Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 54 of 311
Found at i:15543953 original size:48 final size:47
Alignment explanation
Indices: 15543885--15544171 Score: 243
Period size: 48 Copynumber: 6.0 Consensus size: 47
15543875 GAGGCTAAAT
* * * *
15543885 TGCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGA
1 TGCCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
15543933 TGCCGATGCCTTATCTCAGACATGGTCTTATACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTC-CAGACATGGTCTTACACTAGCTCACATATCAA
* *
15543981 TGCCGATGTCATGTCCTAGACATGGTCTTACACTAGCACACATATCAA
1 TGCCGATGCCATGTCC-AGACATGGTCTTACACTAGCTCACATATCAA
** * * * * * *
15544029 CACCAATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATAACAT
1 TGCCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
15544077 TACTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATC-G
1 TGCCGATGCCATG-TCCAGACATGGTCTTACACTAGCTCACATATCAA
* * *
15544124 TGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
1 T-GCCGATGCCATGT-CCAGACATGGTCTTACACTAGCTCACATATCA
15544172 CCGAATGTCA
Statistics
Matches: 191, Mismatches: 41, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 184 0.96
49 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
TGCCGATGCCATGTCCAGACATGGTCTTACACTAGCTCACATATCAA
Found at i:15544822 original size:24 final size:24
Alignment explanation
Indices: 15544792--15544842 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
15544782 GGAAAAACCC
15544792 TAGACTCTCAACCATTTTGCAAAA
1 TAGACTCTCAACCATTTTGCAAAA
15544816 TAGACTCTCAACCATTTTGCAAAA
1 TAGACTCTCAACCATTTTGCAAAA
15544840 TAG
1 TAG
15544843 TCCCCCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (24 bp):
TAGACTCTCAACCATTTTGCAAAA
Found at i:15546663 original size:22 final size:22
Alignment explanation
Indices: 15546635--15546676 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15546625 CTATATATAT
*
15546635 ACATATATATATACAAACCAAA
1 ACATATACATATACAAACCAAA
*
15546657 ACATATACATTTACAAACCA
1 ACATATACATATACAAACCA
15546677 TTTCTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (22 bp):
ACATATACATATACAAACCAAA
Found at i:15547268 original size:29 final size:29
Alignment explanation
Indices: 15547236--15547305 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
15547226 ATATCATGAA
15547236 CCGAAGCCAAATCAGCCGATATGCATGGC
1 CCGAAGCCAAATCAGCCGATATGCATGGC
*
15547265 CCGAAGCCAAATCAGCTGATATGCATGGC
1 CCGAAGCCAAATCAGCCGATATGCATGGC
15547294 CCGAAGCCAAAT
1 CCGAAGCCAAAT
15547306 TGGTTTATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.14
Consensus pattern (29 bp):
CCGAAGCCAAATCAGCCGATATGCATGGC
Found at i:15549368 original size:43 final size:43
Alignment explanation
Indices: 15549320--15549405 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
15549310 GATTAACGAG
* ** * *
15549320 ATGTGATTATGTGTTGGACCATGTCTGGGACATTGGTATCATT
1 ATGTGATTACGTGTAAGACCATGACTGGGACATTGGCATCATT
*
15549363 ATGTGATTACGTGTAAGATCATGACTGGGACATTGGCATCATT
1 ATGTGATTACGTGTAAGACCATGACTGGGACATTGGCATCATT
15549406 GTTTTATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGACTGGGACATTGGCATCATT
Found at i:15550820 original size:18 final size:18
Alignment explanation
Indices: 15550780--15550821 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15550770 ACAATGTTGG
*
15550780 ATTGATGTTTATGTATGG
1 ATTGATGTTTATGTATGA
* *
15550798 GTTGATGTTTATGTATTA
1 ATTGATGTTTATGTATGA
15550816 ATTGAT
1 ATTGAT
15550822 TCTTGGATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (18 bp):
ATTGATGTTTATGTATGA
Found at i:15558303 original size:21 final size:21
Alignment explanation
Indices: 15558277--15558332 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
15558267 CACGGGTGAA
15558277 CACACACTCGTGTGACTAAGC
1 CACACACTCGTGTGACTAAGC
* *
15558298 CACACACTCGTGTGTCTAAGT
1 CACACACTCGTGTGACTAAGC
* *
15558319 TACACGCTCGTGTG
1 CACACACTCGTGTG
15558333 CTAGGCCGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (21 bp):
CACACACTCGTGTGACTAAGC
Found at i:15567001 original size:25 final size:25
Alignment explanation
Indices: 15566967--15567014 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15566957 TTTTGAGTTA
15566967 GGTGCGACAACTAGGTGGCTAAAAG
1 GGTGCGACAACTAGGTGGCTAAAAG
* *
15566992 GGTGCGACAATTGGGTGGCTAAA
1 GGTGCGACAACTAGGTGGCTAAA
15567015 GGTGGAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.38, T:0.19
Consensus pattern (25 bp):
GGTGCGACAACTAGGTGGCTAAAAG
Found at i:15568277 original size:63 final size:63
Alignment explanation
Indices: 15568178--15568303 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
15568168 ATCCGAATCG
* * * ** * *
15568178 GCTCTGTGTTCCAACTCCAATGGTAAATGACAAGCTTTTTGAAAGACCAACCGATAGGGAGTC
1 GCTCTATGTTCCAACTCCAACGGTAAATAACAAGCTTTTCAAAAGACCAACCAATAAGGAGTC
*
15568241 GCTCTATGTTCCAACTCCAACGGTAGATAACAAGCTTTTCAAAAGACCAACCAATAAGGAGTC
1 GCTCTATGTTCCAACTCCAACGGTAAATAACAAGCTTTTCAAAAGACCAACCAATAAGGAGTC
15568304 ATCTTTTGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (63 bp):
GCTCTATGTTCCAACTCCAACGGTAAATAACAAGCTTTTCAAAAGACCAACCAATAAGGAGTC
Found at i:15575581 original size:20 final size:19
Alignment explanation
Indices: 15575549--15575589 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15575539 TAGTTTTTTT
15575549 AAAAATAGAGTGAAATAGG
1 AAAAATAGAGTGAAATAGG
* *
15575568 AAAAATTAGTGTGATATAGG
1 AAAAA-TAGAGTGAAATAGG
15575588 AA
1 AA
15575590 CTATAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (19 bp):
AAAAATAGAGTGAAATAGG
Found at i:15584502 original size:85 final size:84
Alignment explanation
Indices: 15584350--15584511 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 84
15584340 GACATAGCTA
*
15584350 TAGAGGCATTAGTGGCATTTTAATAAAACGCCGCAACATATAAGAATTAGCAGTGCTTCTGTGAA
1 TAGAGGCATTAGTGGCATTTTAATAAAACGCCGCAACATATAAGAATTAGCAGTGCTTCTGTCAA
*
15584415 AACGCCGCAAAAGTGGCTG
66 AACGCCACAAAAGTGGCTG
* * * * * * * * *
15584434 TAGATGCATTAGTGGCGTTTTATATAAAACGCTGCAATATATCAGAATTAGCGGTGTTTGTTTCA
1 TAGAGGCATTAGTGGCATTTTA-ATAAAACGCCGCAACATATAAGAATTAGCAGTGCTTCTGTCA
15584499 AAACGCCACAAAA
65 AAACGCCACAAAA
15584512 TTATTGAGGG
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 20 0.30
85 46 0.70
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (84 bp):
TAGAGGCATTAGTGGCATTTTAATAAAACGCCGCAACATATAAGAATTAGCAGTGCTTCTGTCAA
AACGCCACAAAAGTGGCTG
Found at i:15584804 original size:21 final size:21
Alignment explanation
Indices: 15584771--15584814 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
15584761 ATGGTTTATC
*
15584771 TAGGGTTTAAAGTTTAGGGTT
1 TAGGATTTAAAGTTTAGGGTT
*
15584792 TAGGATTTTAAGTTTAGGGTT
1 TAGGATTTAAAGTTTAGGGTT
15584813 TA
1 TA
15584815 AGTTTTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
TAGGATTTAAAGTTTAGGGTT
Found at i:15585377 original size:18 final size:18
Alignment explanation
Indices: 15585354--15585393 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
15585344 TTGGGCTTTA
*
15585354 TGGTCTAGGATTTATGGT
1 TGGTCTAGGATTTATGGC
15585372 TGGTCTAGGATTTATGGC
1 TGGTCTAGGATTTATGGC
15585390 TGGT
1 TGGT
15585394 TTTAAGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.07, G:0.35, T:0.42
Consensus pattern (18 bp):
TGGTCTAGGATTTATGGC
Found at i:15585410 original size:14 final size:14
Alignment explanation
Indices: 15585391--15585423 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15585381 ATTTATGGCT
15585391 GGTTTTAAGTTTGG
1 GGTTTTAAGTTTGG
15585405 GGTTTTAAGTTTGG
1 GGTTTTAAGTTTGG
*
15585419 TGTTT
1 GGTTT
15585424 GAGGTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.55
Consensus pattern (14 bp):
GGTTTTAAGTTTGG
Found at i:15585484 original size:21 final size:21
Alignment explanation
Indices: 15585444--15585493 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
15585434 TAGTGTTTAG
*
15585444 AGTTTAGGGTTTAGGATTTCA
1 AGTTTAGGGTTTAAGATTTCA
* *
15585465 AGTTTAGGGTTTAAGCTTTCG
1 AGTTTAGGGTTTAAGATTTCA
*
15585486 GGTTTAGG
1 AGTTTAGG
15585494 ATATAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.06, G:0.32, T:0.42
Consensus pattern (21 bp):
AGTTTAGGGTTTAAGATTTCA
Found at i:15588788 original size:62 final size:60
Alignment explanation
Indices: 15588720--15588913 Score: 213
Period size: 62 Copynumber: 3.2 Consensus size: 60
15588710 TTTTGTTCTC
*
15588720 TTTTATTTTATTTTCAAATTACCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATA
1 TTTTATTTT-TTTT-AAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATA
* * * * *
15588782 TTTTA-TTTTTTTGAATCA-CGAA--AAA-TAATTTTAATATTT-TA-TTTTATTTTAAATA
1 TTTTATTTTTTTTAAATTACCTAATTAAATTAA-ATT-ATATTTAAAGTTTTATTTTAAATA
*
15588837 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATA
1 TTTTATTTT-TTTTAA-ATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATA
*
15588899 TTTCATTTTTTTTAA
1 TTTTATTTTTTTTAA
15588914 TCACGAAAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
55 21 0.19
56 9 0.08
57 11 0.10
58 6 0.06
59 7 0.06
60 9 0.08
61 15 0.14
62 30 0.28
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (60 bp):
TTTTATTTTTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATA
Found at i:15588830 original size:98 final size:98
Alignment explanation
Indices: 15588720--15589576 Score: 1197
Period size: 99 Copynumber: 8.7 Consensus size: 98
15588710 TTTTGTTCTC
* *
15588720 TTTTATTTTATTTTCAA-ATTACCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATT
1 TTTTATTTTATTTT-AACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* *
15588784 TTATTTTTTTGAATCACGAAAAATAATTTTAATA
65 TCATTTTTTTGAATCACGAAAAATAATTTCAATA
* ** * * *
15588818 TTTTATTTTATTTTAAATATTTTATTTTATTTTAACATTACCTAATT-AAATTAAATTGTATTTA
1 TTTTATTTTATTTT-AACA--TTA-CCTA-ATTAA-ATTA---AATTGTATTTAAA--GT-TTT-
** * *
15588882 AAGTTTTATTTTAAATATTTCATTTTTTTTAATCACGAAAATTAATTTCAATA
53 -A-TTTTAAAT-----ATTTCATTTTTTTGAATCACGAAAAATAATTTCAATA
15588935 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
15589000 CATTTAATTTGAATCACGAAAAATAATTTTAATA
