Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 38 of 240
Found at i:13497654 original size:25 final size:25
Alignment explanation
Indices: 13497633--13497687 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
13497623 AGTTGTATTT
*
13497633 TATGTAAGTTATTTATTATGTAAGC
1 TATGTAAGTTATGTATTATGTAAGC
13497658 TATGTAAGTTATGTATTATGTAAGC
1 TATGTAAGTTATGTATTATGTAAGC
13497683 TATGT
1 TATGT
13497688 CATAGACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTATTATGTAAGC
Found at i:13497679 original size:16 final size:17
Alignment explanation
Indices: 13497523--13497687 Score: 98
Period size: 16 Copynumber: 10.0 Consensus size: 17
13497513 TCAGCTCCGA
13497523 AATTATGTAAGTTATGT
1 AATTATGTAAGTTATGT
*
13497540 -ATTATATAAGTTATGT
1 AATTATGTAAGTTATGT
*
13497556 AAGTTACGT-A-TTATGT
1 AA-TTATGTAAGTTATGT
*
13497572 AAGCTATGTAAG-T-TGT
1 AA-TTATGTAAGTTATGT
*
13497588 ATTTTATGTAAGTTAT-T
1 A-ATTATGTAAGTTATGT
* * *
13497605 TATTATGTAAGCTACGT
1 AATTATGTAAGTTATGT
* **
13497622 AAGT-TGTATTTTATGT
1 AATTATGTAAGTTATGT
*
13497638 AAGTTAT-TTA-TTATGT
1 AA-TTATGTAAGTTATGT
*
13497654 AAGCTATGTAAGTTATGT
1 AA-TTATGTAAGTTATGT
*
13497672 -ATTATGTAAGCTATGT
1 AATTATGTAAGTTATGT
13497688 CATAGACTTT
Statistics
Matches: 112, Mismatches: 24, Indels: 25
0.70 0.15 0.16
Matches are distributed among these distances:
16 86 0.77
17 14 0.12
18 12 0.11
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.47
Consensus pattern (17 bp):
AATTATGTAAGTTATGT
Found at i:13497730 original size:18 final size:16
Alignment explanation
Indices: 13497697--13497741 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
13497687 TCATAGACTT
13497697 TTTTATGTAAGTTGTA
1 TTTTATGTAAGTTGTA
*
13497713 TTTTATGTAAGTTGTG
1 TTTTATGTAAGTTGTA
* *
13497729 TATTATGTGAGTT
1 TTTTATGTAAGTT
13497742 ATTTAAGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (16 bp):
TTTTATGTAAGTTGTA
Found at i:13497977 original size:30 final size:30
Alignment explanation
Indices: 13497936--13497997 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
13497926 ACATAAATTA
*
13497936 TGAAATCTGATCGTAAGATTTTGCAAGTTT
1 TGAAATCTGATCGTAAGATTATGCAAGTTT
* * * *
13497966 TGAAATTTGATCTTAATATTATGTAAGTTT
1 TGAAATCTGATCGTAAGATTATGCAAGTTT
13497996 TG
1 TG
13497998 TATTAAGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (30 bp):
TGAAATCTGATCGTAAGATTATGCAAGTTT
Found at i:13499878 original size:19 final size:19
Alignment explanation
Indices: 13499835--13499879 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13499825 CTGGACTACG
13499835 TTGGGGAACTGTTAGGGAT
1 TTGGGGAACTGTTAGGGAT
* *
13499854 TAGGGGAA-TTTTAGGGATT
1 TTGGGGAACTGTTAGGGA-T
13499873 TTGGGGA
1 TTGGGGA
13499880 GATGAGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (19 bp):
TTGGGGAACTGTTAGGGAT
Found at i:13500644 original size:26 final size:26
Alignment explanation
Indices: 13500605--13500655 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
13500595 CGGAGTCGTT
13500605 TTCATGAATACAATTTAACACTAAAG
1 TTCATGAATACAATTTAACACTAAAG
* *
13500631 TTCATGAATTCAATTTAACATTAAA
1 TTCATGAATACAATTTAACACTAAA
13500656 CCATCCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (26 bp):
TTCATGAATACAATTTAACACTAAAG
Found at i:13500922 original size:7 final size:7
Alignment explanation
Indices: 13500892--13500999 Score: 58
Period size: 7 Copynumber: 15.6 Consensus size: 7
13500882 AATTATCCTT
*
13500892 AAACCCT
1 AAACCCC
13500899 AAACCCC
1 AAACCCC
* *
13500906 AAATCTC
1 AAACCCC
13500913 AAACCCC
