Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 12 of 186
Found at i:3552279 original size:120 final size:120
Alignment explanation
Indices: 3552129--3552397 Score: 291
Period size: 120 Copynumber: 2.2 Consensus size: 120
3552119 AGCTTTAGTG
* * * *
3552129 GCATTAGCGACGC-TTTTAGAAAAACACCGCTATAGGTCGAGCATTAGC-AGCGCTTTT-AGAAA
1 GCATTAGCGGCGCTTTTTA-AAAAACGCCGCTATAGCTCGACCATTAGCGA-CGCTTTTCA-AAA
* * * ** *
3552191 AAT-ATCGTTACAGATCGAGCACTAGCGACGCTTTTTGAAAAA-CGTC-GCTATAGATCGA
63 AATGCT-GCTACAGATCCAGCACTAAAGACG-TTTTTCAAAAAGCG-CGGCTATAGATCGA
* *
3552249 GCATTAGTGGCGCTTTTTAAAAAACGCCGCTATAGCTCGACCTTTAGCGACGCTTTTCAAAAAAT
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGCTCGACCATTAGCGACGCTTTTCAAAAAAT
* *
3552314 GCTGCTATAGATCCAGCATTAAAGACGTTTTTCAAAAAGCGCGGCTATAGATCGA
66 GCTGCTACAGATCCAGCACTAAAGACGTTTTTCAAAAAGCGCGGCTATAGATCGA
* *
3552369 GCATTAGCGGC-ATTTTTTAAAAACGCCGC
1 GCATTAGCGGCGCTTTTTAAAAAACGCCGC
3552398 AAAAAATTTA
Statistics
Matches: 126, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
119 27 0.21
120 91 0.72
121 8 0.06
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (120 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGCTCGACCATTAGCGACGCTTTTCAAAAAAT
GCTGCTACAGATCCAGCACTAAAGACGTTTTTCAAAAAGCGCGGCTATAGATCGA
Found at i:3552510 original size:40 final size:40
Alignment explanation
Indices: 3552432--3552648 Score: 222
Period size: 40 Copynumber: 5.4 Consensus size: 40
3552422 AGCTTTAGTG
*
3552432 GCATTAGCGGCACTTTCAGAAAAAACACCGCTATAGATCGA
1 GCATTAGCGGCACTTTTAG-AAAAACACCGCTATAGATCGA
* * * *
3552473 GCATTAGCGGCACTTTTAGAAAAATATCGTTACAGATCGA
1 GCATTAGCGGCACTTTTAGAAAAACACCGCTATAGATCGA
** * *
3552513 GCATTAGCGGTGCTTTTTGAAAAACATCGCTATAGATCGA
1 GCATTAGCGGCACTTTTAGAAAAACACCGCTATAGATCGA
* * *
3552553 GCATTAGTGGCACTTTTA-AAAAACGCCG-TGATAGCTCGA
1 GCATTAGCGGCACTTTTAGAAAAACACCGCT-ATAGATCGA
* * * * ** *
3552592 CCTTTAGCGACACTTTTTGAAAAATGCCGCTATAGATTGA
1 GCATTAGCGGCACTTTTAGAAAAACACCGCTATAGATCGA
*
3552632 GCATTAGCGGCGCTTTT
1 GCATTAGCGGCACTTTT
3552649 TAAAAATTGT
Statistics
Matches: 143, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.20
40 94 0.66
41 19 0.13
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (40 bp):
GCATTAGCGGCACTTTTAGAAAAACACCGCTATAGATCGA
Found at i:3552623 original size:79 final size:79
Alignment explanation
Indices: 3552433--3552654 Score: 237
Period size: 79 Copynumber: 2.8 Consensus size: 79
3552423 GCTTTAGTGG
* ** *
3552433 CATTAGCGGCACTTTCAGAAAAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTAGAAAAAT
1 CATTAGCGACACTTTTTG-AAAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTA-AAAAAC
* * *
3552498 ATCGTTACAGATCGAG
64 ACCGTGACAGATCGAC
*** * * *
3552514 CATTAGCGGTGCTTTTTGAAAAACATCGCTATAGATCGAGCATTAGTGGCACTTTTAAAAAACGC
1 CATTAGCGACACTTTTTGAAAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTAAAAAACAC
* *
3552579 CGTGATAGCTCGAC
66 CGTGACAGATCGAC
* ** * * *
3552593 CTTTAGCGACACTTTTTGAAAAATGCCGCTATAGATTGAGCATTAGCGGCGCTTTTTAAAAA
1 CATTAGCGACACTTTTTGAAAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTAAAAAA
3552655 TTGTTGAAAA
Statistics
Matches: 117, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
79 66 0.56
80 37 0.32
81 14 0.12
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (79 bp):
CATTAGCGACACTTTTTGAAAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTAAAAAACAC
CGTGACAGATCGAC
Found at i:3552647 original size:119 final size:119
Alignment explanation
Indices: 3552432--3552654 Score: 279
Period size: 119 Copynumber: 1.9 Consensus size: 119
3552422 AGCTTTAGTG
* *
3552432 GCATTAGCGGCACTTTCAGAAAAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTAGAAAAA
1 GCATTAGCGGCACTTT-AGAAAAAACACCGCTATAGATCGACCATTAGCGACACTTTTAGAAAAA
* * *
3552497 TATCGTTACAGATCGAGCATTAGCGGTGCTTTTTGAAAAACATCGCTATAGATCGA
65 TACCGCTACAGATCGAGCATTAGCGGCGCTTTTT-AAAAACATCGCTATAGATCGA
* * * * * *
3552553 GCATTAGTGGCACTTT-TAAAAAACGCCG-TGATAGCTCGACCTTTAGCGACACTTTTTGAAAAA
1 GCATTAGCGGCACTTTAGAAAAAACACCGCT-ATAGATCGACCATTAGCGACACTTTTAGAAAAA
* * *
3552616 TGCCGCTATAGATTGAGCATTAGCGGCGCTTTTTAAAAA
65 TACCGCTACAGATCGAGCATTAGCGGCGCTTTTTAAAAA
3552655 TTGTTGAAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
118 6 0.07
119 66 0.76
121 15 0.17
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (119 bp):
GCATTAGCGGCACTTTAGAAAAAACACCGCTATAGATCGACCATTAGCGACACTTTTAGAAAAAT
ACCGCTACAGATCGAGCATTAGCGGCGCTTTTTAAAAACATCGCTATAGATCGA
Found at i:3552737 original size:40 final size:40
Alignment explanation
Indices: 3552677--3552756 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
3552667 ATTAAGCACC
*
3552677 ACCACTATAGATCGAGCATTAGTGGCGCTTT-TAGAAAAAT
1 ACCACTATAGATCGAGCATTAGCGGCGCTTTCT-GAAAAAT
*
3552717 ACCATTATAGATCGAGCATTAGCGGCGCTTTCTGAAAAAT
1 ACCACTATAGATCGAGCATTAGCGGCGCTTTCTGAAAAAT
3552757 GTTACAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (40 bp):
ACCACTATAGATCGAGCATTAGCGGCGCTTTCTGAAAAAT
Found at i:3552933 original size:22 final size:21
Alignment explanation
Indices: 3552908--3552955 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
3552898 GAGTTATTAT
3552908 TTTA-AGATTTATGGATTATGGG
1 TTTATAGA-TTATGGATTAT-GG
*
3552930 TTTATGGATTATGGATTATGG
1 TTTATAGATTATGGATTATGG
3552951 TTTAT
1 TTTAT
3552956 GGTTTAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 15 0.62
23 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
TTTATAGATTATGGATTATGG
Found at i:3552958 original size:7 final size:7
Alignment explanation
Indices: 3552915--3553013 Score: 63
Period size: 7 Copynumber: 13.9 Consensus size: 7
3552905 TATTTTAAGA
3552915 TTTATGG
1 TTTATGG
*
3552922 ATTATGGG
1 TTTAT-GG
3552930 TTTATGG
1 TTTATGG
*
3552937 ATTATGG
1 TTTATGG
*
3552944 ATTATGG
1 TTTATGG
3552951 TTTATGG
1 TTTATGG
*
3552958 TTTAAGG
1 TTTATGG
* **
3552965 GTTGGGG
1 TTTATGG
*
3552972 TTTAAGG
1 TTTATGG
*
3552979 TTTAGGGG
1 TTTA-TGG
*
3552987 TTAATGG
1 TTTATGG
* *
3552994 TTAAGGG
1 TTTATGG
*
3553001 TTTATGT
1 TTTATGG
3553008 TTTATG
1 TTTATG
3553014 ATTTCGAGTT
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
7 61 0.85
8 11 0.15
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.46
Consensus pattern (7 bp):
TTTATGG
Found at i:3553681 original size:21 final size:20
Alignment explanation
Indices: 3553630--3553681 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
3553620 ACATGGAAAT
*
3553630 CATACATTTTACAATCATAA
1 CATACATTTTAAAATCATAA
* *
3553650 CATTCAATTTAAACAT-ATAAA
1 CATACATTTTAAA-ATCAT-AA
3553671 CATACATTTTA
1 CATACATTTTA
3553682 GTTACACGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (20 bp):
CATACATTTTAAAATCATAA
Found at i:3555242 original size:24 final size:24
Alignment explanation
Indices: 3555215--3555328 Score: 115
Period size: 24 Copynumber: 4.8 Consensus size: 24
3555205 GAAATGATTT
3555215 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
3555239 TGGCAC--TGTGTGCGAATATGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
3555261 TGGCACTATGTGTGTGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
3555285 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
3555309 TGTCAATATGTATGTGAATT
1 TGGCACTATGTGTGCGAATT
3555329 ACTAAGGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
22 20 0.27
24 55 0.73
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:3561621 original size:17 final size:17
Alignment explanation
Indices: 3561595--3561628 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3561585 TATATAATTG
*
3561595 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
3561612 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
3561629 TTAAGTGGGG
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:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:3562830 original size:24 final size:24
Alignment explanation
Indices: 3562803--3562938 Score: 150
Period size: 24 Copynumber: 5.7 Consensus size: 24
3562793 GAAATGATTT
3562803 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
3562827 TGGCACTATATGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
3562851 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
3562875 TGGCACTATGTGTGCGTATTGGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
3562899 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
3562924 -GGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
3562939 GGTTAACATG
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
24 91 0.98
25 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:3562928 original size:72 final size:72
Alignment explanation
Indices: 3562803--3562939 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
3562793 GAAATGATTT
* * * ** *
3562803 TGGCACTATGTGTGCGAATTTGAATGGCACTATATGTGCGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
3562868 ATTTGTA
66 ATTTGTA
* * * *
3562875 TGGCACTATGTGTGCGTATTGGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
3562940 GTTAACATGG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTGGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
ATTTGTA
Found at i:3562955 original size:72 final size:72
Alignment explanation
Indices: 3562803--3562956 Score: 173
Period size: 72 Copynumber: 2.1 Consensus size: 72
3562793 GAAATGATTT
* * * ** *
3562803 TGGCACTATGTGTGCGAATTTGAATGGCACTATATGTGCGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
***
3562868 ATTTGTA
66 ATTAACA
* * * *
3562875 TGGCACTATGTGTGCGTATTGGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
*
3562940 GTTAACA
66 ATTAACA
*
3562947 TGGTACTATG
1 TGGCACTATG
3562957 GATATGAATT
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTGGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
ATTAACA
Found at i:3564722 original size:31 final size:31
Alignment explanation
Indices: 3564674--3564759 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
3564664 TCAGTCTTAA
* *
3564674 CATAT-ACTTGGCTGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
3564704 CATATCACTGGGCCGAAGCTTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
3564735 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
3564760 TGTAACAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:3564998 original size:25 final size:25
Alignment explanation
Indices: 3564970--3565047 Score: 104
Period size: 26 Copynumber: 3.1 Consensus size: 25
3564960 GCCTAGTCTC
*
3564970 TTTTAATAACTGGGGCAAAAGCCCT
1 TTTTGATAACTGGGGCAAAAGCCCT
3564995 TTTTGATAAACTGGGGCAAAAGCCCT
1 TTTTGAT-AACTGGGGCAAAAGCCCT
* * *
3565021 TTTCGGTAACTGGGGC-ATAGCCCT
1 TTTTGATAACTGGGGCAAAAGCCCT
3565045 TTT
1 TTT
3565048 GCACTTCCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
24 10 0.21
25 15 0.31
26 23 0.48
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
TTTTGATAACTGGGGCAAAAGCCCT
Found at i:3565208 original size:25 final size:25
Alignment explanation
Indices: 3565180--3565227 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3565170 ATAATTAAAC