66 CATTT-TTTTGAATCACGAAAAATAATTTCAATA
15589034 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
15589099 CATTTTTTTGAATCATGAAAAATAATTTCAATA
66 CATTTTTTTGAATCACGAAAAATAATTTCAATA
*
15589132 TTTTATTTTAGTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
15589197 CATTTTTTTGAATCACGAAAAATAATTTTAATA
66 CATTTTTTTGAATCACGAAAAATAATTTCAATA
*
15589230 TTTTATTTTATTTTAACATTACCTAATTAAAATAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
15589295 CATTTTTTTTGAATCACGAAAAATAATTTCAATA
66 CA-TTTTTTTGAATCACGAAAAATAATTTCAATA
15589329 TTTTA--TTA---T---A-T---T--TTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
15589380 CATTTTTTTTGAATCACGAAAAATAATTTCAATA
66 CA-TTTTTTTGAATCACGAAAAATAATTTCAATA
15589414 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
15589479 CATTTTTTTTGAATCACGAAAAATAATTTCAATA
66 CA-TTTTTTTGAATCACGAAAAATAATTTCAATA
15589513 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
15589577 CTATTTTATT
Statistics
Matches: 687, Mismatches: 35, Indels: 73
0.86 0.04 0.09
Matches are distributed among these distances:
85 77 0.11
87 4 0.01
90 2 0.00
91 1 0.00
93 1 0.00
94 2 0.00
97 4 0.01
98 210 0.31
99 267 0.39
101 3 0.00
102 2 0.00
103 10 0.01
104 5 0.01
106 9 0.01
107 6 0.01
108 6 0.01
109 8 0.01
111 5 0.01
112 10 0.01
113 2 0.00
114 3 0.00
116 3 0.00
117 47 0.07
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (98 bp):
TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
CATTTTTTTGAATCACGAAAAATAATTTCAATA
Found at i:15588838 original size:19 final size:19
Alignment explanation
Indices: 15588809--15588852 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
15588799 ACGAAAAATA
15588809 ATTTT-AATATTTTATTTT
1 ATTTTAAATATTTTATTTT
15588827 ATTTTAAATATTTTATTTT
1 ATTTTAAATATTTTATTTT
15588846 ATTTTAA
1 ATTTTAA
15588853 CATTACCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTAAATATTTTATTTT
Found at i:15588928 original size:117 final size:117
Alignment explanation
Indices: 15588720--15588950 Score: 392
Period size: 117 Copynumber: 2.0 Consensus size: 117
15588710 TTTTGTTCTC
15588720 TTTTATTTTATTTTCAAATTACCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATTT
1 TTTTATTTTATTTTCAAATTACCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATTT
* *
15588785 TATTTTTTTGAATCACGAAAAATAATTTTAATATTTTATTTTATTTTAAATA
66 CATTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAAATA
* *
15588837 TTTTATTTTATTTT-AACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTCAA-ATTACCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATT
* *
15588901 TCATTTTTTTTAATCACGAAAATTAATTTCAATATTTTATTTTATTTTAA
65 TCATTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAA
15588951 CATTACCTAA
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
116 2 0.02
117 105 0.98
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (117 bp):
TTTTATTTTATTTTCAAATTACCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATTT
CATTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAAATA
Found at i:15589057 original size:197 final size:198
Alignment explanation
Indices: 15588827--15589666 Score: 1306
Period size: 197 Copynumber: 4.3 Consensus size: 198
15588817 ATTTTATTTT
15588827 ATTTTAAATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 ATTTT-AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
*
15588892 TTAAATATTTCATTTTTTTT-AATCACGAAAATTAATTTCAATATTTTATTTTATTTTAACATTA
65 TTAAATATTTCATTTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTA
15588956 CCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAA
130 CCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAA
15589021 AATA
195 AATA
15589025 ATTTTAATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
1 ATTTTAATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
* *
15589090 TAAATATTTCA-TTTTTTTGAATCATGAAAAATAATTTCAATATTTTATTTTAGTTTAACATTAC
66 TAAATATTTCATTTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTAC
*
15589154 CTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTT-TTTTGAATCACGAAAA
131 CTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAAA
15589218 ATA
196 ATA
*
15589221 ATTTTAATATTTTATTTTATTTTAACATTACCTAATTAAAATAAATTGTATTTAAAGTTTTATTT
1 ATTTTAATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
15589286 TAAATATTTCATTTTTTTTGAATCACGAAAAATAATTTCAATATTTTA--TTA---T---A-T--
66 TAAATATTTCATTTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTAC
**
15589340 -T--TTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTTTTTTGAATCACGAAAA
131 CTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAAA
15589402 ATA
196 ATA
*
15589405 ATTTCAATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
1 ATTTTAATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
15589470 TAAATATTTCATTTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTAC
66 TAAATATTTCATTTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTAC
15589535 CTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTCTATTTTATTTCACTTTAATTT-
131 CTAATTAAATTAAATTGTATTTAAAGTTTTATTTT--A-A----A---TATTTCA-TTTAATTTG
15589599 AATCACGAAAAAT-
185 AATCACGAAAAATA
* * *
15589612 ATTTTATTTTCTTTAATTTTATTTTCAA-ATTACCTAATTAAATTAAATTTTATTT
1 ATTTTAATAT-TTT-ATTTTATTTT-AACATTACCTAATTAAATTAAATTGTATTT
15589667 TCAAGTTCAC
Statistics
Matches: 597, Mismatches: 14, Indels: 51
0.90 0.02 0.08
Matches are distributed among these distances:
183 44 0.07
184 130 0.22
185 1 0.00
186 3 0.01
188 1 0.00
189 2 0.00
192 2 0.00
193 1 0.00
195 3 0.01
196 101 0.17
197 196 0.33
198 36 0.06
200 1 0.00
201 1 0.00
205 1 0.00
207 7 0.01
208 23 0.04
209 42 0.07
210 2 0.00
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.52
Consensus pattern (198 bp):
ATTTTAATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
TAAATATTTCATTTTTTTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTTAACATTAC
CTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTAATTTGAATCACGAAAA
ATA
Found at i:15589083 original size:99 final size:98
Alignment explanation
Indices: 15588833--15589576 Score: 1282
Period size: 99 Copynumber: 7.7 Consensus size: 98
15588823 TTTTATTTTA
15588833 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
* *
15588898 ATTTCATTTTTTTTAATCACGAAAATTAATTTC
66 ATTTCATTTTTTTGAATCACGAAAAATAATTTC
15588931 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
* *
15588996 ATTTCATTTAATTTGAATCACGAAAAATAATTTT
66 ATTTCATTT-TTTTGAATCACGAAAAATAATTTC
15589030 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
*
15589095 ATTTCATTTTTTTGAATCATGAAAAATAATTTC
66 ATTTCATTTTTTTGAATCACGAAAAATAATTTC
*
15589128 AATATTTTATTTTAGTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
*
15589193 ATTTCATTTTTTTGAATCACGAAAAATAATTTT
66 ATTTCATTTTTTTGAATCACGAAAAATAATTTC
*
15589226 AATATTTTATTTTATTTTAACATTACCTAATTAAAATAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
15589291 ATTTCATTTTTTTTGAATCACGAAAAATAATTTC
66 ATTTCA-TTTTTTTGAATCACGAAAAATAATTTC
15589325 AATATTTTA--TTA---T---A-T---T--TTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
15589376 ATTTCATTTTTTTTGAATCACGAAAAATAATTTC
66 ATTTCA-TTTTTTTGAATCACGAAAAATAATTTC
15589410 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
15589475 ATTTCATTTTTTTTGAATCACGAAAAATAATTTC
66 ATTTCA-TTTTTTTGAATCACGAAAAATAATTTC
15589509 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
15589574 ATT
66 ATT
15589577 CTATTTTATT
Statistics
Matches: 616, Mismatches: 14, Indels: 31
0.93 0.02 0.05
Matches are distributed among these distances:
85 77 0.12
87 4 0.01
90 2 0.00
91 1 0.00
93 1 0.00
94 2 0.00
97 4 0.01
98 259 0.42
99 266 0.43
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (98 bp):
AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
ATTTCATTTTTTTGAATCACGAAAAATAATTTC
Found at i:15589700 original size:9 final size:9
Alignment explanation
Indices: 15589686--15589798 Score: 92
Period size: 9 Copynumber: 12.7 Consensus size: 9
15589676 CCAGCAACTC
15589686 ACATAATTT
1 ACATAATTT
15589695 ACATAATTT
1 ACATAATTT
15589704 ACATAA--T
1 ACATAATTT
*
15589711 ACATAACTT
1 ACATAATTT
*
15589720 ATATAATTT
1 ACATAATTT
*
15589729 AAAGTTCGAATTT
1 ACA--T--AATTT
*
15589742 -CATAACTT
1 ACATAATTT
15589750 ACATAATTT
1 ACATAATTT
*
15589759 TCATAATTT
1 ACATAATTT
15589768 ACATAA--T
1 ACATAATTT
* *
15589775 ACATGACTT
1 ACATAATTT
15589784 ACATAATTT
1 ACATAATTT
15589793 ACATAA
1 ACATAA
15589799 AATTAACACA
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
7 13 0.15
8 4 0.05
9 59 0.70
10 1 0.01
11 1 0.01
12 1 0.01
13 5 0.06
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (9 bp):
ACATAATTT
Found at i:15589714 original size:25 final size:25
Alignment explanation
Indices: 15589686--15589798 Score: 76
Period size: 25 Copynumber: 4.6 Consensus size: 25
15589676 CCAGCAACTC
15589686 ACATAATTTACATAATTTACATAAT
1 ACATAATTTACATAATTTACATAAT
* * *
15589711 ACATAACTTATATAATTTA-A-AGT
1 ACATAATTTACATAATTTACATAAT
* * *
15589734 TC-GAATTT-CATAACTTACATAATTT
1 ACATAATTTACATAATTTACATAA--T
* *
15589759 TCATAATTTACATAA--TACATGACTT
1 ACATAATTTACATAATTTACAT-A-AT
15589784 ACATAATTTACATAA
1 ACATAATTTACATAA
15589799 AATTAACACA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
21 7 0.10
22 5 0.07
23 4 0.06
24 1 0.01
25 40 0.59
26 6 0.09
27 5 0.07
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (25 bp):
ACATAATTTACATAATTTACATAAT
Found at i:15589715 original size:16 final size:16
Alignment explanation
Indices: 15589694--15589790 Score: 56
Period size: 16 Copynumber: 6.1 Consensus size: 16
15589684 TCACATAATT
*
15589694 TACATAATTTACATAA
1 TACATAACTTACATAA
*
15589710 TACATAACTTATATAA
1 TACATAACTTACATAA
** * *
15589726 TTTA-AAGTT-CGA-AT
1 TACATAACTTAC-ATAA
*
15589740 TTCATAACTTACATAA
1 TACATAACTTACATAA
* *
15589756 TTTTCATAATTTACATAA
1 --TACATAACTTACATAA
*
15589774 TACATGACTTACATAA
1 TACATAACTTACATAA
15589790 T
1 T
