Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 34 of 185
Found at i:9390330 original size:73 final size:72
Alignment explanation
Indices: 9390185--9390352 Score: 194
Period size: 73 Copynumber: 2.3 Consensus size: 72
9390175 ACAATAAGCA
* * *
9390185 TTAGCAGCGTTTTTTAA-AAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCG-TTTTTAAGAAAGCGACACAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTT
* *
9390249 TTGGGGAT
65 TCGAGGAT
* * * * * *
9390257 TTAGCGGCGTTTTTGAGAAAGCGACGCAAATAACCTGAGCCAAAATGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGACACAAAAAACCTAAGCC-AAACGACGCCGTTTTCTGAGCTT
9390322 TCGAGGAT
65 TCGAGGAT
* *
9390330 TTAGCGACGTTTTTAAGGAAGCG
1 TTAGCGGCGTTTTTAAGAAAGCG
9390353 CCGCTAATGC
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
71 6 0.08
72 28 0.35
73 46 0.57
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (72 bp):
TTAGCGGCGTTTTTAAGAAAGCGACACAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCTTT
CGAGGAT
Found at i:9390455 original size:114 final size:114
Alignment explanation
Indices: 9390251--9390799 Score: 769
Period size: 114 Copynumber: 4.8 Consensus size: 114
9390241 CTGAGCTTTT
* * *
9390251 GGGGATTTAGCGGCGTTTTTGAGAAAGCGACGCAAATAACCTGAGCCAAAATGACGCCGTTTTGT
1 GGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTTGT
* *
9390316 GAGCTTTCGAGGATTTAGCGACGTTTTTAAGGAAGCGCCGCTAATGCTC
66 GAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTC
* * *
9390365 GGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAATAACTTGAGCCAAAACGACTCCGTTTTGT
1 GGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTTGT
* * *
9390430 GAGCTTTCGGGGATTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGTTA
66 GAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTC
* * * *
9390479 AGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGT
1 GGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTTGT
** *
9390544 GAGCTTTCAAGGATTTAGTGGCGTTTTTAAGGAAGCGCCGCTAATGCTC
66 GAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTC
* * * * * *
9390593 AGGGCTTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACTTAAGCCGAAAA-GATGCCGTTTTG
1 GGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAATAACCTGAGCC-AAAACGACGCCGTTTTG
* * * * * *
9390657 TGAGCTTTTGGGGATTTAGTGGC-ATTTTCAGTAAAACGCCGCTAATGCTC
65 TGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG-GAAGCGCCGCTAATGCTC
* *
9390707 GGGGCTTTAGCTGCGTTTTTTAGAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTTGT
1 GGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTTGT
*
9390772 GAGCTTTCGGGGATTTAGCGGTGTTTTT
66 GAGCTTTCGGGGATTTAGCGGCGTTTTT
9390800 GGGAAAGCGC
Statistics
Matches: 387, Mismatches: 44, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
113 10 0.03
114 369 0.95
115 8 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (114 bp):
GGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTTGT
GAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTC
Found at i:9390827 original size:73 final size:73
Alignment explanation
Indices: 9390705--9390885 Score: 254
Period size: 73 Copynumber: 2.5 Consensus size: 73
9390695 CCGCTAATGC
* * * * *
9390705 TCGGGGCTTTAGCTGCGTTTTTTAGAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTT
1 TCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTT
9390770 GTGAGCTT
66 GTGAGCTT
* * *
9390778 TCGGGGATTTAGCGGTGTTTTTGGGAAAGCGCTGCAAAAAACCTAAGCCAAAACGACGCCGTTTT
1 TCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTT
9390843 GTGAGCTT
66 GTGAGCTT
* * * *
9390851 TCGGGGATCTAGTGGCGTTTTTAAGGAAGCGCCGC
1 TCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGC
9390886 TAATGCTCAG
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 93 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (73 bp):
TCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTT
GTGAGCTT
Found at i:9390913 original size:187 final size:187
Alignment explanation
Indices: 9390598--9390935 Score: 500
Period size: 187 Copynumber: 1.8 Consensus size: 187
9390588 TGCTCAGGGC
* *
9390598 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACTTAAGCCGAAAAGATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCGAAAAGACGCCGTTTTGTGAGCT
* * * * * *
9390663 TTTGGGGATTTAGTGGCATTTTCAGTAAAACGCCGCTAATGCTCGGGGCTTTAGCTGCGTTTTTT
66 TTCGGGGATCTAGTGGCATTTTAAGTAAAACGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTA
*
9390728 AGAAAGCGCCGCAAATAACCTGAGCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGA
131 AGAAAGCGCCGCAAAAAACCTGAGCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGA
* ** *
9390785 TTTAGCGGTGTTTTTGGGAAAGCGCTGCAAAAAACCTAAGCC-AAAACGACGCCGTTTTGTGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCGAAAA-GACGCCGTTTTGTGAGC
* * *
9390849 TTTCGGGGATCTAGTGGCGTTTTTAAG-GAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTT
65 TTTCGGGGATCTAGTGGC-ATTTTAAGTAAAACGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTT
9390913 TAAGAAAGCGCCGCAAAAAACCT
129 TAAGAAAGCGCCGCAAAAAACCT
9390936 AAGCACTTTC
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
186 4 0.03
187 123 0.92
188 6 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (187 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCGAAAAGACGCCGTTTTGTGAGCT
TTCGGGGATCTAGTGGCATTTTAAGTAAAACGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTA
AGAAAGCGCCGCAAAAAACCTGAGCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGA
Found at i:9391190 original size:14 final size:14
Alignment explanation
Indices: 9391171--9391273 Score: 66
Period size: 14 Copynumber: 7.2 Consensus size: 14
9391161 ATCACTATAG
*
9391171 TTAGGGTTTTTGGT
1 TTAGGGTTTATGGT
*
9391185 TTAGGGTATATGGT
1 TTAGGGTTTATGGT
* *
9391199 TTAGAGTTTAAGGT
1 TTAGGGTTTATGGT
*
9391213 TTAGGTGTTACCAT--T
1 TTAGG-GTT--TATGGT
* *
9391228 TTAAGGTTTATGGA
1 TTAGGGTTTATGGT
* *
9391242 TTATGGGTTTAGGGG
1 TTA-GGGTTTATGGT
*
9391257 TTATGGTTTATGGT
1 TTAGGGTTTATGGT
9391271 TTA
1 TTA
9391274 AAGGCTGAGG
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
12 2 0.03
14 44 0.67
15 19 0.29
17 1 0.02
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:9391252 original size:22 final size:21
Alignment explanation
Indices: 9391227--9391274 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
9391217 GTGTTACCAT
*
9391227 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
9391249 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
9391270 TTTAA
1 TTTAA
9391275 AGGCTGAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:9391374 original size:21 final size:21
Alignment explanation
Indices: 9391323--9391363 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9391313 AGGGTTAGTA
* *
9391323 ATTAGGGGTTAGAGGTTTAGG
1 ATTAGGGATTAGAGGTTAAGG
9391344 ATTAGGGATTAGAGGTTAAG
1 ATTAGGGATTAGAGGTTAAG
9391364 AGTTAGTGAT
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:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (21 bp):
ATTAGGGATTAGAGGTTAAGG
Found at i:9395782 original size:43 final size:43
Alignment explanation
Indices: 9395717--9395946 Score: 275
Period size: 43 Copynumber: 5.3 Consensus size: 43
9395707 TTTTTTATGA
* * * *
9395717 TCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTGAGGT
1 TCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGT
** *
9395760 TCTTTAGCGGCGTTAATAGGAAAAAG-GCCGCTAAAGGTCAAGT
1 TCTTTAGCGGCGTTTGTAGG-AAAAGCGCCGCTAAAGGTCATGT
* ** * *
9395803 TCTTTAGCGGCGTTTGTAGGAAAAGTGCCGCTAAAGAACCTGA
1 TCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGT
* * * *
9395846 CCTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGT
1 TCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGT
*
9395889 TTTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTGTAGG-AAAAGCGCCGCTAAAGGTCATGT
9395932 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
9395947 TTTCAAATAA
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 7 0.04
43 148 0.93
44 5 0.03
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGT
Found at i:9396068 original size:22 final size:22
Alignment explanation
Indices: 9396040--9396082 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9396030 TAGCGGCGCT
* *
9396040 AAAAAACGCCGTTAAAGGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
9396062 AAAAAACGCCGCTAAAAGCCT
1 AAAAAACGCCGCTAAAAGCCT
9396083 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAGCCTA
Found at i:9396599 original size:20 final size:19
Alignment explanation
Indices: 9396561--9396613 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
9396551 AAAATAAAAT
9396561 AAAATAAAATATTTATCATA
1 AAAATAAAAT-TTTATCATA
* *
9396581 AAAATAAAATTTATTTCATT
1 AAAATAAAATTT-TATCATA
*
9396601 AAAATAATATTTT
1 AAAATAAAATTTT
9396614 TAAATGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAAAATTTTATCATA
Found at i:9396740 original size:43 final size:43
Alignment explanation
Indices: 9396667--9396767 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 43
9396657 AAAGGTTTGT
*
9396667 TCTATAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGATC-CTG
1 TCTATAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGATCACTG
* ** * * *
9396709 ATCTATAGCGGCGTTTGCGAGGAAAGTGCCGCTAAAGGTCATTG
1 -TCTATAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGATCACTG
*
9396753 TCTATTGCGGCGTTT
1 TCTATAGCGGCGTTT
9396768 ATTTCCAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
TCTATAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGATCACTG
Found at i:9409784 original size:12 final size:12
Alignment explanation
Indices: 9409746--9409784 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9409736 CCTCAGGCTT
9409746 ATCTTCATCTCC
1 ATCTTCATCTCC
* * *
9409758 ACCGTCATCTTC
1 ATCTTCATCTCC
9409770 ATCTTCATCTCC
1 ATCTTCATCTCC
9409782 ATC
1 ATC
9409785 ATTGGCTTCA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.41, G:0.03, T:0.38
Consensus pattern (12 bp):
ATCTTCATCTCC
Found at i:9415023 original size:15 final size:16
Alignment explanation
Indices: 9415005--9415034 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9414995 TTCTAGTTAA
9415005 ATGCT-TTTGAGTTTC
1 ATGCTATTTGAGTTTC
9415020 ATGCTATTTGAGTTT
1 ATGCTATTTGAGTTT
9415035 TCTTGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.10, G:0.20, T:0.53
Consensus pattern (16 bp):
ATGCTATTTGAGTTTC
Found at i:9431153 original size:116 final size:114
Alignment explanation
Indices: 9430973--9431636 Score: 933
Period size: 114 Copynumber: 5.9 Consensus size: 114
9430963 AAAATAAGCA
** * * * * **
9430973 TTAGCGGCGTTTTCCAAAAAGCGCCGC-AAACAACCTAAGCCCAACGACGCCGTTTTCTTAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
*
9431037 TTGGGGATTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGGTCAGGGCT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
*
9431086 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC--AAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGC
* * *
9431151 TTTTGGGGGTTTAGCGGCGTTTTTAAGAAAGCGCCACTAATAGTCAGGGCT
64 TTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
* * *
9431202 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACAACGCCGTTTTTTGGGCTG
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
* * *
9431267 TTGGGGATTTAGCAGCGTTTTTAAGAAAGTGCCGCTAATGGTCAGGGAT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
* * **
9431316 TCAGCGGCGTTTTTGAAAAAGCGCCAAAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
* * *
9431381 TTGGTGATTTAGCGGCGTTTTTAAGAAAGCGTCGCCAATGGTCAGGGCT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
* * *
9431430 TTAGCGGCGTTTTTGAAAAAGCGCCGC-AAAAAA-A-AAGTCCAACGACTCCGTTTTGTGGGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
* * * *
9431492 TTGGGGATTTAGCGACGTTTTTAAGAAAGCACCGCTAATGCTTAGGGCT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
* * *
9431541 TTAACGGCGTTTTTGAGAAAGTGCTGC-AAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
**
9431605 TCAGGGATTTAGCGGCGTTTTTAAGAAAGCGC
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
9431637 AGTAAAAAAA
Statistics
Matches: 488, Mismatches: 58, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
111 97 0.20
112 2 0.00
113 83 0.17
114 203 0.42
116 103 0.21
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
Found at i:9431678 original size:73 final size:72
Alignment explanation
Indices: 9431535--9431689 Score: 193
Period size: 73 Copynumber: 2.1 Consensus size: 72
9431525 GCTAATGCTT
* * * * * * * * *
9431535 AGGGCTTTAACGGCGTTTTTGAGAAAGTGCTGCAAAAAACATAAGCCCAACGACGCCGTTTTGTG
1 AGGGATTTAGCGGCGTTTTTAAGAAAGCGCAGAAAAAAACATAAGCCAAACGACACCATTTTGTG
*
9431600 GGCTTTC
66 AGCTTTC
*
9431607 AGGGATTTAGCGGCGTTTTTAAGAAAGCGCAGTAAAAAAACATAAGCCAAATGACACCATTTTGT
1 AGGGATTTAGCGGCGTTTTTAAGAAAGCGCAG-AAAAAAACATAAGCCAAACGACACCATTTTGT
9431672 GAGCTTTC
65 GAGCTTTC
*
9431680 GGGGATTTAG
1 AGGGATTTAG
9431690 AGGCCAAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
72 27 0.39
73 43 0.61
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (72 bp):
AGGGATTTAGCGGCGTTTTTAAGAAAGCGCAGAAAAAAACATAAGCCAAACGACACCATTTTGTG
AGCTTTC
Found at i:9431880 original size:14 final size:14
Alignment explanation
Indices: 9431846--9431894 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
9431836 TAAGGCTGGT
* *
9431846 TTAGGGAGTATGTGT
1 TTAGGGATTATG-GA
9431861 TTAGGGATTATGGA
1 TTAGGGATTATGGA
9431875 TTAGGGATTATGGA
1 TTAGGGATTATGGA
9431889 TTAGGG
1 TTAGGG
9431895 GTTGGGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:9431928 original size:7 final size:7
Alignment explanation
Indices: 9431861--9431903 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
9431851 GAGTATGTGT
9431861 TTAGGGA
1 TTAGGGA
*
9431868 TTATGGA
1 TTAGGGA
9431875 TTAGGGA
1 TTAGGGA
*
9431882 TTATGGA
1 TTAGGGA
*
9431889 TTAGGGG
1 TTAGGGA
9431896 TT-GGGA
1 TTAGGGA
9431902 TT
1 TT
9431904 TAAGGGTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
6 5 0.17
7 25 0.83
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (7 bp):
TTAGGGA
Found at i:9432760 original size:87 final size:84
Alignment explanation
Indices: 9432617--9432781 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 84
9432607 AACGCCGCAA
* *
9432617 AAAATAAATCAATTTTAAAAAAATAAAAAAATTTGGCATAGAAAAACGGTGTCATTTTGTTCAAA
1 AAAATAAATCAATTTTAAAAAAAAAAAAAAATTTGGCATAGAAAAACGGCGTCATTTTGTTCAAA
9432682 ATGAAATAGCGGCACCGCT
66 ATGAAATAGCGGCACCGCT
* *
9432701 AAAATAAATCAATTTAGTAAAAAATAAAAAAAAAATTT-GTATAGCAAAACGGCGTCATTTTGTT
1 AAAATAAATCAATTT--T-AAAAA-AAAAAAAAAATTTGGCATAGAAAAACGGCGTCATTTTGTT
*
9432765 CAAAATGAAATCGCGGC
62 CAAAATGAAATAGCGGC
9432782 GTTTTTATAA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
84 15 0.21
86 1 0.01
87 44 0.61
88 12 0.17
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (84 bp):
AAAATAAATCAATTTTAAAAAAAAAAAAAAATTTGGCATAGAAAAACGGCGTCATTTTGTTCAAA
ATGAAATAGCGGCACCGCT
Found at i:9433233 original size:148 final size:148
Alignment explanation
Indices: 9432899--9433758 Score: 1418
Period size: 148 Copynumber: 5.8 Consensus size: 148
9432889 CGGCGTTTTT
*
9432899 GCAATAGTGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
** ***
9432964 TAGCATAGCATAGCAAAACAACGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTATGA
66 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTGCGT-A
9433029 AAAACGCCGCTAAAGGTAA
130 AAAACGCCGCTAAAGGTAA
*
9433048 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCTCCCTTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
* *
9433113 TAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAAATTTCTTTGCGGCGTTTGCGTAA
66 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTGCGTAA
*
9433178 AAATGCCGCTAAAGGTAA
131 AAACGCCGCTAAAGGTAA
* *
9433196 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCCTCTTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
* ***
9433261 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCAGCGTTTTTATGA
66 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTGCGT-A
9433326 AAAACGCCGCTAAAGGTAA
130 AAAACGCCGCTAAAGGTAA
9433345 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
* * *
9433410 TAGCATAACATAGCAAAACGGCGTAGTTTTGTTCAAAATGAAA-TTTTTTGCGACGTTTGCGTAA
66 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTGCGTAA
9433474 AAACGCCGCTAAAGGTAA
131 AAACGCCGCTAAAGGTAA
* * *
9433492 GCAATAGCAGCGTTTTTGTAAAAAACGGCACAAAATAATTTTATTTTAAAAAAATAGCCCCCTTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
* * *
9433557 TAGCATAGCATAGCAAAATGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGCGTTTGCGTAA
66 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTGCGTAA
9433622 AAACGCCGCTAAAGGTAA
131 AAACGCCGCTAAAGGTAA
* * *
9433640 GCAATAGCAGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATA-ACCCCTTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
* *
9433704 TAGCATAGCATAGCAAAACGGCGTAATTTTATTCAAAATAAAATTTTTTTGCGGC
66 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGC
9433759 ATTTTAAATA
Statistics
Matches: 664, Mismatches: 45, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
147 179 0.27
148 243 0.37
149 242 0.36
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (148 bp):
GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTGCGTAA
AAACGCCGCTAAAGGTAA
Found at i:9433433 original size:297 final size:296
Alignment explanation
Indices: 9432899--9433758 Score: 1456
Period size: 297 Copynumber: 2.9 Consensus size: 296
9432889 CGGCGTTTTT
* *
9432899 GCAATAGTGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCCCCTTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCCCCTTT
**
9432964 TAGCATAGCATAGCAAAACAACGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTATGA
66 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTATGA
9433029 AAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTT
131 AAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTT
*
9433094 TAAAAAAATAGCTCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAAATTT
196 TAAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAAATTT
*
9433159 CTTTGCGGCGTTTGCGTAAAAATGCCGCTAAAGGTAA
261 -TTTGCGGCGTTTGCGTAAAAACGCCGCTAAAGGTAA
*
9433196 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCCTCTTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCCCCTTT
*
9433261 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCAGCGTTTTTATGA
66 TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTATGA
9433326 AAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTT
131 AAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTT
*
9433391 TAAAAAAATAGCCCCCTTTTAGCATAACATAGCAAAACGGCGTAGTTTTGTTCAAAATGAAATTT
196 TAAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAAATTT
*
9433456 TTTGCGACGTTTGCGTAAAAACGCCGCTAAAGGTAA
261 TTTGCGGCGTTTGCGTAAAAACGCCGCTAAAGGTAA
* *
9433492 GCAATAGCAGCGTTTTTGTAAAAAACGGCACAAAATAATTTTA-TTTTAAAAAAATAGCCCCCTT
1 GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTT-AAAAAATAGCCCCCTT
* * * ***
9433556 TTAGCATAGCATAGCAAAATGGCGTAGTTTTGTTCAAAATGAATTTTTTTTGCGGCGTTTGCGT-
65 TTAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTATG
*
9433620 AAAAACGCCGCTAAAGGTAAGCAATAGCAGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACT
130 AAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACT
* * * * *
9433685 TTTAAAAAATA-ACCCCTTTTAGCATAGCATAGCAAAACGGCGTAATTTTATTCAAAATAAAATT
195 TTAAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAAA-T
9433749 TTTTTGCGGC
259 TTTTTGCGGC
9433759 ATTTTAAATA
Statistics
Matches: 533, Mismatches: 28, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
294 46 0.09
295 88 0.17
296 147 0.28
297 252 0.47
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (296 bp):
GCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTTTTAAAAAATAGCCCCCTTT
TAGCATAGCATAGCAAAACGGCGTAGTTTTATTCAAAATGAAATTTTTTTGCGGCGTTTTTATGA
AAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATAATTTTACTT
TAAAAAAATAGCCCCCTTTTAGCATAGCATAGCAAAACGGCGTAGTTTTGTTCAAAATGAAATTT
TTTGCGGCGTTTGCGTAAAAACGCCGCTAAAGGTAA
Found at i:9437222 original size:12 final size:12
Alignment explanation
Indices: 9437202--9437234 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9437192 TTGTTTCAGG
9437202 TTGTATTATTAA
1 TTGTATTATTAA
*
9437214 TTGTGTTATTAA
1 TTGTATTATTAA
9437226 TT-TATTATT
1 TTGTATTATT
9437235 TTAAATTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
TTGTATTATTAA
Found at i:9437564 original size:43 final size:43
Alignment explanation
Indices: 9437491--9437589 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
9437481 AGGTCATATT
* *
9437491 TTTAGTGGCATTTGTGACAAAAGCGTCGCTAAAGCTCATGGTC
1 TTTAGTGGCGTTTGTGACAAAAGCGCCGCTAAAGCTCATGGTC
* * * *
9437534 TTTAGTGGCGTTTGTGATAGACGCGCCGCTAAAGGTCATGGTC
1 TTTAGTGGCGTTTGTGACAAAAGCGCCGCTAAAGCTCATGGTC
*
9437577 TTTAGCGGCGTTT
1 TTTAGTGGCGTTT
9437590 TTTTGCATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTGACAAAAGCGCCGCTAAAGCTCATGGTC
Found at i:9438684 original size:50 final size:50
Alignment explanation
Indices: 9438609--9438731 Score: 158
Period size: 50 Copynumber: 2.5 Consensus size: 50
9438599 TAACAACTCA
* *
9438609 CCACAACGGCTTTCCAGAGAATTTGCCATAAAGGATTTCCAAA-AGATACG
1 CCACAAAGGCTTTCCAGAGAATTTGCCACAAAGGATTTCCAAAGA-ATACG
* * ** *
9438659 CCACAAAGGCTTTCCAAAGAATTTGCCACAAAGGCTTTCCGGAGAATTCG
1 CCACAAAGGCTTTCCAGAGAATTTGCCACAAAGGATTTCCAAAGAATACG
*
9438709 CCACAAAGGCTTTCTAGAGAATT
1 CCACAAAGGCTTTCCAGAGAATT
9438732 CTTGAGTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 62 0.98
51 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
CCACAAAGGCTTTCCAGAGAATTTGCCACAAAGGATTTCCAAAGAATACG
Found at i:9438686 original size:25 final size:25
Alignment explanation
Indices: 9438609--9438732 Score: 142
Period size: 25 Copynumber: 5.0 Consensus size: 25