* **
3565180 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAAGGGTAAAACAGTCATTTTTA
3565205 CCTAAGGGTAAAACAGTCATTTT
1 CCTAAGGGTAAAACAGTCATTTT
3565228 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAAGGGTAAAACAGTCATTTTTA
Found at i:3567570 original size:41 final size:40
Alignment explanation
Indices: 3567498--3567643 Score: 177
Period size: 41 Copynumber: 3.5 Consensus size: 40
3567488 TCTCAAATTT
3567498 CACACTAAGTGCCATATATATAGCCGAAGCTATCTCAATCTTG
1 CACACTAAGTGCC--ATATATAGCCGAAGCTATCTCAATC-TG
* * * *
3567541 CATACTAAGTGCCATATATAGCTGAAGCTATCTCGATCTCA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCT-G
* *
3567582 CACACTAAGTGCCATATATAGCCGAAGCTATGTTGAATC-G
1 CACACTAAGTGCCATATATAGCCGAAGCTAT-CTCAATCTG
*
3567622 CACACTAAGTGCCACATATAGC
1 CACACTAAGTGCCATATATAGC
3567644 TGATTTATCA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
40 22 0.24
41 52 0.58
42 4 0.04
43 12 0.13
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTG
Found at i:3581267 original size:27 final size:27
Alignment explanation
Indices: 3581236--3581413 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
3581226 TAAATTGTAC
3581236 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
3581263 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3581289 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
3581317 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
3581345 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3581372 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
3581399 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3581414 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:3581350 original size:82 final size:81
Alignment explanation
Indices: 3581237--3581392 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
3581227 AAATTGTACA
* *
3581237 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
3581301 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
3581318 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
3581383 TGCGAGTTGA
65 TGCGAATTGA
3581393 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:3581404 original size:82 final size:81
Alignment explanation
Indices: 3581233--3581413 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
3581223 GATTAAATTG
* *
3581233 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
3581298 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
3581314 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
3581378 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
3581396 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
3581414 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:3589364 original size:27 final size:27
Alignment explanation
Indices: 3589333--3589510 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
3589323 TGAATTGTAC
3589333 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
3589360 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3589386 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
3589414 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
3589442 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3589469 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
3589496 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3589511 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:3589447 original size:82 final size:81
Alignment explanation
Indices: 3589334--3589489 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
3589324 GAATTGTACA
* *
3589334 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
3589398 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
3589415 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
3589480 TGCGAGTTGA
65 TGCGAATTGA
3589490 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:3589501 original size:82 final size:81
Alignment explanation
Indices: 3589330--3589510 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
3589320 GATTGAATTG
* *
3589330 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
3589395 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
3589411 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
3589475 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
3589493 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
3589511 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:3591119 original size:41 final size:40
Alignment explanation
Indices: 3591054--3591204 Score: 162
Period size: 41 Copynumber: 3.7 Consensus size: 40
3591044 GCATAATCTC
*
3591054 TCTCACACACTAAGTGCCATATATATAGTCGAAGCTATCTCGA
1 TCTCGCACACTAAGTGCC--ATATATAG-CGAAGCTATCTCGA
* * * *
3591097 TCTCGTACATTAGGTGCCATATATAGCTAAAGCTATCTCGA
1 TCTCGCACACTAAGTGCCATATATAGC-GAAGCTATCTCGA
* *
3591138 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATGTTGAA
1 TCTCGCACACTAAGTGCCATATATAG-CGAAGCTATCTCG-A
*
3591180 T-T-GCACACTAAGTGCCACATATAGC
1 TCTCGCACACTAAGTGCCATATATAGC
3591205 TGATTTATCA
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.01
40 22 0.24
41 53 0.57
42 3 0.03
43 14 0.15
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (40 bp):
TCTCGCACACTAAGTGCCATATATAGCGAAGCTATCTCGA
Found at i:3613782 original size:47 final size:47
Alignment explanation
Indices: 3613719--3613823 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
3613709 CCCTTCGGGA
* * *
3613719 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCAGC
3613766 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCAGC
3613813 CTTATCACATA
1 CTTATCACATA
3613824 ATTAATACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCAGC
Found at i:3622098 original size:17 final size:17
Alignment explanation
Indices: 3622076--3622121 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
3622066 ATTCGACCAA
*
3622076 GTGGGCCCCATAGGCGT
1 GTGGGCCCCACAGGCGT
3622093 GTGGGCCCCACAGGCGT
1 GTGGGCCCCACAGGCGT
3622110 GTGGGCCCCACA
1 GTGGGCCCCACA
3622122 CGGGTAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.13, C:0.35, G:0.39, T:0.13
Consensus pattern (17 bp):
GTGGGCCCCACAGGCGT
Found at i:3637977 original size:45 final size:45
Alignment explanation
Indices: 3637926--3638012 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
3637916 CTTGGTGGGC
*
3637926 GTCAAAGGTAACCCACTCACAAAGTTCATTGTTACTCTTTCCGGT
1 GTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTTCCGGT
3637971 GTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTTCC
1 GTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTTCC
3638013 CATTTCCATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (45 bp):
GTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTTCCGGT
Found at i:3640183 original size:13 final size:13
Alignment explanation
Indices: 3640167--3640192 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3640157 ACTTTATACA
3640167 AACAAATGGTTTT
1 AACAAATGGTTTT
3640180 AACAAATGGTTTT
1 AACAAATGGTTTT
3640193 TGGAAACATG
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:3663911 original size:16 final size:18
Alignment explanation
Indices: 3663874--3663914 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
3663864 TAACCCAAAT
3663874 TAAATTGAATTAAAATTA
1 TAAATTGAATTAAAATTA
*
3663892 -AAATT-AATT-ATATTA
1 TAAATTGAATTAAAATTA
3663907 TAAATTGA
1 TAAATTGA
3663915 TACACATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TAAATTGAATTAAAATTA
Found at i:3665297 original size:39 final size:39
Alignment explanation
Indices: 3665245--3665400 Score: 179
Period size: 39 Copynumber: 4.0 Consensus size: 39
3665235 AATAGTCAAC
* *
3665245 GCACAAAGCCTGCTAGGCACTTAGCCCAAATAATCACCA
1 GCACAAATCCTGCTAGGCACTTAGCCCAAATAATCACCG
* * **
3665284 GCACAGATCCTGCTAGACACTTAGCCTGAATAATCACCG
1 GCACAAATCCTGCTAGGCACTTAGCCCAAATAATCACCG
* * * * * **
3665323 GCAGAAAGCTTGCTATGCACTTAGTCTGAATAATCACCG
1 GCACAAATCCTGCTAGGCACTTAGCCCAAATAATCACCG
3665362 GCACAAAGT-CTGCTAGGCACTTAGCCCAAATAATCACCG
1 GCACAAA-TCCTGCTAGGCACTTAGCCCAAATAATCACCG
3665401 TATTTCTATT
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (39 bp):
GCACAAATCCTGCTAGGCACTTAGCCCAAATAATCACCG
Found at i:3665345 original size:78 final size:78
Alignment explanation
Indices: 3665249--3665400 Score: 198
Period size: 78 Copynumber: 1.9 Consensus size: 78
3665239 GTCAACGCAC
* **
3665249 AAAGCCTGCTAGGCACTTAGCCCAAATAATCACCAGCACAGA-TCCTGCTAGACACTTAGCCTGA
1 AAAGCCTGCTAGGCACTTAGCCCAAATAATCACCAGCACAAAGT-CTGCTAGACACTTAGCCCAA
3665313 ATAATCACCGGCAG
65 ATAATCACCGGCAG
* * * ** * *
3665327 AAAGCTTGCTATGCACTTAGTCTGAATAATCACCGGCACAAAGTCTGCTAGGCACTTAGCCCAAA
1 AAAGCCTGCTAGGCACTTAGCCCAAATAATCACCAGCACAAAGTCTGCTAGACACTTAGCCCAAA
3665392 TAATCACCG
66 TAATCACCG
3665401 TATTTCTATT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 62 0.98
79 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (78 bp):
AAAGCCTGCTAGGCACTTAGCCCAAATAATCACCAGCACAAAGTCTGCTAGACACTTAGCCCAAA
TAATCACCGGCAG
Found at i:3690078 original size:26 final size:26
Alignment explanation
Indices: 3690047--3690097 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
3690037 CGATTACAAG
*
3690047 TGGAATATAAGATTACAT-TGTTTGGT
1 TGGAATATAAAATT-CATGTGTTTGGT
*
3690073 TGGAATGTAAAATTCATGTGTTTGG
1 TGGAATATAAAATTCATGTGTTTGG
3690098 CTGACAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.41
Consensus pattern (26 bp):
TGGAATATAAAATTCATGTGTTTGGT
Found at i:3696246 original size:39 final size:40
Alignment explanation
Indices: 3696042--3696264 Score: 220
Period size: 40 Copynumber: 5.6 Consensus size: 40
3696032 TTGAATGCTG
* * * * * *
3696042 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * *
3696082 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
3696121 TTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGTTATTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
3696162 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
3696202 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
3696241 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
3696265 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 36 0.23
40 111 0.70
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:3696284 original size:79 final size:80
Alignment explanation
Indices: 3696122--3696301 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 80
3696112 AGATACAAAT
* * * *
3696122 TCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
3696187 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * *
3696202 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
3696266 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
3696281 TCC-GGTTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
3696302 CGTGATTTGG
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 16 0.19
79 46 0.55
80 22 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:3703694 original size:110 final size:110