15589791 TTACATAAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
14 4 0.07
15 10 0.16
16 32 0.52
18 15 0.25
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.40
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:15589945 original size:9 final size:9
Alignment explanation
Indices: 15589931--15590002 Score: 69
Period size: 9 Copynumber: 8.2 Consensus size: 9
15589921 TCGTACATAA
15589931 TACATAACT
1 TACATAACT
*
15589940 TACATAATT
1 TACATAACT
15589949 TACATAACT
1 TACATAACT
15589958 TACATAA--
1 TACATAACT
*
15589965 TACATAA-A
1 TACATAACT
* * *
15589973 TATATATCA
1 TACATAACT
15589982 TATCATAACT
1 TA-CATAACT
15589992 TACATAACT
1 TACATAACT
15590001 TA
1 TA
15590003 ATTATACTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
7 7 0.13
8 5 0.09
9 35 0.66
10 6 0.11
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:15589962 original size:34 final size:34
Alignment explanation
Indices: 15589924--15589998 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
15589914 CTTTATATCG
* *
15589924 TACATAATACATAACT-TACATAATTTACATAACT
1 TACATAATACATAAATATACATAATAT-CATAACT
* *
15589958 TACATAATACATAAATATATATCATATCATAACT
1 TACATAATACATAAATATACATAATATCATAACT
15589992 TACATAA
1 TACATAA
15589999 CTTAATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (34 bp):
TACATAATACATAAATATACATAATATCATAACT
Found at i:15595491 original size:21 final size:21
Alignment explanation
Indices: 15595466--15595537 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
15595456 TTAGAGCGGA
*
15595466 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
*
15595487 GGCAGCAGCGAAGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
* * *
15595508 GGTAGCAGCGAGGGAAGCAGA
1 GGCAGCAGCGAGGGAGGCAGC
*
15595529 GGCAACAGC
1 GGCAGCAGC
15595538 AATGGCAGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.47, T:0.01
Consensus pattern (21 bp):
GGCAGCAGCGAGGGAGGCAGC
Found at i:15595817 original size:31 final size:31
Alignment explanation
Indices: 15595780--15595849 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
15595770 TTATTTTATT
*
15595780 TTTCATGCTACATTTGCTGTTTTTGAATGGA
1 TTTCATGCTACATTTGCTATTTTTGAATGGA
* **
15595811 TTTCATGCTATATTTGCTATTTTTGGTTGGA
1 TTTCATGCTACATTTGCTATTTTTGAATGGA
*
15595842 TTTAATGC
1 TTTCATGC
15595850 AGGAAGGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.51
Consensus pattern (31 bp):
TTTCATGCTACATTTGCTATTTTTGAATGGA
Found at i:15600689 original size:13 final size:14
Alignment explanation
Indices: 15600671--15600703 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15600661 GTTAAAAAGA
15600671 CAGTGTCG-TAAGT
1 CAGTGTCGATAAGT
*
15600684 CAGTGTTGATAAGT
1 CAGTGTCGATAAGT
15600698 CAGTGT
1 CAGTGT
15600704 TGCCCACGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.33
Consensus pattern (14 bp):
CAGTGTCGATAAGT
Found at i:15600698 original size:14 final size:14
Alignment explanation
Indices: 15600679--15600705 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15600669 GACAGTGTCG
15600679 TAAGTCAGTGTTGA
1 TAAGTCAGTGTTGA
15600693 TAAGTCAGTGTTG
1 TAAGTCAGTGTTG
15600706 CCCACGGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (14 bp):
TAAGTCAGTGTTGA
Found at i:15608884 original size:68 final size:68
Alignment explanation
Indices: 15608716--15608891 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
15608706 TAGTACCACC
* * * *
15608716 CATGTGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
15608778 CACA
65 CACA
** * * *
15608782 CATGTGACCTAGCTACATTTATCTCTCCCATAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGTGACCTAGCTACACATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
15608844 ATCACA
63 ATCACA
15608850 CATGTGACCTAGCTACTACATAGTATCTCGTAGCTCTCTTGT
1 CATGTGACCTAGCTAC-ACATA-TATCTCGTAGCTCTCTTGT
15608892 ACACATGATG
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
66 13 0.14
68 38 0.42
69 8 0.09
70 6 0.07
71 25 0.28
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (68 bp):
CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:15613258 original size:29 final size:30
Alignment explanation
Indices: 15613221--15613286 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
15613211 CTCAAGTAGT
15613221 CAAAACTAG-TTAAATCGCACACTTAGTGC
1 CAAAACTAGTTTAAATCGCACACTTAGTGC
*
15613250 CAAAGCTAGTTTAAATCGCACACTTAGTGC
1 CAAAACTAGTTTAAATCGCACACTTAGTGC
15613280 CAAAACT
1 CAAAACT
15613287 TTCGATTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 8 0.24
30 26 0.76
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (30 bp):
CAAAACTAGTTTAAATCGCACACTTAGTGC
Found at i:15619578 original size:29 final size:29
Alignment explanation
Indices: 15619496--15619590 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
15619486 CTAGTTTCCA
* * * *
15619496 TATAAGTG-AGCCTTTGTGGAAATATTTGT
1 TATAAG-GAAGCCTTTATGGCAATCTCTGT
* *
15619525 TATAATGAAGCCTTTATGATC-ATCTCTGT
1 TATAAGGAAGCCTTTATG-GCAATCTCTGT
*
15619554 TATAAGGAAGCCTTTATGGCAATCTCTGC
1 TATAAGGAAGCCTTTATGGCAATCTCTGT
*
15619583 TAAAAGGA
1 TATAAGGA
15619591 TTCCTTTGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.04
29 51 0.96
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (29 bp):
TATAAGGAAGCCTTTATGGCAATCTCTGT
Found at i:15620887 original size:48 final size:47
Alignment explanation
Indices: 15620816--15620987 Score: 170
Period size: 48 Copynumber: 3.6 Consensus size: 47
15620806 TGTGTGCCAA
* *
15620816 TGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGA-A-AGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TGA-GACAGAGCTAG
15620864 TGTAAGACCATGTCTGGGACATGGCAT-GGCATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC-AGAGCTAG
* * * * * ** *
15620911 TGTAGGACCATGTCTGGGACATGGCATCTGCCTCGACATGTGAGCGAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-CAGAGCTAG
* *
15620959 TGTAAGACCATGTTTGGAACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
15620988 ATAATTCACC
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
44 2 0.02
45 2 0.02
46 4 0.04
47 33 0.31
48 64 0.61
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAGAGCTAG
Found at i:15628389 original size:48 final size:48
Alignment explanation
Indices: 15628323--15628655 Score: 297
Period size: 48 Copynumber: 6.9 Consensus size: 48
15628313 GACATTTGGG
* * *
15628323 TGATATGTGTGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
* *
15628371 TGATATGTGCGATAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACAT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCA-T--CGACAT
*
15628422 T-ATGA-GTGC-C-AGTGTAAGACCATGTCTGGGACATTGCATCCGCCACAT
1 TGAT-ATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCAT-CG--ACAT
* *
15628470 T-ATA--AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCAT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CAT
* * * *
15628515 TGATGTGTACGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCAT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
* * * * ** * * *
15628563 TGAGACGAGAGCTAGTGTGGGACCATGTCTTGGACATAGCATCTG-CCT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACAT
* * * *
15628611 CGATATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGA
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA
15628656 TAATTCACCC
Statistics
Matches: 230, Mismatches: 40, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.00
45 4 0.02
46 4 0.02
47 5 0.02
48 201 0.87
49 2 0.01
50 6 0.03
51 7 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
Found at i:15628598 original size:144 final size:142
Alignment explanation
Indices: 15628336--15628655 Score: 412
Period size: 144 Copynumber: 2.2 Consensus size: 142
15628326 TATGTGTGCC
*
15628336 AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGTGCGATAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGTACGATAGTGTAAGACCATGTCT
* * *
15628401 GGGACATGGCATTGGCCACATTATGAGTGCCAGTGTAAGACCATGTCTGGGACATTGCATCCGCC
66 GGGACATGGCATTGG-C-CATTACGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCCGCC
15628466 AC-ATTATAAGAGCT
129 ACGA-TATAAGAGCT
* * *
15628480 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGATGTGTACGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGA-CATTGATATGTACGATAGTGTAAGACCATGTC
* ** * *
15628544 TGGGACATGGCATTGG-CATTGAGACGAGAGCTAGTGTGGGACCATGTCTTGGACATAGCATCTG
65 TGGGACATGGCATTGGCCATT---ACGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCCG
* **
15628608 CCTCGATATGTGAGCT
127 CCACGATATAAGAGCT
*
15628624 AGTGTAAGACCATGTTTGGAACATGGCATCGA
1 AGTGTAAGACCATGTCTGGAACATGGCATCGA
15628656 TAATTCACCC
Statistics
Matches: 153, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
141 4 0.03
143 1 0.01
144 146 0.95
145 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (142 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGTACGATAGTGTAAGACCATGTCT
GGGACATGGCATTGGCCATTACGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCCGCCAC
GATATAAGAGCT
Found at i:15634110 original size:40 final size:40
Alignment explanation
Indices: 15634052--15634231 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
15634042 GACAATCCGA
* *
15634052 CTATGTATGGCACTTAGTGTGTGATTCGAGATAGCTTCAG
1 CTATGTATGGCACTTAGTGTGTGATTCAAGATAGCTTCGG
* ** ** *
15634092 CTATGTATGGCACATAGTGTACGATTGGAGATAGCTTCGA
1 CTATGTATGGCACTTAGTGTGTGATTCAAGATAGCTTCGG
* *
15634132 TTATGTATGGCACTTAGCGTGTGATTCAAGATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGTGATTCAAGATAGCTTCGG
*
15634172 CTATGTATGGCACTTAGTGTGTGAGATT-AAAATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGT--GATTCAAGATAGCTTCGG
15634213 CTATGTATTGGCACTTAGT
1 CTATGTA-TGGCACTTAGT
15634232 TTGCGAGAAT
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 86 0.72
41 19 0.16
42 15 0.12
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (40 bp):
CTATGTATGGCACTTAGTGTGTGATTCAAGATAGCTTCGG
Found at i:15634431 original size:17 final size:17
Alignment explanation
Indices: 15634409--15634444 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15634399 AAATTAACAA