9438599 TAACAACTCA
* *
9438609 CCACAACGGCTTTCCAGAGAATTTG
1 CCACAAAGGCTTTCCAGAGAATTCG
* * * *
9438634 CCATAAAGGATTTCCA-AAAGATACG
1 CCACAAAGGCTTTCCAGAGA-ATTCG
* *
9438659 CCACAAAGGCTTTCCAAAGAATTTG
1 CCACAAAGGCTTTCCAGAGAATTCG
*
9438684 CCACAAAGGCTTTCCGGAGAATTCG
1 CCACAAAGGCTTTCCAGAGAATTCG
*
9438709 CCACAAAGGCTTTCTAGAGAATTC
1 CCACAAAGGCTTTCCAGAGAATTC
9438733 TTGAGTTTAC
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
24 2 0.02
25 77 0.95
26 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (25 bp):
CCACAAAGGCTTTCCAGAGAATTCG
Found at i:9439622 original size:3 final size:3
Alignment explanation
Indices: 9439614--9439692 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
9439604 GATCTTAACA
9439614 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9439662 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
9439693 GAATGTTGAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9442196 original size:25 final size:27
Alignment explanation
Indices: 9442168--9442225 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
9442158 ATCATAGGCA
9442168 ATATATAAT-TACT-TCATG-CCAAAAC
1 ATATATAATATA-TATCATGACCAAAAC
9442193 ATATAT-ATATATATCATGACCAAAAC
1 ATATATAATATATATCATGACCAAAAC
9442219 -TATATAA
1 ATATATAA
9442226 CTCAAGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.10
25 18 0.62
26 8 0.28
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (27 bp):
ATATATAATATATATCATGACCAAAAC
Found at i:9456989 original size:14 final size:14
Alignment explanation
Indices: 9456970--9457010 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
9456960 CTACAATGGT
9456970 AAAATAAAATATTA
1 AAAATAAAATATTA
*
9456984 AAAAT-AAATATTTT
1 AAAATAAAATA-TTA
9456998 AAAATAAAATATT
1 AAAATAAAATATT
9457011 TGTCACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.21
14 14 0.58
15 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATAAAATATTA
Found at i:9462152 original size:23 final size:22
Alignment explanation
Indices: 9462103--9462152 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
9462093 TGGGATGTCA
9462103 ATTTCAACTTCTTCTTCTTCTT
1 ATTTCAACTTCTTCTTCTTCTT
9462125 ATTTCAATCTT-TT-TTCTTTCATT
1 ATTTCAA-CTTCTTCTTC-TTC-TT
9462148 ATTTC
1 ATTTC
9462153 TGTTCAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.12
22 12 0.48
23 10 0.40
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTCAACTTCTTCTTCTTCTT
Found at i:9463307 original size:17 final size:16
Alignment explanation
Indices: 9463274--9463307 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9463264 AAAATTGTAT
*
9463274 AACAATTTAAGTGTGA
1 AACAATTTAAATGTGA
9463290 AACAATTTAATATGTGA
1 AACAATTTAA-ATGTGA
9463307 A
1 A
9463308 TAAGGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (16 bp):
AACAATTTAAATGTGA
Found at i:9466088 original size:23 final size:23
Alignment explanation
Indices: 9466038--9466088 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
9466028 AGTAAAATTC
**
9466038 AAAATATTATTACAATAATGTTA
1 AAAATATTATTACAATAATGAAA
*
9466061 AAAATATTCTTACAATAA-GAAA
1 AAAATATTATTACAATAATGAAA
9466083 ACAAAT
1 A-AAAT
9466089 GTCTAAGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAATATTATTACAATAATGAAA
Found at i:9471627 original size:9 final size:9
Alignment explanation
Indices: 9471613--9471686 Score: 62
Period size: 9 Copynumber: 8.0 Consensus size: 9
9471603 TAAGTGTAAT
9471613 TAAGTTATG
1 TAAGTTATG
9471622 TAAGTTATG
1 TAAGTTATG
* *
9471631 ATATGATATATA
1 -TAAG-T-TATG
*
9471643 TAAATTAT-
1 TAAGTTATG
9471651 TAAGTTATG
1 TAAGTTATG
*
9471660 TATGTTATG
1 TAAGTTATG
9471669 TGAA-TTATG
1 T-AAGTTATG
9471678 TAAGTTATG
1 TAAGTTATG
9471687 ATATGATATA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 9 0.17
9 32 0.62
10 5 0.10
11 3 0.06
12 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:9473517 original size:18 final size:18
Alignment explanation
Indices: 9473490--9473582 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
9473480 TACGACCGTT
9473490 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
9473508 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
9473526 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
9473544 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
9473562 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
9473580 TAC
1 TAC
9473583 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:9473537 original size:36 final size:36
Alignment explanation
Indices: 9473490--9473582 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
9473480 TACGACCGTT
9473490 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
9473526 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
9473562 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
9473583 AGTAGTTGGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:9478561 original size:16 final size:16
Alignment explanation
Indices: 9478540--9478575 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
9478530 GATTAAGAGC
9478540 AAAAGAGAA-AAACAT
1 AAAAGAGAAGAAACAT
9478555 GAAAAGAGAAGAAACAT
1 -AAAAGAGAAGAAACAT
9478572 AAAA
1 AAAA
9478576 CGTCAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.72, C:0.06, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAAGAGAAGAAACAT
Found at i:9479109 original size:18 final size:18
Alignment explanation
Indices: 9479088--9479128 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9479078 GGTGATGTAG
9479088 CAGATGAGGG-AGATGCAA
1 CAGATGAGGGCA-ATGCAA
*
9479106 CAGAGGAGGGCAATGCAA
1 CAGATGAGGGCAATGCAA
9479124 CAGAT
1 CAGAT
9479129 AGGTTGGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.39, C:0.15, G:0.37, T:0.10
Consensus pattern (18 bp):
CAGATGAGGGCAATGCAA
Found at i:9479301 original size:40 final size:40
Alignment explanation
Indices: 9479246--9479323 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
9479236 AAAACAAAAT
* * *
9479246 GACCTTTTGCGGCGTTTTTCTCCTAGTGCCTCTAATGCTC
1 GACCTTTTGCGGCGTTTTTCACCTAGCGCCGCTAATGCTC
*
9479286 GACCTTTTGTGGCGTTTTTCACCTAGCGCCGCTAATGC
1 GACCTTTTGCGGCGTTTTTCACCTAGCGCCGCTAATGC
9479324 CACTAAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.12, C:0.29, G:0.22, T:0.37
Consensus pattern (40 bp):
GACCTTTTGCGGCGTTTTTCACCTAGCGCCGCTAATGCTC
Found at i:9479891 original size:7 final size:7
Alignment explanation
Indices: 9479881--9479905 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9479871 CCTAAATCAT
9479881 AAACCCA
1 AAACCCA
9479888 AAACCCA
1 AAACCCA
9479895 AAACCCA
1 AAACCCA
9479902 AAAC
1 AAAC
9479906 TATAAACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACCCA
Found at i:9479912 original size:14 final size:14
Alignment explanation
Indices: 9479878--9479927 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
9479868 ACCCCTAAAT
9479878 CATAAACCCAAAACC
1 CATAAACCCAAAA-C
9479893 CA-AAACCCAAAAC
1 CATAAACCCAAAAC
* * *
9479906 TATAAACACTAAAC
1 CATAAACCCAAAAC
9479920 CATAAACC
1 CATAAACC
9479928 TACACTCTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 2 0.07
14 25 0.86
15 2 0.07
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.10
Consensus pattern (14 bp):
CATAAACCCAAAAC
Found at i:9479954 original size:55 final size:55
Alignment explanation
Indices: 9479895--9480001 Score: 146
Period size: 55 Copynumber: 1.9 Consensus size: 55
9479885 CCAAAACCCA
*
9479895 AAACC-CAAAACTATAAACACT-AAACCATAAACCTACACTCTAAACACTAAATCAT
1 AAACCTCAAAACT-TAAAC-CTCAAACCATAAACCTACACCCTAAACACTAAATCAT
* * *
9479950 AAACCTTAAATCTTAAACCTCAAACCATAAACCTACACCCTAAACCCTAAAT
1 AAACCTCAAAACTTAAACCTCAAACCATAAACCTACACCCTAAACACTAAAT
9480002 ATATATTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 2 0.04
55 39 0.85
56 5 0.11
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.20
Consensus pattern (55 bp):
AAACCTCAAAACTTAAACCTCAAACCATAAACCTACACCCTAAACACTAAATCAT
Found at i:9479959 original size:14 final size:14
Alignment explanation
Indices: 9479942--9479983 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
9479932 CTCTAAACAC
9479942 TAAATCATAAACCT
1 TAAATCATAAACCT
*
9479956 TAAATCTTAAACCT
1 TAAATCATAAACCT
* *
9479970 CAAACCATAAACCT
1 TAAATCATAAACCT
9479984 ACACCCTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATCATAAACCT
Found at i:9480097 original size:28 final size:27
Alignment explanation
Indices: 9480046--9480109 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
9480036 CTTAAATACT
*
9480046 AAACTCTAAACCTAAACCCCAAACTTC
1 AAACTCTAAACCTAAACCCCAAACTTA
* *
9480073 AAACTCTAAGCCATAAACCCTAAACTTA
1 AAACTCTAAACC-TAAACCCCAAACTTA
9480101 AAACTCTAA
1 AAACTCTAA
9480110 TATGAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 11 0.33
28 22 0.67
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (27 bp):
AAACTCTAAACCTAAACCCCAAACTTA
Found at i:9480353 original size:40 final size:40
Alignment explanation
Indices: 9480286--9480364 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
9480276 CAACTTTTTT
* ** *
9480286 GCGGCGTTTTTCAAAAAGTGCCACTAATGCTTGATCTATA
1 GCGGCGTTTCTCAAAAAGCACCACTAATGCTCGATCTATA
* * *
9480326 GCGGCGTTTCTCAAAATGCACCGCTAATTCTCGATCTAT
1 GCGGCGTTTCTCAAAAAGCACCACTAATGCTCGATCTAT
9480365 TGTGACATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (40 bp):
GCGGCGTTTCTCAAAAAGCACCACTAATGCTCGATCTATA
Found at i:9480492 original size:152 final size:151
Alignment explanation
Indices: 9480212--9480687 Score: 519
Period size: 152 Copynumber: 3.1 Consensus size: 151
9480202 TAATTTTTTA
* * * *
9480212 CGACATTTGTTAAAAAGCACCGCTAATGCCAA-TAAAACTCAGCAAAAAACGACGTCGTTTTGCT
1 CGACATTTGTTAAAAAGCGCCACTAATG-CAACTAAAGCT-A--AAAAAACGACGTTGTTTTGCT
* * * * *
9480276 CAACTTTTTTGCGGCGTTTTTCAAAAAGTGCCACTAATGCTTGATCTATAGCGGCGTTTCTCAAA
62 CAACTTTTTTGCGACGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGTGGCGTTTCTCAAA
9480341 ATGCACCGCTAATTCTCGATCTATTG
127 A-GCACCGCTAATTCTCGATCTATTG
* * * * *
9480367 TGACATTTGTTAAAAAGCGCTATTAATGCCACTAAAGCT-AAAAAACGAAGTTGTTTTGCTCAAT
1 CGACATTTGTTAAAAAGCGCCACTAATGCAACTAAAGCTAAAAAAACGACGTTGTTTTGCTCAA-
* * * *
9480431 TTTTTTTACGTCGTGTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGTGGCGTTTCTCAAAAAG
65 CTTTTTTGCGACGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGTGGCGTTTCTC-AAAAG
**
9480496 TGCCGCTAATTCTCGATCTATTG
129 CACCGCTAATTCTCGATCTATTG
* * * * * * *
9480519 CGGCGTTTGTTAAAATGCGCCGCTAATGCAACTAAAGCTAAAAAAAGGACTTTGTTTTACTCAAC
1 CGACATTTGTTAAAAAGCGCCACTAATGCAACTAAAGCTAAAAAAACGACGTTGTTTTGCTCAAC
* * * *
9480584 TTTTTTGCGACATTTTCCAAAAAGCACCGCTAATGCTTGATCTATAACT-GTGTTAT-TCAGAAA
66 TTTTTTGCGACGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTAT-AGTGGCGTT-TCTCA-AAA
*
9480647 GCACCGCTAATGCTCGATCTATTG
128 GCACCGCTAATTCTCGATCTATTG
* * *
9480671 CGGCGTTTGTGAAAAAG
1 CGACATTTGTTAAAAAG
9480688 TTCCGCTAAT
Statistics
Matches: 270, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