Alignment explanation
Indices: 3703497--3703903 Score: 462
Period size: 110 Copynumber: 3.7 Consensus size: 110
3703487 TGAGTCGGTA
* * * * * * * *
3703497 ATACAAACCGTAGCACTGGCTTGAGATCCTGCATGTGTTGCGGATTCTTTGCAGCTTGTGTGAGT
1 ATACAAACCGTAGCAATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAGC
* *
3703562 AGCATCGTGAGCCCGTGATTATTTAGCAAGTACTATGTACTAGTG
66 AGCATCATGAGCCAGTGATTATTTAGCAAGTACTATGTACTAGTG
* * * * * *
3703607 ATATAAACCGTAGCAATGGCTTAAGATCTTGCATGTGTTGCAGAATCTCTACAGCTTGTGTGAGT
1 ATACAAACCGTAGCAATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAGC
*
3703672 AGCATCATGAGCCAGTGATTATTTAGCAAGTACTATATACTAGTG
66 AGCATCATGAGCCAGTGATTATTTAGCAAGTACTATGTACTAGTG
* * *
3703717 ATACAAACTGTAG-AGATAGCTTGAGATCCTACATGTGTTGCGGATTCTCTACAGCTTGTGTGAG
1 ATACAAACCGTAGCA-ATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAG
* * * * *
3703781 CAGCA-CTGTGAACCAATGATTATTTAG-TAGCTACTATGTA-TCGCTG
65 CAGCATC-ATGAGCCAGTGATTATTTAGCAAG-TACTATGTACTAG-TG
*** ** *
3703827 ATACAAACCGTAATGATAGCTTAAGATCCTACACATGTTGCAGATTCTCTGCAGCTTGTGTGAGC
1 ATACAAACCGTAGCAATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAGC
*
3703892 AACATCATGAGC
66 AGCATCATGAGC
3703904 AAGTTAGAAA
Statistics
Matches: 254, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
109 6 0.02
110 247 0.97
111 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (110 bp):
ATACAAACCGTAGCAATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAGC
AGCATCATGAGCCAGTGATTATTTAGCAAGTACTATGTACTAGTG
Found at i:3704932 original size:27 final size:27
Alignment explanation
Indices: 3704858--3704937 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
3704848 GTGTTACAGA
*
3704858 CATACTCTGTATATATAGCCTGTGTGG
1 CATACTCTGTATATATAGCCTTTGTGG
* *
3704885 CATACTCTGTATTTATGGCCTTTGTGG
1 CATACTCTGTATATATAGCCTTTGTGG
** *
3704912 CATACTCTGTATGGATCGCCTTTGTG
1 CATACTCTGTATATATAGCCTTTGTG
3704938 ATGTATTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (27 bp):
CATACTCTGTATATATAGCCTTTGTGG
Found at i:3708091 original size:123 final size:123
Alignment explanation
Indices: 3707871--3708118 Score: 424
Period size: 123 Copynumber: 2.0 Consensus size: 123
3707861 CGAAATCTCA
*
3707871 CTTGAATAAAACATGTAAAGAACACGATTGAATTGGAAGAGAAAAGAGATTAGAATAATCTTGAT
1 CTTGAATAAAACATGTAAAGAACACGATTGAATTGAAAGAGAAAAGAGATTAGAATAATCTTGAT
* * *
3707936 TTTGATGGCGAGTAGAGCCCAGACTTGGAACCTCTCAAACTCGGTCTAGACGTTATGG
66 TTTGATGGCGAGTAGAGCCCAGACTTGGAACCTCCCAAACCCAGTCTAGACGTTATGG
3707994 CTTGAATAAAACATGTAAAGAACACGATTGAATTGAAAGAGAAAAGAGATTAGAATAATCTTGAT
1 CTTGAATAAAACATGTAAAGAACACGATTGAATTGAAAGAGAAAAGAGATTAGAATAATCTTGAT
** * *
3708059 TTTGATGTTGAGTAGAGCCCAGAGTTGTAACCTCCCAAACCCAGTCTAGACGTTATGG
66 TTTGATGGCGAGTAGAGCCCAGACTTGGAACCTCCCAAACCCAGTCTAGACGTTATGG
3708117 CT
1 CT
3708119 AGATTGAGAA
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 117 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (123 bp):
CTTGAATAAAACATGTAAAGAACACGATTGAATTGAAAGAGAAAAGAGATTAGAATAATCTTGAT
TTTGATGGCGAGTAGAGCCCAGACTTGGAACCTCCCAAACCCAGTCTAGACGTTATGG
Found at i:3709589 original size:13 final size:13
Alignment explanation
Indices: 3709571--3709595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3709561 CTTGGATTTT
3709571 ATTTTTTTTTAGC
1 ATTTTTTTTTAGC
3709584 ATTTTTTTTTAG
1 ATTTTTTTTTAG
3709596 TTAGACATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (13 bp):
ATTTTTTTTTAGC
Found at i:3710591 original size:40 final size:40
Alignment explanation
Indices: 3710486--3710661 Score: 275
Period size: 40 Copynumber: 4.4 Consensus size: 40
3710476 TGGATGATAA
* *
3710486 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
3710526 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
3710565 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
3710605 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
3710645 CCGGGCTAAGTCCCGAA
1 CCGGGCTAAGTCCCGAA
3710662 TGTAACACCC
Statistics
Matches: 126, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 34 0.27
40 92 0.73
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:3710653 original size:80 final size:79
Alignment explanation
Indices: 3710482--3710661 Score: 281
Period size: 79 Copynumber: 2.3 Consensus size: 79
3710472 TATTTGGATG
* *
3710482 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATGCCGGGCTAAGCCCGAAGGCAT
3710547 TTGTGCGAGCTACT
66 TTGTGCGAGCTACT
* * *
3710561 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAGCTGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-GCCGGGCTAAG-CCCGAAGGC
*
3710625 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGCTACT
3710641 ATAACCGGGCTAAGTCCCGAA
1 ATAACCGGGCTAAGTCCCGAA
3710662 TGTAACACCC
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
78 2 0.02
79 46 0.50
80 44 0.48
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATGCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGCTACT
Found at i:3712099 original size:80 final size:78
Alignment explanation
Indices: 3711999--3712220 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 78
3711989 CTCGTTCAAG
* * * *
3711999 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAATGCCTTCGGGACTTAACCCGGATTTT
1 TGCCTTCGGGACTTAGCCCGG-TATAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA-ATT
* *
3712064 AGTAACTCGCACGAA
64 AATAACTCGCACAAA
* * * *
3712079 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGGAATT
3712144 AATAACTCGCACAAA
64 AATAACTCGCACAAA
* * * *
3712159 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAGCCCGG-TATAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCGGA
3712221 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
79 4 0.03
80 87 0.73
81 28 0.24
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAGCCCGGTATAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGAATTAA
TAACTCGCACAAA
Found at i:3712106 original size:40 final size:39
Alignment explanation
Indices: 3711999--3712220 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
3711989 CTCGTTCAAG
* * * **
3711999 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCACAA
*
3712038 TGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAGTAACTCGCAC-AA
*
3712079 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCAC-AA
* *
3712119 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCAC-AA
** * *
3712159 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCACAA
* *
3712199 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
3712221 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 24 0.15
40 99 0.63
41 34 0.22
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAA
Found at i:3719462 original size:40 final size:39
Alignment explanation
Indices: 3719425--3719642 Score: 215
Period size: 40 Copynumber: 5.5 Consensus size: 39
3719415 ATATCCGGAC
3719425 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
3719465 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
3719505 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * **
3719545 TATGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
3719585 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
3719624 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
3719643 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 33 0.21
40 123 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:3719660 original size:79 final size:80
Alignment explanation
Indices: 3719493--3719675 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 80
3719483 GTGCGAGATA
* * *
3719493 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTATGTCCCGAAGG
** **
3719558 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
3719573 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTATGTCCCGAAGG
*
3719637 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
3719652 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
3719676 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.53
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTATGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:3727411 original size:40 final size:39
Alignment explanation
Indices: 3727380--3727589 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
3727370 GGACTAAGAT
* *
3727380 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
3727420 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
3727460 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
3727500 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
3727540 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
3727579 CCGAAGGCATT
1 CCGAAGGCATT
3727590 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:3727543 original size:120 final size:120
Alignment explanation
Indices: 3727327--3727589 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
3727317 TTGAATGCTG
* *
3727327 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
3727391 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
3727447 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
3727510 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
3727566 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
3727590 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:3727609 original size:79 final size:80
Alignment explanation
Indices: 3727380--3727624 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
3727370 GGACTAAGAT
* * * * * * * ** *
3727380 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
3727443 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
3727460 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
3727525 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
3727540 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
3727604 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
3727618 CCGAAGG
1 CCGAAGG
3727625 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:3732817 original size:27 final size:27
Alignment explanation
Indices: 3732787--3732840 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3732777 TCATACAACC
* *
3732787 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
3732814 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
3732841 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:3736472 original size:27 final size:27
Alignment explanation
Indices: 3736442--3736497 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
3736432 TATTAAATAT
3736442 ATTTTAAATATTATTAATTAATTTCTA
1 ATTTTAAATATTATTAATTAATTTCTA
3736469 ATTTTAAATATTATTAATTAATTTCTA
1 ATTTTAAATATTATTAATTAATTTCTA
3736496 AT
1 AT
3736498 CATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTAAATATTATTAATTAATTTCTA
Found at i:3740549 original size:19 final size:19
Alignment explanation
Indices: 3740525--3740564 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3740515 GATGTTGAGA
3740525 GAAAGATGATAATTCTATT
1 GAAAGATGATAATTCTATT
3740544 GAAAGATGATAATTCTATT
1 GAAAGATGATAATTCTATT