*
15634409 GTTCAATTTGATGAATT
1 GTTCAATTTGATCAATT
15634426 GTTCAATTTGATCAATT
1 GTTCAATTTGATCAATT
15634443 GT
1 GT
15634445 GTATTTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (17 bp):
GTTCAATTTGATCAATT
Found at i:15656383 original size:22 final size:21
Alignment explanation
Indices: 15656355--15656404 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
15656345 TAAAAGATAT
15656355 ATATTTATATCATTT-TAATTTA
1 ATATTTA-AT-ATTTATAATTTA
*
15656377 ATATTTAATATTTAATAATTTC
1 ATATTTAATATTT-ATAATTTA
15656399 ATATTT
1 ATATTT
15656405 TTTTATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 2 0.08
22 19 0.76
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTTAATATTTATAATTTA
Found at i:15658430 original size:162 final size:163
Alignment explanation
Indices: 15658259--15658562 Score: 400
Period size: 162 Copynumber: 1.9 Consensus size: 163
15658249 CTAAACTACC
* * **
15658259 TTTTTCTTTTAAGTGACTAAGGT-TCATATTCTAAATAAAACTAAATAGCTTAAAAGTCCAAATG
1 TTTTTCTTTTAAGTGACTAAGATAT-ATATTCTAAATAAAACTAAATAGCCTAAAAGTCCAAACA
* * *
15658323 TTATAAAACTAGAAGTACGGATTAT-ACTAGATTGT-T-AATAACAGAAAGCTGTTCTTAATTCA
65 TTATAAAACTAGAAATACGGA-TATCACTAGATT-TCTCAATAACAGAAAGCTGTTCTCAACTCA
15658385 AATACACCTGTCAATAAATTCCGAACCCCCCCCCCT
128 AATACACCTGTCAATAAATTCCGAACCCCCCCCCCT
* * * *
15658421 TTTTTCTTTTAAGTGACTATGATATATATTTTAAATAGAACTCAATAGCCTAAAAGTCCAAACAT
1 TTTTTCTTTTAAGTGACTAAGATATATATTCTAAATAAAACTAAATAGCCTAAAAGTCCAAACAT
* * * * *
15658486 TATAAAACTATAAATATGGATATCACTAGGTTTCTCAATAACAGGAAGCTGTTCTCAACTCAAGT
66 TATAAAACTAGAAATACGGATATCACTAGATTTCTCAATAACAGAAAGCTGTTCTCAACTCAAAT
*
15658551 GCACCTGTCAAT
131 ACACCTGTCAAT
15658563 TAATACTGAA
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
161 4 0.03
162 80 0.66
163 37 0.31
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (163 bp):
TTTTTCTTTTAAGTGACTAAGATATATATTCTAAATAAAACTAAATAGCCTAAAAGTCCAAACAT
TATAAAACTAGAAATACGGATATCACTAGATTTCTCAATAACAGAAAGCTGTTCTCAACTCAAAT
ACACCTGTCAATAAATTCCGAACCCCCCCCCCT
Found at i:15665431 original size:17 final size:17
Alignment explanation
Indices: 15665375--15665432 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
15665365 TTTTTTGTAT
15665375 TATTTTTAA--AATTGAA
1 TATTTTTAATTAATT-AA
15665391 TATTTTGTAATTATATT-A
1 TATTTT-TAATTA-ATTAA
*
15665409 TGTTTTTAATTAATTAA
1 TATTTTTAATTAATTAA
15665426 TATTTTT
1 TATTTTT
15665433 TGAAGAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 9 0.26
17 16 0.46
18 6 0.17
19 1 0.03
20 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TATTTTTAATTAATTAA
Found at i:15668751 original size:21 final size:21
Alignment explanation
Indices: 15668725--15668765 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15668715 ATCTGCTCAA
* *
15668725 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
15668746 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
15668766 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:15682275 original size:13 final size:13
Alignment explanation
Indices: 15682240--15682275 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
15682230 ATGACTTCAT
* *
15682240 GAAAATTTCATTT
1 GAAAATTTCGTTC
15682253 GAAAATTTCGTTC
1 GAAAATTTCGTTC
15682266 GAAAATTTCG
1 GAAAATTTCG
15682276 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (13 bp):
GAAAATTTCGTTC
Found at i:15685348 original size:43 final size:43
Alignment explanation
Indices: 15685299--15685393 Score: 190
Period size: 43 Copynumber: 2.2 Consensus size: 43
15685289 GTGTGTCTAA
15685299 GCCGTGTGTGACACACGATTCCCTCCCATGGGTGTGTGCTATG
1 GCCGTGTGTGACACACGATTCCCTCCCATGGGTGTGTGCTATG
15685342 GCCGTGTGTGACACACGATTCCCTCCCATGGGTGTGTGCTATG
1 GCCGTGTGTGACACACGATTCCCTCCCATGGGTGTGTGCTATG
15685385 GCCGTGTGT
1 GCCGTGTGT
15685394 CCCCTGCATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.13, C:0.27, G:0.32, T:0.28
Consensus pattern (43 bp):
GCCGTGTGTGACACACGATTCCCTCCCATGGGTGTGTGCTATG
Found at i:15688732 original size:28 final size:28
Alignment explanation
Indices: 15688686--15688756 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
15688676 GACATCTTGT
* * *
15688686 ACTTCACCATTTTGTGGTGTAATCTCAC
1 ACTTCACCACTTCGCGGTGTAATCTCAC
* * *
15688714 ACTTCACCACTTCGCGGTGTCATTTCGC
1 ACTTCACCACTTCGCGGTGTAATCTCAC
*
15688742 AATTCACCACTTCGC
1 ACTTCACCACTTCGC
15688757 AATGTCGTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (28 bp):
ACTTCACCACTTCGCGGTGTAATCTCAC
Found at i:15688762 original size:28 final size:28
Alignment explanation
Indices: 15688716--15688775 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
15688706 AATCTCACAC
**
15688716 TTCACCACTTCGCGGTGTCATTTCGCAA
1 TTCACCACTTCGCAATGTCATTTCGCAA
*
15688744 TTCACCACTTCGCAATGTCGTTTCGCAA
1 TTCACCACTTCGCAATGTCATTTCGCAA
15688772 TTCA
1 TTCA
15688776 TCTCGTAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (28 bp):
TTCACCACTTCGCAATGTCATTTCGCAA
Found at i:15690738 original size:14 final size:14
Alignment explanation
Indices: 15690719--15690746 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15690709 ACAATGAAGA
15690719 AGCAAGACAAATTC
1 AGCAAGACAAATTC
15690733 AGCAAGACAAATTC
1 AGCAAGACAAATTC
15690747 TTTCTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
AGCAAGACAAATTC
Found at i:15691193 original size:28 final size:28
Alignment explanation
Indices: 15691161--15691226 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
15691151 TGAAGACATC
* *
15691161 TCACAGTTCACCACTTCGCAGTGTCATT
1 TCACAGTTCAACACTTCACAGTGTCATT
* **
15691189 TCACAGTTCAACGCTTCATGGTGTCATT
1 TCACAGTTCAACACTTCACAGTGTCATT
*
15691217 TCACAATTCA
1 TCACAGTTCA
15691227 TCTCGCAGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (28 bp):
TCACAGTTCAACACTTCACAGTGTCATT
Found at i:15693066 original size:19 final size:19
Alignment explanation
Indices: 15693042--15693081 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15693032 ATTGCAAAAT
15693042 AGTAATTAGGAAATTTCTC
1 AGTAATTAGGAAATTTCTC
15693061 AGTAATTAGGAAATTTCTC
1 AGTAATTAGGAAATTTCTC
15693080 AG
1 AG
15693082 CTATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
AGTAATTAGGAAATTTCTC
Found at i:15696605 original size:93 final size:93
Alignment explanation
Indices: 15696489--15696661 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
15696479 CGCCCATAAG
* * * *
15696489 CGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
15696554 ACGAGCTCGGATGCCTAGTTACAACTCA
66 ACAAGCTCGGATGCCTAGTTACAACTCA
15696582 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
15696647 ATAAGCTCGGATGCC
66 ACAAGCTCGGATGCC
15696662 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACAACTCA
Found at i:15696609 original size:20 final size:19
Alignment explanation
Indices: 15696575--15696612 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
15696565 TGCCTAGTTA
15696575 CAACTCACGAACTCGGACT
1 CAACTCACGAACTCGGACT
*
15696594 CAACTCAACGAGCTCGGAC
1 CAACTC-ACGAACTCGGAC
15696613 ATTCGCATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.37, G:0.18, T:0.13
Consensus pattern (19 bp):
CAACTCACGAACTCGGACT
Found at i:15696657 original size:46 final size:46
Alignment explanation
Indices: 15696482--15696657 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
15696472 TGTAACCCGC
* * *
15696482 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
15696528 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *
15696574 ACAACTCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 -CCA-TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * **
15696621 CCATAAGTGAACTCAGACTCAACTCAATAAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
15696658 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 63 0.59
47 31 0.29
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:15701295 original size:25 final size:25
Alignment explanation
Indices: 15701239--15701295 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
15701229 TACCGATTGC
* *
15701239 AGCTCGTGAGAGCTTACCGATTCTT
1 AGCTCGTGAGAGCATACCGATTCAT
*
15701264 AGTTCGTGAGAGCATACC-AGTTCAT
1 AGCTCGTGAGAGCATACCGA-TTCAT
15701289 AGCTCGT
1 AGCTCGT
15701296 ATGACCATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTCAT
Found at i:15718924 original size:87 final size:86
Alignment explanation
Indices: 15718772--15718931 Score: 241
Period size: 87 Copynumber: 1.8 Consensus size: 86
15718762 TTTAAGTTCA
* *
15718772 GTGAATTCATCAAGTCCGTCTTAATAGGACTACCCAAAATGTGGGATATGAACTCATTAAGAGTA
1 GTGAATTAATCAAGTCCGTCTCAATAGGACTACCCAAAATGTGGGATATGAACTCATTAAGAGTA
15718837 ATAAACTCAACCTCTCAAGTTG
66 A-AAACTCAACCTCTCAAGTTG
* * * *
15718859 GTGAATTAATCAAGTCTGTCTCAATAGGACTACCCAAAATTTGGGCTATGAATTCATT-AGAAGT
1 GTGAATTAATCAAGTCCGTCTCAATAGGACTACCCAAAATGTGGGATATGAACTCATTAAG-AGT
15718923 AAAAACTCA
65 AAAAACTCA
15718932 TCTTTATGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
86 9 0.14
87 57 0.86
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (86 bp):
GTGAATTAATCAAGTCCGTCTCAATAGGACTACCCAAAATGTGGGATATGAACTCATTAAGAGTA
AAAACTCAACCTCTCAAGTTG
Found at i:15732417 original size:21 final size:22
Alignment explanation
Indices: 15732393--15732440 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
15732383 ATATTATTAC
15732393 AAAAAATGTA-AAAGA-AATTGT
1 AAAAAAT-TATAAAGACAATTGT
*
15732414 -AAAAATTATAAATACAATTGT
1 AAAAAATTATAAAGACAATTGT
15732435 AAAAAA
1 AAAAAA
15732441 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 2 0.09
20 10 0.43
21 6 0.26
22 5 0.22
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (22 bp):
AAAAAATTATAAAGACAATTGT
Found at i:15732419 original size:20 final size:21
Alignment explanation
Indices: 15732394--15732439 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15732384 TATTATTACA
15732394 AAAAATGTA-AAAGA-AATTGT
1 AAAAAT-TATAAAGACAATTGT
*
15732414 AAAAATTATAAATACAATTGT
1 AAAAATTATAAAGACAATTGT
15732435 AAAAA
1 AAAAA