1 AAACCCC
*
13500920 AAA-CAC
1 AAACCCC
*
13500926 TAACCCC
1 AAACCCC
* *
13500933 AAACTCA
1 AAACCCC
*
13500940 AAAACCC
1 AAACCCC
* *
13500947 AAATCAC
1 AAACCCC
*
13500954 AAACCCT
1 AAACCCC
*
13500961 AAACCAC
1 AAACCCC
13500968 AAACCCC
1 AAACCCC
*
13500975 TAACCCC
1 AAACCCC
* *
13500982 GAAA-ACT
1 -AAACCCC
13500989 AAACCCC
1 AAACCCC
13500996 AAAC
1 AAAC
13501000 TCAAAAACCA
Statistics
Matches: 70, Mismatches: 28, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
6 7 0.10
7 61 0.87
8 2 0.03
ACGTcount: A:0.48, C:0.43, G:0.01, T:0.08
Consensus pattern (7 bp):
AAACCCC
Found at i:13500934 original size:27 final size:27
Alignment explanation
Indices: 13500899--13500974 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
13500889 CTTAAACCCT
13500899 AAACCCCAAATCTCAAACCCCAAA-CAC
1 AAACCCCAAA-CTCAAACCCCAAATCAC
* *
13500926 TAACCCCAAACTCAAAAACCCAAATCAC
1 AAACCCCAAACTC-AAACCCCAAATCAC
* *
13500954 AAACCCTAAACCACAAACCCC
1 AAACCCCAAA-CTCAAACCCC
13500975 TAACCCCGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.08
27 18 0.45
28 17 0.43
29 2 0.05
ACGTcount: A:0.49, C:0.43, G:0.00, T:0.08
Consensus pattern (27 bp):
AAACCCCAAACTCAAACCCCAAATCAC
Found at i:13500979 original size:14 final size:14
Alignment explanation
Indices: 13500899--13500979 Score: 76
Period size: 14 Copynumber: 5.9 Consensus size: 14
13500889 CTTAAACCCT
* *
13500899 AAACCCCAAATCTC
1 AAACCCCAAACCAC
13500913 AAACCCCAAA-CAC
1 AAACCCCAAACCAC
*
13500926 TAACCCCAAACTCA-
1 AAACCCCAAAC-CAC
* *
13500940 AAAACCCAAATCAC
1 AAACCCCAAACCAC
*
13500954 AAACCCTAAACCAC
1 AAACCCCAAACCAC
*
13500968 AAACCCCTAACC
1 AAACCCCAAACC
13500980 CCGAAAACTA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
13 13 0.24
14 39 0.72
15 2 0.04
ACGTcount: A:0.48, C:0.43, G:0.00, T:0.09
Consensus pattern (14 bp):
AAACCCCAAACCAC
Found at i:13501271 original size:15 final size:14
Alignment explanation
Indices: 13501233--13501295 Score: 67
Period size: 15 Copynumber: 4.5 Consensus size: 14
13501223 ATTAATCTAG
*
13501233 ACCCTAAACCCT-A
1 ACCCTAACCCCTAA
*
13501246 ACCC-GACCCCTATA
1 ACCCTAACCCCTA-A
13501260 ACCCTAACCCCTAA
1 ACCCTAACCCCTAA
13501274 ACCCTAAGCCCCTAA
1 ACCCTAA-CCCCTAA
*
13501289 CCCCTAA
1 ACCCTAA
13501296 GCATCTCACT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
12 5 0.12
13 4 0.10
14 13 0.31
15 20 0.48
ACGTcount: A:0.33, C:0.49, G:0.03, T:0.14
Consensus pattern (14 bp):
ACCCTAACCCCTAA
Found at i:13501669 original size:14 final size:14
Alignment explanation
Indices: 13501650--13501689 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13501640 TTGTTTGGTA
13501650 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
13501664 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
13501678 GGAAAATGTTTT
1 GTAAAATGTTTT
13501690 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:13501698 original size:20 final size:20
Alignment explanation
Indices: 13501673--13501712 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13501663 CGTAAAATGA
*
13501673 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
13501693 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
13501713 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:13501702 original size:34 final size:35
Alignment explanation
Indices: 13501658--13501724 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13501648 TAGTAAAATG
*
13501658 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
13501692 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