3740563 GA
1 GA
3740565 TTTGTGTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.35
Consensus pattern (19 bp):
GAAAGATGATAATTCTATT
Found at i:3745045 original size:490 final size:491
Alignment explanation
Indices: 3744088--3745069 Score: 1795
Period size: 490 Copynumber: 2.0 Consensus size: 491
3744078 TTGCTGGATA
* * *
3744088 TGGGAATATGCTTTGCTCGAGAGAAGGAAAAAAGGGTTTTTTCCAAGAACTTGTATCTTGATCTA
1 TGGGAATATGCTTTGCTCAAGAGAAGGAAAAAAGGGGTTTTTCCAAGAACTTGAATCTTGATCTA
3744153 ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCAATCCTTTTCAACCAAAATTTGAA
66 ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCAATCCTTTTCAACCAAAATTTGAA
3744218 ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
131 ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
* * *
3744283 GAAATTGTCATCACCTTGCTTTGTGCTATGGACTTTATCCCAAAATTCGAAGATGTAAACTTCAT
196 GAAATTGTCATCACCTTGCTTTGTGCTATGGACCTTATCCCAAAATTCAAAGATCTAAACTTCAT
*
3744348 TCTCGTTCGTGAGTTGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCATATGCTCAGGAAAT
261 TCTCGTTCGTGAGTAGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCATATGCTCAGGAAAT
3744413 TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
326 TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
* *
3744478 AGGTGGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATTCTCTAGTC
391 AGGTAGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATCCTCTAGTC
*
3744543 AAAATGATCAATAAGAAAGAAAGTGACAATGCAAGG
456 AAAATGATCAATAAAAAAGAAAGTGACAATGCAAGG
* * *
3744579 TGGGAATATGCTTTGGTCAAGTGAAGG-AGAAAGGGGTTTTTCCAAGAACTTGAATCTTGATCTA
1 TGGGAATATGCTTTGCTCAAGAGAAGGAAAAAAGGGGTTTTTCCAAGAACTTGAATCTTGATCTA
**
3744643 ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCGTTCCTTTTCAACCAAAATTTGAA
66 ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCAATCCTTTTCAACCAAAATTTGAA
3744708 ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
131 ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
3744773 GAAATTGTCATCACCTTGCTTTGTGCTATGGACCTTATCCCAAAATTCAAAGATCTAAACTTCAT
196 GAAATTGTCATCACCTTGCTTTGTGCTATGGACCTTATCCCAAAATTCAAAGATCTAAACTTCAT
* *
3744838 TCTCGTTTGTGAGTAGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCGTATGCTCAGGAAAT
261 TCTCGTTCGTGAGTAGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCATATGCTCAGGAAAT
3744903 TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
326 TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
*
3744968 AGGTAGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATCCTTTAGTC
391 AGGTAGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATCCTCTAGTC
3745033 AAAATGATCAATAAAAAAGAAAGTGACAATGCAAGG
456 AAAATGATCAATAAAAAAGAAAGTGACAATGCAAGG
3745069 T
1 T
3745070 ATTTGTTCCC
Statistics
Matches: 473, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
490 449 0.95
491 24 0.05
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (491 bp):
TGGGAATATGCTTTGCTCAAGAGAAGGAAAAAAGGGGTTTTTCCAAGAACTTGAATCTTGATCTA
ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCAATCCTTTTCAACCAAAATTTGAA
ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
GAAATTGTCATCACCTTGCTTTGTGCTATGGACCTTATCCCAAAATTCAAAGATCTAAACTTCAT
TCTCGTTCGTGAGTAGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCATATGCTCAGGAAAT
TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
AGGTAGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATCCTCTAGTC
AAAATGATCAATAAAAAAGAAAGTGACAATGCAAGG
Found at i:3746867 original size:63 final size:63
Alignment explanation
Indices: 3746768--3746893 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
3746758 CTGTCTGCTG
* *
3746768 GCACTGACATTGAACTAGAAGAAAAAATGGATAATTTGTCTCTTGAAGAGCGTAGCAAAACTA
1 GCACTGACATTGAACTAGAAGAAAAAATGGATAATTTGTCTCCTGAAGAGCATAGCAAAACTA
* **
3746831 GCACTGATATTGAGGTAGAAGAAAAAATGGATAATTTGTCTCCTGAAGAGCATAGCAAAACTA
1 GCACTGACATTGAACTAGAAGAAAAAATGGATAATTTGTCTCCTGAAGAGCATAGCAAAACTA
3746894 TGGTAGAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.24
Consensus pattern (63 bp):
GCACTGACATTGAACTAGAAGAAAAAATGGATAATTTGTCTCCTGAAGAGCATAGCAAAACTA
Found at i:3747606 original size:25 final size:25
Alignment explanation
Indices: 3747578--3747629 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
3747568 GATACACCCT
*
3747578 TTTTATTTGGGTATATAGAAAGGAA
1 TTTTATTTGGGTATATAGAAAGAAA
3747603 TTTTATTTGGGTATATAGAAAGAAA
1 TTTTATTTGGGTATATAGAAAGAAA
3747628 TT
1 TT
3747630 CAATGGGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (25 bp):
TTTTATTTGGGTATATAGAAAGAAA
Found at i:3747636 original size:23 final size:25
Alignment explanation
Indices: 3747585--3747636 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
3747575 CCTTTTTATT
* * *
3747585 TGGGTATATAGAAAGGAATTTTATT
1 TGGGTATATAGAAAGGAAATTCATA
3747610 TGGGTATATAGAAA-GAAATTCA-A
1 TGGGTATATAGAAAGGAAATTCATA
3747633 TGGG
1 TGGG
3747637 GAATGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 6 0.25
25 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (25 bp):
TGGGTATATAGAAAGGAAATTCATA
Found at i:3748467 original size:8 final size:8
Alignment explanation
Indices: 3748450--3748488 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
3748440 CTAGAAAGGG
3748450 TTTTTA-T
1 TTTTTATT
3748457 TTTTTATT
1 TTTTTATT
*
3748465 TTTTATTTT
1 TTTT-TATT
3748474 TTTTTATT
1 TTTTTATT
3748482 TTTTTAT
1 TTTTTAT
3748489 GGTGGTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 6 0.21
8 15 0.54
9 7 0.25
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:3748485 original size:7 final size:7
Alignment explanation
Indices: 3748450--3748475 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3748440 CTAGAAAGGG
3748450 TTTTTAT
1 TTTTTAT
3748457 TTTTTAT
1 TTTTTAT
3748464 TTTTTAT
1 TTTTTAT
3748471 TTTTT
1 TTTTT
3748476 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:3748875 original size:17 final size:17
Alignment explanation
Indices: 3748853--3748889 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
3748843 TCAAATTAGT
3748853 TGGCTTGTGAATCAATA
1 TGGCTTGTGAATCAATA
3748870 TGGCTTGTGAATCAATA
1 TGGCTTGTGAATCAATA
3748887 TGG
1 TGG
3748890 ACCAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (17 bp):
TGGCTTGTGAATCAATA
Found at i:3750336 original size:46 final size:46
Alignment explanation
Indices: 3750232--3750359 Score: 125
Period size: 46 Copynumber: 2.7 Consensus size: 46
3750222 GTAGTAATAA
* * * * *
3750232 TCTGCAAATTTGGTGGTTTATCCACAACCTACATGTTTTGGCAGCTTG
1 TCTGCAAATTTGGTGG-CTGTCCACAA-CTATATGTATTAGCAGCTTG
* ** *
3750280 TTTGTGAATTTGGTGGCTGTCCACAACTATATGTATTAGTAGCTTG
1 TCTGCAAATTTGGTGGCTGTCCACAACTATATGTATTAGCAGCTTG
3750326 TCTGCAAATTTGGTGGCTTCGTCCAC-A-TATATGT
1 TCTGCAAATTTGGTGGC-T-GTCCACAACTATATGT
3750360 TGGTGTGTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 37 0.56
47 10 0.15
48 19 0.29
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (46 bp):
TCTGCAAATTTGGTGGCTGTCCACAACTATATGTATTAGCAGCTTG
Found at i:3753190 original size:22 final size:22
Alignment explanation
Indices: 3753162--3753211 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
3753152 AAACCGAAAT
* *
3753162 ACCACCCAACAACCATCATATC
1 ACCACCCAAAAACCAACATATC
*
3753184 ACCACCCAAAAACTAACATATC
1 ACCACCCAAAAACCAACATATC
3753206 ACCACC
1 ACCACC
3753212 ATTAAACCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (22 bp):
ACCACCCAAAAACCAACATATC
Found at i:3755306 original size:47 final size:47
Alignment explanation
Indices: 3755234--3755363 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 47
3755224 ACAATCGATA
*
3755234 AGTACCTATACCAT-AGCCCGTAGCCAAATCAAGGTAACTTATC-CTAG
1 AGTACCTATACCATGA-CCCGTAGCCAAATCAAGGTAACTCATCTCT-G
3755281 AGTACCTATACCATGACCCAG-AGCCAAATCAAGGTAACTCATCTCTG
1 AGTACCTATACCATGACCC-GTAGCCAAATCAAGGTAACTCATCTCTG
* * *
3755328 AATACCTATACAATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGACCCGTAGCCAAATCAAGGTA
3755364 TTATTCACAC
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
46 1 0.01
47 70 0.93
48 4 0.05
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (47 bp):
AGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:3763626 original size:19 final size:19
Alignment explanation
Indices: 3763602--3763642 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
3763592 AACATTAAAA
*
3763602 TCTATTAATAATTATTCAT
1 TCTATTAACAATTATTCAT
3763621 TCTATTAACAATTATTCAT
1 TCTATTAACAATTATTCAT
3763640 TCT
1 TCT
3763643 CCATCATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (19 bp):
TCTATTAACAATTATTCAT
Found at i:3772046 original size:40 final size:41
Alignment explanation
Indices: 3771985--3772136 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 41
3771975 CATTTGAATG
*** * *
3771985 ATATCCGGGCTAAGTTTCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
3772025 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
3772065 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
3772105 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
3772137 TTGTGGTTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
40 97 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:3772148 original size:80 final size:80
Alignment explanation
Indices: 3771985--3772156 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
3771975 CATTTGAATG
*** * * * *
3771985 ATATCCGGGCTAAGTTTCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
3772050 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
3772065 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
3772129 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
3772145 ATATCC-GGCTAA
1 ATATCCGGGCTAA
3772157 ATTCCGAAGA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 6 0.08
80 69 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:3773655 original size:27 final size:27
Alignment explanation
Indices: 3773625--3773732 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
3773615 TTTTAGACTT
* *
3773625 TGCCATAAAGGCTAGTCTTTTGTAATA
1 TGCCACAAAGGCTATTCTTTTGTAATA
* * *
3773652 TGCCACAAAGGGTATTCTTTT-AAACTT
1 TGCCACAAAGGCTATTCTTTTGTAA-TA
*
3773679 TTCCACAAAGGCTATTCTTTTGTAATA
1 TGCCACAAAGGCTATTCTTTTGTAATA
*** *
3773706 CATCACAAAGGCTATTCTTTTGCAATA
1 TGCCACAAAGGCTATTCTTTTGTAATA
3773733 CATCATAAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.94
28 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (27 bp):
TGCCACAAAGGCTATTCTTTTGTAATA
Found at i:3773698 original size:54 final size:54
Alignment explanation
Indices: 3773613--3773726 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
3773603 TACAACTCAA
* * ** *
3773613 TCTTTTAGACTTTGCCATAAAGGCTAGTCTTTTGTAATATGCCACAAAGGGTAT
1 TCTTTTAAACTTTGCCACAAAGGCTAGTCTTTTGTAATACACCACAAAGGCTAT
* * *
3773667 TCTTTTAAACTTTTCCACAAAGGCTATTCTTTTGTAATACATCACAAAGGCTAT
1 TCTTTTAAACTTTGCCACAAAGGCTAGTCTTTTGTAATACACCACAAAGGCTAT
3773721 TCTTTT
1 TCTTTT
3773727 GCAATACATC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (54 bp):