151 23 0.09
152 189 0.70
153 27 0.10
154 2 0.01
155 29 0.11
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (151 bp):
CGACATTTGTTAAAAAGCGCCACTAATGCAACTAAAGCTAAAAAAACGACGTTGTTTTGCTCAAC
TTTTTTGCGACGTTTTCCAAAAAGCGCCGCTAATGCTTGATCTATAGTGGCGTTTCTCAAAAGCA
CCGCTAATTCTCGATCTATTG
Found at i:9480493 original size:40 final size:40
Alignment explanation
Indices: 9480449--9480547 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
9480439 CGTCGTGTTC
* *
9480449 CAAAAAGCGCCGCTAATGCTTGATCTATAGTGGCGTTTCT
1 CAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTCT
* * * *
9480489 CAAAAAGTGCCGCTAATTCTCGATCTATTGCGGCGTTTGT
1 CAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTCT
* *
9480529 TAAAATGCGCCGCTAATGC
1 CAAAAAGCGCCGCTAATGC
9480548 AACTAAAGCT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (40 bp):
CAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTCT
Found at i:9480734 original size:40 final size:40
Alignment explanation
Indices: 9480602--9480739 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 40
9480592 GACATTTTCC
* ** * * *
9480602 AAAAAGCACCGCTAATGCTTGATCTATAACTGTGTTAT-TC
1 AAAAAGCACCGCTAATGCTCGATCTATTGCGGCGTT-TGTG
*
9480642 AGAAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTGTG
1 AAAAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTGTG
**
9480682 AAAAAGTTCCGCTAATGCTCGATCTATTGCGGCGTTTGTG
1 AAAAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTGTG
* *
9480722 AAAAAGCGCCGCTGATGC
1 AAAAAGCACCGCTAATGC
9480740 CAATAAAGCT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 83 0.99
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (40 bp):
AAAAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTGTG
Found at i:9485263 original size:126 final size:125
Alignment explanation
Indices: 9485006--9485572 Score: 742
Period size: 126 Copynumber: 4.5 Consensus size: 125
9484996 CATAAAATCA
* * * * * *
9485006 AAGCAGTATGATTTATGAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
** * ** *
9485071 AGGTATTGGAAAAATAATTTTGACTTGATATTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
9485131 AAGCAGGATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
9485196 TGGTCCTGGAAGAAATAATTTCGAGTTAACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
9485257 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGGGCCCACGTGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
9485322 AGTTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * *
9485383 AAGCAGCATGCTATT-TGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * **
9485447 TTGGTCCTGGAAAAATAATTTCGACTTGACGTTTATGAGCAAATAGTAT-AAAATTGCTTC
65 TAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
9485507 TAGCAGGATGCTTTATGAAAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
9485572 A
66 A
9485573 ACATGTTTGG
Statistics
Matches: 384, Mismatches: 54, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
123 2 0.01
124 63 0.16
125 104 0.27
126 213 0.55
127 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:9485488 original size:251 final size:250
Alignment explanation
Indices: 9485006--9485572 Score: 816
Period size: 251 Copynumber: 2.3 Consensus size: 250
9484996 CATAAAATCA
* * * * * *
9485006 AAGCAGTATGATTTATGAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
9485071 AGGTATTGGAAAAATAATTTTGACTTGATATTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGCA
66 AGGTACTGAAAAAATAATTTTGACTTGACATTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCA
* *
9485136 GGATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTC
131 GCATGCTTTGTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTC
* * *
9485201 CTGGAAGAAATAATTTCGAGTTAACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
196 CTGGAAGAAATAATTTCGACTTAACGTTTATGAGCAAATAGTAT-AAAAACGCTTC
* *
9485257 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGGGCCCACGTGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
9485322 AGTTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGC
66 AGGTACTGAAAAAATAATTTTGACTTGACATTTCTGAGCAAATAGTATAAAA-AACGCTGCAAGC
*
9485387 AGCATGCTATT-TGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
130 AGCATGCT-TTGTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGG
* **
9485451 TCCTGGAA-AAATAATTTCGACTTGACGTTTATGAGCAAATAGTATAAAATTGCTTC
194 TCCTGGAAGAAATAATTTCGACTTAACGTTTATGAGCAAATAGTATAAAAACGCTTC
* * *
9485507 TAGCAGGATGCTTTATGAA-AAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTAT-AAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAG
9485571 TA
65 TA
9485573 ACATGTTTGG
Statistics
Matches: 282, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
250 67 0.24
251 136 0.48
252 77 0.27
253 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTACTGAAAAAATAATTTTGACTTGACATTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCA
GCATGCTTTGTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTC
CTGGAAGAAATAATTTCGACTTAACGTTTATGAGCAAATAGTATAAAAACGCTTC
Found at i:9488788 original size:21 final size:21
Alignment explanation
Indices: 9488747--9490104 Score: 468
Period size: 21 Copynumber: 63.1 Consensus size: 21
9488737 TCAAATTATA
*
9488747 TTTAAGTT-AAGGGTTAGGGT
1 TTTAAGTTAAAGGTTTAGGGT
*
9488767 TTTAAGTTAAAGGTTTAAGGT
1 TTTAAGTTAAAGGTTTAGGGT
* * *
9488788 TTTAAAGTTAAGGGTCTAAGG-
1 TTT-AAGTTAAAGGTTTAGGGT
* *
9488809 TTT---TT-AGGGTTTATGGTT
1 TTTAAGTTAAAGGTTTA-GGGT
* *
9488827 TTTAGGTT-AAGGGTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
* * *
9488848 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAAGGTTT-AGGGT
*
9488870 TTTAATTTAAAGG-TTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
*
9488891 TTTAAGTTAAGGGTTTAGGGT
1 TTTAAGTTAAAGGTTTAGGGT
*
9488912 TTTAAAGTTAAAGGTCTAGGGT
1 TTT-AAGTTAAAGGTTTAGGGT
*
9488934 TTTAAAGTT-AAGGTTTATGGTT
1 TTT-AAGTTAAAGGTTTA-GGGT
* *
9488956 TTTAGGTT-AAGGGTTAGGGT
1 TTTAAGTTAAAGGTTTAGGGT
** * *
9488976 TTTGGGTTTTAAGGTTTTAAGGT
1 TTTAAG-TTAAAGG-TTTAGGGT
* * *
9488999 TTTATAGTTTTAGGGTTTTAGTG-
1 TTTA-AG-TTAAAGG-TTTAGGGT
* * ** *
9489022 TTTAGGGTTTAATATTTAGGTT
1 TTTA-AGTTAAAGGTTTAGGGT
* * * *
9489044 TTTAAATTTAAGGGTTAGAGTT
1 TTTAAGTTAAAGGTTTAG-GGT
* *
9489066 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
* * *
9489088 TTTAA-TTTAAGGGTTATGGTT
1 TTTAAGTTAAAGGTTTA-GGGT
*
9489109 TTTAAGTTAATGGTTTAGGGT
1 TTTAAGTTAAAGGTTTAGGGT
* * *
9489130 TTAAAAGTTAAGGGTCTAGGGT
1 TT-TAAGTTAAAGGTTTAGGGT
*
9489152 TTTAAAGTT-AATGTTTAGGGTT
1 TTT-AAGTTAAAGGTTTAGGG-T
* **
9489174 TTTAGGTT-AAGGGGTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
* * * *
9489195 TTTAGGTTAAGGGTTCAGAGT
1 TTTAAGTTAAAGGTTTAGGGT
* *
9489216 TTAAAATTTAAAGG-TTAGGGT
1 TT-TAAGTTAAAGGTTTAGGGT
*
9489237 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
* *
9489259 TTTAAGTTAAGGGTCTAGGGT
1 TTTAAGTTAAAGGTTTAGGGT
*
9489280 TTTAAAGTT-AAGGATTAGGGGT
1 TTT-AAGTTAAAGGTTTA-GGGT
* *
9489302 TTTAAGTTAAATG-CTA-GGT
1 TTTAAGTTAAAGGTTTAGGGT
* *
9489321 TTT---TT-AGGGTTTAAGGTT
1 TTTAAGTTAAAGGTTT-AGGGT
* *
9489339 TTTAGGTT-AAGGGTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
*
9489360 TTTAGGTTAAAGG-TTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
* * *
9489381 TTTAGGTTAAGGGTCTAGGGT
1 TTTAAGTTAAAGGTTTAGGGT
* **
9489402 TTTAAAGTT-AATGTTTAAGTTT
1 TTT-AAGTTAAAGGTTT-AGGGT
* * *
9489424 TTTAGGTT-AAGGGTTAAGG-
1 TTTAAGTTAAAGGTTTAGGGT
* *
9489443 TTT---TT-AGGGTTTAAGGT
1 TTTAAGTTAAAGGTTTAGGGT
* *
9489460 TTTCAAGTT-AAGGATTAAGGTT
1 TTT-AAGTTAAAGG-TTTAGGGT
* * *
9489482 TTTAGGTTAAGGGTTTTGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
* *
9489504 TTTAA-TTTAAGGGTTAGGGT
1 TTTAAGTTAAAGGTTTAGGGT
* *
9489524 TTTAAAGTTAAGGGTTTATGGTT
1 TTT-AAGTTAAAGGTTTA-GGGT
* *
9489547 TTTAAGTTAAGGGTTTAAGGT
1 TTTAAGTTAAAGGTTTAGGGT
**
9489568 TTTAAAGTT-AAGGTTTAATGT
1 TTT-AAGTTAAAGGTTTAGGGT
* * *
9489589 TTTCAGGTT-AAGGGTTAGGATT
1 TTT-AAGTTAAAGGTTTAGG-GT
* * *
9489611 TTTAGGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAAGGTTTAG-GGT
*
9489633 TTTAGGTTAAAGG-TTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
*
9489654 TTTAA-TTTAAGGATTTAGGGT
1 TTTAAGTTAAAGG-TTTAGGGT
* *
9489675 CTTAGGTT-AAGAGTTTAGGGTT
1 TTTAAGTTAAAG-GTTTAGGG-T
*
9489697 TTTAAGTT-AAGGGTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
*
9489718 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
* * *
9489740 TTTAA-TTTAAGGGTTAGAGTT
1 TTTAAGTTAAAGGTTTAG-GGT
* *
9489761 TTTAATTTAAGGGTTTAGGGTTT
1 TTTAAGTTAAAGGTTTAGGG--T
* * * * *
9489784 TTTAGGTTAAGGGCTTATGAT
1 TTTAAGTTAAAGGTTTAGGGT
* *
9489805 TTTAATGTT-ATGGTTTAGGATT
1 TTTAA-GTTAAAGGTTTAGG-GT
* * *
9489827 TTTAGGTT-AAGGGTTAGAGTT
1 TTTAAGTTAAAGGTTTAG-GGT
* *
9489848 TTTAGGTTAAGGGTTTAGGGATTTT
1 TTTAAGTTAAAGGTTTAGGG----T
*
9489873 TAGGTTAAGAGTTTAAGGTTTAGGGT
1 T---TT-A-AGTTAAAGGTTTAGGGT
* *
9489899 TTAAAGTTAAAGTTAAAGTTTATGGTT
1 TTTAAGTTAAAG-----GTTTA-GGGT
* *
9489926 TTTAGGTT-AAGGGTTAGGGT
1 TTTAAGTTAAAGGTTTAGGGT
*
9489946 TTTAAAGTTAATGG-TTAGGGTT
1 TTT-AAGTTAAAGGTTTAGGG-T
* *
9489968 TTTAGGTTAATGGTTTAGGGTT
1 TTTAAGTTAAAGGTTTAGGG-T
*
9489990 AGGGTTGTAAGGTTAAGGGTTTAGGGT
1 ----TT-TAA-GTTAAAGGTTTAGGGT
*
9490017 TTTAAAGTT-AAGGGTTAGGGTT
1 TTT-AAGTTAAAGGTTTAGGG-T
* * *
9490039 TTTAGGTTAAGGGGTTAGGGGT
1 TTTAAGTTAAAGGTTTA-GGGT
* *
9490061 TTTAAGTT-AAGGGTTAGAGTT
1 TTTAAGTTAAAGGTTTAG-GGT
* * *
9490082 TTTAGGTTAAGGGTTTAAGGT
1 TTTAAGTTAAAGGTTTAGGGT
9490103 TT
1 TT
9490105 GTCAATTAAA
Statistics
Matches: 1026, Mismatches: 207, Indels: 209
0.71 0.14 0.14
Matches are distributed among these distances:
15 2 0.00
16 21 0.02
17 7 0.01
18 8 0.01
19 9 0.01
20 51 0.05
21 431 0.42
22 379 0.37
23 48 0.05
24 14 0.01
25 2 0.00
26 12 0.01
27 12 0.01
28 16 0.02
29 1 0.00
30 13 0.01
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (21 bp):
TTTAAGTTAAAGGTTTAGGGT
Found at i:9488827 original size:38 final size:37
Alignment explanation
Indices: 9488778--9488865 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 37
9488768 TTAAGTTAAA
9488778 GGTTTAAGGTTTTAAAGTTAAGGGTCTAAGGTTTTTAG
1 GGTTTAAGGTTTTAAAGTTAAGGGT-TAAGGTTTTTAG
* * * *
9488816 GGTTTATGGTTTTTAGGTTAAGGGTTAGGGTTTTTA-
1 GGTTTAAGGTTTTAAAGTTAAGGGTTAAGGTTTTTAG
*
9488852 GG-TTAAGGGTTTAA
1 GGTTTAAGGTTTTAA
9488866 GGTTTTTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 9 0.21
36 2 0.05
37 10 0.23
38 22 0.51
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (37 bp):
GGTTTAAGGTTTTAAAGTTAAGGGTTAAGGTTTTTAG
Found at i:9488870 original size:43 final size:43
Alignment explanation
Indices: 9488814--9490096 Score: 901
Period size: 43 Copynumber: 29.7 Consensus size: 43
9488804 TAAGGTTTTT
* * *
9488814 AGGGTTTATGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* *
9488857 AGGGTTTAAGGTTTTTAATTTAAAGGTTAGGGTTTTTAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* * * *