13501725 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:13501728 original size:14 final size:15
Alignment explanation
Indices: 13501652--13501728 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
13501642 GTTTGGTAGT
* *
13501652 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
13501666 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
13501680 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
13501700 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
13501715 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
13501729 TGTTTGGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:13501783 original size:32 final size:31
Alignment explanation
Indices: 13501705--13501789 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
13501695 TCTGTAAAAT
* *
13501705 GATTTACTGGAAAATATTTTCTGGTGTTTGGTA
1 GATTT-CT-GAAAATATTTTCTGCTGTTTGGCA
* * *
13501738 AATCTGTGTAAAATATTTTCTGCTGTTTGGCA
1 GATTTCTG-AAAATATTTTCTGCTGTTTGGCA
13501770 GATTTCCTGAAAATATTTTC
1 GATTT-CTGAAAATATTTTC
13501790 CGGAAAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.02
32 36 0.86
33 5 0.12
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (31 bp):
GATTTCTGAAAATATTTTCTGCTGTTTGGCA
Found at i:13501841 original size:14 final size:14
Alignment explanation
Indices: 13501822--13501849 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13501812 ATTTTACATA
13501822 TATTAATATATATT
1 TATTAATATATATT
13501836 TATTAATATATATT
1 TATTAATATATATT
13501850 AATAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:13502157 original size:71 final size:72
Alignment explanation
Indices: 13502041--13502183 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 72
13502031 ATAATAATAT
*
13502041 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGT-CTAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
13502105 CCACATA
66 CCACATA
*
13502112 TATCCAAATACATAATTAATGGTACACCACATAGTAAGAACATTGTCCAAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
13502177 CCACATA
66 CCACATA
13502184 AATGTATCAA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 45 0.65
72 24 0.35
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (72 bp):
TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
CCACATA
Found at i:13503167 original size:35 final size:36
Alignment explanation
Indices: 13503121--13503189 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
13503111 ATTCAACCAT
13503121 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
13503156 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
13503190 TCTAACAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:13503187 original size:27 final size:28
Alignment explanation
Indices: 13503157--13503226 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
13503147 AATAATAAAT
*
13503157 TCAATATCCAACAAGCTT-AAAACATA-A
1 TCAATATCCAACAA-ATTCAAAACATATA
* *
13503184 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAACAAATTCAAAACATATA
*
13503212 TCAAAATCCAACAAA
1 TCAATATCCAACAAA
13503227 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 14 0.39
ACGTcount: A:0.53, C:0.21, G:0.03, T:0.23
Consensus pattern (28 bp):
TCAATATCCAACAAATTCAAAACATATA
Found at i:13504740 original size:15 final size:16
Alignment explanation
Indices: 13504720--13504752 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
13504710 AGTGCCACTT
13504720 AAAATGAAAGCA-TGA
1 AAAATGAAAGCATTGA
13504735 AAAATGAAAGCATTGA
1 AAAATGAAAGCATTGA
13504751 AA
1 AA