TCTTTTAAACTTTGCCACAAAGGCTAGTCTTTTGTAATACACCACAAAGGCTAT
Found at i:3773733 original size:27 final size:27
Alignment explanation
Indices: 3773682--3773753 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
3773672 TAAACTTTTC
*
3773682 CACAAAGGCTATTCTTTTGTAATACAT
1 CACAAAGGCTATTCTTTTGCAATACAT
3773709 CACAAAGGCTATTCTTTTGCAATACAT
1 CACAAAGGCTATTCTTTTGCAATACAT
* *
3773736 CATAAAGGCCATTCTTTT
1 CACAAAGGCTATTCTTTT
3773754 TTGACATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (27 bp):
CACAAAGGCTATTCTTTTGCAATACAT
Found at i:3773743 original size:54 final size:53
Alignment explanation
Indices: 3773613--3773753 Score: 133
Period size: 54 Copynumber: 2.6 Consensus size: 53
3773603 TACAACTCAA
* * * ** *
3773613 TCTTTTAGACTTTGCCATAAAGGCTAGTCTTTTGTAATATGCCACAAAGGGTAT
1 TCTTTTAAACTAT-CCATAAAGGCTATTCTTTTGTAATACACCACAAAGGCTAT
* * *
3773667 TCTTTTAAACTTTTCCACAAAGGCTATTCTTTTGTAATACATCACAAAGGCTAT
1 TCTTTTAAAC-TATCCATAAAGGCTATTCTTTTGTAATACACCACAAAGGCTAT
*
3773721 TCTTTTGCAATAC-AT-CATAAAGGCCATTCTTTT
1 TCTTTT--AA-ACTATCCATAAAGGCTATTCTTTT
3773754 TTGACATTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
54 65 0.89
55 4 0.05
56 2 0.03
57 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (53 bp):
TCTTTTAAACTATCCATAAAGGCTATTCTTTTGTAATACACCACAAAGGCTAT
Found at i:3777625 original size:39 final size:40
Alignment explanation
Indices: 3777551--3777725 Score: 275
Period size: 40 Copynumber: 4.4 Consensus size: 40
3777541 GATGACATCT
3777551 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
*
3777591 GGGCTAAGTCTCGAAGGCA-TTGTGCTAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
* *
3777630 GGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
*
3777670 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCC
*
3777710 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
3777726 TACTTGGGTT
Statistics
Matches: 125, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 52 0.42
40 71 0.57
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
Found at i:3777685 original size:79 final size:80
Alignment explanation
Indices: 3777551--3777725 Score: 275
Period size: 79 Copynumber: 2.2 Consensus size: 80
3777541 GATGACATCT
*
3777551 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA-TTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
*
3777615 CTAG-TGACTATATCC
66 CGAGTTG-CTATATCC
* *
3777630 GGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
3777695 CGAGTTGCTATATCC
66 CGAGTTGCTATATCC
*
3777710 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
3777726 TACTTGGGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
79 70 0.80
80 16 0.18
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTGCTATATCC
Found at i:3781019 original size:48 final size:48
Alignment explanation
Indices: 3780924--3781025 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
3780914 AGCTCAATAC
* * *
3780924 CAGTCAATATTTTTCAATATCAATCAATTTATCAAAATCATTCAGTAA
1 CAGTCAATATTTTTCAATAGCAATCAATTGATCAAAATCATTAAGTAA
* * *** *
3780972 CAGTCAATATTTTTCAGTAGCGATCAATTGATCTTTATTATTAAGTAA
1 CAGTCAATATTTTTCAATAGCAATCAATTGATCAAAATCATTAAGTAA
3781020 CAGTCA
1 CAGTCA
3781026 GCCATTAGAG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (48 bp):
CAGTCAATATTTTTCAATAGCAATCAATTGATCAAAATCATTAAGTAA
Found at i:3781502 original size:24 final size:23
Alignment explanation
Indices: 3781464--3781508 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3781454 CTTACATTTT
*
3781464 CAATAACATATATTCAAATTTCA
1 CAATAACACATATTCAAATTTCA
*
3781487 CAATAATCACATATTCATATTT
1 CAATAA-CACATATTCAAATTT
3781509 ATTTCATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (23 bp):
CAATAACACATATTCAAATTTCA
Found at i:3783498 original size:51 final size:51
Alignment explanation
Indices: 3783438--3783541 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
3783428 GAAGTTAAAC
*
3783438 TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTTGGAAAATTAGTTGCCT
1 TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTGGGAAAATTAGTTGCCT
3783489 TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTGGGAAAATTAGTTGCCT
1 TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTGGGAAAATTAGTTGCCT
3783540 TA
1 TA
3783542 TTGATTTCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (51 bp):
TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTGGGAAAATTAGTTGCCT
Found at i:3786018 original size:35 final size:35
Alignment explanation
Indices: 3785963--3786083 Score: 145
Period size: 35 Copynumber: 3.5 Consensus size: 35
3785953 CAAGGTTCAT
*
3785963 TATATCATCACATATGGCCAAATATACAAGTTAGA
1 TATAACATCACATATGGCCAAATATACAAGTTAGA
* * * * *
3785998 TAGAACATCACATGTAGCCAAATTTACAAATTCA-A
1 TATAACATCACATATGGCCAAATATACAAGTT-AGA
* * *
3786033 TATATCATCACATATGGTCGAATATACAAGTTAGA
1 TATAACATCACATATGGCCAAATATACAAGTTAGA
3786068 TATAACATCACATATG
1 TATAACATCACATATG
3786084 TACATACCTG
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.97
36 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (35 bp):
TATAACATCACATATGGCCAAATATACAAGTTAGA
Found at i:3787688 original size:27 final size:27
Alignment explanation
Indices: 3787604--3789013 Score: 1898
Period size: 27 Copynumber: 52.3 Consensus size: 27
3787594 TAGTTTACCA
* ** *
3787604 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3787631 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
3787658 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3787685 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
3787712 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3787739 AATTACC-ATATTACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
3787766 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3787793 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3787820 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3787847 AATTACCGCAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3787874 AATTACCGCAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3787901 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3787928 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
3787955 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
3787982 AATTATCGAAAGACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788009 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788036 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788063 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
3788090 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788117 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788144 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
3788171 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788198 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788225 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
3788252 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788279 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788306 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
3788333 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788360 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788387 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
3788414 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788441 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788468 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
3788495 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788522 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788549 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
3788576 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788603 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788630 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
3788657 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3788684 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788711 AATTACC-AGAATACCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
3788738 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
3788765 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
3788792 AATTATCGAAAGACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788819 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788846 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788873 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
3788900 AATTATCGCAATAACCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3788927 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
3788954 AATTACTAAAATACCCCTGTAGGGCAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
3788981 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
3789007 AATTACC
1 AATTACC
3789014 CTTTTGCCCC
Statistics
Matches: 1250, Mismatches: 106, Indels: 55
0.89 0.08 0.04
Matches are distributed among these distances:
26 23 0.02
27 1214 0.97
28 13 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:3787743 original size:81 final size:81
Alignment explanation
Indices: 3787658--3789011 Score: 2188
Period size: 81 Copynumber: 16.7 Consensus size: 81
3787648 TGGTTTGTAA
* * *
3787658 AATTACC-GAAATACCCCTGTAGGGTAGAATTACC-AGAATACCCTTGTAGGGTAGAATTACCGA
1 AATTACCAG-AATACCCTTGTAGGGTAGAATTACCGA-AATACCCTTGTAGGGTAGAATTATCGC
3787721 AATACCCCTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
* * * * *
3787739 AATTACCATATTACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3787804 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * * *
3787820 AATTATC-GCAATACCCCTGTAGGGTAGAATTACCGCAATACCCCTGTAAGGTAGAATTACCGCA
1 AATTACCAG-AATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCA
*
3787884 ATACCTCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * * *
3787901 AATTACC-GCAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCAG-
1 AATTACCAG-AATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATC-GC
3787964 AATACCCCTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
* * *
3787982 AATTATC-GAAAGACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCA
1 AATTACCAG-AATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCA
3788046 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
3788063 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3788128 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
3788144 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3788209 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
3788225 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3788290 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
3788306 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3788371 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
3788387 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3788452 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
