAAGCGCC
ACTAATTCTAATATACCTCAAAACCAAACGCTGCATTTTGGTTAAGATATTTTGCGACGCT
Found at i:31308 original size:15 final size:15
Alignment explanation
Indices: 31288--31317 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31278 GGCAAACCAC
31288 ACTCGAACACTTTGT
1 ACTCGAACACTTTGT
*
31303 ACTCGATCACTTTGT
1 ACTCGAACACTTTGT
31318 GCAATCTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (15 bp):
ACTCGAACACTTTGT
Found at i:31533 original size:16 final size:16
Alignment explanation
Indices: 31512--31554 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
31502 AGTATAAATT
31512 CTTCACTTAACACTTA
1 CTTCACTTAACACTTA
* *
31528 CTTCACTTAGCACTTT
1 CTTCACTTAACACTTA
*
31544 CTTCAATTAAC
1 CTTCACTTAAC
31555 CTTTGCTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (16 bp):
CTTCACTTAACACTTA
Found at i:31665 original size:21 final size:22
Alignment explanation
Indices: 31611--31665 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
31601 TACGCAGAAC
*
31611 AACATGAACACAAAAGTGCTAG
1 AACATGAGCACAAAAGTGCTAG
*
31633 AA-ATTCGAGCACATAAGTGCTA-
1 AACA-T-GAGCACAAAAGTGCTAG
31655 AACATGAGCAC
1 AACATGAGCAC
31666 GATAGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
21 7 0.25
22 6 0.21
23 15 0.54
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.16
Consensus pattern (22 bp):
AACATGAGCACAAAAGTGCTAG
Found at i:32410 original size:26 final size:28
Alignment explanation
Indices: 32357--32414 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
32347 TTTGGGTAGA
**
32357 TTTCACTCCCTTTGCTTCACTTTTTTTCC
1 TTTCACTCCCTTTGC-TCACTTCCTTTCC
32386 TTTCAC-CCCTTTGC-CACTTCCTTTCC
1 TTTCACTCCCTTTGCTCACTTCCTTTCC
32412 TTT
1 TTT
32415 GTTTACAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 13 0.48
28 8 0.30
29 6 0.22
ACGTcount: A:0.07, C:0.38, G:0.03, T:0.52
Consensus pattern (28 bp):
TTTCACTCCCTTTGCTCACTTCCTTTCC
Found at i:47324 original size:15 final size:14
Alignment explanation
Indices: 47304--47334 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
47294 TTCAATTTGA
47304 AATAATATATAACAT
1 AATAATATA-AACAT
47319 AATAATATAAACAT
1 AATAATATAAACAT
47333 AA
1 AA
47335 ATGAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATATAAACAT
Found at i:49920 original size:13 final size:13
Alignment explanation
Indices: 49902--49980 Score: 68
Period size: 13 Copynumber: 5.6 Consensus size: 13
49892 AAGTAATCGT
49902 AAATGGGAATGGG
1 AAATGGGAATGGG
*
49915 AAATGGGAATGAG
1 AAATGGGAATGGG
*
49928 AAATGGGAGGAGGGG
1 AAATGGGA--ATGGG
* *
49943 AATCGATGGAAGAGGGG
1 AA---ATGGGA-ATGGG
49960 AAATGGGAATGGG
1 AAATGGGAATGGG
49973 AAATGGGA
1 AAATGGGA
49981 GGAGGGCACG
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
13 32 0.58
14 5 0.09
15 5 0.09
17 8 0.15
18 5 0.09
ACGTcount: A:0.39, C:0.01, G:0.47, T:0.13
Consensus pattern (13 bp):
AAATGGGAATGGG
Found at i:49963 original size:45 final size:43
Alignment explanation
Indices: 49912--50004 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 43
49902 AAATGGGAAT
49912 GGGAAATGGGAATGAGAAATGGGAGGAGGGGAATCGATGGAAGAG
1 GGGAAATGGGAATGAGAAATGGGAGGA-GGGAA-CGATGGAAGAG
* * *
49957 GGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAAGAG
1 GGGAAATGGGAATGAGAAATGGGAGGAGGGAACGATGGAAGAG
50000 GGGAA
1 GGGAA
50005 TCGATGGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 15 0.33
44 4 0.09
45 26 0.58
ACGTcount: A:0.35, C:0.03, G:0.52, T:0.10
Consensus pattern (43 bp):
GGGAAATGGGAATGAGAAATGGGAGGAGGGAACGATGGAAGAG
Found at i:50085 original size:30 final size:30
Alignment explanation
Indices: 50051--50130 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
50041 ATTGTATTTG
50051 TGTATTTTAAAAATAAAAAAATATATGTAA
1 TGTATTTTAAAAATAAAAAAATATATGTAA
* *
50081 TGTATTTTAAAAATAAAGAAATATATGTAG
1 TGTATTTTAAAAATAAAAAAATATATGTAA
50111 TGTATTTTAAAAATAAAAAA
1 TGTATTTTAAAAATAAAAAA
50131 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (30 bp):
TGTATTTTAAAAATAAAAAAATATATGTAA
Found at i:51119 original size:21 final size:21
Alignment explanation
Indices: 51095--51146 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
51085 CATTGTTTCT
*
51095 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
51116 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
51137 AATCTCACCG
1 AATCTCACCG
51147 TCACCGCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.38, G:0.10, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:54623 original size:97 final size:98
Alignment explanation
Indices: 54446--54644 Score: 384
Period size: 97 Copynumber: 2.1 Consensus size: 98
54436 TCGGAAAAGC
54446 ATTTTTATATAATTTTTAATATTTATTTTATAATATTGAAATTCCACCAATTATGGATGGACACG
1 ATTTTTATATAATTTTTAATATTTATTTTATAATATTGAAATTCCACCAATTATGGATGGACACG
54511 TATCTATGTTTCCTTAAAAGTTATATTTCCCTT
66 TATCTATGTTTCCTTAAAAGTTATATTTCCCTT
54544 ATTTTTATAT-ATTTTTAATATTTATTTTATAATATTGAAATTCCACCAATTATGGATGGACACG
1 ATTTTTATATAATTTTTAATATTTATTTTATAATATTGAAATTCCACCAATTATGGATGGACACG
54608 TATCTATGTTTCCTTAAAAGTTATATTTCCCTT
66 TATCTATGTTTCCTTAAAAGTTATATTTCCCTT
54641 -TTTT
1 ATTTT
54645 AACCACATTA
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
96 4 0.04
97 87 0.86
98 10 0.10
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (98 bp):
ATTTTTATATAATTTTTAATATTTATTTTATAATATTGAAATTCCACCAATTATGGATGGACACG
TATCTATGTTTCCTTAAAAGTTATATTTCCCTT
Found at i:60102 original size:21 final size:21
Alignment explanation
Indices: 60077--60117 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60067 TTATACCGTG
*
60077 TTTTAGGTTTCGTTATATATT