13504753 GTACCACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (16 bp):
AAAATGAAAGCATTGA
Found at i:13507364 original size:25 final size:25
Alignment explanation
Indices: 13507309--13507376 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
13507299 AAGCTTTGAG
13507309 GAATGGAAAATGACTGCTGCTTAGAAGA
1 GAATGGAAAATG--T-CTGCTTAGAAGA
13507337 GAATGGAAAATGTCTGCTTAG-AGAA
1 GAATGGAAAATGTCTGCTTAGAAG-A
*
13507362 GAATAGAAAATGTCT
1 GAATGGAAAATGTCT
13507377 TACCAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
24 2 0.05
25 23 0.61
26 1 0.03
28 12 0.32
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (25 bp):
GAATGGAAAATGTCTGCTTAGAAGA
Found at i:13507971 original size:113 final size:113
Alignment explanation
Indices: 13507770--13508129 Score: 456
Period size: 113 Copynumber: 3.2 Consensus size: 113
13507760 CGGCGCTTCC
* * * * *
13507770 TAAAAAACGCCGCTAAAGGCCGGAGCATTAACAGCGCTTTTTCAGAAAACGCCACTAAAGGCCCA
1 TAAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGC-TTTTCAAAAAACGCCGCTAAAGGCCCA
*
13507835 AAAACTCAGAAAACGGCGTCGTTGGCCTTAGGTTTTTTGCGGCGCTTTT
65 AAAACTCAGAAAACGGCGTCGTTGGCCTTAGGTTTTTTGCGACGCTTTT
* ** * *
13507884 TAGAAAACGCCGCTAAAGGAAAGAGCATTAGCGGCGCTTTTGAAAAAACGCCGCTAAAGACCCAA
1 TAAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGGCCCAA
*
13507949 AAACTTAGAAAACGGCGTCGTTGGCCTTAGG-TTTTTGCGACGCTTTT
66 AAACTCAGAAAACGGCGTCGTTGGCCTTAGGTTTTTTGCGACGCTTTT
* * * * * * *
13507996 TAGAAAACGCCGCT-AAGTCCCCCGAGCATTAGCGGTGCTTTTTAAAAACCACCGCTAAAGGCCC
1 TAAAAAACGCCGCTAAAG--GCCAGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGGCCC
** *
13508060 -AAAACTCAGAAAATAGCGGCGTTGGCCTTAGGTTTTTTGCGACGCTTTT
64 AAAAACTCAGAAAACGGCGTCGTTGGCCTTAGGTTTTTTGCGACGCTTTT
**
13508109 TAAAAAACGCCATTAAAGGCC
1 TAAAAAACGCCGCTAAAGGCC
13508130 CAAAACTCAG
Statistics
Matches: 213, Mismatches: 29, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
111 3 0.01
112 59 0.28
113 117 0.55
114 34 0.16
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (113 bp):
TAAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGGCCCAA
AAACTCAGAAAACGGCGTCGTTGGCCTTAGGTTTTTTGCGACGCTTTT
Found at i:13508126 original size:71 final size:71
Alignment explanation
Indices: 13508032--13508186 Score: 213
Period size: 71 Copynumber: 2.2 Consensus size: 71
13508022 CATTAGCGGT
* *
13508032 GCTTTTTAAAAACCACCGCTAAAGGCCCAAAACTCAGAAAATAG-CGGCGTTGGCCTTAGGTTTT
1 GCTTTTTAAAAAACACCACTAAAGGCCCAAAACTCAGAAAA-AGACGGCGTTGGCCTTAGGTTTT
13508096 TTGCGAC
65 TTGCGAC
* * * *
13508103 GCTTTTTAAAAAACGCCATTAAAGGCCCAAAACTCAGAAAACGACGTCGTTGGCCTTAGGTTTTT
1 GCTTTTTAAAAAACACCACTAAAGGCCCAAAACTCAGAAAAAGACGGCGTTGGCCTTAGGTTTTT
**
13508168 TGCGGT
66 TGCGAC
*
13508174 GCTTTTTAGAAAA
1 GCTTTTTAAAAAA
13508187 TGCCGCTAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
70 1 0.01
71 73 0.99
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (71 bp):
GCTTTTTAAAAAACACCACTAAAGGCCCAAAACTCAGAAAAAGACGGCGTTGGCCTTAGGTTTTT
TGCGAC
Found at i:13508170 original size:184 final size:184
Alignment explanation
Indices: 13507918--13508292 Score: 590
Period size: 184 Copynumber: 2.0 Consensus size: 184
13507908 GCATTAGCGG
* * *
13507918 CGCTTTTGAAAAAACGCCGCTAAAGACCCAAAAACTTAGAAAACGGCGTCGTTGGCCTTAGGTTT
1 CGCTTTTGAAAAAACGCCACTAAAGACCCAAAAACTCAGAAAACGACGTCGTTGGCCTTAGGTTT
** *
13507983 TTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGGTGCTTTTTAAAAACCAC
66 TTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGACGCTTTTTAAAAAACAC
*