3788468 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3788533 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
3788549 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3788614 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
3788630 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
3788695 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* *
3788711 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCAG-A
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATC-GCA
3788775 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * * *
3788792 AATTATC-GAAAGACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGAA
1 AATTACCAG-AATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCA
3788856 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * * * *
3788873 AATTACC-GAAATACCCATGTAGGGTAGAATTATCGCAATAACCTTGTAGGGTAGAATTATCGAA
1 AATTACCAG-AATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCA
3788937 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * * * * * * *
3788954 AATTACTAAAATACCCCTGTAGGGCAAAATTACCGAGATA-CCTTGTGGGGTAAAATTA
1 AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTA
3789012 CCCTTTTGCC
Statistics
Matches: 1216, Mismatches: 47, Indels: 21
0.95 0.04 0.02
Matches are distributed among these distances:
80 19 0.02
81 1193 0.98
82 4 0.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (81 bp):
AATTACCAGAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTATCGCAA
TACCCCTGTAGGGTAG
Found at i:3789492 original size:22 final size:22
Alignment explanation
Indices: 3789440--3789504 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
3789430 TTAAAGCCTT
* *
3789440 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
3789462 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
3789484 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
3789505 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:3789699 original size:26 final size:27
Alignment explanation
Indices: 3789663--3789736 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
3789653 ATTCTGTTAA
* *
3789663 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
3789689 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * *
3789716 GTGACTCTGTCACAATTTCTG
1 GTGGCTCTGCCACAATATCTG
3789737 ATAACTGAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:3790666 original size:31 final size:31
Alignment explanation
Indices: 3789873--3790654 Score: 1510
Period size: 31 Copynumber: 25.2 Consensus size: 31
3789863 TTGCATTCAC
*
3789873 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
3789905 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3789936 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3789967 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3789998 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790029 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790060 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790091 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790122 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790153 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790184 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790215 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790246 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790277 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790308 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790339 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790370 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790401 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790432 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790463 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790494 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790525 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790556 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790587 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
3790618 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
3790649 ATTCTG
1 ATTCTG
3790655 GTTCTAGTTC
Statistics
Matches: 745, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
31 738 0.99
32 7 0.01
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:3793411 original size:27 final size:27
Alignment explanation
Indices: 3792620--3793395 Score: 1473
Period size: 27 Copynumber: 28.7 Consensus size: 27
3792610 TTAGTTTACC
*
3792620 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792647 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792674 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792701 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792728 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792755 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792782 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792809 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792836 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792863 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792890 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792917 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792944 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792971 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3792998 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793025 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793052 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793079 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793106 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793133 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793160 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793187 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793214 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793241 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793268 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793295 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
3793322 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
3793349 AAATTATCGAAATACCCCT-GTAGGGTA
1 AAATTACCAAAATACCCCTGGT-TTGTA
* *
3793376 GAATTACCGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
3793396 TAGGGTAGAA
Statistics
Matches: 740, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
26 2 0.00
27 738 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:3793416 original size:27 final size:27
Alignment explanation
Indices: 3792621--3793841 Score: 698
Period size: 27 Copynumber: 45.3 Consensus size: 27
3792611 TAGTTTACCA
* ** *
3792621 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792648 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792675 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792702 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792729 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792756 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792783 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792810 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792837 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792864 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792891 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792918 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792945 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792972 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3792999 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793026 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793053 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793080 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793107 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793134 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793161 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793188 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793215 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793242 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793269 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793296 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
3793323 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
3793350 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
3793377 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3793404 AATTACCGCAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
3793431 AATTACCGGAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3793458 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
3793485 AATTATCGCAATAACCCTGTACGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
3793512 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
3793539 AATTATCGCAATACCCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3793566 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
3793593 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3793620 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
3793647 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
3793674 AATTACCGCAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3793701 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
3793728 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
3793755 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
3793782 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
3793809 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
3793835 AATTACC
1 AATTACC
3793842 ATTTTGCCCC
Statistics
Matches: 1127, Mismatches: 66, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
26 16 0.01
27 1111 0.99
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:3794320 original size:22 final size:22
Alignment explanation
Indices: 3794268--3794332 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
3794258 TTAAAGCCTT
* *
3794268 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
3794290 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
3794312 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
3794333 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:3794511 original size:25 final size:26
Alignment explanation
Indices: 3794483--3794561 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
3794473 TGCCACGTAT
* *
3794483 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
**
3794508 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATA
** * *
3794534 TCTGTATCTGGTGACTCTGTCACAATA
1 TCTGT-TCAAGTGGCTCTGCCACAATA
3794561 T
1 T
3794562 TTGATAACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.13
26 20 0.43
27 20 0.43
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:3794527 original size:26 final size:27
Alignment explanation
Indices: 3794491--3794561 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 27