1 TTTTAGATTTCGTTATATATT
*
60098 TTTTAGATTTTGTTATATAT
1 TTTTAGATTTCGTTATATAT
60118 ATGCATACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (21 bp):
TTTTAGATTTCGTTATATATT
Found at i:60584 original size:21 final size:21
Alignment explanation
Indices: 60559--60599 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60549 TTATACCGTG
*
60559 TTTTAGGTTTCGTTATATATT
1 TTTTAGATTTCGTTATATATT
*
60580 TTTTAGATTTTGTTATATAT
1 TTTTAGATTTCGTTATATAT
60600 ATGCATACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (21 bp):
TTTTAGATTTCGTTATATATT
Found at i:65502 original size:3 final size:3
Alignment explanation
Indices: 65494--65573 Score: 65
Period size: 3 Copynumber: 25.7 Consensus size: 3
65484 TTTAGTCCCG
* * *
65494 TTA TTA TTA TTA TTA TTA -AA CTAA TCA GTT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA
*
65539 TTA TTA TTA TTGCA TTTA TTA TTA TAA TTA TTA TT
1 TTA TTA TTA TT--A -TTA TTA TTA TTA TTA TTA TT
65574 TACCCATTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 3 0.05
3 55 0.85
4 4 0.06
5 1 0.02
6 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:65581 original size:27 final size:27
Alignment explanation
Indices: 65527--65584 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65517 ATCAGTTTTA
* **
65527 TTATTATTATTATTATTATTATTGCAT
1 TTATTATTATAATTATTATTATCCCAT
65554 TTATTATTATAATTATTATT-TACCCAT
1 TTATTATTATAATTATTATTAT-CCCAT
65581 TTAT
1 TTAT
65585 ACCGTGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTATTATAATTATTATTATCCCAT
Found at i:65616 original size:21 final size:21
Alignment explanation
Indices: 65591--65631 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65581 TTATACCGTG
*
65591 TTTTAGGTTTCGTTATATATT
1 TTTTAGATTTCGTTATATATT
*
65612 TTTTAGATTTTGTTATATAT
1 TTTTAGATTTCGTTATATAT
65632 ATGCATACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.63
Consensus pattern (21 bp):
TTTTAGATTTCGTTATATATT
Found at i:67509 original size:4 final size:4
Alignment explanation
Indices: 67500--67532 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
67490 NNNNNNNNNN
67500 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
67533 GTGTTCGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:71313 original size:2 final size:2
Alignment explanation
Indices: 71306--71336 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
71296 ACTGAACTTA
*
71306 AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
71337 TATCATGCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:112233 original size:12 final size:12
Alignment explanation
Indices: 112216--112248 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
112206 GAGGACGTGC
112216 AGTTACAATTAT
1 AGTTACAATTAT
112228 AGTTACAATTAT
1 AGTTACAATTAT
*
112240 AGTTTCAAT
1 AGTTACAAT
112249 GGACACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (12 bp):
AGTTACAATTAT
Found at i:113219 original size:59 final size:59
Alignment explanation
Indices: 113117--113243 Score: 182
Period size: 59 Copynumber: 2.2 Consensus size: 59
113107 TGCATTGATT
* * * * * *
113117 TTTTTAATATATTTGTACAAATTGTTTTTATATTATTTTATTTAATAAAATAGAAGTTG
1 TTTTGAATATATTTGTACAAATTATTTTTATATTATGTCATTTAATAAAATAGAAATTC
* *
113176 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTGTCATTTAATAAAATAGAAATTC
1 TTTTGAATATATTTGTACAAATTATTTTTATATTATGTCATTTAATAAAATAGAAATTC
113235 TTTTGAATA
1 TTTTGAATA
113244 AAACGATACA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (59 bp):
TTTTGAATATATTTGTACAAATTATTTTTATATTATGTCATTTAATAAAATAGAAATTC
Found at i:113254 original size:59 final size:59
Alignment explanation
Indices: 113131--113287 Score: 183
Period size: 59 Copynumber: 2.7 Consensus size: 59
113121 TAATATATTT
* * * * ****
113131 GTACAAATTGTTTTTATATTATTTTATTTAATAAAATAGAAGTTGTTTTGAATATTTTT
1 GTACAAATTATTTTTATATTGTTTTATTTAATAAAATAGAAATTCTTTTGAATATAAAC
* *
113190 GTACAAATTATTTTTATATTGTGTCATTTAATAAAATAGAAATTCTTTTGAATA-AAAC
1 GTACAAATTATTTTTATATTGTTTTATTTAATAAAATAGAAATTCTTTTGAATATAAAC
*
113248 GATACAAATTATTTTT-TCATAGTTTTATTTAATAAAATAG
1 G-TACAAATTATTTTTAT-ATTGTTTTATTTAATAAAATAG
113288 GAACTATTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 2 0.02
59 81 0.98
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.48
Consensus pattern (59 bp):
GTACAAATTATTTTTATATTGTTTTATTTAATAAAATAGAAATTCTTTTGAATATAAAC
Found at i:116229 original size:25 final size:25
Alignment explanation
Indices: 116201--116266 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
116191 ATACCTTCTC
116201 AACTTCTTCAATTTCTATTCTTTTG
1 AACTTCTTCAATTTCTATTCTTTTG
116226 AACTTCTTCAATTTCTATTCTTTTG
1 AACTTCTTCAATTTCTATTCTTTTG
* *
116251 AACTTATTCAAATTCT
1 AACTTCTTCAATTTCT
116267 CTAACTGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.03, T:0.53
Consensus pattern (25 bp):
AACTTCTTCAATTTCTATTCTTTTG
Found at i:116706 original size:28 final size:29
Alignment explanation
Indices: 116674--116744 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
116664 TACTTACCAA
116674 TTAAAAAACCCTAAACCCTAATTTA-TTT
1 TTAAAAAACCCTAAACCCTAATTTATTTT
*
116702 TTAAAAAACCATAAACCCTAATTTATTTT
1 TTAAAAAACCCTAAACCCTAATTTATTTT
*
116731 TTCAAAAACCCTAA
1 TTAAAAAACCCTAA
116745 CCGTAAACCC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 24 0.62
29 15 0.38
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (29 bp):
TTAAAAAACCCTAAACCCTAATTTATTTT
Found at i:128423 original size:18 final size:18
Alignment explanation
Indices: 128400--128434 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