13508048 CGCTAAAGGCCCAAAACTCAGAAAATAGCGGCGTTGGCCTTAGGTTTTTTGCGA
131 CGCTAAAGGCCCAAAACTCAGAAAACAGCGGCGTTGGCCTTAGGTTTTTTGCGA
* * *
13508102 CGCTTTTTAAAAAACGCCATTAAAGGCCC-AAAACTCAGAAAACGACGTCGTTGGCCTTAGGTTT
1 CGCTTTTGAAAAAACGCCACTAAAGACCCAAAAACTCAGAAAACGACGTCGTTGGCCTTAGG-TT
** * *
13508166 TTTGCGGTGCTTTTTAGAAAATGCCGCTAAGTCCCCCGAGCATTAGCGACGCTTTTTAAAAAACG
65 TTTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGACGCTTTTTAAAAAACA
* *
13508231 CCGCTAAAGGCCCAAAACTCAGAAAACAGCGTCGTTGGCCTTAGGTTTTTTGCGG
130 CCGCTAAAGGCCCAAAACTCAGAAAACAGCGGCGTTGGCCTTAGGTTTTTTGCGA
13508286 CGCTTTT
1 CGCTTTT
13508293 CATGAAACGC
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
183 30 0.17
184 144 0.83
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (184 bp):
CGCTTTTGAAAAAACGCCACTAAAGACCCAAAAACTCAGAAAACGACGTCGTTGGCCTTAGGTTT
TTGCGACGCTTTTTAGAAAACGCCGCTAAGTCCCCCGAGCATTAGCGACGCTTTTTAAAAAACAC
CGCTAAAGGCCCAAAACTCAGAAAACAGCGGCGTTGGCCTTAGGTTTTTTGCGA
Found at i:13508308 original size:113 final size:113
Alignment explanation
Indices: 13508098--13508308 Score: 336
Period size: 113 Copynumber: 1.9 Consensus size: 113
13508088 TAGGTTTTTT
*
13508098 GCGACGCTTTTTAAAAAACGCCATTAAAGGCCCAAAACTCAGAAAACGACGTCGTTGGCCTTAGG
1 GCGACGCTTTTTAAAAAACGCCACTAAAGGCCCAAAACTCAGAAAACGACGTCGTTGGCCTTAGG
* * * *
13508163 TTTTTTGCGGTGCTTTTTAGAAAATGCCGCTAAGTCCCCCGAGCATTA
66 TTTTTTGCGGCGCTTTTCAGAAAACGCAGCTAAGTCCCCCGAGCATTA
*
13508211 GCGACGCTTTTTAAAAAACGCCGCTAAAGGCCCAAAACTCAGAAAAC-AGCGTCGTTGGCCTTAG
1 GCGACGCTTTTTAAAAAACGCCACTAAAGGCCCAAAACTCAGAAAACGA-CGTCGTTGGCCTTAG
13508275 GTTTTTTGCGGCGCTTTTCATG-AAACGCAGCTAA
65 GTTTTTTGCGGCGCTTTTCA-GAAAACGCAGCTAA
13508309 TGCTTATTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
112 1 0.01
113 88 0.98
114 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (113 bp):
GCGACGCTTTTTAAAAAACGCCACTAAAGGCCCAAAACTCAGAAAACGACGTCGTTGGCCTTAGG
TTTTTTGCGGCGCTTTTCAGAAAACGCAGCTAAGTCCCCCGAGCATTA
Found at i:13509894 original size:19 final size:17
Alignment explanation
Indices: 13509849--13509886 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13509839 AATTATATAA
13509849 AATTAAAATTCATGTAT
1 AATTAAAATTCATGTAT
* *
13509866 CATCAAAATTCATGTAT
1 AATTAAAATTCATGTAT
13509883 AATT
1 AATT
13509887 TTAAAATTTA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (17 bp):
AATTAAAATTCATGTAT
Found at i:13515825 original size:9 final size:9
Alignment explanation
Indices: 13515811--13515847 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
13515801 TATAGTTTGA
13515811 TATTCGAAT
1 TATTCGAAT
13515820 TATTCGAAT
1 TATTCGAAT
13515829 TATTC-AAGT
1 TATTCGAA-T
13515838 TATTCGAAT
1 TATTCGAAT
13515847 T
1 T
13515848 CGAAAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13517520 original size:26 final size:25
Alignment explanation
Indices: 13517455--13517520 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
13517445 GGGTTCTTTG
13517455 AAGCTAGTGTTAGCAACATTGAACC
1 AAGCTAGTGTTAGCAACATTGAACC
* * * *
13517480 AAGATAGTGTTAGCAACCTTTATCC
1 AAGCTAGTGTTAGCAACATTGAACC
13517505 AAAGCTAGTGTTAGCA
1 -AAGCTAGTGTTAGCA
13517521 GCCCGATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
25 21 0.60
26 14 0.40
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (25 bp):
AAGCTAGTGTTAGCAACATTGAACC
Found at i:13521127 original size:24 final size:24
Alignment explanation
Indices: 13521061--13521130 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
13521051 ATACAAACTT
* *
13521061 ACCACAAAGGCACTTGCAAAATAC