9488900 AGGGTTTAGGGTTTTAAAGTTAAAGGTCTAGGGTTTTAAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGT-TAGGGTTTTTAAGTTA
* * **
9488944 A-GGTTTATGGTTTTTAGGTTAAGGGTTAGGG-TTTTGGGTTTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAG--TTA
* * *** * *
9488987 AGGTTTTAAGG-TTTTATAGTTTTAGGGTTTTAGTGTTTAGGGTTTA
1 AGGGTTTAAGGTTTTTA-AG-TTAAGGGTTAGGGTTTTTA-AG-TTA
** * * *
9489033 A-TATTT-AGGTTTTTAAATTTAAGGGTTAGAGTTTTTAGGTTA
1 AGGGTTTAAGGTTTTT-AAGTTAAGGGTTAGGGTTTTTAAGTTA
* * *
9489075 AGGGTTTAGGGTTTTTAATTTAAGGGTTATGGTTTTTAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* * ** *
9489118 ATGGTTTAGGGTTTAAAAGTTAAGGGTCTAGGGTTTTAAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGT-TAGGGTTTTTAAGTTA
* * * * *
9489162 A-TGTTTAGGGTTTTTAGGTTAAGGGGTAGGGTTTTTAGGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* ** * *
9489204 AGGG-TTCAGAGTTTAAAATTTAAAGGTTAGGG-TTTTAAGTTA
1 AGGGTTTAAG-GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* *
9489246 AGGGTTTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTAAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGT-TAGGGTTTTTAAGTTA
* * * ** *
9489290 A-GGATTAGGGGTTTTAAGTTAAATGCTA-GG-TTTT---TT-
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* *
9489326 AGGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* * * *
9489369 AAGG-TTAGGGTTTTTAGGTTAAGGGTCTAGGGTTTTAAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGT-TAGGGTTTTTAAGTTA
* * * *
9489412 A-TGTTTAAGTTTTTTAGGTTAAGGGTTAAGG--TTT---TT-
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* * * *
9489448 AGGGTTTAAGGTTTTCAAGTTAAGGATTAAGGTTTTTAGGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
** * *
9489491 AGGGTTTTGGGTTTTTAATTTAAGGGTTAGGGTTTTAAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* * *
9489534 AGGGTTTATGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTA
* * * * *
9489578 A-GGTTTAATGTTTTCAGGTTAAGGGTTAGGATTTTTAGGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* * *
9489620 AGGGTTT-AGTGTTTTTAGGTTAAAGGTTAGGGTTTTTAATTTA
1 AGGGTTTAAG-GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* * * * *
9489663 AGGATTT-AGGGTCTTAGGTTAAGAGTTTAGGGTTTTTAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTA
* *
9489706 AGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTA
* *
9489749 AGGG-TT-AGAGTTTTTAATTTAAGGGTTTAGGGTTTTTTAGGTTA
1 AGGGTTTAAG-GTTTTTAAGTTAAGGG-TTAGGG-TTTTTAAGTTA
* * * * * * *
9489793 AGGGCTT-ATGATTTTAATGTTATGGTTTAGGATTTTTAGGTTA
1 AGGGTTTAAGGTTTTTAA-GTTAAGGGTTAGGGTTTTTAAGTTA
* *
9489836 AGGG-TT-AGAGTTTTTAGGTTAAGGGTTTAGGGATTTTTAGGTTA
1 AGGGTTTAAG-GTTTTTAAGTTAAGGG-TTAGGG-TTTTTAAGTTA
* * * *
9489880 AGAGTTTAAGGTTTAGGGTTTAAAGTTAAAGTTAAAGTTTATGGTTTTTAGGTTA
1 AGGGTTTAAGG-TT----TTT-AAGTT-AAG-----GGTTAGGGTTTTTAAGTTA
* * * *
9489935 AGGG-TTAGGGTTTTAAAGTTAATGGTTAGGGTTTTTAGGTTA
1 AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
* * *
9489977 ATGGTTTAGGGTTAGGGTTGTAAGGTTAAGGGTTTAGGGTTTTAAAGTTA
1 AGGGTTTAAGGTT----TT-TAA-GTTAAGGG-TTAGGGTTTTTAAGTTA
* * *
9490027 AGGG-TTAGGGTTTTTAGGTTAAGGGGTTAGGGGTTTTAAGTTA
1 AGGGTTTAAGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTTA
*
9490070 AGGG-TT-AGAGTTTTTAGGTTAAGGGTT
1 AGGGTTTAAG-GTTTTTAAGTTAAGGGTT
9490097 TAAGGTTTGT
Statistics
Matches: 999, Mismatches: 170, Indels: 143
0.76 0.13 0.11
Matches are distributed among these distances:
36 2 0.00
37 49 0.05
38 2 0.00
39 7 0.01
40 5 0.01
41 6 0.01
42 150 0.15
43 515 0.52
44 135 0.14
45 30 0.03
46 13 0.01
47 6 0.01
48 7 0.01
49 17 0.02
50 21 0.02
51 4 0.00
52 3 0.00
53 2 0.00
54 5 0.01
55 14 0.01
56 5 0.01
57 1 0.00
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (43 bp):
AGGGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTA
Found at i:9489019 original size:8 final size:8
Alignment explanation
Indices: 9488969--9489031 Score: 67
Period size: 8 Copynumber: 8.1 Consensus size: 8
9488959 AGGTTAAGGG
9488969 TTAGGGTT
1 TTAGGGTT
9488977 TT-GGGTT
1 TTAGGGTT
*
9488984 TTAAGGTT
1 TTAGGGTT
*
9488992 TTAAGGTT
1 TTAGGGTT
**
9489000 TTATAGTT
1 TTAGGGTT
9489008 TTAGGGTT
1 TTAGGGTT
*
9489016 TTAGTG-T
1 TTAGGGTT
9489023 TTAGGGTT
1 TTAGGGTT
9489031 T
1 T
9489032 AATATTTAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
7 13 0.28
8 33 0.72
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (8 bp):
TTAGGGTT
Found at i:9489330 original size:58 final size:58
Alignment explanation
Indices: 9489268--9489496 Score: 217
Period size: 58 Copynumber: 3.8 Consensus size: 58
9489258 TTTTAAGTTA
* * * * * *
9489268 AGGGTCTAGGGTTTTAAAGTTAAGGATTAGGGGTTTTAAGTTAAATGCTAGGTTTTTT
1 AGGGTCTAAGGTTTTAAAGTTAAGGATTAAGGTTTTTAGGTTAAAGGTTAGGTTTTTT
* * * * *
9489326 AGGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAAGGTTAGGGTTTTTAGGTT
1 AGGGTCTAAGGTTTTAAAGTTAAGGATTAAGGTTTTTAGGTTAAAGGTTA-GG-TTTT---TT
* * * * *
9489389 AAGGGTCTAGGGTTTTAAAGTTAATGTTTAAGTTTTTTAGGTTAAGGGTTAAGG-TTTTT
1 -AGGGTCTAAGGTTTTAAAGTTAAGGATTAAGGTTTTTAGGTTAAAGGTT-AGGTTTTTT
* * *
9489448 AGGGTTTAAGGTTTTCAAGTTAAGGATTAAGGTTTTTAGGTTAAGGGTT
1 AGGGTCTAAGGTTTTAAAGTTAAGGATTAAGGTTTTTAGGTTAAAGGTT
9489497 TTGGGTTTTT
Statistics
Matches: 140, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
58 84 0.60
59 4 0.03
60 4 0.03
62 3 0.02
63 2 0.01
64 42 0.30
65 1 0.01
ACGTcount: A:0.24, C:0.02, G:0.31, T:0.43
Consensus pattern (58 bp):
AGGGTCTAAGGTTTTAAAGTTAAGGATTAAGGTTTTTAGGTTAAAGGTTAGGTTTTTT
Found at i:9489348 original size:37 final size:36
Alignment explanation
Indices: 9489301--9489374 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 36
9489291 GGATTAGGGG
* * *
9489301 TTTTAAGTTAAATGCTAGGTTTTTTAGGGTTTAAGGT
1 TTTTAAGTTAAAGGCTAGGGTTTTTA-GGTTAAAGGT
* * *
9489338 TTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAAGGT
1 TTTTAAGTTAAAGGCTAGGGTTTTTAGGTTAAAGGT
9489374 T
1 T
9489375 AGGGTTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
36 10 0.32
37 21 0.68
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.47
Consensus pattern (36 bp):
TTTTAAGTTAAAGGCTAGGGTTTTTAGGTTAAAGGT
Found at i:9489453 original size:15 final size:16
Alignment explanation
Indices: 9489433--9489462 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9489423 TTTTAGGTTA
9489433 AGGG-TTAAGGTTTTT
1 AGGGTTTAAGGTTTTT
9489448 AGGGTTTAAGGTTTT
1 AGGGTTTAAGGTTTT
9489463 CAAGTTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (16 bp):
AGGGTTTAAGGTTTTT
Found at i:9489785 original size:22 final size:22
Alignment explanation
Indices: 9489448--9490104 Score: 543
Period size: 21 Copynumber: 29.6 Consensus size: 22
9489438 TAAGGTTTTT
* *
9489448 AGGGTTTAAGGTTTTCAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* * *
9489470 A-GGATTAAGGTTTTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9489491 AGGGTTTTGGGTTTTTAATTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9489513 AGGG-TTAGGGTTTTAAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9489534 AGGGTTTATGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9489556 AGGGTTTAAGGTTTTAAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
** * *
9489578 A-GGTTTAATGTTTTCAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9489599 AGGG-TTAGGATTTTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9489620 AGGGTTTAGTGTTTTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9489642 AAGG-TTAGGGTTTTTAATTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* * *
9489663 AGGATTTAGGG-TCTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9489684 AGAGTTTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
9489706 AGGG-TTAGGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9489727 AGGGTTTAGGGTTTTTAATTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9489749 AGGG-TTAGAGTTTTTAATTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9489770 AGGGTTTAGGGTTTTTTAGGTTA
1 AGGGTTTAGGG-TTTTTAAGTTA
* * *
9489793 AGGGCTTA-TGATTTTAATGTT-
1 AGGGTTTAGGGTTTTTAA-GTTA
* * *
9489814 ATGGTTTAGGATTTTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9489836 AGGG-TTAGAGTTTTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9489857 AGGGTTTAGGGATTTTTAGGTTA
1 AGGGTTTAGGG-TTTTTAAGTTA
* *
9489880 AGAGTTTAAGGTTTAGGGTTTAAAGTTAA
1 AGGGTTT-AGGGTT----TTT-AAGTT-A
* * *
9489909 AGTTAAAGTTTATGGTTTTTAGGTTA
1 AG----GGTTTAGGGTTTTTAAGTTA
*
9489935 AGGG-TTAGGGTTTTAAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9489956 ATGG-TTAGGGTTTTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9489977 ATGGTTTAGGGTTAGGGTTGTAAGGTTA
1 AGGGTTTAGGGTT----TT-TAA-GTTA
*
9490005 AGGGTTTAGGGTTTTAAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9490027 AGGG-TTAGGGTTTTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9490048 AGGGGTTAGGGGTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
9490070 AGGG-TTAGAGTTTTTAGGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
9490091 AGGGTTTAAGGTTT
1 AGGGTTTAGGGTTT
9490105 GTCAATTAAA
Statistics
Matches: 519, Mismatches: 82, Indels: 68
0.78 0.12 0.10
Matches are distributed among these distances:
21 250 0.48
22 178 0.34
23 37 0.07
24 5 0.01
26 5 0.01
27 9 0.02
28 23 0.04
29 3 0.01
32 4 0.01
33 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (22 bp):
AGGGTTTAGGGTTTTTAAGTTA
Found at i:9489961 original size:28 final size:26
Alignment explanation
Indices: 9489930--9490038 Score: 69
Period size: 22 Copynumber: 4.4 Consensus size: 26
9489920 ATGGTTTTTA
9489930 GGTTAAGGGTTAGGGTTTTAAAGTTAAT
1 GGTT-AGGGTTAGGGTTTT-AAGTTAAT
*
9489958 GGTTAGGG-T----TTTTAGGTTAAT
1 GGTTAGGGTTAGGGTTTTAAGTTAAT
9489979 GGTTTAGGGTTAGGG--TT--G-TAA-
1 GG-TTAGGGTTAGGGTTTTAAGTTAAT
*
9490000 GGTTAAGGGTTTAGGGTTTTAAAGTTAAG
1 GGTT-AGGG-TTAGGGTTTT-AAGTTAAT
9490029 GGTTAGGGTT
1 GGTTAGGGTT
9490039 TTTAGGTTAA
Statistics
Matches: 65, Mismatches: 1, Indels: 31
0.67 0.01 0.32
Matches are distributed among these distances:
20 2 0.03
21 15 0.23
22 19 0.29
23 2 0.03
24 2 0.03
25 2 0.03
26 1 0.02
27 7 0.11
28 11 0.17
29 4 0.06
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (26 bp):
GGTTAGGGTTAGGGTTTTAAGTTAAT
Found at i:9490676 original size:18 final size:18
Alignment explanation
Indices: 9490650--9490692 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9490640 GACTCGAAAA
* *
9490650 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
9490668 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
9490686 AGGAAAC
1 AGGAAAC
9490693 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:9491533 original size:20 final size:20
Alignment explanation
Indices: 9491496--9491533 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9491486 TTTATTTTTA
*
9491496 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
9491516 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
9491534 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:9492525 original size:51 final size:51
Alignment explanation