128390 TTAAGGTATA
128400 AATTAAATT-TGAAAATTG
1 AATT-AATTATGAAAATTG
128418 AATTAATTATGAAAATT
1 AATTAATTATGAAAATT
128435 TTGTAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (18 bp):
AATTAATTATGAAAATTG
Found at i:128954 original size:249 final size:250
Alignment explanation
Indices: 128505--129005 Score: 995
Period size: 249 Copynumber: 2.0 Consensus size: 250
128495 AATATATTTA
128505 TATGTATATTGAATATTAATATATAAAAATAAATTAAAAAGTATTTTATTACCTTTGTCTTGCAT
1 TATGTATATTGAATATTAATATATAAAAATAAATTAAAAAGTATTTTATTACCTTTGTCTTGCAT
128570 TGTCTGTATCCTCAATTTATAAAAATATAAAAATCCTTTTGTACGTGTATTACGTGCCTATGCTT
66 TGTCTGTATCCTCAATTTATAAAAATATAAAAATCCTTTTGTACGTGTATTACGTGCCTATGCTT
128635 CATAGTGTTACATCGATAATTTTATATATATAATTACACGTTTATTTATAATTTTAAGCTTTATT
131 CATAGTGTTACATCGATAATTTTATATATATAATTACACGTTTATTTATAATTTTAAGCTTTATT
128700 TCAATTATAAATTATTAAACTTATATAGGTTCGTTTTCCTGTCTTTCATTTGGTT
196 TCAATTATAAATTATTAAACTTATATAGGTTCGTTTTCCTGTCTTTCATTTGGTT
128755 TATGTATATT-AATATTAATATATAAAAATAAATTAAAAAGTATTTTATTACCTTTGTCTTGCAT
1 TATGTATATTGAATATTAATATATAAAAATAAATTAAAAAGTATTTTATTACCTTTGTCTTGCAT
128819 TGTCTGTATCCTCAATTTATAAAAATATAAAAATCCTTTTGTACGTGTATTACGTGCCTATGCTT
66 TGTCTGTATCCTCAATTTATAAAAATATAAAAATCCTTTTGTACGTGTATTACGTGCCTATGCTT
128884 CATAGTGTTACATCGATAATTTTATATATATAATTACACGTTTATTTATAATTTTAAGCTTTATT
131 CATAGTGTTACATCGATAATTTTATATATATAATTACACGTTTATTTATAATTTTAAGCTTTATT
128949 TCAATTATAAATTATTAAACTTATATAGGTTCGTTTTCCTGTCTTTCATTTGGTT
196 TCAATTATAAATTATTAAACTTATATAGGTTCGTTTTCCTGTCTTTCATTTGGTT
129004 TA
1 TA
129006 ATTATATGCA
Statistics
Matches: 251, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
249 241 0.96
250 10 0.04
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (250 bp):
TATGTATATTGAATATTAATATATAAAAATAAATTAAAAAGTATTTTATTACCTTTGTCTTGCAT
TGTCTGTATCCTCAATTTATAAAAATATAAAAATCCTTTTGTACGTGTATTACGTGCCTATGCTT
CATAGTGTTACATCGATAATTTTATATATATAATTACACGTTTATTTATAATTTTAAGCTTTATT
TCAATTATAAATTATTAAACTTATATAGGTTCGTTTTCCTGTCTTTCATTTGGTT
Found at i:130247 original size:22 final size:21
Alignment explanation
Indices: 130205--130254 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
130195 AAAAAAAAAA
*
130205 TTTTTAAAATTTTATTGTAAT
1 TTTTTAAAATTATATTGTAAT
130226 TTTTCTAAAATATATATT-TAAT
1 TTTT-TAAAAT-TATATTGTAAT
130248 TTTTTAA
1 TTTTTAA
130255 TCTTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 14 0.54
23 5 0.19
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTAAAATTATATTGTAAT
Found at i:141480 original size:20 final size:21
Alignment explanation
Indices: 141441--141494 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
141431 GGTGGATGCC
*
141441 ATTAGT-TTAATTAAGGCATG
1 ATTAGTGTTAATTAAGACATG
141461 ATTAGTGTTAATTAA-ACATG
1 ATTAGTGTTAATTAAGACATG
* *
141481 GTTA-AGTTAATTAA
1 ATTAGTGTTAATTAA
141495 TTAAGATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 13 0.43
21 8 0.27
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.41
Consensus pattern (21 bp):
ATTAGTGTTAATTAAGACATG
Found at i:146546 original size:135 final size:135
Alignment explanation
Indices: 146381--146652 Score: 499
Period size: 135 Copynumber: 2.0 Consensus size: 135
146371 AAATTGCACC
146381 ACATAGAAAATAATGTGAAGGAAGGGATTCGAAAATAGGTCATCAAGGACATCTCCACCACTACT
1 ACATAGAAAATAATGTGAAGGAAGGGATTCGAAAATAGGTCATCAAGGACATCTCCACCACTACT
*
146446 CAACCACTATACTTGACACTTATTTATTATCAAATGAGCAAAAGATCATCTAAATAAAAATTCGG
66 CAACCACTATACTTGACACTTATTTATTATCAAATGAGCAAAAGATCATCTAAATAAAAATTCAG
146511 TTGTG
131 TTGTG
*
146516 ACATAGAAAATAATGTGAAGGAAGGGATTCGAAAATAGGTCATCAATGACATCTCCACCACTACT
1 ACATAGAAAATAATGTGAAGGAAGGGATTCGAAAATAGGTCATCAAGGACATCTCCACCACTACT
* * *
146581 CAACCACTATACTTGATACTTATTTATTATCAAATGAGTAAAAGATTATCTAAATAAAAATTCAG
66 CAACCACTATACTTGACACTTATTTATTATCAAATGAGCAAAAGATCATCTAAATAAAAATTCAG
146646 TTGTG
131 TTGTG
146651 AC
1 AC
146653 CACCCTCGAC
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 132 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (135 bp):
ACATAGAAAATAATGTGAAGGAAGGGATTCGAAAATAGGTCATCAAGGACATCTCCACCACTACT
CAACCACTATACTTGACACTTATTTATTATCAAATGAGCAAAAGATCATCTAAATAAAAATTCAG
TTGTG
Found at i:148454 original size:22 final size:21
Alignment explanation
Indices: 148424--148481 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
148414 ATGCAATCGT
*
148424 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
148445 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
148468 AGATTTGATTTGTA
1 AGATTTGATTTGTA
148482 GATACCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:148464 original size:23 final size:22
Alignment explanation
Indices: 148434--148478 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
148424 AGATTTGATA
148434 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
148457 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
148479 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Found at i:156059 original size:1 final size:1
Alignment explanation
Indices: 156053--156078 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
156043 TCCTAAAGTC
156053 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
156079 TTGCATAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:156183 original size:79 final size:79
Alignment explanation
Indices: 156054--156207 Score: 281
Period size: 79 Copynumber: 1.9 Consensus size: 79
156044 CCTAAAGTCA
156054 AAAAAAAAAAAAAAAAAAAAAAAAATTGCATAGCCCCGTTCCCTGTTTCCATGGAGATCTAGGGT
1 AAAAAAAAAAAAAAAAAAAAAAAAATTGCATAGCCCCGTTCCCTGTTTCCATGGAGATCTAGGGT