3794481 ATTCTGTTAA
* *
3794491 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
3794517 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
3794544 GTGACTCTGTCACAATAT
1 GTGGCTCTGCCACAATAT
3794562 TTGATAACTG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 20 0.50
27 20 0.50
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:3794551 original size:27 final size:26
Alignment explanation
Indices: 3794498--3794561 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
3794488 TAAGTGGCTT
* *
3794498 TGCCACATTATCTGTTCTGGTGGCTC
1 TGCCACAATATCTGTTCTGGTGACTC
3794524 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
3794551 TGTCACAATAT
1 TGCCACAATAT
3794562 TTGATAACTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:3794739 original size:6 final size:6
Alignment explanation
Indices: 3794724--3794811 Score: 90
Period size: 6 Copynumber: 14.3 Consensus size: 6
3794714 ATTCTGTTAC
* * *
3794724 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
*
3794773 CTGATT CTG-TCAC CTGATT CTGATT CTGATT CTGATT CT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CT
3794812 AGTTCTAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
5 3 0.04
6 58 0.84
7 6 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:3794752 original size:31 final size:31
Alignment explanation
Indices: 3794714--3794811 Score: 169
Period size: 31 Copynumber: 3.2 Consensus size: 31
3794704 CTGATTTTTT
*
3794714 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
3794745 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* *
3794776 ATTCTGTCACCTGATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
3794807 ATTCT
1 ATTCT
3794812 AGTTCTAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:3799434 original size:50 final size:50
Alignment explanation
Indices: 3799376--3799477 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
3799366 TAACACCACG
* * * *
3799376 TAAATACTTACCTATATAACTGAATATACAAGGTCCAATATATCATCTCA
1 TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
* ** * *
3799426 TAAATACTTACATGTATGGCCGAATACACAAGGTTCATTATATCATCACA
1 TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
3799476 TA
1 TA
3799478 TGGCCGAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (50 bp):
TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
Found at i:3799508 original size:35 final size:34
Alignment explanation
Indices: 3799440--3799583 Score: 144
Period size: 35 Copynumber: 4.1 Consensus size: 34
3799430 TACTTACATG
* * *
3799440 TATGGCCGAATACACAAGGTTCATTATATCATCACA
1 TATGGCCGAATATACAA-GTT-AATATAACATCACA
* *
3799476 TATGGCCGAATATACAGGTTAGATAGAACATCACA
1 TATGGCCGAATATACAAGTTA-ATATAACATCACA
* * * * *
3799511 TGTAGCCGAATTTACAAATTCAATATATCATCACA
1 TATGGCCGAATATACAAGTT-AATATAACATCACA
*
3799546 TATGGCCAAATATACAAGTTATATATAACATCACA
1 TATGGCCGAATATACAAGTTA-ATATAACATCACA
3799581 TAT
1 TAT
3799584 ATACATACCT
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
34 2 0.02
35 69 0.79
36 16 0.18
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (34 bp):
TATGGCCGAATATACAAGTTAATATAACATCACA
Found at i:3813209 original size:40 final size:40
Alignment explanation
Indices: 3813162--3813243 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
3813152 AGCTACAATC
*
3813162 TAGTCGATTCTAGGACTAAGGAAGTGAATGTGAATCTAGT
1 TAGTCGATTCTAGGACTAAGGAAGCGAATGTGAATCTAGT
3813202 TAGTCGATTCTAGGACTAAGGAAGCGAATGTGAATCTAGT
1 TAGTCGATTCTAGGACTAAGGAAGCGAATGTGAATCTAGT
3813242 TA
1 TA
3813244 TACATGCCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (40 bp):
TAGTCGATTCTAGGACTAAGGAAGCGAATGTGAATCTAGT
Found at i:3816949 original size:19 final size:20
Alignment explanation
Indices: 3816925--3817000 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 20
3816915 TTTAACAAAG
3816925 ACATTAA-AACAAATTAAAC
1 ACATTAACAACAAATTAAAC
* *
3816944 ACATTAATC-ACACATTAAAAA
1 ACATTAA-CAACAAATT-AAAC
*
3816965 ACATT-A-AACACATTAAAC
1 ACATTAACAACAAATTAAAC
*
3816983 ACATGTAACAATAAATTA
1 ACAT-TAACAACAAATTA
3817001 TTCCAGCAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
18 7 0.16
19 15 0.33
20 8 0.18
21 15 0.33
ACGTcount: A:0.58, C:0.17, G:0.01, T:0.24
Consensus pattern (20 bp):
ACATTAACAACAAATTAAAC
Found at i:3816959 original size:30 final size:30
Alignment explanation
Indices: 3816925--3816985 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
3816915 TTTAACAAAG
*
3816925 ACATTAAAACAA-ATTAAACACATTAATCAC
1 ACATTAAAA-AACATTAAACACATTAAACAC
3816955 ACATTAAAAAACATTAAACACATTAAACAC
1 ACATTAAAAAACATTAAACACATTAAACAC
3816985 A
1 A
3816986 TGTAACAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.59, C:0.20, G:0.00, T:0.21
Consensus pattern (30 bp):
ACATTAAAAAACATTAAACACATTAAACAC
Found at i:3816970 original size:21 final size:19
Alignment explanation
Indices: 3816925--3816981 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
3816915 TTTAACAAAG
* *
3816925 ACATTAAAACAAATT-AAAC
1 ACATT-AAACACATTAAAAA
3816944 ACATTAATCACACATTAAAAA
1 ACATTAA--ACACATTAAAAA
3816965 ACATTAAACACATTAAA
1 ACATTAAACACATTAAA
3816982 CACATGTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.06
19 15 0.45
20 6 0.18
21 10 0.30
ACGTcount: A:0.60, C:0.18, G:0.00, T:0.23
Consensus pattern (19 bp):
ACATTAAACACATTAAAAA
Found at i:3816992 original size:9 final size:9
Alignment explanation
Indices: 3816925--3816986 Score: 70
Period size: 9 Copynumber: 6.4 Consensus size: 9
3816915 TTTAACAAAG
3816925 ACATTAAAAC
1 ACATT-AAAC
*
3816935 AAATTAAAC
1 ACATTAAAC
3816944 ACATTAATCAC
1 ACATTAA--AC
*
3816955 ACATTAAAAA
1 ACATT-AAAC
3816965 ACATTAAAC
1 ACATTAAAC
3816974 ACATTAAAC
1 ACATTAAAC
3816983 ACAT
1 ACAT
3816987 GTAACAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
9 26 0.58
10 10 0.22
11 7 0.16
12 2 0.04
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (9 bp):
ACATTAAAC
Found at i:3817036 original size:34 final size:34
Alignment explanation
Indices: 3816998--3817120 Score: 228
Period size: 34 Copynumber: 3.6 Consensus size: 34
3816988 TAACAATAAA
* *
3816998 TTATTCCAGCAACTAAATTAACTAAGATAAGCAT
1 TTATTCTAGCAACTCAATTAACTAAGATAAGCAT
3817032 TTATTCTAGCAACTCAATTAACTAAGATAAGCAT
1 TTATTCTAGCAACTCAATTAACTAAGATAAGCAT
3817066 TTATTCTAGCAACTCAATTAACTAAGATAAGCAT
1 TTATTCTAGCAACTCAATTAACTAAGATAAGCAT
3817100 TTATTCTAGCAACTCAATTAA
1 TTATTCTAGCAACTCAATTAA
3817121 TAACTAAGAT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 87 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (34 bp):
TTATTCTAGCAACTCAATTAACTAAGATAAGCAT
Found at i:3820243 original size:27 final size:27
Alignment explanation
Indices: 3820212--3820389 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
3820202 TAAATTGTAC
3820212 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
3820239 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3820265 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
3820293 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
3820321 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3820348 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
3820375 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3820390 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:3820326 original size:82 final size:81
Alignment explanation
Indices: 3820213--3820368 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
3820203 AAATTGTACA
* *
3820213 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
3820277 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
3820294 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
3820359 TGCGAGTTGA
65 TGCGAATTGA
3820369 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:3820380 original size:82 final size:81
Alignment explanation
Indices: 3820209--3820389 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
3820199 GATTAAATTG
* *
3820209 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
3820274 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
3820290 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
3820354 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
3820372 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
3820390 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:3828306 original size:27 final size:27
Alignment explanation
Indices: 3828275--3828452 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
3828265 TAAATTGTAC
3828275 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
3828302 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3828328 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
3828356 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
3828384 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3828411 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
3828438 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3828453 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:3828389 original size:82 final size:81
Alignment explanation
Indices: 3828276--3828431 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
3828266 AAATTGTACA
* *
3828276 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
3828340 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
3828357 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
3828422 TGCGAGTTGA
65 TGCGAATTGA
3828432 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:3828443 original size:82 final size:81
Alignment explanation
Indices: 3828272--3828452 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
3828262 GATTAAATTG
* *
3828272 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
3828337 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
3828353 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
3828417 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
3828435 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
3828453 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:3830523 original size:19 final size:18
Alignment explanation
Indices: 3830501--3830550 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
3830491 TTTTTTTCTA
3830501 TCTCAATTTTTTTCCTCTT
1 TCTCAATTTTTTTCC-CTT
*
3830520 TCTC-ATTCTCTTTTTCCTT
1 TCTCAATT-T-TTTTCCCTT
3830539 T-TCAATTTTTTT
1 TCTCAATTTTTTT
3830551 TCTTTCATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 12 0.44
20 5 0.19
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (18 bp):
TCTCAATTTTTTTCCCTT
Found at i:3830534 original size:37 final size:33
Alignment explanation
Indices: 3830493--3830574 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 33
3830483 ACTCACACTT
3830493 TTTTTCTATCTCAATTTTTTTCCTCTTTC-TCATTCTC
1 TTTTTCT-TCTCAATTTTTTT--TCTTTCATC--TCTC
*
3830530 TTTTTCCTTTTCAATTTTTTTTCTTTCATCTCTC
1 TTTTT-CTTCTCAATTTTTTTTCTTTCATCTCTC
3830564 TTTTTCTTCTC
1 TTTTTCTTCTC
3830575 TTGATTTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
33 5 0.12