Indices: 9492470--9492567 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
9492460 AATTATTTAA
*
9492470 AAATAGGGATTT-ATGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTGA-GAGAAATTTAGA-AGGAACTTGAAAGCAAATTGAAAAT
* * *
9492521 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAAAGCAAATTGA
1 AAATAGGGATTTGAGAGAAATTTAGAAGGAACTTGAAAGCAAATTGA
9492568 GAGGAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 39 0.95
52 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTGAGAGAAATTTAGAAGGAACTTGAAAGCAAATTGAAAAT
Found at i:9492543 original size:11 final size:11
Alignment explanation
Indices: 9492529--9492605 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
9492519 ATAAATATGG
9492529 ATTTGAGAGAA
1 ATTTGAGAGAA
*
9492540 ATTTTGA-AGGA
1 A-TTTGAGAGAA
*
9492551 ATTTGAAAGCAA
1 ATTTGAGAG-AA
9492563 A-TTGAGAGGAA
1 ATTTGAGA-GAA
9492574 ATTT-AGAAGAA
1 ATTTGAG-AGAA
*
9492585 A-TTGAGAGGGA
1 ATTTGAGA-GAA
9492596 ATTTGAGAGA
1 ATTTGAGAGA
9492606 GGATTAGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
10 8 0.15
11 27 0.52
12 17 0.33
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:9492576 original size:23 final size:22
Alignment explanation
Indices: 9492529--9492603 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
9492519 ATAAATATGG
9492529 ATTTGAG-AGAAATTTTGA-AGGA
1 ATTTGAGAAGAAA--TTGAGAGGA
9492551 ATTTGA-AAGCAAATTGAGAGGAA
1 ATTTGAGAAG-AAATTGAGAGG-A
9492574 ATTT-AGAAGAAATTGAGAGGGA
1 ATTTGAGAAGAAATTGAGA-GGA
9492596 ATTTGAGA
1 ATTTGAGA
9492604 GAGGATTAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
21 4 0.09
22 26 0.57
23 16 0.35
ACGTcount: A:0.44, C:0.01, G:0.28, T:0.27
Consensus pattern (22 bp):
ATTTGAGAAGAAATTGAGAGGA
Found at i:9492602 original size:34 final size:34
Alignment explanation
Indices: 9492529--9492604 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
9492519 ATAAATATGG
* *
9492529 ATTTGAGA-GAAATTTTGAAGGAATTTGAAAGCA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAAAGCA
* * *
9492562 AATTGAGAGGAAATTTAGAA-GAAATTGAGAGGGA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGA-AAGCA
9492596 ATTTGAGAG
1 ATTTGAGAG
9492605 AGGATTAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
33 14 0.40
34 21 0.60
ACGTcount: A:0.43, C:0.01, G:0.29, T:0.26
Consensus pattern (34 bp):
ATTTGAGAGGAAATTTAGAAGGAAATTGAAAGCA
Found at i:9498627 original size:21 final size:21
Alignment explanation
Indices: 9498601--9498641 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9498591 ATCTGCTCAA
* *
9498601 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
9498622 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
9498642 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:9506545 original size:7 final size:7
Alignment explanation
Indices: 9506533--9506568 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
9506523 TCAAATCTGT
9506533 TTCATCC
1 TTCATCC
9506540 TTCATCC
1 TTCATCC
9506547 TTCATCC
1 TTCATCC
9506554 TTCATCC
1 TTCATCC
9506561 TTCATCC
1 TTCATCC
9506568 T
1 T
9506569 CTCCTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (7 bp):
TTCATCC
Found at i:9517350 original size:22 final size:22
Alignment explanation
Indices: 9517325--9517388 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
9517315 AGCTGTATAC
9517325 AATTAGAACTCTAAGATTACAT
1 AATTAGAACTCTAAGATTACAT
* *
9517347 AATTAAAAGT-T--G-TATAC--
1 AATTAGAACTCTAAGAT-TACAT
9517364 AATTAGAACTCTAAGATTACAT
1 AATTAGAACTCTAAGATTACAT
9517386 AAT
1 AAT
9517389 CATATCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
17 8 0.26
18 2 0.06
19 4 0.13
20 4 0.13
21 2 0.06
22 11 0.35
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (22 bp):
AATTAGAACTCTAAGATTACAT
Found at i:9517351 original size:39 final size:39
Alignment explanation
Indices: 9517308--9517388 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
9517298 CAATGGCTAC
9517308 AATTAAAAGCTGTATACAATTAGAACTCTAAGATTACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGATTACAT
*
9517347 AATTAAAAGTTGTATACAATTAGAACTCTAAGATTACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGATTACAT
9517386 AAT
1 AAT
9517389 CATATCTTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (39 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGATTACAT
Found at i:9522434 original size:17 final size:17
Alignment explanation
Indices: 9522412--9522475 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
9522402 CATCAATGGC
9522412 TACAATTAAAAGCTGTA
1 TACAATTAAAAGCTGTA
**
9522429 TACAATTAGAACTCTAAGATTA
1 TACAATTA-AAAGCT--G--TA
*
9522451 CACAATTAAAAGCTGTA
1 TACAATTAAAAGCTGTA
9522468 TACAATTA
1 TACAATTA
9522476 GAACTCTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 1 0.03
20 1 0.03
21 4 0.11
22 9 0.25
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (17 bp):
TACAATTAAAAGCTGTA
Found at i:9522456 original size:39 final size:39
Alignment explanation
Indices: 9522413--9522491 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
9522403 ATCAATGGCT
9522413 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
9522452 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
9522491 A
1 A
9522492 TAATCATATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
Found at i:9523588 original size:35 final size:35
Alignment explanation
Indices: 9523542--9523613 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
9523532 GAAAAACAGT
9523542 GATATCTGAAATAATTAATTGATTTTATAATATTA
1 GATATCTGAAATAATTAATTGATTTTATAATATTA
*
9523577 GATATCTGAAATTATTAATTGATTTTATAATATTA
1 GATATCTGAAATAATTAATTGATTTTATAATATTA
9523612 GA
1 GA
9523614 ACTCATCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.46
Consensus pattern (35 bp):
GATATCTGAAATAATTAATTGATTTTATAATATTA
Found at i:9523778 original size:13 final size:13
Alignment explanation
Indices: 9523760--9523785 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9523750 ATAATATATT
9523760 TATTAATTAAAAA
1 TATTAATTAAAAA
9523773 TATTAATTAAAAA
1 TATTAATTAAAAA
9523786 AAGCTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:9526915 original size:3 final size:3
Alignment explanation
Indices: 9526895--9526958 Score: 62
Period size: 3 Copynumber: 22.3 Consensus size: 3
9526885 TTTAGGGTTT
* * *
9526895 AAG AAG -AG AAA AAT AAG AAG AA- AA- AAA AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
9526940 AAG AAG GAG AAG GAG AAG A
1 AAG AAG AAG AAG AAG AAG A
9526959 GAAAAAATGG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:9527647 original size:20 final size:20
Alignment explanation
Indices: 9527622--9527659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9527612 CAACGTGACA
*
9527622 AGTTAACTGGCTACATCAAC
1 AGTTAACTGGCCACATCAAC
*
9527642 AGTTAACTTGCCACATCA
1 AGTTAACTGGCCACATCA
9527660 GCGATCCGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAAC
Found at i:9532537 original size:17 final size:17
Alignment explanation
Indices: 9532515--9532548 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9532505 ATCCACTAAT
*
9532515 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
9532532 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
9532549 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:9537176 original size:17 final size:17
Alignment explanation
Indices: 9537154--9537187 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9537144 ATCCACTAAT
*
9537154 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
9537171 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
9537188 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:9539078 original size:19 final size:21
Alignment explanation
Indices: 9539034--9539079 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
9539024 ATTATAATAC
9539034 TTAAATATTTTAATACTTAAAT
1 TTAAATATTTTAATA-TTAAAT
*
9539056 TTAAATATTTT-AT-TTATAT
1 TTAAATATTTTAATATTAAAT
9539075 TTAAA
1 TTAAA
9539080 CACTTTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
21 2 0.09
22 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTAAATATTTTAATATTAAAT
Found at i:9545520 original size:12 final size:12
Alignment explanation
Indices: 9545505--9545534 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9545495 AAGAAGATGC
9545505 AGAAGAAGACAA
1 AGAAGAAGACAA
*
9545517 AGAAGAAGACGA
1 AGAAGAAGACAA
9545529 AGAAGA
1 AGAAGA
9545535 TGAGTACGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.30, T:0.00
Consensus pattern (12 bp):
AGAAGAAGACAA
Found at i:9546112 original size:22 final size:22
Alignment explanation
Indices: 9546087--9546157 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
9546077 ATATGCTTAT
9546087 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
9546109 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
9546131 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
9546153 CAAAT
1 CAAAT
9546158 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:9546132 original size:44 final size:44
Alignment explanation
Indices: 9546069--9546162 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
9546059 GTCTCAACTT
9546069 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
9546113 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
9546157 TCATTT
1 TCATTT
9546163 ATTGAATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:9546166 original size:21 final size:22
Alignment explanation
Indices: 9546141--9546184 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9546131 CAAATATAAG
*
9546141 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
9546162 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
9546184 T
1 T
9546185 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:9546399 original size:19 final size:19
Alignment explanation
Indices: 9546377--9546420 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9546367 TATGAGTTAT
*
9546377 ATATTCAAATATATTTTAA
1 ATATTCAAATATAGTTTAA
* *
9546396 ATATTTAAATATAGTTTAT
1 ATATTCAAATATAGTTTAA
9546415 ATATTC
1 ATATTC
9546421 TAATTAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATTCAAATATAGTTTAA
Found at i:9546681 original size:13 final size:13
Alignment explanation
Indices: 9546660--9546710 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
9546650 ACACTCAAAT
*
9546660 TTCTTAAAAGCAC
1 TTCTCAAAAGCAC
9546673 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
9546686 TTCTGAAAAGTAC
1 TTCTCAAAAGCAC
9546699 TTCTCAAAAGCA
1 TTCTCAAAAGCA
9546711 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:9546689 original size:26 final size:26
Alignment explanation
Indices: 9546660--9546710 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
9546650 ACACTCAAAT
*
9546660 TTCTTAAAAGCACTTCTCAAAAGCAC
1 TTCTGAAAAGCACTTCTCAAAAGCAC
*
9546686 TTCTGAAAAGTACTTCTCAAAAGCA
1 TTCTGAAAAGCACTTCTCAAAAGCA
9546711 ATGAAGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (26 bp):
TTCTGAAAAGCACTTCTCAAAAGCAC