15732440 AAATATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 10 0.43
21 11 0.48
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (21 bp):
AAAAATTATAAAGACAATTGT
Found at i:15732840 original size:27 final size:26
Alignment explanation
Indices: 15732810--15732860 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
15732800 ATATTTAAAT
15732810 ATTTAATATTATAT-TTTTCTATTTTTA
1 ATTTAATATTA-ATGTTTT-TATTTTTA
*
15732837 ATTTAATTTTAATGTTTTTATTTT
1 ATTTAATATTAATGTTTTTATTTT
15732861 AAATAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
ATTTAATATTAATGTTTTTATTTTTA
Found at i:15737330 original size:24 final size:24
Alignment explanation
Indices: 15737280--15737330 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
15737270 TTAACAAGTC
**
15737280 AAATAAACTATACTAATAAATGTT
1 AAATAAACTATACTAATAAATACT
15737304 AAATATAA-TATACTAATAAATACT
1 AAATA-AACTATACTAATAAATACT
15737328 AAA
1 AAA
15737331 ACTTCTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:15739125 original size:8 final size:8
Alignment explanation
Indices: 15739112--15739136 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15739102 AAAACTAAAT
15739112 CCCGAAAA
1 CCCGAAAA
15739120 CCCGAAAA
1 CCCGAAAA
15739128 CCCGAAAA
1 CCCGAAAA
15739136 C
1 C
15739137 AAAGAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.40, G:0.12, T:0.00
Consensus pattern (8 bp):
CCCGAAAA
Found at i:15747496 original size:27 final size:27
Alignment explanation
Indices: 15747466--15747578 Score: 75
Period size: 27 Copynumber: 4.2 Consensus size: 27
15747456 CTATCTAGCG
* *
15747466 AACAGGTGATTGGCGGACTGGCTCGCA
1 AACAGGTGACTGGCAGACTGGCTCGCA
* * *
15747493 AACAAGTGACTGGCAGACTGTCTCGCG
1 AACAGGTGACTGGCAGACTGGCTCGCA
* ** * * *
15747520 AACAGAG-GACTGGTAGGTTGCCTCACG
1 AACAG-GTGACTGGCAGACTGGCTCGCA
* * * *
15747547 AATAGGTGACTGGCAGATTGCCTCACA
1 AACAGGTGACTGGCAGACTGGCTCGCA
15747574 AACAG
1 AACAG
15747579 AGGACTGACG
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.01
27 66 0.97
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (27 bp):
AACAGGTGACTGGCAGACTGGCTCGCA
Found at i:15747584 original size:27 final size:28
Alignment explanation
Indices: 15747491--15747597 Score: 96
Period size: 27 Copynumber: 4.0 Consensus size: 28
15747481 GACTGGCTCG
* * *
15747491 CAAACA-AGTGACTGGCAGACTGTCTCG
1 CAAACAGAGTGACTGGCAGATTGCCTCA
* * *
15747518 CGAACAGAG-GACTGGTAGGTTGCCTCA
1 CAAACAGAGTGACTGGCAGATTGCCTCA
* *
15747545 CGAATAG-GTGACTGGCAGATTGCCTCA
1 CAAACAGAGTGACTGGCAGATTGCCTCA
* *
15747572 CAAACAGAG-GACTGACGGATTGCCTC
1 CAAACAGAGTGACTGGCAGATTGCCTC
15747598 GTGAACAGGA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.02
27 60 0.94
28 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.29, T:0.19
Consensus pattern (28 bp):
CAAACAGAGTGACTGGCAGATTGCCTCA
Found at i:15750502 original size:26 final size:26
Alignment explanation
Indices: 15750458--15750507 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
15750448 CCTGAACCAA
*
15750458 CTTAACTGCTGCAATAGTTCATTCTG
1 CTTAACTGCTGCAACAGTTCATTCTG
* *
15750484 CTTAACTGCTGCTACAGTTTATTC
1 CTTAACTGCTGCAACAGTTCATTC
15750508 CTTAACATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (26 bp):
CTTAACTGCTGCAACAGTTCATTCTG
Found at i:15761398 original size:25 final size:24
Alignment explanation
Indices: 15761365--15761414 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 24
15761355 AAACCTGATA
15761365 ATGACTATTTGTCACATTATATGTTT
1 ATGACTATTTGT-A-ATTATATGTTT
*
15761391 ATGA-TATTTGTATTTATATGTTT
1 ATGACTATTTGTAATTATATGTTT
15761414 A
1 A
15761415 ATAGTATGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 7 0.30
26 4 0.17
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (24 bp):
ATGACTATTTGTAATTATATGTTT
Found at i:15768612 original size:52 final size:53
Alignment explanation
Indices: 15768546--15768648 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 53
15768536 ACTCCCAATC
15768546 AATTTCCTTCTTATTACATTTG-CTATCTTTGATTAACTTA-TCATTTCGAGTT
1 AATTTCCTTCTTATTACATTTGTC-ATCTTTGATTAACTTATTCATTTCGAGTT
* * *
15768598 AATTTCCTTTTTATTGCATTTGTCATCTTTGATTAATTTATTCATTTCGAG
1 AATTTCCTTCTTATTACATTTGTCATCTTTGATTAACTTATTCATTTCGAG
15768649 CTATGCTCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
52 35 0.76
53 11 0.24
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (53 bp):
AATTTCCTTCTTATTACATTTGTCATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:15769178 original size:46 final size:46
Alignment explanation
Indices: 15769032--15769171 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 46
15769022 CAGATCAATT
** *
15769032 GATTGAAGAAGCCACAAATCCTATACCCTTGAGCTACAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTACAGTGGGATG
* *
15769078 GATTGAAGAAGATACAAATCTTATACCCCTGAGTTACAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTACAGTGGGATG
* *
15769124 GATTGAAGATGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTACAGTGGGATG
15769170 GA
1 GA
15769172 CGGAAGAAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCTTGAGTTACAGTGGGATG
Found at i:15769794 original size:45 final size:46
Alignment explanation
Indices: 15769673--15769799 Score: 145
Period size: 44 Copynumber: 2.8 Consensus size: 46
15769663 ATTATGGTAG
* * *
15769673 ATCTTATCT-TCTTGAAGTTGCAACGGAGCAGATTGAAGCCACCAGC
1 ATCTTATCTCT-TTGAAGTTGCAGCGGAGCAGATTGAAGACACCAGA
* * *
15769719 ATC--ATCTCTCTGAAGTTGTAGCGGAGCAGATTGAAGACAGC-GA
1 ATCTTATCTCTTTGAAGTTGCAGCGGAGCAGATTGAAGACACCAGA
* *
15769762 ATCTTATCTCTTTGAAGTTGCAGTGGAACAGATTGAAG
1 ATCTTATCTCTTTGAAGTTGCAGCGGAGCAGATTGAAG
15769800 CTACAAATTA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.06
44 31 0.46
45 30 0.44
46 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (46 bp):
ATCTTATCTCTTTGAAGTTGCAGCGGAGCAGATTGAAGACACCAGA
Found at i:15769801 original size:143 final size:143
Alignment explanation
Indices: 15769529--15769992 Score: 560
Period size: 143 Copynumber: 3.3 Consensus size: 143
15769519 TGAATCCATA
* * **
15769529 AATCTCATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAGCCTTATCTCCCTGAAGTTG
1 AATCTTATCTTCATGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * * * *
15769594 CAGCGGAGCAAACTAAAGACAACGAATCTTA-CTTCCTTGACGTTGCAGTGGAATATATTAAAGC
66 CAGCGGAGCAGACTAAAGACAGCGAATCTTATC-TCCTTGAAGTTGCAGTGGAACAGATTAAAGC
15769658 TACAAATTATGGTAG
130 TACAAATTATGG-AG
* ** * * *
15769673 -ATCTTATCTTCTTGAAGTTGCAACGGAGCAGATTGAAGCCACCAGCATCATCTCTCTGAAGTTG
1 AATCTTATCTTCATGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * * * *
15769737 TAGCGGAGCAGATTGAAGACAGCGAATCTTATCTCTTTGAAGTTGCAGTGGAACAGATTGAAGCT
66 CAGCGGAGCAGACTAAAGACAGCGAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAGCT
*
15769802 ACAAATTATGGCG
131 ACAAATTATGGAG
* * *
15769815 AATCTTATCTTCATGAAGTTGTAGTGGAGTAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTG
1 AATCTTATCTTCATGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* * * *
15769880 CAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTGAAGTTACAGAGGAACAGATTAAAGCT
66 CAGCGGAGCAGACTAAAGACAGCGAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAGCT
* * *
15769945 AC-AAGT-CGCA-
131 ACAAATTATGGAG
* * * *
15769955 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA
1 AATCTTATCTTCATGAAGTTGCAGTGGAGCAGATTGAA
15769993 ATTACCAATT
Statistics
Matches: 269, Mismatches: 49, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
140 31 0.12
141 1 0.00
142 4 0.01
143 232 0.86
144 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (143 bp):
AATCTTATCTTCATGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
CAGCGGAGCAGACTAAAGACAGCGAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAGCT
ACAAATTATGGAG
Found at i:15769917 original size:45 final size:49
Alignment explanation
Indices: 15769861--15769986 Score: 143
Period size: 45 Copynumber: 2.6 Consensus size: 49
15769851 AAGCCACCAG
*
15769861 CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAG-AC-AG-CG-AA
1 CCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTAAAGCACAAGTCGAAA
* * * * *
15769906 TCTTATTTCCCTGAAGTTACAGAGGAACAGATTAAAGCTACAAGTCGCAAA
1 CCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTAAAGC-ACAAGTCG-AAA
*
15769957 CCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 CCTTATCTCCCTGAAGTTGCAGAGGAGCAG
15769987 GTTGAAATTA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
45 31 0.48
47 2 0.03
48 2 0.03
49 2 0.03
51 27 0.42
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (49 bp):
CCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTAAAGCACAAGTCGAAA
Found at i:15771638 original size:3 final size:3
Alignment explanation
Indices: 15771630--15771666 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
15771620 TATTTACTTG
* *
15771630 TAT TAT TAT TAA TAT TAT TAT TGT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15771667 GAACCATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:15771858 original size:18 final size:17
Alignment explanation
Indices: 15771822--15771863 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
15771812 GTCCTCATTG
*
15771822 TTAT-TTTATTATATGT
1 TTATATTTATTATATAT
*
15771838 TTAATATTTATTATTTAT
1 TT-ATATTTATTATATAT
15771856 TTATATTT
1 TTATATTT
15771864 TTAATATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 8 0.36
18 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTATATTTATTATATAT
Found at i:15774283 original size:47 final size:47
Alignment explanation
Indices: 15774232--15774328 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
15774222 AAGCCCTCAT
*
15774232 TCATACATTCATGTAAAATTGTGTTTAGATTAGAAATTGCATAGGGA
1 TCATACATTCATGTAAAATTGCGTTTAGATTAGAAATTGCATAGGGA
15774279 TCATACATTCATGTAAAATTGCGTTTAGATTAGAAATTGCATAGGGA
1 TCATACATTCATGTAAAATTGCGTTTAGATTAGAAATTGCATAGGGA
15774326 TCA
1 TCA
15774329 GTCCTTGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (47 bp):
TCATACATTCATGTAAAATTGCGTTTAGATTAGAAATTGCATAGGGA