1 ACCACAAAGGCACTTACAGAATAC
13521085 ACCACAAAGGCACTTACAGAATAC
1 ACCACAAAGGCACTTACAGAATAC
** *
13521109 GTCACAAGGGCACTTACAGAAT
1 ACCACAAAGGCACTTACAGAAT
13521131 TGATCTGTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (24 bp):
ACCACAAAGGCACTTACAGAATAC
Found at i:13524064 original size:9 final size:9
Alignment explanation
Indices: 13524050--13524080 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13524040 GTTAAACGAA
13524050 TCGAGTTAT
1 TCGAGTTAT
*
13524059 TCGAGTTAA
1 TCGAGTTAT
13524068 TCGAGTTAT
1 TCGAGTTAT
13524077 TCGA
1 TCGA
13524081 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:13524228 original size:21 final size:21
Alignment explanation
Indices: 13524187--13524229 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13524177 ACCCCAAACT
* *
13524187 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
13524208 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
13524229 C
1 C
13524230 ACTTTTCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:13528195 original size:15 final size:14
Alignment explanation
Indices: 13528174--13528209 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
13528164 ATAATCCTTA
*
13528174 ATAATTATCTTAAT
1 ATAATTATCCTAAT
13528188 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
13528203 ATAATTA
1 ATAATTA
13528210 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:13529521 original size:314 final size:314
Alignment explanation
Indices: 13528712--13529668 Score: 1472
Period size: 314 Copynumber: 3.0 Consensus size: 314
13528702 TTGAAAATTA
* *
13528712 ACACATTACTAGGTATAAATACTACTTACATGCTAATTATATTACGACAAA-ACAAATAATGGAG
1 ACACATTACTAGGTATAAATACTACTTACGTACTAATTATATTACGACAAAGA-AAATAATGGAG
*
13528776 AGATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCTAAATTTCAATCAAATTGT
65 AGATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGT
* * *
13528841 AACAGCTCAATTTTTAATAGTGTCAAAAATAGTGGTATTAGGACCAC-AGTTTTGATGAGTGAGT
130 AATAGCTCAATTTTCAATAGTGTCAGAAATAGTGGTATTAGGACCACGA-TTTTGATGAGTGAGT
* * * *
13528905 CAATAAATATTATTTATTAATATTTACAAGTTTGTTATAATGTTATATTAATTCTTGAATTGGTA
194 CAATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTA
* * * *
13528970 ATTTGGTTGAAAAGTTAGTAATGTAGATGTAAGGACTAAACTGTAATAATGGTAAGAGTT
259 ATTTGGTTG---A-CTAGTAATATAGATGTAAGGACTAAACTGTAAGAATGGTAAAAGTT
* * * * *
13529030 ACACATTACTAGGTATAAATACTAATTATGTACTAAATATAGTACGACAAAGAAAAT-ATAGAGA
1 ACACATTACTAGGTATAAATACTACTTACGTACTAATTATATTACGACAAAGAAAATAATGGAGA
*
13529094 GATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACCATCCAAATTTCAATCAAATTGTA
66 GATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGTA
*
13529159 AT-GACTCAATTTTCAATAGTGTCAGAAATAGTGGTATTAGGACCACGATTTTGATGAGTGAGCC
131 ATAG-CTCAATTTTCAATAGTGTCAGAAATAGTGGTATTAGGACCACGATTTTGATGAGTGAGTC
*
13529223 AATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGATTTGGTAA
195 AATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTAA
* *
13529288 TTTGGTTGACTAGTAATATAGATATAAGGACTAAACTGTAAGAATGATAAAAGTT
260 TTTGGTTGACTAGTAATATAGATGTAAGGACTAAACTGTAAGAATGGTAAAAGTT
* *
13529343 ACACATTATTAGGTATAAATACTACTTACGTACTAATTATATTACAACAAAGAAAATAATGGAGA
1 ACACATTACTAGGTATAAATACTACTTACGTACTAATTATATTACGACAAAGAAAATAATGGAGA
* *
13529408 TATGATTTATAATCAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGTA
66 GATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGTA
** * *
13529473 ATAGCTCGGTTTTCAGTAGTGTTAGAAATAGTGGTATTAGGACCACGATTTTGATGAGTGAGTCA