34 9 0.22
35 6 0.15
36 2 0.05
37 17 0.41
38 2 0.05
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (33 bp):
TTTTTCTTCTCAATTTTTTTTCTTTCATCTCTC
Found at i:3836040 original size:27 final size:27
Alignment explanation
Indices: 3835850--3836049 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
3835840 AGGATAAGTT
* *
3835850 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
3835877 GTAGAATTACTAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
3835904 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
3835931 ATAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
3835958 ATAGAATTACCGAAATACACTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
3835985 GTAGAAATACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
3836012 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
3836039 GTAAAATTACC
1 GTAGAATTACC
3836050 ATTTTGCCCT
Statistics
Matches: 145, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:3836047 original size:81 final size:81
Alignment explanation
Indices: 3835850--3836050 Score: 258
Period size: 81 Copynumber: 2.5 Consensus size: 81
3835840 AGGATAAGTT
* * * * * *
3835850 GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCTTATAGGGTAGAATTACCAAAATACACCTGTAGGGTAGAAATACT
*
3835915 GAAATACCCCTGTAGG
66 GAAATACCCCTATAGG
* * * * *
3835931 ATAGAATTACCGAAATACCCTTATAGGATAGAATTACCGAAATACACTTGTGGGGTAGAAATACT
1 GTAGAATTACCGAAATACCCTTATAGGGTAGAATTACCAAAATACACCTGTAGGGTAGAAATACT
3835996 GAAATACCCCTATAGG
66 GAAATACCCCTATAGG
* * * *
3836012 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 GTAGAATTACCGAAATACCCTTATAGGGTAGAATTACCA
3836051 TTTTGCCCTT
Statistics
Matches: 101, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 101 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCTTATAGGGTAGAATTACCAAAATACACCTGTAGGGTAGAAATACT
GAAATACCCCTATAGG
Found at i:3836059 original size:27 final size:27
Alignment explanation
Indices: 3836036--3836087 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
3836026 ATACCCTTGT
*
3836036 GGGGTAAAATTACCATTTTGCCCTTAG
1 GGGGTAAAATGACCATTTTGCCCTTAG
* * *
3836063 GGTGTTAAATGACTATTTTGCCCTT
1 GGGGTAAAATGACCATTTTGCCCTT
3836088 CGTGCGTACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGGTAAAATGACCATTTTGCCCTTAG
Found at i:3843500 original size:27 final size:27
Alignment explanation
Indices: 3843466--3843665 Score: 215
Period size: 27 Copynumber: 7.4 Consensus size: 27
3843456 TGGATAAGTT
*
3843466 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
3843493 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
**
3843520 GTAGAATTATTGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
3843546 GATAGAATTACCGAAATACCCTTGT-AG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* *
3843573 GATAGAATTACCGAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * ** *
3843601 GTAGAAATACTGAAATACTGCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * **
3843628 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
3843655 GTAAAATTACC
1 GTAGAATTACC
3843666 ATTTTGCCCC
Statistics
Matches: 149, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.01
27 145 0.97
28 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:3843542 original size:54 final size:54
Alignment explanation
Indices: 3843466--3843665 Score: 240
Period size: 54 Copynumber: 3.7 Consensus size: 54
3843456 TGGATAAGTT
3843466 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
* *
3843520 GTAGAATTATTGAAATACCCCTGT-AGGATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCCTGTAGG
* * * * * * **
3843574 ATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACTGCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
* * * ** *
3843628 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACC
3843666 ATTTTGCCCC
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 3 0.02
54 121 0.96
55 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (54 bp):
GTAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:3843602 original size:81 final size:80
Alignment explanation
Indices: 3843467--3843665 Score: 272
Period size: 81 Copynumber: 2.5 Consensus size: 80
3843457 GGATAAGTTG
* * * *
3843467 TAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 TAGAATTACCGAAATACCCTTGT-AGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACTG
3843532 AAATACCCCTGTAGGA
65 AAATACCCCTGTAGGA
*
3843548 TAGAATTACCGAAATACCCTTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTG
1 TAGAATTACCGAAATACCCTTGTAGG-TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACTG
** *
3843613 AAATACTGCTGTAGGG
65 AAATACCCCTGTAGGA
* * *
3843629 TAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 TAGAATTACCGAAATACCCTTGT-AGGTAGAATTACC
3843666 ATTTTGCCCC
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 3 0.03
81 100 0.95
82 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (80 bp):
TAGAATTACCGAAATACCCTTGTAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACTGA
AATACCCCTGTAGGA
Found at i:3844361 original size:27 final size:26
Alignment explanation
Indices: 3844317--3844367 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
3844307 CTCACTGCAA
*
3844317 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
3844344 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
3844368 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:3845682 original size:19 final size:19
Alignment explanation
Indices: 3845658--3845732 Score: 100
Period size: 19 Copynumber: 3.9 Consensus size: 19
3845648 TTCATTTAAC
3845658 AAACACATTAAAACACATT
1 AAACACATTAAAACACATT
*
3845677 AAACACATTAATCACACATT
1 AAACACATTAA-AACACATT
*
3845697 AAACTCATTAAAA-ATCATT
1 AAACACATTAAAACA-CATT
3845716 AAACACATT-AAACACAT
1 AAACACATTAAAACACAT
3845733 GTGGCAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
18 7 0.14
19 25 0.51
20 17 0.35
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (19 bp):
AAACACATTAAAACACATT
Found at i:3845695 original size:11 final size:9
Alignment explanation
Indices: 3845658--3845732 Score: 96
Period size: 9 Copynumber: 7.9 Consensus size: 9
3845648 TTCATTTAAC
3845658 AAACACATT
1 AAACACATT
3845667 AAAACACATT
1 -AAACACATT
3845677 AAACACATT
1 AAACACATT
3845686 AATCACACATT
1 AA--ACACATT
*
3845697 AAACTCATT
1 AAACACATT
*
3845706 AAAAATCATT
1 AAACA-CATT
3845716 AAACACATT
1 AAACACATT
3845725 AAACACAT
1 AAACACAT
3845733 GTGGCAATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
9 32 0.55
10 17 0.29
11 9 0.16
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (9 bp):
AAACACATT
Found at i:3845782 original size:34 final size:34
Alignment explanation
Indices: 3845744--3845840 Score: 153
Period size: 34 Copynumber: 2.9 Consensus size: 34
3845734 TGGCAATAAA
* * *
3845744 TTATTCCAGCAACTAAATTAACTAAGATAAGCAT
1 TTATTCTAGCAACTCAATTAACTAACATAAGCAT
3845778 TTATTCTAGCAACTCAATTAACTAACATAAGCAT
1 TTATTCTAGCAACTCAATTAACTAACATAAGCAT
3845812 TTATTCTAGCAACTCAATTAA-TAAC-TAAG
1 TTATTCTAGCAACTCAATTAACTAACATAAG
3845841 ATGAGTTCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 4 0.07
33 4 0.07
34 52 0.87
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (34 bp):
TTATTCTAGCAACTCAATTAACTAACATAAGCAT
Found at i:3859720 original size:40 final size:40
Alignment explanation
Indices: 3859675--3859826 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
3859665 ATAACCACAA
* * *
3859675 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
3859715 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
3859755 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
3859795 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
3859827 CATTCAATGC
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:3873079 original size:11 final size:11
Alignment explanation
Indices: 3873065--3873121 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
3873055 TGTTTATCTT
3873065 ATTTATTTTTA
1 ATTTATTTTTA
*
3873076 ATTTTCCTTTTTA
1 A-TTT-ATTTTTA
*
3873089 ATTTTAATTTT-
1 A-TTTATTTTTA
*
3873100 ATTTATTTTTT
1 ATTTATTTTTA
3873111 ATTTATTTTTA
1 ATTTATTTTTA
3873122 TCAATCATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 8 0.21
11 12 0.32
12 7 0.18
13 11 0.29
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTATTTTTA
Found at i:3877152 original size:5 final size:5
Alignment explanation
Indices: 3877137--3877179 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
3877127 TCTGAGTCCA
*
3877137 TTTATT TTTAT TTTAT TTTAT TTTAT TTTTT TTTA- TTTAT TTT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
3877180 TCTTAAGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
4 4 0.12
5 26 0.76
6 4 0.12
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:3887165 original size:3 final size:3
Alignment explanation
Indices: 3887157--3887214 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
3887147 GGCCCAAATG
* * * * * *
3887157 ATT ATT ATT ATT ATT ATT ATC ATT ACT ACT ACT ACT ATT ATT AAAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
3887203 ATT ATT ATT ATT
1 ATT ATT ATT ATT
3887215 CTTACAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:3887573 original size:15 final size:15
Alignment explanation
Indices: 3887553--3887583 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3887543 AAAAGTTATT
3887553 ATTTTTATTTTTAAA
1 ATTTTTATTTTTAAA
3887568 ATTTTTATTTTTAAA
1 ATTTTTATTTTTAAA
3887583 A
1 A
3887584 AGAGAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTTTATTTTTAAA
Found at i:3890216 original size:16 final size:16
Alignment explanation
Indices: 3890195--3890245 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
3890185 AAAAGCATGT
*
3890195 GAAAAAGAATTTGAAA
1 GAAAAAGAATATGAAA
3890211 GAAAAAAAGAA-ATGAAA
1 G--AAAAAGAATATGAAA
* *
3890228 GAAAAAGAGTGTGAAA
1 GAAAAAGAATATGAAA
3890244 GA
1 GA
3890246 GAGCAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.24
16 8 0.28
17 6 0.21
18 8 0.28
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.12
Consensus pattern (16 bp):
GAAAAAGAATATGAAA
Found at i:3890226 original size:17 final size:18
Alignment explanation
Indices: 3890196--3890233 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
3890186 AAAGCATGTG
*
3890196 AAAAAGAATTTGAAAGAA
1 AAAAAGAATATGAAAGAA
3890214 AAAAAGAA-ATGAAAGAA
1 AAAAAGAATATGAAAGAA
3890231 AAA
1 AAA
3890234 GAGTGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAGAATATGAAAGAA
Found at i:3890243 original size:21 final size:20
Alignment explanation
Indices: 3890219--3890276 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
3890209 AAGAAAAAAA
**
3890219 GAAATGAAAGAAAAAGAGTGT
1 GAAA-GAAAGAAAAAGAGAAT
*
3890240 GAAAGAGAGCAAAAAGAGAAT
1 GAAAGAAAG-AAAAAGAGAAT
*
3890261 GAGAGAAAGAAAAAGA
1 GAAAGAAAGAAAAAGA
3890277 ATTTGATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.62, C:0.02, G:0.29, T:0.07
Consensus pattern (20 bp):
GAAAGAAAGAAAAAGAGAAT
Done.