Found at i:15774633 original size:17 final size:17
Alignment explanation
Indices: 15774611--15774652 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15774601 ATTGAATCAC
15774611 ATATTGATTGTATTGAT
1 ATATTGATTGTATTGAT
* * *
15774628 ATATTGTTTTTGTTGAT
1 ATATTGATTGTATTGAT
15774645 -TATTGATT
1 ATATTGATT
15774653 TAAATCATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.60
Consensus pattern (17 bp):
ATATTGATTGTATTGAT
Found at i:15777187 original size:7 final size:7
Alignment explanation
Indices: 15777175--15777200 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15777165 CCTAGATAAA
15777175 TTGGGCT
1 TTGGGCT
15777182 TTGGGCT
1 TTGGGCT
15777189 TTGGGCT
1 TTGGGCT
15777196 TTGGG
1 TTGGG
15777201 TTTCATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.46, T:0.42
Consensus pattern (7 bp):
TTGGGCT
Found at i:15779977 original size:18 final size:17
Alignment explanation
Indices: 15779950--15779985 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
15779940 GTTCTTTATT
*
15779950 TTATTAATATATTATAA
1 TTATTAATATAATATAA
15779967 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
15779985 T
1 T
15779986 ATAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:15779982 original size:10 final size:10
Alignment explanation
Indices: 15779954--15779990 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
15779944 TTTATTTTAT
*
15779954 TAATATATTA
1 TAATATAATA
15779964 TAAT-T-ATA
1 TAATATAATA
15779972 TAATATAATA
1 TAATATAATA
15779982 TAATATAAT
1 TAATATAAT
15779991 TTATTTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAATATAATA
Found at i:15784567 original size:42 final size:41
Alignment explanation
Indices: 15784488--15784642 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 41
15784478 TACCGAGGCT
* *
15784488 ATGTAAGACCATATTTGGGATATGGTATC-ATTATGAGACTTC
1 ATGTAAGACCATATCTGGGATATGGCATCGA-TATGAGA-TTC
* * *
15784530 ATATAAGACCATATATGGGATATGGCATCGATGTGAGATTTC
1 ATGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
* * * * *
15784572 GTGTAAGACCATAGCTGGGTTATTGCCATCGATATGAGATCCC
1 ATGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAT-TC
*
15784615 ATGTAAAACCATATCTGGGATATGGCAT
1 ATGTAAGACCATATCTGGGATATGGCAT
15784643 TGGTGTAGTA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 58 0.63
43 34 0.37
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (41 bp):
ATGTAAGACCATATCTGGGATATGGCATCGATATGAGATTC
Found at i:15787571 original size:42 final size:42
Alignment explanation
Indices: 15787508--15787619 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
15787498 TACTACACCA
* *
15787508 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCAT-ATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATAAT-G
* *
15787550 ATGGCATATCCCAGATATGGTCTTACACGAAGTCTTATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAATG
15787592 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
15787620 ATAGCCTTGG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
42 60 0.95
43 3 0.05
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAATG
Found at i:15793622 original size:10 final size:10
Alignment explanation
Indices: 15793595--15793654 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
15793585 TTAAATTCTA
15793595 AAAGATAAAT
1 AAAGATAAAT
15793605 ACAA-ATAAAT
1 A-AAGATAAAT
*
15793615 AAAGATAATT
1 AAAGATAAAT
*
15793625 AAAGATAATT
1 AAAGATAAAT
15793635 AAAGATAAAT
1 AAAGATAAAT
15793645 GAAA-ATAAAT
1 -AAAGATAAAT
15793655 CCTAAATCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:15794413 original size:96 final size:97
Alignment explanation
Indices: 15794289--15794468 Score: 254
Period size: 96 Copynumber: 1.9 Consensus size: 97
15794279 ATATATATTT
* ** * * *
15794289 TTTTTGCTTAAGAATATATTGAATCTTTTGACGTGAAGAGAGATGACAGCCAAGCACCCCACCCA
1 TTTTTGCTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCCACCCA
*
15794354 GATTACTCAGCCTAACACACTCCTAATTTTTA
66 GATTACTCAGCCCAACACACTCCTAATTTTTA
* * *
15794386 TTTTT-CTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATAACAGTCAAGCACCTCACCCT
1 TTTTTGCTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCCACCCA
*
15794450 GGTTACTCAGCCCAACACA
66 GATTACTCAGCCCAACACA
15794469 TTCTTAAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
96 67 0.93
97 5 0.07
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (97 bp):
TTTTTGCTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCCACCCA
GATTACTCAGCCCAACACACTCCTAATTTTTA
Found at i:15796808 original size:5 final size:5
Alignment explanation
Indices: 15796798--15796867 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
15796788 TCAACATCCA
*
15796798 AAAAT AAAAT AGCAAAT --AAT AAAAT AAAGT AAAAT -AAAT AAAAAT
1 AAAAT AAAAT A--AAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
15796843 AAAAT -AAAT AAAAAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT -AAAAT AAAA
15796868 ATTAGGTTGC
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
3 3 0.05
4 8 0.15
5 26 0.47
6 14 0.25
7 4 0.07
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:15796844 original size:6 final size:6
Alignment explanation
Indices: 15796833--15796869 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
15796823 AAAGTAAAAT
15796833 AAATAA AAAT-A AAAT-- AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
15796870 TAGGTTGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 5 0.17
6 20 0.69
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:15803251 original size:10 final size:10
Alignment explanation
Indices: 15803224--15803273 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
15803214 TTAAATTCTA
*
15803224 AAAGAGAAAT
1 AAAGATAAAT
15803234 ACAA-ATAAAT
1 A-AAGATAAAT
*
15803244 AAAGATAATT
1 AAAGATAAAT
15803254 AAAGATAAAT
1 AAAGATAAAT
15803264 GAAA-ATAAAT
1 -AAAGATAAAT
15803274 CCTAAATCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:15814392 original size:20 final size:20
Alignment explanation
Indices: 15814364--15814427 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
15814354 ATCTATGGAC
15814364 AAGCCACCAGTAATGCAGAT
1 AAGCCACCAGTAATGCAGAT
* * * *
15814384 AAGCTACCAGGAATG-TGGT
1 AAGCCACCAGTAATGCAGAT
*
15814403 CAAGCCACTAGTAATGCAGAT
1 -AAGCCACCAGTAATGCAGAT
15814424 AAGC
1 AAGC
15814428 TGCCAGTACT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (20 bp):
AAGCCACCAGTAATGCAGAT
Found at i:15814435 original size:20 final size:20
Alignment explanation
Indices: 15814364--15814435 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
15814354 ATCTATGGAC
*
15814364 AAGCCACCAGTAATGCAGAT
1 AAGCTACCAGTAATGCAGAT
* * *
15814384 AAGCTACCAGGAATG-TGGT
1 AAGCTACCAGTAATGCAGAT
* *
15814403 CAAGCCACTAGTAATGCAGAT
1 -AAGCTACCAGTAATGCAGAT
*
15814424 AAGCTGCCAGTA
1 AAGCTACCAGTA
15814436 CTTCTCCTTA
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
19 2 0.05
20 34 0.89
21 2 0.05
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (20 bp):
AAGCTACCAGTAATGCAGAT
Found at i:15826079 original size:21 final size:21
Alignment explanation
Indices: 15826046--15826094 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
15826036 ATCATGTTAT
*
15826046 TTAT-TTTTATTTGATTTTG-
1 TTATGTTTTATTTGAATTTGA
15826065 TTATGTTTATATTTGAATTTGAA
1 TTATGTTT-TATTTGAATTTG-A
15826088 TTATGTT
1 TTATGTT
15826095 AGCACCACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 11 0.44
23 7 0.28
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.65
Consensus pattern (21 bp):
TTATGTTTTATTTGAATTTGA
Found at i:15835868 original size:43 final size:43
Alignment explanation
Indices: 15835755--15836077 Score: 190
Period size: 43 Copynumber: 7.6 Consensus size: 43
15835745 GGCACTGTAA
* * * * * *
15835755 TGCATTATTAGATAAACCAGAAG-AAATACACTAGCACACACAG
1 TGCATCATTGGATAAACC-GAAGTAATTATACTGGCACACATAG
* * * *
15835798 TGCATCGTCGGACAAGA-TGAAGTAATTATACTGGCACACATAG
1 TGCATCATTGGATAA-ACCGAAGTAATTATACTGGCACACATAG
* * ** ** *
15835841 TACATCATTGGATAAACCGAAGCAATTATGTTGGCACGTA-AA
1 TGCATCATTGGATAAACCGAAGTAATTATACTGGCACACATAG
** * * *
15835883 TGCATCATTGGATGTACCGAAGAAAATATA-TCG-ACA-AGTAAG
1 TGCATCATTGGATAAACCGAAGTAATTATACTGGCACACA-T-AG
* * ** * *
15835925 TACATTATAAGATATACCGAAGCAATTATACTGGCACACATAG
1 TGCATCATTGGATAAACCGAAGTAATTATACTGGCACACATAG
* ** * * * * * *
15835968 TGCATCATTGGACAAGTCAAATTAATTATATTAGCATACACAG
1 TGCATCATTGGATAAACCGAAGTAATTATACTGGCACACATAG
* *** *
15836011 TGCATCATTGGACAAGTTGAAGTAATTATACTGGCACTCATAG
1 TGCATCATTGGATAAACCGAAGTAATTATACTGGCACACATAG
15836054 TGCATCATTGGATAAACCGAAGTA
1 TGCATCATTGGATAAACCGAAGTA
15836078 TAAATTGTAC
Statistics
Matches: 206, Mismatches: 65, Indels: 18
0.71 0.22 0.06
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 2 0.01
42 54 0.26
43 141 0.68
44 5 0.02
45 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (43 bp):
TGCATCATTGGATAAACCGAAGTAATTATACTGGCACACATAG
Found at i:15838830 original size:11 final size:11
Alignment explanation
Indices: 15838814--15838838 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15838804 AAGTAAGTAC
15838814 ATATTATTATT
1 ATATTATTATT
15838825 ATATTATTATT
1 ATATTATTATT
15838836 ATA
1 ATA
15838839 ATTAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTATTATT
Found at i:15838922 original size:4 final size:4
Alignment explanation
Indices: 15838913--15838945 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
15838903 ACAGGGGGAA
15838913 AAAG AAAG AAAG AAA- AAGAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AA-AG AAAG AAAG AAAG A
15838946 GAAAAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.07
4 23 0.85
5 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:15838934 original size:16 final size:15
Alignment explanation
Indices: 15838911--15838943 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
15838901 AAACAGGGGG
15838911 AAAAAGAAAGAAAGA
1 AAAAAGAAAGAAAGA
15838926 AAAAGAGAAAGAAAGA
1 AAAA-AGAAAGAAAGA
15838942 AA