156119 TTCCAGTGGTAATC
66 TTCCAGTGGTAATC
* * *
156133 AAAAAAAAAAAAAAAGAAAGAAAAATTGCATAGCTCCGTTCCCTGTTTCCATGGAGATCTAGGGT
1 AAAAAAAAAAAAAAAAAAAAAAAAATTGCATAGCCCCGTTCCCTGTTTCCATGGAGATCTAGGGT
156198 TTCCAGTGGT
66 TTCCAGTGGT
156208 TCCCCAACTC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (79 bp):
AAAAAAAAAAAAAAAAAAAAAAAAATTGCATAGCCCCGTTCCCTGTTTCCATGGAGATCTAGGGT
TTCCAGTGGTAATC
Found at i:166278 original size:15 final size:15
Alignment explanation
Indices: 166228--166279 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
166218 ACTACAAAGC
*
166228 ATTTATTATTAATAT
1 ATTTATTATTAAAAT
*
166243 ATTTATAATTGTAAGAAAT
1 ATTTATTA-T-T-A-AAAT
166262 ATTTATTATTAAAAT
1 ATTTATTATTAAAAT
166277 ATT
1 ATT
166280 AATATTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 14 0.47
16 2 0.07
17 2 0.07
18 2 0.07
19 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
ATTTATTATTAAAAT
Found at i:174879 original size:3 final size:3
Alignment explanation
Indices: 174871--174897 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
174861 TACAATTCAA
174871 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
174898 CTCCGAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:176726 original size:12 final size:12
Alignment explanation
Indices: 176709--176734 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
176699 CTCGTTAAAA
176709 TTATTGTGTTAT
1 TTATTGTGTTAT
176721 TTATTGTGTTAT
1 TTATTGTGTTAT
176733 TT
1 TT
176735 TGCATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTATTGTGTTAT
Found at i:179048 original size:28 final size:28
Alignment explanation
Indices: 179009--179090 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
178999 TGAATCTTCA
179009 GGGGGATTTTGATTGTGTTTACATATCG
1 GGGGGATTTTGATTGTGTTTACATATCG
* *
179037 GGGGGATTTTGATTATGTTTACATATTG
1 GGGGGATTTTGATTGTGTTTACATATCG
*
179065 GAGGGATTTTGATTGTGTTTACATAT
1 GGGGGATTTTGATTGTGTTTACATAT
179091 TATTCTTTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (28 bp):
GGGGGATTTTGATTGTGTTTACATATCG
Found at i:179647 original size:23 final size:24
Alignment explanation
Indices: 179616--179674 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
179606 TGAATCAATT
* *
179616 TTAATTAAAAAAC-AATCT-TTTTA
1 TTAAATAAAAAACAAAT-TATTATA
*
179639 TTAAATAAAATACCAAATTATTATA
1 TTAAATAAAA-AACAAATTATTATA
179664 TTAAATAAAAA
1 TTAAATAAAAA
179675 TTGTTTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 9 0.30
24 4 0.13
25 17 0.57
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (24 bp):
TTAAATAAAAAACAAATTATTATA
Found at i:180518 original size:13 final size:13
Alignment explanation
Indices: 180500--180653 Score: 173
Period size: 13 Copynumber: 11.6 Consensus size: 13
180490 ATTTTTAATG
180500 TAATATATTGTTT
1 TAATATATTGTTT
*
180513 TAATATACTGTTAT
1 TAATATATTGTT-T
*
180527 AAATATATTGTTT
1 TAATATATTGTTT
*
180540 TAATATACTGTTT
1 TAATATATTGTTT
*
180553 TAATATACTGTTAT
1 TAATATATTGTT-T
* *
180567 AAATATATTATTT
1 TAATATATTGTTT
*
180580 TAATATACTGTTT
1 TAATATATTGTTT
*
180593 TAGTATATTGTTAT
1 TAATATATTGTT-T
* * *
180607 AAATATACTATTT
1 TAATATATTGTTT
*
180620 TAATATAATGTTT
1 TAATATATTGTTT
180633 TAATATATTGTTT
1 TAATATATTGTTT
180646 TAATATAT
1 TAATATAT
180654 CGTTATAAAT
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
13 87 0.74
14 30 0.26
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.54
Consensus pattern (13 bp):
TAATATATTGTTT
Found at i:180536 original size:27 final size:26
Alignment explanation
Indices: 180501--180652 Score: 160
Period size: 27 Copynumber: 5.7 Consensus size: 26
180491 TTTTTAATGT
*
180501 AATATATTGTTTTAATATACTGTTATA
1 AATATACTGTTTTAATATACTGTT-TA
* *
180528 AATATATTGTTTTAATATACTGTTTT
1 AATATACTGTTTTAATATACTGTTTA
* * * *
180554 AATATACTGTTATAAATATATTATTTT
1 AATATACTGTT-TTAATATACTGTTTA
* *
180581 AATATACTGTTTTAGTATATTGTTATA
1 AATATACTGTTTTAATATACTGTT-TA
* * *
180608 AATATACTATTTTAATATAATGTTTT
1 AATATACTGTTTTAATATACTGTTTA
*
180634 AATATATTGTTTTAATATA
1 AATATACTGTTTTAATATA
180653 TCGTTATAAA
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 39 0.36
27 69 0.64
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (26 bp):
AATATACTGTTTTAATATACTGTTTA
Found at i:180552 original size:40 final size:40
Alignment explanation
Indices: 180500--180653 Score: 229
Period size: 40 Copynumber: 3.9 Consensus size: 40
180490 ATTTTTAATG
* *
180500 TAATATATTGTTTTAATATACTGTTATAAATATATTGTTT
1 TAATATACTGTTTTAATATACTGTTATAAATATATTATTT
180540 TAATATACTGTTTTAATATACTGTTATAAATATATTATTT
1 TAATATACTGTTTTAATATACTGTTATAAATATATTATTT
* * *
180580 TAATATACTGTTTTAGTATATTGTTATAAATATACTATTT
1 TAATATACTGTTTTAATATACTGTTATAAATATATTATTT
* * *
180620 TAATATAATGTTTTAATATATTGTT-TTAATATAT
1 TAATATACTGTTTTAATATACTGTTATAAATATAT
180654 CGTTATAAAT
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 7 0.07
40 98 0.93
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.54
Consensus pattern (40 bp):
TAATATACTGTTTTAATATACTGTTATAAATATATTATTT
Found at i:200900 original size:18 final size:18
Alignment explanation
Indices: 200877--200913 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
200867 TGCATATATA
200877 TTTTGAGTATGATTTTAC
1 TTTTGAGTATGATTTTAC
200895 TTTTGAGTATGATTTTAC
1 TTTTGAGTATGATTTTAC
200913 T
1 T
200914 AAATTGTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.16, T:0.57
Consensus pattern (18 bp):
TTTTGAGTATGATTTTAC
Found at i:203963 original size:31 final size:31
Alignment explanation