Found at i:9547125 original size:3 final size:3
Alignment explanation
Indices: 9547119--9547153 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9547109 TAAATAACTT
9547119 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9547154 TTGGTATGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9548951 original size:9 final size:9
Alignment explanation
Indices: 9548929--9548975 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
9548919 AAACTATTTT
*
9548929 TAAAAATTA
1 TAAATATTA
9548938 TAAATCATTA
1 TAAAT-ATTA
9548948 -AAATTATTA
1 TAAA-TATTA
9548957 -AAATATTA
1 TAAATATTA
9548965 TAAATATTA
1 TAAATATTA
9548974 TA
1 TA
9548976 TTTTTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
8 5 0.15
9 24 0.71
10 5 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
TAAATATTA
Found at i:9548963 original size:8 final size:8
Alignment explanation
Indices: 9548928--9548992 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
9548918 AAAACTATTT
9548928 TTAAAA-A
1 TTAAAATA
9548935 TTATAAATCA
1 TTA-AAAT-A
9548945 TTAAAATTA
1 TTAAAA-TA
9548954 TTAAAATA
1 TTAAAATA
9548962 TTATAAATA
1 TTA-AAATA
* * *
9548971 TTATATTT
1 TTAAAATA
*
9548979 TTAAAATT
1 TTAAAATA
9548987 TTAAAA
1 TTAAAA
9548993 AAATCAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
7 3 0.06
8 22 0.46
9 18 0.38
10 5 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAAAATA
Found at i:9559587 original size:18 final size:19
Alignment explanation
Indices: 9559553--9559593 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
9559543 ATTATTTTAG
9559553 AAAATTTTATATATTTTTT
1 AAAATTTTATATATTTTTT
*
9559572 AAAATTTT-TTTATTTTTT
1 AAAATTTTATATATTTTTT
9559590 AAAA
1 AAAA
9559594 AATAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAAATTTTATATATTTTTT
Found at i:9559588 original size:19 final size:19
Alignment explanation
Indices: 9559541--9559596 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
9559531 GGTCCCAAAA
*
9559541 TTATTATTTTAGAAAATTTT
1 TTATTTTTTTA-AAAATTTT
* *
9559561 ATATATTTTTTAAAATTTTT
1 TTAT-TTTTTTAAAAATTTT
*
9559581 TTATTTTTTAAAAAAT
1 TTATTTTTTTAAAAAT
9559597 AAATTTTGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 10 0.34
20 13 0.45
21 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTATTTTTTTAAAAATTTT
Found at i:9559596 original size:20 final size:20
Alignment explanation
Indices: 9559541--9559594 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
9559531 GGTCCCAAAA
9559541 TTATTATTTTAGAAAATTTTAT
1 TTATT-TTTTA-AAAATTTTAT
*
9559563 ATATTTTTT-AAAATTTT-T
1 TTATTTTTTAAAAATTTTAT
9559581 TTATTTTTTAAAAA
1 TTATTTTTTAAAAA
9559595 ATAAATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 9 0.31
19 12 0.41
21 4 0.14
22 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATTTTTTAAAAATTTTAT
Found at i:9559639 original size:19 final size:19
Alignment explanation
Indices: 9559617--9559667 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
9559607 TTTTTTGAAA
9559617 TATTTTTAATTTTAAAAAT
1 TATTTTTAATTTTAAAAAT
* *
9559636 TATTTTGAATATTTGAAAAT
1 TATTTTTAAT-TTTAAAAAT
9559656 TA-TTTTAATTTT
1 TATTTTTAATTTT
9559668 TTTGGTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 10 0.36
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
TATTTTTAATTTTAAAAAT
Found at i:9559656 original size:20 final size:19
Alignment explanation
Indices: 9559617--9559667 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
9559607 TTTTTTGAAA
*
9559617 TATTTTTAATTTTAAAAAT
1 TATTTTGAATTTTAAAAAT
*
9559636 TATTTTGAATATTTGAAAAT
1 TATTTTGAAT-TTTAAAAAT
9559656 TATTTT-AATTTT
1 TATTTTGAATTTT
9559668 TTTGGTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 14 0.48
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
TATTTTGAATTTTAAAAAT
Found at i:9559671 original size:21 final size:20
Alignment explanation
Indices: 9559608--9559668 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
9559598 AATTTTGGAT
*
9559608 TTTTTG-AAA-TATTTTTAA
1 TTTTTGAAAATTATTTTGAA
*
9559626 -TTTTAAAAATTATTTTGAA
1 TTTTTGAAAATTATTTTGAA
*
9559645 TATTTGAAAATTATTTT-AA
1 TTTTTGAAAATTATTTTGAA
9559664 TTTTT
1 TTTTT
9559669 TTGGTAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.11
18 3 0.09
19 14 0.40
20 14 0.40
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTTGAAAATTATTTTGAA
Found at i:9559761 original size:9 final size:9
Alignment explanation
Indices: 9559747--9559776 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
9559737 ACATCAATTT
9559747 ATTATTCAA
1 ATTATTCAA
9559756 ATTATTCAA
1 ATTATTCAA
*
9559765 GTTATTCAA
1 ATTATTCAA
9559774 ATT
1 ATT
9559777 GTAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (9 bp):
ATTATTCAA
Found at i:9561964 original size:18 final size:18
Alignment explanation
Indices: 9561931--9561965 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9561921 AAGAAAAAAT
* *
9561931 AAATATGTATATATATAA
1 AAATATGTACACATATAA
9561949 AAATATGTACACATATA
1 AAATATGTACACATATA
9561966 TATAGGTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (18 bp):
AAATATGTACACATATAA
Found at i:9562194 original size:24 final size:25
Alignment explanation
Indices: 9562166--9562223 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
9562156 TAAGATATAC
* *
9562166 AAAAATATATAAATAC-ATACATAT
1 AAAAATATATAAATACTATAAAAAT
*
9562190 AAAAATATATATATACTTATAAAAAT
1 AAAAATATATAAATAC-TATAAAAAT
9562216 AAAAATAT
1 AAAAATAT
9562224 GTATATGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 15 0.52
26 14 0.48
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAAATATATAAATACTATAAAAAT
Found at i:9562217 original size:26 final size:24
Alignment explanation
Indices: 9562166--9562229 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 24
9562156 TAAGATATAC
* * *
9562166 AAAAATATATAAATACATACATAT
1 AAAAATATATATATACATAAAAAT
9562190 AAAAATATATATATACTTATAAAAAT
1 AAAAATATATATATAC--ATAAAAAT
*
9562216 AAAAATATGTATAT
1 AAAAATATATATAT
9562230 GTATATAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 15 0.44
26 19 0.56
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAATATATATATACATAAAAAT
Found at i:9562223 original size:20 final size:20
Alignment explanation
Indices: 9562182--9562223 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9562172 ATATAAATAC
* *
9562182 ATACATATAAAAATATATAT
1 ATACATATAAAAATAAAAAT
*
9562202 ATACTTATAAAAATAAAAAT
1 ATACATATAAAAATAAAAAT
9562222 AT
1 AT
9562224 GTATATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
ATACATATAAAAATAAAAAT
Found at i:9562235 original size:36 final size:37
Alignment explanation
Indices: 9562194--9562277 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
9562184 ACATATAAAA
*
9562194 ATATATATATACTTATAAAAATAA-AAATAT-GTATATGT
1 ATATATATATA--TATAAAAA-AAGAAATATAGTATACGT
*
9562232 ATATAGATATATATAAAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAAAGAAATAT-AGTATACGT
9562270 ATATATAT
1 ATATATAT
9562278 TAAACAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 2 0.05
36 14 0.35
38 24 0.60
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (37 bp):
ATATATATATATATAAAAAAAGAAATATAGTATACGT
Found at i:9562414 original size:3 final size:3
Alignment explanation
Indices: 9562408--9562451 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
9562398 TAACAACAAC
* *
9562408 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AGAT GAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT A
9562452 CATTAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9563303 original size:17 final size:17
Alignment explanation
Indices: 9563281--9563317 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9563271 GGGGCTAGGG
* *
9563281 TTTTTTTCTTTTGTTGT
1 TTTTTTTCTGTTATTGT
9563298 TTTTTTTCTGTTATTGT
1 TTTTTTTCTGTTATTGT
9563315 TTT
1 TTT
9563318 CTGATTTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTGTTATTGT
Found at i:9563759 original size:10 final size:11
Alignment explanation
Indices: 9563743--9563775 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
9563733 AAATCTTAAT
9563743 TAATTAATTTA
1 TAATTAATTTA
9563754 -AATTAATTTA
1 TAATTAATTTA
9563764 TAATTATATTTA
1 TAATTA-ATTTA
9563776 GATGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATTAATTTA
Found at i:9564090 original size:3 final size:3
Alignment explanation
Indices: 9564078--9564115 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
9564068 ATAAATTGTT
9564078 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9564116 GATGAGAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9573632 original size:21 final size:21
Alignment explanation
Indices: 9573608--9573650 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
9573598 GCGAAAAAAA
9573608 AATA-ATTTCAAAATAAAA-CAT
1 AATACATTT-AAAA-AAAAGCAT
9573629 AATACATTTAAAAAAAAGCAT
1 AATACATTTAAAAAAAAGCAT
9573650 A
1 A
9573651 TATATACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (21 bp):
AATACATTTAAAAAAAAGCAT
Found at i:9575400 original size:44 final size:43
Alignment explanation
Indices: 9575171--9575676 Score: 254
Period size: 44 Copynumber: 11.7 Consensus size: 43
9575161 TCTTAGTCTA
* * * *
9575171 CTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGCTGTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTA--GGTTTTAATCTG
* * *
9575215 CTCCACTGCAACTTCAGGGAGATAAGAT-TTGCCATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTAG--GT-TTTAATCTG
*** *
9575260 C-CTCACTGCAACTTCA-GGAGGATAAGA-CTTTCTTATGTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATCTAGGTT-T-TAATCTG
* * * * ***
9575304 CTCCACTGCAACCTCAAGGAGATATGA-CTA-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTAGGTTTTAATCTG
* *
9575345 CT-CTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-AGGTTTTAATCTG
* *
9575388 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATGTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTA--GGTTTTAATCTG
* * * ** * *
9575432 CTCCACTGTAACTTCAGGCAGATAAGATTTACCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTA-GGT-TTTAATCTG
* * * * *
9575477 -TCTCACTGCAACTTCA-GGAGGATAAGA-CTTGCTTACGTAGTCTA
1 CTC-CACTGCAACTTCAGGGA-GATAAGATCTAGGTT--TTAATCTG
* * * * ***
9575521 CTCCACTACAACCTCAGGGAGATATGA-CTA-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTAGGTTTTAATCTG
* * * * *
9575562 CTCTA-TGCAACTTCTA-AGAGGTAAGATTTAAGGTTTTAATCCG
1 CTCCACTGCAACTTC-AGGGAGATAAGATCT-AGGTTTTAATCTG
* *
9575605 CTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTA--GGTTTTAATCTG
*
9575649 TTCCACTGCAACTTCAGGGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
9575677 TTGCCATCTT
Statistics
Matches: 352, Mismatches: 78, Indels: 64
0.71 0.16 0.13
Matches are distributed among these distances:
40 33 0.09
41 18 0.05
42 7 0.02
43 27 0.08
44 202 0.57
45 65 0.18
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTAGGTTTTAATCTG
Found at i:9575546 original size:217 final size:217