1 AA
15838944 GAGAAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAGA
Found at i:15838936 original size:20 final size:21
Alignment explanation
Indices: 15838913--15838951 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
15838903 ACAGGGGGAA
15838913 AAAGAAAGAAAGA-AAAAGAG
1 AAAGAAAGAAAGAGAAAAGAG
15838933 AAAGAAAGAAAGAGAAAAG
1 AAAGAAAGAAAGAGAAAAG
15838952 TTAAGGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAAAGAGAAAAGAG
Found at i:15846629 original size:21 final size:20
Alignment explanation
Indices: 15846573--15846644 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
15846563 CATAAATTCC
15846573 AAATCTCAAACTCAAA-CTT
1 AAATCTCAAACTCAAATCTT
* *
15846592 GAA-CTCAAACCCTAAATCTT
1 AAATCTCAAACTC-AAATCTT
*
15846612 AAATCTCAAACTTCAAATCTC
1 AAATCTCAAAC-TCAAATCTT
*
15846633 AAATATCAAACT
1 AAATCTCAAACT
15846645 TTGAACCTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 8 0.19
19 5 0.12
20 6 0.14
21 23 0.53
22 1 0.02
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (20 bp):
AAATCTCAAACTCAAATCTT
Found at i:15847212 original size:16 final size:16
Alignment explanation
Indices: 15847191--15847243 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
15847181 ATACATATTT
15847191 AAATATTAAAATTTAA
1 AAATATTAAAATTTAA
*
15847207 AAATATCAAAA-TTAA
1 AAATATTAAAATTTAA
*
15847222 AAAT-TTAAATTTTAGA
1 AAATATTAAAATTTA-A
15847238 AAATAT
1 AAATAT
15847244 AAGAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 4 0.13
15 11 0.35
16 15 0.48
17 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATATTAAAATTTAA
Found at i:15847212 original size:30 final size:32
Alignment explanation
Indices: 15847178--15847244 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 32
15847168 CCTAATATTC
* * *
15847178 AATATACATATTTAAATA-TTAAAATTTA-AA
1 AATATACAAAATTAAAAATTTAAAATTTAGAA
*
15847208 AATAT-CAAAATTAAAAATTTAAATTTTAGAA
1 AATATACAAAATTAAAAATTTAAAATTTAGAA
15847239 AATATA
1 AATATA
15847245 AGAAAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 9 0.30
30 14 0.47
31 7 0.23
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (32 bp):
AATATACAAAATTAAAAATTTAAAATTTAGAA
Found at i:15848665 original size:24 final size:24
Alignment explanation
Indices: 15848638--15848691 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
15848628 TCATCCCATC
15848638 TCATAATCATTTGTTGAAATAATT
1 TCATAATCATTTGTTGAAATAATT
15848662 TCATAATCATTTGTTGAAATAATT
1 TCATAATCATTTGTTGAAATAATT
15848686 TCATAA
1 TCATAA
15848692 ATAAATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (24 bp):
TCATAATCATTTGTTGAAATAATT
Found at i:15848928 original size:21 final size:19
Alignment explanation
Indices: 15848902--15848946 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15848892 ATATTTAATT
15848902 AAAAAATTGTAAAAAAATATA
1 AAAAAATT-T-AAAAAATATA
**
15848923 AAAAAATTTCTAAAATATA
1 AAAAAATTTAAAAAATATA
15848942 AAAAA
1 AAAAA
15848947 TATAATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAAATTTAAAAAATATA
Found at i:15849001 original size:21 final size:21
Alignment explanation
Indices: 15848967--15849024 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
15848957 CATTTTTTAG
*
15848967 ATTATAAA-AATAAAAAATAT-
1 ATTAAAAATAATAAAAAA-ATC
15848987 ATTAAAAATAATAAAAAAATC
1 ATTAAAAATAATAAAAAAATC
15849008 ATTTAAAAATAA-AAAAA
1 A-TTAAAAATAATAAAAA
15849025 TTGAATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.26
21 15 0.44
22 10 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
ATTAAAAATAATAAAAAAATC
Found at i:15849006 original size:22 final size:21
Alignment explanation
Indices: 15848978--15849024 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
15848968 TTATAAAAAT
15848978 AAAAAAT-ATATTAAAAATAATA
1 AAAAAATCAT-TTAAAAATAA-A
15849000 AAAAAATCATTTAAAAATAAA
1 AAAAAATCATTTAAAAATAAA
15849021 AAAA
1 AAAA
15849025 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.21
22 17 0.71
23 2 0.08
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAATCATTTAAAAATAAA
Found at i:15849062 original size:25 final size:23
Alignment explanation
Indices: 15849009--15849059 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 23
15848999 AAAAAAATCA
15849009 TTTAAAAATAAAAAAATTGAATT
1 TTTAAAAATAAAAAAATTGAATT
15849032 TTTAAAAATTATAAAAAATTAGAATT
1 TTTAAAAA-TA-AAAAAATT-GAATT
15849058 TT
1 TT
15849060 AAACAACCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.32
24 2 0.08
25 8 0.32
26 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
TTTAAAAATAAAAAAATTGAATT
Found at i:15849077 original size:25 final size:26
Alignment explanation
Indices: 15849019--15849074 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
15849009 TTTAAAAATA
**
15849019 AAAAAATT-GAATTTTTAAAAATTAT
1 AAAAAATTAGAATTTTTAAAAACCAT
15849044 AAAAAATTAGAA-TTTTAAACAACCAT
1 AAAAAATTAGAATTTTTAAA-AACCAT
15849070 AAAAA
1 AAAAA
15849075 TTATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (26 bp):
AAAAAATTAGAATTTTTAAAAACCAT
Found at i:15853613 original size:96 final size:96
Alignment explanation
Indices: 15853446--15853675 Score: 293
Period size: 96 Copynumber: 2.4 Consensus size: 96
15853436 ATTACCAATA
* * *
15853446 CCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGACGATGCCGTGTCCTAGACATGG
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGACGATGCCATGTCCCAGACATGG
* *
15853511 TTTTACACTAGCTCTCGTCT-CAATGCCGATG
66 TCTTACACTAGCTCTCAT-TACAATGCCGATG
* * * * * *
15853542 CCATGTCCCAAACATGGTTTTACATTGGCTCTCATAAT-GTGGTCGATGCCATGTCCCAGACATG
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACAT-ATCGAGGACGATGCCATGTCCCAGACATG
* **
15853606 GTCTTACACTAGCTCTCATTACATTGTTGATG
65 GTCTTACACTAGCTCTCATTACAATGCCGATG
*
15853638 CCATGTTCCAAACATGGTCTTACACTGGCACACATATC
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACATATC
15853676 ACCCAAATGC
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
95 3 0.03
96 108 0.96
97 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (96 bp):
CCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGACGATGCCATGTCCCAGACATGG
TCTTACACTAGCTCTCATTACAATGCCGATG
Found at i:15853638 original size:48 final size:48
Alignment explanation
Indices: 15853446--15853663 Score: 194
Period size: 48 Copynumber: 4.5 Consensus size: 48
15853436 ATTACCAATA
* * * * *
15853446 CCATGTTCCAAACATGGTCTTACACTGGCTCACATGT-CGA-GGACGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-TAC-ATTGTCGATG
* * * * * * *
15853494 CCGTGTCCTAGACATGGTTTTACACTAGCTCTCGTCT-CAATGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-TACATTGTCGATG
* * *
15853542 CCATGTCCCAAACATGGTTTTACATTGGCTCTCA-TA-ATGTGGTCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATTACAT-T-GTCGATG
* *
15853590 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATTACATTGTTGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATTACATTGTCGATG
*
15853638 CCATGTTCCAAACATGGTCTTACACT
1 CCATGTCCCAAACATGGTCTTACACT
15853664 GGCACACATA
Statistics
Matches: 138, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 129 0.93
49 3 0.02
50 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (48 bp):
CCATGTCCCAAACATGGTCTTACACTAGCTCTCATTACATTGTCGATG
Found at i:15856363 original size:20 final size:20
Alignment explanation
Indices: 15856247--15856363 Score: 112
Period size: 20 Copynumber: 5.9 Consensus size: 20
15856237 ATGAGATTTG
* *
15856247 CACTTCGGTGCCTCTGTATA
1 CACTTCGGTGCCCCTGTTTA
* *
15856267 CACTTCGGTGCCTCTGTATA
1 CACTTCGGTGCCCCTGTTTA
** *
15856287 CACTTCGGT-ATCCTGTTTG
1 CACTTCGGTGCCCCTGTTTA
* *
15856306 CACTACGGTGCCCCTGTCTA
1 CACTTCGGTGCCCCTGTTTA
*
15856326 CACATT-TGTGCCCCTGTTTA
1 CAC-TTCGGTGCCCCTGTTTA
*
15856346 CACTTCAGTGCCCCTGTT
1 CACTTCGGTGCCCCTGTT
15856364 ATGCATCTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.19
20 64 0.80
21 1 0.01
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.35
Consensus pattern (20 bp):
CACTTCGGTGCCCCTGTTTA
Found at i:15859929 original size:22 final size:22
Alignment explanation
Indices: 15859904--15859952 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
15859894 ACTACAGTAT
* *
15859904 CTACTGATTTGCA-TTATGGTTC
1 CTACTGATTCGCACTT-TGGTGC
15859926 CTACTGATTCGCACTTTGGTGC
1 CTACTGATTCGCACTTTGGTGC
15859948 CTACT
1 CTACT
15859953 ACTAATCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (22 bp):
CTACTGATTCGCACTTTGGTGC
Found at i:15865959 original size:75 final size:75
Alignment explanation
Indices: 15865853--15866006 Score: 281
Period size: 75 Copynumber: 2.1 Consensus size: 75
15865843 TTAATATTAC
*
15865853 ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTTTAATATTTTGTTAATGT
1 ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTCTAATATTTTGTTAATGT
15865918 ATAAGTTTAT
66 ATAAGTTTAT
15865928 ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTCTAATATTTTGTTAATGT
1 ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTCTAATATTTTGTTAATGT
* *
15865993 ATGATTTTAT
66 ATAAGTTTAT
15866003 ATGA
1 ATGA
15866007 TTACTTATCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (75 bp):
ATGAATTGTAAGCTCATGTGTAAATGTTGCAATGATATATCATGTTTCTAATATTTTGTTAATGT
ATAAGTTTAT
Found at i:15865992 original size:38 final size:38
Alignment explanation
Indices: 15865875--15865992 Score: 95
Period size: 38 Copynumber: 3.1 Consensus size: 38
15865865 CTCATGTGTA
*
15865875 AATGTTGCAATGATATATCATGTTTTTAATATTTTGTT
1 AATGTTGCAATGATATATCATGTTTCTAATATTTTGTT
* * * * *
15865913 AATGTAT--AA-G-TTTAT-ATGAATTGTAAGCTCA-TGTGTA
1 AATGT-TGCAATGATATATCATG-TTTCTAA--T-ATTTTGTT
15865950 AATGTTGCAATGATATATCATGTTTCTAATATTTTGTT
1 AATGTTGCAATGATATATCATGTTTCTAATATTTTGTT
15865988 AATGT
1 AATGT
15865993 ATGATTTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 22
0.65 0.11 0.24
Matches are distributed among these distances:
34 3 0.05
35 9 0.15
36 2 0.03
37 13 0.22
38 18 0.31
39 2 0.03
40 9 0.15
41 3 0.05
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.47