Indices: 203928--203987 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
203918 AAACCTATTC
*
203928 TTTTCCCTCAAAATTTTTACTCCC-TCCCACT
1 TTTTCCCT-AAAACTTTTACTCCCTTCCCACT
*
203959 TTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCTAAAACTTTTACTCCCTTCCCA
203988 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCTAAAACTTTTACTCCCTTCCCACT
Found at i:204094 original size:17 final size:18
Alignment explanation
Indices: 204068--204110 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
204058 ACTTTCCCTC
204068 AAAC-TTTTA-TTCCCCA
1 AAACTTTTTATTTCCCCA
*
204084 AAACTTTTTATTTTCCCCT
1 AAACTTTTTA-TTTCCCCA
204103 AAACTTTT
1 AAACTTTT
204111 ACTTCTCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
19 14 0.61
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (18 bp):
AAACTTTTTATTTCCCCA
Found at i:207418 original size:34 final size:34
Alignment explanation
Indices: 207380--207477 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 34
207370 GGTTTATTTT
* *
207380 TTTTAAAAAAATTAATTAAATTAGGTTTTAGGGG
1 TTTTAAAAAAATTAATTAAATTAGGATTTAGAGG
* * * *
207414 TTTTAAATAAATAAACTAAATTAGGATTTAGAGT
1 TTTTAAAAAAATTAATTAAATTAGGATTTAGAGG
* * *
207448 TTTTAATAAAATTTATTAAATTAGGGTTTA
1 TTTTAAAAAAATTAATTAAATTAGGATTTA
207478 TTTTTTAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (34 bp):
TTTTAAAAAAATTAATTAAATTAGGATTTAGAGG
Found at i:211449 original size:15 final size:15
Alignment explanation
Indices: 211420--211474 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
211410 TATTCTTAAG
*
211420 AAAAGAAAAA-CAAA
1 AAAAGAAAAAGGAAA
*
211434 AAAA-AAGAAGGAAA
1 AAAAGAAAAAGGAAA
211448 AAAAGAAAAAGGAAA
1 AAAAGAAAAAGGAAA
211463 AACAAGTAAAAA
1 AA-AAG-AAAAA
211475 ATATGGTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 4 0.12
14 11 0.32
15 11 0.32
16 3 0.09
17 5 0.15
ACGTcount: A:0.80, C:0.04, G:0.15, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGGAAA
Found at i:215099 original size:61 final size:61
Alignment explanation
Indices: 214970--215099 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 61
214960 ATATATTTTT
* * * * *
214970 ATTTTTTAGAGTTAGGACTAAATTGAAAGATTTTGTAAATGTTGAGGGCCAAATTTATTGA
1 ATTTTTTAGAATTAGAACTAAAATGAAAGATTTTGTAAATATTGAAGGCCAAATTTATTGA
** * * *
215031 AAATTTTAGAATTAGAACTAAAATGTCAA-ATTTTGTAAATATTGAAGGCTAAATTTGTTGA
1 ATTTTTTAGAATTAGAACTAAAATG-AAAGATTTTGTAAATATTGAAGGCCAAATTTATTGA
215092 ATTTTTTA
1 ATTTTTTA
215100 TATTTAAGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 54 0.96
62 2 0.04
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.41
Consensus pattern (61 bp):
ATTTTTTAGAATTAGAACTAAAATGAAAGATTTTGTAAATATTGAAGGCCAAATTTATTGA
Found at i:215463 original size:23 final size:25
Alignment explanation
Indices: 215437--215492 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
215427 CTCTCTCCAA
*
215437 GGTTAGGGCTTTTAA-TTTTTTA-G
1 GGTTAGGGCTTTTAAGATTTTTATG
** *
215460 GGTTAAAGTTTTTAAGATTTTTATG
1 GGTTAGGGCTTTTAAGATTTTTATG
215485 GGTTAGGG
1 GGTTAGGG
215493 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 12 0.48
24 6 0.24
25 7 0.28
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (25 bp):
GGTTAGGGCTTTTAAGATTTTTATG
Found at i:224320 original size:14 final size:14
Alignment explanation
Indices: 224291--224329 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
224281 CTGAAATAAA
224291 CCAAACTACAGAGGC
1 CCAAA-TACAGAGGC
*
224306 CCAAATACAGTGGC
1 CCAAATACAGAGGC
224320 CCAAA-ACAGA
1 CCAAATACAGA
224330 TTCAGGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 4 0.18
14 13 0.59
15 5 0.23
ACGTcount: A:0.44, C:0.31, G:0.18, T:0.08
Consensus pattern (14 bp):
CCAAATACAGAGGC
Found at i:225494 original size:20 final size:19
Alignment explanation
Indices: 225471--225508 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
225461 TTAATTTTAA
225471 TTATGTAATTATTGTTTTTT
1 TTATGTAATTATT-TTTTTT
225491 TTATGTAATTATTTTTTT
1 TTATGTAATTATTTTTTT
225509 AACTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (19 bp):
TTATGTAATTATTTTTTTT
Found at i:230805 original size:24 final size:24
Alignment explanation
Indices: 230778--230823 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
230768 CATGGATTTG
230778 TTGACTGTCAAGAAAATGGTTCTT
1 TTGACTGTCAAGAAAATGGTTCTT
230802 TTGACTGTCAAGAAAATGGTTC
1 TTGACTGTCAAGAAAATGGTTC
230824 AGCTGGTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (24 bp):
TTGACTGTCAAGAAAATGGTTCTT
Found at i:238835 original size:3 final size:3
Alignment explanation
Indices: 238827--238851 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
238817 GTTGGCTCCA
238827 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
238852 TATTCAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:242492 original size:28 final size:28
Alignment explanation
Indices: 242452--242509 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
242442 TATAATGAGG
242452 TAAAATTTATATTAGATTTTACAATTAT
1 TAAAATTTATATTAGATTTTACAATTAT
242480 TAAAATTTATATTAGATTTTACAATTAT
1 TAAAATTTATATTAGATTTTACAATTAT
242508 TA
1 TA
242510 CATAGATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (28 bp):
TAAAATTTATATTAGATTTTACAATTAT
Found at i:243735 original size:16 final size:16
Alignment explanation
Indices: 243716--243746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
243706 AAGTTGTTCT
243716 AAATATTTTAATAGTA
1 AAATATTTTAATAGTA
*
243732 AAATATTTTTATAGT
1 AAATATTTTAATAGT
243747 TTGTCCTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
AAATATTTTAATAGTA