Alignment explanation
Indices: 9575171--9575692 Score: 839
Period size: 217 Copynumber: 2.4 Consensus size: 217
9575161 TCTTAGTCTA
* * *
9575171 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTGTAATCTACTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
9575236 ATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTTCTTATGTAGT
66 ATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACGTAGT
* * *
9575301 CTGCTCCACTGCAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTC-AGAGAG
131 CTACTCCACTACAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTATGCAACTTCTA-AGAG
* *
9575365 ATAAGATCTGAGGTTTTAATCTG
195 ATAAGATCTAAGGTTTTAATCCG
* * * *
9575388 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATGTGCTCCACTGTAACTTCAGGCAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
9575453 ATAAGATTTACCATCTTCAGTCTGTCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACGTAGT
66 ATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACGTAGT
* *
9575518 CTACTCCACTACAACCTCAGGGAGATATGACTAGATGCGATCTGCTCTATGCAACTTCTAAGAGG
131 CTACTCCACTACAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTATGCAACTTCTAAGAGA
*
9575583 TAAGATTTAAGGTTTTAATCCG
196 TAAGATCTAAGGTTTTAATCCG
*
9575605 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
9575670 ATAAGATTTGCCATCTTTAGTCT
66 ATAAGATTTGCCATCTTTAGTCT
9575693 ATTCCATTGC
Statistics
Matches: 277, Mismatches: 27, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
217 276 1.00
218 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACGTAGT
CTACTCCACTACAACCTCAAGGAGATATGACTAGATGCGATCTGCTCTATGCAACTTCTAAGAGA
TAAGATCTAAGGTTTTAATCCG
Found at i:9584543 original size:39 final size:39
Alignment explanation
Indices: 9584489--9584566 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
9584479 ATTGACAAAC
9584489 GCATTTTTTTATAATCCGTCTTCAAACTACCCAGCTCTT
1 GCATTTTTTTATAATCCGTCTTCAAACTACCCAGCTCTT
9584528 GCATTTTTTTATAATCCGTCTTCAAACTACCCAGCTCTT
1 GCATTTTTTTATAATCCGTCTTCAAACTACCCAGCTCTT
9584567 CCTCAGCCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.41
Consensus pattern (39 bp):
GCATTTTTTTATAATCCGTCTTCAAACTACCCAGCTCTT
Found at i:9587692 original size:21 final size:19
Alignment explanation
Indices: 9587662--9587717 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 19
9587652 TAAGTATGCG
9587662 AAAAAA-ATAATAATTTCAA
1 AAAAAACATAATAATTT-AA
9587681 AATAAAACATAATACATTTAA
1 AA-AAAACATAATA-ATTTAA
9587702 AAAAAAGCATATATAA
1 AAAAAA-CATA-ATAA
9587718 ACAAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.06
20 8 0.25
21 15 0.47
22 7 0.22
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAACATAATAATTTAA
Found at i:9589550 original size:37 final size:37
Alignment explanation
Indices: 9589500--9589576 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
9589490 ATACTCTTAT
9589500 ATATACATAAGGAGATTAGACTCTTCATTTCTAATAC
1 ATATACATAAGGAGATTAGACTCTTCATTTCTAATAC
9589537 ATATACATAAGGAGATTAGACTCTTCATTTCTAATAC
1 ATATACATAAGGAGATTAGACTCTTCATTTCTAATAC
9589574 ATA
1 ATA
9589577 AATATGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (37 bp):
ATATACATAAGGAGATTAGACTCTTCATTTCTAATAC
Found at i:9597340 original size:9 final size:9
Alignment explanation
Indices: 9597326--9597362 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9597316 TATAGTTTGA
9597326 TATTCGAAT
1 TATTCGAAT
9597335 TATTCGAAT
1 TATTCGAAT
*
9597344 TATTCGAGT
1 TATTCGAAT
9597353 TATTCGAAT
1 TATTCGAAT
9597362 T
1 T
9597363 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9609451 original size:17 final size:18
Alignment explanation
Indices: 9609413--9609451 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
9609403 TTTAGCATCC
*
9609413 ATTTAACTTTTCATATTT
1 ATTTAACTTTTCAAATTT
9609431 -TTTAACTTTT-AAATTT
1 ATTTAACTTTTCAAATTT
9609447 ATTTA
1 ATTTA
9609452 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTAACTTTTCAAATTT
Found at i:9614618 original size:16 final size:16
Alignment explanation
Indices: 9614592--9614661 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
9614582 TTTGGTTCGC
*
9614592 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
9614608 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
9614624 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
9614640 TATAATGGAATAGAGG
1 TGTAATGGAATAGAGG
9614656 TGTAAT
1 TGTAAT
9614662 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.01, G:0.34, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:9614912 original size:16 final size:16
Alignment explanation
Indices: 9614875--9614916 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9614865 TTAATCATAT
*
9614875 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9614891 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9614906 TTAAAATATAT
1 TTAAAATATAT
9614917 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9614923 original size:14 final size:15
Alignment explanation
Indices: 9614884--9614925 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9614874 TTTAAACATA
*
9614884 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9614899 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9614913 A-TATAATTTAATA
1 ATTATAATTAAATA
9614926 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9614975 original size:61 final size:60
Alignment explanation
Indices: 9614910--9615097 Score: 188
Period size: 61 Copynumber: 3.1 Consensus size: 60
9614900 TTATAATTAA
9614910 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTATTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTATT-AAATCAT
* * * * * * * * *
9614971 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTATTA-AATCAT
* *
9615030 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTA-TTAAATCAT
9615091 AATATAT
1 AATATAT
9615098 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 2 0.02
59 32 0.33
60 23 0.24
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTATTAAATCAT
Found at i:9615013 original size:120 final size:121
Alignment explanation
Indices: 9614878--9615170 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 121
9614868 ATCATATTTA
9614878 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * *
9614943 TATTCTTATATGAATTTATTGAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
*
9614998 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
9615063 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* * *
9615119 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
9615171 TAAAATAATT
Statistics
Matches: 164, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 162 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:9615043 original size:14 final size:15
Alignment explanation
Indices: 9614994--9615045 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9614984 ATAAAATATA
9614994 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9615009 TATTAAATATATTAT
1 AATTAAATATATTAT
9615024 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9615037 AATTTAATA
1 AATTAAATA
9615046 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9615047 original size:59 final size:58
Alignment explanation
Indices: 9614878--9615174 Score: 187
Period size: 59 Copynumber: 5.0 Consensus size: 58
9614868 ATCATATTTA
* * *
9614878 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * *
9614937 AATCA-ATATTCTTATATGAATTTATTGA-AATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATATT-ATAATTAAAATATATGAT-TTAATAAAATATAAA-T
* * *
9614998 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
9615057 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAA-AT
* * *
9615118 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
9615175 ATAATTATAA
Statistics
Matches: 177, Mismatches: 40, Indels: 43
0.68 0.15 0.17
Matches are distributed among these distances:
57 10 0.06
58 10 0.06
59 57 0.32
60 28 0.16
61 52 0.29
62 11 0.06
63 9 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:9615338 original size:92 final size:92
Alignment explanation
Indices: 9615186--9615394 Score: 305
Period size: 92 Copynumber: 2.3 Consensus size: 92
9615176 TAATTATAAC
* * * *
9615186 TAATAAATTATCTTATATGAATTT-GTATAATTTAAAATAATTATTATTACACATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTTAATATAATTTAAAATAATTAATATTAAACATAATTTAATAA
* *
9615250 TAATATATAATTTCATAAATTTCTTGA
66 TAATATATAATTTCATAAAATTCTTAA
*
9615277 TAATAAATTTTCTTATATGAATTTAATCAT-ATTTAAAATAATTAATATTAAATATAATTTAATA
1 TAATAAATTTTCTTATATGAATTTAAT-ATAATTTAAAATAATTAATATTAAACATAATTTAATA
*
9615341 ATGATATATAATTTCATAAAATTCTTAA
65 ATAATATATAATTTCATAAAATTCTTAA
*
9615369 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
9615395 CTAAAATCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
91 23 0.22
92 61 0.58
93 22 0.21
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (92 bp):
TAATAAATTTTCTTATATGAATTTAATATAATTTAAAATAATTAATATTAAACATAATTTAATAA
TAATATATAATTTCATAAAATTCTTAA
Found at i:9621404 original size:87 final size:87
Alignment explanation
Indices: 9621258--9621437 Score: 333
Period size: 87 Copynumber: 2.1 Consensus size: 87
9621248 TCACTTTATA
9621258 TTTTGGATCACTCTGGACAATCTCGCATCCTAATCGGACCACAACATAAGAAGCACTTCACTGGC
1 TTTTGGATCACTCTGGACAATCTCGCATCCTAATCGGACCACAACATAAGAAGCACTTCACTGGC
9621323 TTCTTTTCATTCTCTCTAACCC
66 TTCTTTTCATTCTCTCTAACCC
* *
9621345 TTTTGGATCACTCTGGACAGTCTCGCGTCCTAATCGGACCACAACATAAGAAGCACTTCACTGGC
1 TTTTGGATCACTCTGGACAATCTCGCATCCTAATCGGACCACAACATAAGAAGCACTTCACTGGC
9621410 TTCTTTTCATTCTCTCTAACCC
66 TTCTTTTCATTCTCTCTAACCC
*
9621432 CTTTGG
1 TTTTGG
9621438 CTTCGACAGA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (87 bp):
TTTTGGATCACTCTGGACAATCTCGCATCCTAATCGGACCACAACATAAGAAGCACTTCACTGGC
TTCTTTTCATTCTCTCTAACCC
Found at i:9624883 original size:39 final size:39
Alignment explanation
Indices: 9624829--9624906 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
9624819 TTATAAAGTT
9624829 ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
1 ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
9624868 ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
1 ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
9624907 TTTTGTCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (39 bp):
ATATGTATAGCCTACTAATATTTAACCTAACATTGATCA
Found at i:9636997 original size:54 final size:54
Alignment explanation
Indices: 9636923--9637026 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
9636913 AATAAGATAG
* *
9636923 CTTTCTGGATCTTAGATGTGTTCCAGACAATGCCTTAGGTTATCCCTAAATATC
1 CTTTCTGGATCTTAGATGTGTTCCAAACAATGCCTTAGGTCATCCCTAAATATC
*
9636977 CTTTTTGGATCTTAGATGTGTTCCAAACAATGCCTTAGGTCATCCCTAAA
1 CTTTCTGGATCTTAGATGTGTTCCAAACAATGCCTTAGGTCATCCCTAAA
9637027 GATCTCAGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (54 bp):
CTTTCTGGATCTTAGATGTGTTCCAAACAATGCCTTAGGTCATCCCTAAATATC
Done.