131 ATAGCTCAATTTTCAATAGTGTCAGAAATAGTGGTATTAGGACCACGATTTTGATGAGTGAGTCA
*
13529538 ATAAATATTATTCATTAATATTTACAAGTCCGTTATAGTGTTATATCAATTCTTGAATTGGTAAT
196 ATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTAAT
* *
13529603 TTGGTTGACAAGTTAATAATGTAGATGCAAGGACTAAACTGTAAGAATGGTAAAAGTT
261 TTGGTTGACTAG-TAAT-A--TAGATGTAAGGACTAAACTGTAAGAATGGTAAAAGTT
13529661 ACACATTA
1 ACACATTA
13529669 TTGGTTAGCT
Statistics
Matches: 585, Mismatches: 45, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
313 91 0.16
314 201 0.34
315 5 0.01
316 2 0.00
317 193 0.33
318 92 0.16
319 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (314 bp):
ACACATTACTAGGTATAAATACTACTTACGTACTAATTATATTACGACAAAGAAAATAATGGAGA
GATGATTTATAAACAACATGAAAATAAATTCTAAAGTAAACTATCCAAATTTCAATCAAATTGTA
ATAGCTCAATTTTCAATAGTGTCAGAAATAGTGGTATTAGGACCACGATTTTGATGAGTGAGTCA
ATAAATATTATTCATTAATATTTACAAGTCTGTTATAGTGTTATATCAATTCTTGAATTGGTAAT
TTGGTTGACTAGTAATATAGATGTAAGGACTAAACTGTAAGAATGGTAAAAGTT
Found at i:13530475 original size:38 final size:38
Alignment explanation
Indices: 13530413--13530499 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 38
13530403 CTTCGTGTAT
* * * * * *
13530413 ACTGTCGTGTTATCGGATAGAATAGTTGTTATAAACAA
1 ACTGGCGTGTTATCGAACAAAATAGCTCTTATAAACAA
* *
13530451 ACTGGCGTGTTATCGAACAAAATAGCTCTTATGAGCAA
1 ACTGGCGTGTTATCGAACAAAATAGCTCTTATAAACAA
*
13530489 ACTGGTGTGTT
1 ACTGGCGTGTT
13530500 TCAATTGGTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (38 bp):
ACTGGCGTGTTATCGAACAAAATAGCTCTTATAAACAA
Found at i:13541069 original size:14 final size:14
Alignment explanation
Indices: 13541050--13541089 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13541040 TTGTTTGGCA
13541050 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
13541064 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
13541078 GGAAAATGTTTT
1 GTAAAATGTTTT
13541090 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:13541098 original size:20 final size:20
Alignment explanation
Indices: 13541073--13541112 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13541063 CGTAAAATGA
*
13541073 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
13541093 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
13541113 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:13541102 original size:34 final size:35
Alignment explanation
Indices: 13541058--13541124 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
13541048 CAGTAAAATG
*
13541058 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
13541092 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
13541125 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:13541253 original size:10 final size:10
Alignment explanation
Indices: 13541222--13541254 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
13541212 ATTAACATAT
*
13541222 ATATTTATTA
1 ATATATATTA
13541232 ATATATATTA
1 ATATATATTA
13541242 ATATATATTA
1 ATATATATTA
13541252 ATA
1 ATA
13541255 AATTGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATATATATTA
Found at i:13544379 original size:38 final size:38
Alignment explanation
Indices: 13544295--13544389 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 38
13544285 TATACGTACT
*
13544295 TATACATACTTAAATATATTTTTCATATTTCTTAATTC
1 TATACATACTTAAATATATTTTGCATATTTCTTAATTC
* *
13544333 T-TATATACTTACATATATTTATGCATA-TT-TT-ATATC
1 TATACATACTTAAATATATTT-TGCATATTTCTTAAT-TC
*
13544369 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
13544390 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 2 0.04