Found at i:244941 original size:21 final size:20
Alignment explanation
Indices: 244883--244946 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 20
244873 CCTGATCAGT
244883 ATACGACACATAAGTGCCTG
1 ATACGACACATAAGTGCCTG
* * *
244903 AAACGACACACGAGGTGCCTG
1 ATACGACACA-TAAGTGCCTG
244924 ATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTG
244945 AT
1 AT
244947 CGGCAAAGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 9 0.25
21 27 0.75
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (20 bp):
ATACGACACATAAGTGCCTG
Found at i:245923 original size:5 final size:5
Alignment explanation
Indices: 245915--245969 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
245905 TATTTAATTT
* *
245915 ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA
245964 ATATA A
1 ATATA A
245970 AACATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.20
5 28 0.68
7 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:245944 original size:27 final size:25
Alignment explanation
Indices: 245913--245965 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
245903 TCTATTTAAT
245913 TTATATAATATAATACAATATAATATA
1 TTATATAATATAATA-AA-ATAATATA
*
245940 TTATATTATATAATAAAATAATATA
1 TTATATAATATAATAAAATAATATA
245965 T
1 T
245966 ATAAAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATAATATAATAAAATAATATA
Found at i:247499 original size:27 final size:27
Alignment explanation
Indices: 247469--247533 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
247459 GCTAGTAACA
*
247469 TGTATTAAATTCGGTTAAACATGGGTT
1 TGTACTAAATTCGGTTAAACATGGGTT
*
247496 TGTACTAAATTTGGTTAAACATGGGTT
1 TGTACTAAATTCGGTTAAACATGGGTT
247523 TGTACTAAATT
1 TGTACTAAATT
247534 GTATGAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TGTACTAAATTCGGTTAAACATGGGTT
Found at i:249409 original size:19 final size:20
Alignment explanation
Indices: 249382--249431 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
249372 TATGAATGAT
249382 TGATAATTACTGAAATG-AGA
1 TGAT-ATTACTGAAATGTAGA
* * *
249402 TGATATTAGTTAAATGTTGA
1 TGATATTACTGAAATGTAGA
249422 TGA-ATTACTG
1 TGATATTACTG
249432 TTCTGAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (20 bp):
TGATATTACTGAAATGTAGA
Found at i:251185 original size:26 final size:23
Alignment explanation
Indices: 251155--251225 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
251145 GGACTCACTA
251155 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCG-T-T-T
* *
251181 CAGCTCTTGTGAGCTTACCGTTT
1 CAGCTCGTATGAGCTTACCGTTT
*
251204 CAGCTCG-ATAGATCTTACCGTT
1 CAGCTCGTAT-GAGCTTACCGTT
251226 CTTCAGCTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 18 0.46
24 1 0.03
25 1 0.03
26 18 0.46
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACCGTTT
Found at i:254718 original size:124 final size:126
Alignment explanation
Indices: 254436--254900 Score: 530
Period size: 124 Copynumber: 3.7 Consensus size: 126
254426 GTAGGAATTG
* * * ** *
254436 CTGTACAAAAAGAGCGTCTACGTGAGAGCTTTTTTTTGTAATTTTGCTGACAAG-GCATCCTGCT
1 CTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGAC-AGTGCATCCTACT
** * ** * *
254500 TGAAATGTTTTAGACACTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCATA-AATTA
65 TGAAGCGTTTTTGACACTATCTTTTCAGAACTATTTTCTCAAAATTATTTTTTCA-AGAACTA
* **
254562 CTATAGAAAAA-AGCGTCCACGTGGGAG-TTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTT
1 CTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTT
* * * *
254625 GAAGTGTTTTTTACACTATTTTTTCAGAACTATTTTCTCAAAATTA-TTTTT-AGGAACTA
66 GAAGCGTTTTTGACACTATCTTTTCAGAACTATTTTCTCAAAATTATTTTTTCAAGAACTA
* * * * * *
254684 TTGTAGAAAAAGAGCGTCCACATGAAATCCTTTTTCAATAATTTTGCTGACAGTGCATCCTGCTT
1 CTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTT
* * * *
254749 GAAGCATTTTTGACACTATTTTTTCA-AAATCATTTTGTCAAAATTATTTTTTCAAGAACTA
66 GAAGCGTTTTTGACACTATCTTTTCAGAACT-ATTTTCTCAAAATTATTTTTTCAAGAACTA
* * * * *
254810 CTGTAGACAAAGAGCGTCCAGGTGGAAGCTTTTTTCAGTAATTTTGCTGATAATGCATCCTACTT
1 CTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTT
*
254875 GAAGCGTTTTTGACATTATCTTTTCA
66 GAAGCGTTTTTGACACTATCTTTTCA
254901 AAAACGTCTT
Statistics
Matches: 287, Mismatches: 45, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
122 14 0.05
123 22 0.08
124 139 0.48
125 19 0.07
126 93 0.32
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (126 bp):
CTGTAGAAAAAGAGCGTCCACGTGAAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTACTT
GAAGCGTTTTTGACACTATCTTTTCAGAACTATTTTCTCAAAATTATTTTTTCAAGAACTA
Found at i:254783 original size:14 final size:14
Alignment explanation
Indices: 254766--254803 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
254756 TTTTGACACT
254766 ATTTTTTCAAAATC
1 ATTTTTTCAAAATC
* *
254780 ATTTTGTCAAAATT
1 ATTTTTTCAAAATC
254794 ATTTTTTCAA
1 ATTTTTTCAA
254804 GAACTACTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTTTTCAAAATC
Found at i:257606 original size:34 final size:34
Alignment explanation
Indices: 257561--257676 Score: 108
Period size: 34 Copynumber: 3.4 Consensus size: 34
257551 TTTTAAAAAA
* *
257561 TAAACCCTAATTTAATAAATTTTATTAAAAACTC
1 TAAAACCTAATTTAATTAATTTTATTAAAAACTC
* * * * *
257595 TAAATCCTAATTTAGTTTA-TTTATTTAAAACCCC
1 TAAAACCTAATTTAATTAATTTTA-TTAAAAACTC
* ** *
257629 TAAAACCTAATTTAATTAATTTAAAAAAAAACTT
1 TAAAACCTAATTTAATTAATTTTATTAAAAACTC
*
257663 TAAAGCCTAATTTA
1 TAAAACCTAATTTA
257677 TTTTTTAAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
33 4 0.06
34 57 0.89
35 3 0.05