Consensus pattern (38 bp):
AATGTTGCAATGATATATCATGTTTCTAATATTTTGTT
Found at i:15867036 original size:20 final size:20
Alignment explanation
Indices: 15867011--15867053 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
15867001 CCGTACTAAG
15867011 AGATTAATAAATTTTAGTAA
1 AGATTAATAAATTTTAGTAA
15867031 AGATTAATAAATTTTAGTAA
1 AGATTAATAAATTTTAGTAA
15867051 AGA
1 AGA
15867054 AAGGTCGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (20 bp):
AGATTAATAAATTTTAGTAA
Found at i:15876041 original size:27 final size:26
Alignment explanation
Indices: 15876024--15876093 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
15876014 ATATTAAGTC
15876024 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
15876051 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
15876079 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
15876094 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:15876087 original size:28 final size:28
Alignment explanation
Indices: 15876024--15876121 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
15876014 ATATTAAGTC
*
15876024 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15876051 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15876079 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15876108 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15876122 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15883472 original size:27 final size:26
Alignment explanation
Indices: 15883455--15883524 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
15883445 ATATTAAGTC
15883455 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
15883482 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
15883510 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
15883525 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:15883518 original size:28 final size:28
Alignment explanation
Indices: 15883455--15883552 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
15883445 ATATTAAGTC
*
15883455 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15883482 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15883510 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15883539 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15883553 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15888311 original size:52 final size:52
Alignment explanation
Indices: 15888186--15888395 Score: 184
Period size: 52 Copynumber: 4.1 Consensus size: 52
15888176 TGACGGAAAA
* ***
15888186 GATGTGATATGT-ACTTCCGTATAAGACCATAGCTGGGCTATGGCATCAGTAC
1 GATGTGATATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
* * * *
15888238 AATATGATTTGAGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
** *
15888290 GATGTGATAATGTGATT-CGTATAAGACCATATTTGGGATATGGCATC--GGT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
* * * * *
15888340 -A--TGATATGT-AATCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGG-G-GT
15888390 GATGTG
1 GATGTG
15888396 TGACAATGTG
Statistics
Matches: 125, Mismatches: 23, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 27 0.22
47 4 0.03
49 2 0.02
50 5 0.04
51 1 0.01
52 75 0.60
53 9 0.07
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGGGT
Found at i:15888347 original size:104 final size:100
Alignment explanation
Indices: 15888186--15888395 Score: 230
Period size: 104 Copynumber: 2.1 Consensus size: 100
15888176 TGACGGAAAA
*
15888186 GATGTGATATGTACTTCCGTATAAGACCATAGCTGGGCTATGGCATCAGTACAATATGATTTGAG
1 GATGTGATATGTACTTCCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATATG---T-A-
*
15888251 ATTCCGTATAAGACCATAGCTGGGCTATGGCATCGG-G-GT
61 A-TCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGTGT
** * **
15888290 GATGTGATAATGTGA-TT-CGTATAAGACCATATTTGGGATATGGCATCGGTATGATATGTAATC
1 GATGTGAT-ATGT-ACTTCCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATATGTAATC
* * *
15888353 CGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGT
64 CGTATAAGACCATAGCAGGGCTATGGCATCGGTGTGT
15888390 GATGTG
1 GATGTG
15888396 TGACAATGTG
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
98 30 0.33
99 2 0.02
100 9 0.10
101 1 0.01
104 43 0.47
105 6 0.07
106 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (100 bp):
GATGTGATATGTACTTCCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATATGTAATCCG
TATAAGACCATAGCAGGGCTATGGCATCGGTGTGT
Found at i:15889184 original size:20 final size:20
Alignment explanation
Indices: 15889159--15889211 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
15889149 ACAGCTGCAG
* *
15889159 CACACGGGCATGTTCCAGGC
1 CACACGGGCATGTCCCAAGC
*
15889179 CACACGGGCGTGTCCCAAGC
1 CACACGGGCATGTCCCAAGC
15889199 CACACGGGCATGT
1 CACACGGGCATGT
15889212 GCCCCTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.13
Consensus pattern (20 bp):
CACACGGGCATGTCCCAAGC
Found at i:15896228 original size:7 final size:7
Alignment explanation
Indices: 15896218--15896290 Score: 146
Period size: 7 Copynumber: 10.4 Consensus size: 7
15896208 TTTAATTTCT
15896218 AATCCTC
1 AATCCTC
15896225 AATCCTC
1 AATCCTC
15896232 AATCCTC
1 AATCCTC
15896239 AATCCTC
1 AATCCTC
15896246 AATCCTC
1 AATCCTC
15896253 AATCCTC
1 AATCCTC
15896260 AATCCTC
1 AATCCTC
15896267 AATCCTC
1 AATCCTC
15896274 AATCCTC
1 AATCCTC
15896281 AATCCTC
1 AATCCTC
15896288 AAT
1 AAT
15896291 TTTTTATTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 66 1.00
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.29
Consensus pattern (7 bp):
AATCCTC
Found at i:15915196 original size:46 final size:46
Alignment explanation
Indices: 15915045--15915266 Score: 236
Period size: 46 Copynumber: 4.7 Consensus size: 46
15915035 TCACTTGTGT
* * *
15915045 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGA
* *
15915091 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* * * * *
15915139 GGGCTAGTGTAAGACATGTCTCGGACATGTATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-A
15915186 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
* *
15915231 TAGTCAGTGTAAGACCATGT-TGGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCT-GGGACAT-GCATCG
15915267 ACTTGAAATA
Statistics
Matches: 149, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.02
46 75 0.50
47 40 0.27
48 30 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:15915283 original size:93 final size:93
Alignment explanation
Indices: 15915047--15915312 Score: 224
Period size: 94 Copynumber: 2.8 Consensus size: 93
15915037 ACTTGTGTGA
* **
15915047 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATTATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTCGGACATGCATCGGACTCGA-AACAT--GAGCCAGTGTAAGA-CAT
* *
15915109 GTCTGGGACATGGCATCGGCATTGAGATGAGG
62 GTCTGGGACATGGCATCGGCATCGAGATGAAG
* * * * *
15915141 GCTAGTGTAAGACATGTCTCGGACATGTATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTCGGACATGCATCGGACTCGAAACATGAGCCAGTGTAAGACATGTCT
15915206 GGGACAT-GCATCGGC-TACGAGATGATAG
66 GGGACATGGCATCGGCAT-CGAGATGA-AG
* * * * * *
15915234 TC-AGTGTAAGACCATGT-TGGGGACATGGCATC-GACTTGAAATATGAGCCAATGTAAGACCGT
1 GCTAGTGTAAGA-CATGTCT-CGGACAT-GCATCGGACTCGAAACATGAGCCAGTGTAAGA-CAT
* *
15915296 GTCTAGGACAGGGCATC
62 GTCTGGGACATGGCATC
15915313 AGCACCTTAC
Statistics
Matches: 140, Mismatches: 22, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
91 1 0.01
92 25 0.18
93 46 0.33
94 59 0.42
95 6 0.04
96 2 0.01
97 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTCGGACATGCATCGGACTCGAAACATGAGCCAGTGTAAGACATGTCT
GGGACATGGCATCGGCATCGAGATGAAG
Found at i:15915305 original size:140 final size:140
Alignment explanation
Indices: 15915050--15915305 Score: 349
Period size: 140 Copynumber: 1.8 Consensus size: 140
15915040 TGTGTGAGCT
*
15915050 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * * * * *
15915115 GACATGGCATCGGCATTGAGATGAGGGCTAGTGTAAGACATGTCTCGGACATGTATCGGCCTCGA
66 GACATGGCATCGACATTGAAATGAGAGCCAATGTAAGACATGTCTAGGACATGTATCGGCCTCGA
15915180 GACGTAAGCC
131 GACGTAAGCC
* * *
15915190 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGT-TG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCT-
*
15915253 GGGACATGGCATCGAC-TTGAAAT-ATGAGCCAATGTAAGACCGTGTCTAGGACA
64 GGGACATGGCATCGACATTGAAATGA-GAGCCAATGTAAGA-CATGTCTAGGACA
15915306 GGGCATCAGC
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 18 0.18
140 81 0.80
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAAATGAGAGCCAATGTAAGACATGTCTAGGACATGTATCGGCCTCGA
GACGTAAGCC
Found at i:15930410 original size:33 final size:33
Alignment explanation
Indices: 15930368--15930434 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
15930358 AGAGGTGTAC
15930368 TATGCATGATAGGGGTGTGACATTGCCTTCGAT
1 TATGCATGATAGGGGTGTGACATTGCCTTCGAT
15930401 TATGCATGATAGGGGTGTGACATTGCCTTCGAT
1 TATGCATGATAGGGGTGTGACATTGCCTTCGAT
15930434 T
1 T
15930435 TTTCCAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (33 bp):
TATGCATGATAGGGGTGTGACATTGCCTTCGAT
Found at i:15936960 original size:22 final size:22
Alignment explanation
Indices: 15936923--15936983 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
15936913 ACAAATATAA
15936923 GAGAACA-TAAA-TGCTAAATC
1 GAGAACACTAAAGTGCTAAATC
* *
15936943 GGGAACACTAAAGTGCTAAATT
1 GAGAACACTAAAGTGCTAAATC
*
15936965 TAGAAGCACTAAAGTGCTA
1 GAGAA-CACTAAAGTGCTA
15936984 GTTTTAGGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.18
21 4 0.12
22 11 0.32
23 13 0.38
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (22 bp):
GAGAACACTAAAGTGCTAAATC
Found at i:15938532 original size:18 final size:18
Alignment explanation
Indices: 15938509--15938548 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15938499 AATTTAGTAA
*
15938509 AATTGCCTAAAAGGACTT
1 AATTGCATAAAAGGACTT
* *
15938527 AATTGCATAAAATGAGTT
1 AATTGCATAAAAGGACTT
15938545 AATT
1 AATT
15938549 TTATTGTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (18 bp):
AATTGCATAAAAGGACTT
Done.