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.39
Consensus pattern (34 bp):
TAAAACCTAATTTAATTAATTTTATTAAAAACTC
Found at i:259163 original size:16 final size:16
Alignment explanation
Indices: 259142--259209 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
259132 TTTGGTTCGC
259142 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
259158 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
259174 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
259190 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
259206 TGTA
1 TGTA
259210 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:260491 original size:13 final size:13
Alignment explanation
Indices: 260473--260502 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
260463 CAATCAGCTA
260473 AATTCAGAAAAAC
1 AATTCAGAAAAAC
260486 AATTCAGAAAAAC
1 AATTCAGAAAAAC
260499 AATT
1 AATT
260503 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:272649 original size:66 final size:66
Alignment explanation
Indices: 272543--272727 Score: 237
Period size: 66 Copynumber: 2.8 Consensus size: 66
272533 CTAGTGAGCT
* * * *
272543 TACTGACTTGGGTCACACGGCCAAGCCACACCCCCATGTGCTAGGCCGTGTGAACAATGTTGAGT
1 TACTGACTTGGGACACACGGCCAAGCCACACGCCCATGTGCTAGGCCGTGTGAAAAATGGTGAGT
272608 A
66 A
* * * ** *
272609 TACTGACTTGTGACACACGGCCAAGCCACATGCCCGTGTGCTAGGCTATGTGAAAAATGGTGGGT
1 TACTGACTTGGGACACACGGCCAAGCCACACGCCCATGTGCTAGGCCGTGTGAAAAATGGTGAGT
272674 A
66 A
** *
272675 TACTGACTTGGGACACACAACCAAGCCACACGCCCATAG-GCTAGGTCGTGTGA
1 TACTGACTTGGGACACACGGCCAAGCCACACGCCCAT-GTGCTAGGCCGTGTGA
272728 GCCTACTGAC
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 99 0.99
67 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.21
Consensus pattern (66 bp):
TACTGACTTGGGACACACGGCCAAGCCACACGCCCATGTGCTAGGCCGTGTGAAAAATGGTGAGT
A
Found at i:273513 original size:12 final size:12
Alignment explanation
Indices: 273498--273531 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
273488 AAACCGAGCC
273498 ATAAATATTTTT
1 ATAAATATTTTT
273510 ATAAATATTTTT
1 ATAAATATTTTT
*
273522 ATAGATATTT
1 ATAAATATTT
273532 ATGGAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:279668 original size:43 final size:43
Alignment explanation
Indices: 279602--279905 Score: 296
Period size: 43 Copynumber: 7.1 Consensus size: 43
279592 ACGCCGCTAA
** * *
279602 CTTTAGCGGCGCTTTTA-TAACAAACGCCACTAAAGAACATGAC
1 CTTTAGCGGCGC-TTTAGCCACAAACGCCGCTAAAGATCATGAC
* * *
279645 CTTTAGCGGCACTTTTGCCACAAACGCCGCTAAAGATCTTGAC
1 CTTTAGCGGCGCTTTAGCCACAAACGCCGCTAAAGATCATGAC
* * * * *
279688 CTTTAGCGGTGTTTTTA-TCACAAACGCCACTAAAGATCGTGAC
1 CTTTAGCGGCG-CTTTAGCCACAAACGCCGCTAAAGATCATGAC
* *
279731 CTTTAGCGGCGCTTTAGCCACAAACGCCGCTAAAGATCGTGAT
1 CTTTAGCGGCGCTTTAGCCACAAACGCCGCTAAAGATCATGAC
** * * *
279774 CTTTAGCGGCGCTTTAGATACAAACGTCGCTAAAGATCGTGAG
1 CTTTAGCGGCGCTTTAGCCACAAACGCCGCTAAAGATCATGAC
* *
279817 CTTTAGCGACGCTTTAGCCACAAACGCCGCTAAAGA--ATAAAC
1 CTTTAGCGGCGCTTTAGCCACAAACGCCGCTAAAGATCAT-GAC
* * * * *
279859 CTTTAGCGACTCTTCTAG-CAAAAACGCCGCTAAA-AACATAAC
1 CTTTAGCGGCGCTT-TAGCCACAAACGCCGCTAAAGATCATGAC
279901 CTTTA
1 CTTTA
279906 AAAAAATATT
Statistics
Matches: 222, Mismatches: 32, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
41 2 0.01
42 44 0.20
43 173 0.78
44 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGCCACAAACGCCGCTAAAGATCATGAC
Found at i:279704 original size:86 final size:85
Alignment explanation
Indices: 279602--279852 Score: 349
Period size: 86 Copynumber: 2.9 Consensus size: 85
279592 ACGCCGCTAA
* * * *
279602 CTTTAGCGGCGCTTTTATAACAAACGCCACTAAAGAACATGACCTTTAGCGGCACTTTTGCCACA
1 CTTTAGCGGCG-TTTTATAACAAACGCCACTAAAGATCGTGACCTTTAGCGGCGCTTTAGCCACA
*
279667 AACGCCGCTAAAGATCTTGAC
65 AACGCCGCTAAAGATCGTGAC
* *
279688 CTTTAGCGGTGTTTTTATCACAAACGCCACTAAAGATCGTGACCTTTAGCGGCGCTTTAGCCACA
1 CTTTAGCGGCG-TTTTATAACAAACGCCACTAAAGATCGTGACCTTTAGCGGCGCTTTAGCCACA
*
279753 AACGCCGCTAAAGATCGTGAT
65 AACGCCGCTAAAGATCGTGAC
* * * * * *
279774 CTTTAGCGGCGCTTTAGATACAAACGTCGCTAAAGATCGTGAGCTTTAGCGACGCTTTAGCCACA
1 CTTTAGCGGCGTTTTATA-ACAAACGCCACTAAAGATCGTGACCTTTAGCGGCGCTTTAGCCACA
279839 AACGCCGCTAAAGA
65 AACGCCGCTAAAGA
279853 ATAAACCTTT
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
85 4 0.03
86 143 0.97
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (85 bp):
CTTTAGCGGCGTTTTATAACAAACGCCACTAAAGATCGTGACCTTTAGCGGCGCTTTAGCCACAA
ACGCCGCTAAAGATCGTGAC
Found at i:286401 original size:34 final size:34
Alignment explanation
Indices: 286354--286421 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
286344 ATTTCTAAAC
* * * **
286354 CCTAAATCACTAACTCTTAACTTTTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
*
286388 CCTAAACCCCTAACCCCTAACTACTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
286422 ACCTTATCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (34 bp):
CCTAAACCACTAACCCCTAACTACTAACCCCTAA
Found at i:286403 original size:20 final size:20
Alignment explanation
Indices: 286378--286421 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
286368 TCTTAACTTT
286378 TAACCCCTAACCTA-AACCCC
1 TAACCCCTAA-CTACAACCCC
286398 TAACCCCTAACTACTAACCCC
1 TAACCCCTAACTAC-AACCCC
286419 TAA
1 TAA
286422 ACCTTATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.45
21 9 0.41
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.18
Consensus pattern (20 bp):
TAACCCCTAACTACAACCCC
Found at i:286485 original size:70 final size:69
Alignment explanation
Indices: 286402--286534 Score: 178
Period size: 70 Copynumber: 1.9 Consensus size: 69
286392 AACCCCTAAC
* * * *
286402 CCCTAACTACTAACCCCTAAACCTTATCTAATATATAAATTCAAAA-ACATTAATTAATCTAAAC
1 CCCTAACCACTAACCCCTAAACCTTATCTAATA-AAAAAAT-AAAACACACTAATTAATCTAAAC
286466 TCGAAT
64 TCGAAT
* * *
286472 CCCTAACCCCTAACCCCTAAACCTTATTTCATAAAAAAATAAAACACACTAATTAATCTAAAC
1 CCCTAACCACTAACCCCTAAACCTTATCTAATAAAAAAATAAAACACACTAATTAATCTAAAC
286535 CCTAAAGCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
68 4 0.07
69 22 0.40
70 29 0.53
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (69 bp):
CCCTAACCACTAACCCCTAAACCTTATCTAATAAAAAAATAAAACACACTAATTAATCTAAACTC
GAAT
Found at i:286548 original size:69 final size:70
Alignment explanation
Indices: 286402--286548 Score: 172
Period size: 69 Copynumber: 2.1 Consensus size: 70
286392 AACCCCTAAC
** * * * *
286402 CCCTAACTACTAACCCCTAAACCTTATCTAATATATAAATTCAAAAACATTAATTAATCTAAACT
1 CCCTAACCCCTAACCCCTAAACCTTATCTAATATAAAAAATCAAAAACACTAATTAATCTAAACC
*
286467 CGAAT
66 CGAAA
* *
286472 CCCTAACCCCTAACCCCTAAACCTTATTTCATA-AAAAAAT-AAAACACACTAATTAATCTAAAC
1 CCCTAACCCCTAACCCCTAAACCTTATCTAATATAAAAAATCAAAA-ACACTAATTAATCTAAAC
*
286535 CCTAAA
65 CCGAAA
*
286541 GCCTAACC
1 CCCTAACC
286549 TGACATCGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
68 4 0.06
69 32 0.49
70 29 0.45
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (70 bp):
CCCTAACCCCTAACCCCTAAACCTTATCTAATATAAAAAATCAAAAACACTAATTAATCTAAACC
CGAAA
Found at i:286908 original size:19 final size:19
Alignment explanation
Indices: 286868--286910 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
286858 AATTTTAATT
*
286868 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
286887 AATAGTAAAT-AACAGATAA
1 AATA-TAAATAAACAAATAA
286906 AATAT
1 AATAT
286911 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:286972 original size:41 final size:41
Alignment explanation
Indices: 286915--287031 Score: 198
Period size: 41 Copynumber: 2.9 Consensus size: 41
286905 AAATATTTTT
* *
286915 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
286956 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
286997 GCGACGCTTTTTTAAAAACGCCGCTAAAGATCTGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGA
287032 TAGGTCAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:287127 original size:40 final size:40
Alignment explanation
Indices: 287072--287147 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
287062 TTCTTTCCTA
*
287072 AAAGCGCCGCTAATGCTTGATCTTTAGTGGCGTTTTGTGT
1 AAAGCGCCGCTAATGCTTGATCTTTAGCGGCGTTTTGTGT
* *
287112 AAAGCGCTGCTAATGCTTGATTTTTAGCGGCGTTTT
1 AAAGCGCCGCTAATGCTTGATCTTTAGCGGCGTTTT
287148 TTGTCCAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.38
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTTGATCTTTAGCGGCGTTTTGTGT
Found at i:291134 original size:14 final size:13
Alignment explanation
Indices: 291110--291139 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
291100 CCACCTTGGA
291110 TTTATTTATTTAT
1 TTTATTTATTTAT
291123 TTTATGTTATTTAT
1 TTTAT-TTATTTAT
291137 TTT
1 TTT
291140 TGTGTAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:292594 original size:16 final size:16
Alignment explanation
Indices: 292575--292606 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
292565 GTAGTGGACT
292575 TTTGTGAACTTTTCAA
1 TTTGTGAACTTTTCAA
*
292591 TTTGTGGACTTTTCAA
1 TTTGTGAACTTTTCAA
292607 CCATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (16 bp):
TTTGTGAACTTTTCAA
Found at i:308029 original size:8 final size:8
Alignment explanation
Indices: 308016--308043 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
308006 GTGAAGCCAC
308016 ACTCAAAA
1 ACTCAAAA
308024 ACTCAAAA
1 ACTCAAAA
308032 ACTCAAAA
1 ACTCAAAA
308040 ACTC
1 ACTC
308044 GATTAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (8 bp):
ACTCAAAA
Found at i:309986 original size:64 final size:64
Alignment explanation
Indices: 309904--310037 Score: 268
Period size: 64 Copynumber: 2.1 Consensus size: 64
309894 TGTAGAAGTC
309904 GTATATCCAATGTACCACCTTTTGACTCTATTATTAATTGAACACATGTTATTAATGCATCAAA
1 GTATATCCAATGTACCACCTTTTGACTCTATTATTAATTGAACACATGTTATTAATGCATCAAA
309968 GTATATCCAATGTACCACCTTTTGACTCTATTATTAATTGAACACATGTTATTAATGCATCAAA
1 GTATATCCAATGTACCACCTTTTGACTCTATTATTAATTGAACACATGTTATTAATGCATCAAA
310032 GTATAT
1 GTATAT
310038 GAGTCACACA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (64 bp):
GTATATCCAATGTACCACCTTTTGACTCTATTATTAATTGAACACATGTTATTAATGCATCAAA
Found at i:312134 original size:19 final size:20
Alignment explanation
Indices: 312110--312161 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
312100 NNNTATTAAT
*
312110 AATAAATATA-AAATGATAA
1 AATAAATAAATAAATGATAA
312129 AATAAA-AAATAAATGATAA
1 AATAAATAAATAAATGATAA
*
312148 AATTAATAATATAA
1 AATAAATAA-ATAA
312162 TAAACCCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.07
19 20 0.71
20 2 0.07
21 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
AATAAATAAATAAATGATAA
Found at i:312147 original size:14 final size:14
Alignment explanation
Indices: 312107--312161 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
312097 NNNNNNTATT
312107 AATAATAAATATAA
1 AATAATAAATATAA
*
312121 AATGATAAA-ATAA
1 AATAATAAATATAA
312134 AA-AATAAATGATAA
1 AATAATAAAT-ATAA
312148 AATTAAT-AATATAA
1 AA-TAATAAATATAA
312162 TAAACCCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 5 0.14
13 6 0.17
14 18 0.51
15 3 0.09
16 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (14 bp):
AATAATAAATATAA
Done.