36 4 0.08
37 20 0.42
38 22 0.46
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.52
Consensus pattern (38 bp):
TATACATACTTAAATATATTTTGCATATTTCTTAATTC
Found at i:13546735 original size:28 final size:26
Alignment explanation
Indices: 13546704--13546769 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 26
13546694 AAGCTTTGAG
*
13546704 GAATGAAAAATGTTTGCTGCTTAGA-AGA
1 GAATGGAAAATG-TT-CTGCTTAGAGA-A
13546732 GAATGGAAAATG-TCTGCTTAGAGAA
1 GAATGGAAAATGTTCTGCTTAGAGAA
13546757 GAATGGAAAATGT
1 GAATGGAAAATGT
13546770 CTTACAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 22 0.63
26 2 0.06
28 11 0.31
ACGTcount: A:0.41, C:0.06, G:0.27, T:0.26
Consensus pattern (26 bp):
GAATGGAAAATGTTCTGCTTAGAGAA
Found at i:13546759 original size:25 final size:25
Alignment explanation
Indices: 13546720--13546771 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
13546710 AAAATGTTTG
13546720 CTGCTTAGAAGAGAATGGAAAATGT
1 CTGCTTAGAAGAGAATGGAAAATGT
13546745 CTGCTTAG-AGAAGAATGGAAAATGT
1 CTGCTTAGAAG-AGAATGGAAAATGT
13546770 CT
1 CT
13546772 TACAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (25 bp):
CTGCTTAGAAGAGAATGGAAAATGT
Found at i:13554732 original size:87 final size:87
Alignment explanation
Indices: 13554524--13555050 Score: 736
Period size: 87 Copynumber: 6.1 Consensus size: 87
13554514 ATCAGTGAAA
* *
13554524 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTTGTTAAAGA-AGCAGATCTTACCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* * * *
13554588 TCCTACATTGACAGTGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* * * *
13554610 ATCGGAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATTTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
13554675 TCCTGCGTTAACAGCGAAACAG
66 TCCTGCGTTAACAGCGAAGCAG
* * * ** *
13554697 ATCGAAAACAAAGCCTTACCTCTATCGATTATAGTGGAGCTGGTTAAAAATAGCAGATCTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* *
13554762 TCATGCGTTAACAGCGAAGTAG
66 TCCTGCGTTAACAGCGAAGCAG
* * *
13554784 ATTGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTGTCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* *
13554849 TCCTACGTTAACAGCGAAACAG
66 TCCTGCGTTAACAGCGAAGCAG
*
13554871 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTTCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
13554936 TCCTGCGTTAACAGCGAAGCTG
66 TCCTGCGTTAACAGCGAAGCAG
** *
13554958 ATCGAAAACAAAGCCTTGCCTCCATTAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT-TCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* *
13555022 CTCCTGCGTCGAA-AGTGAAGCAG
66 -TCCTGCGT-TAACAGCGAAGCAG
13555045 ATCGAA
1 ATCGAA
13555051 GATTACAAGT
Statistics
Matches: 390, Mismatches: 48, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
86 48 0.12
87 340 0.87
88 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
TCCTGCGTTAACAGCGAAGCAG
Found at i:13555273 original size:87 final size:84
Alignment explanation
Indices: 13555104--13555261 Score: 185
Period size: 87 Copynumber: 1.8 Consensus size: 84
13555094 AAATTACAAG
* *
13555104 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTTGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAC---AGAAATCAATCCTATCTCCCTGAAGTTGCAA
* * *
13555169 TGGAGCGGATTAAAACAATAGA
63 CGGAGCAGATGAAAACAATAGA
* * *
13555191 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-G-CATCGGATCTTATCTCCCTGAAGTTGCAAC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAATC-AATCCTATCTCCCTGAAGTTGCAAC
13555254 GGAGCAGA
64 GGAGCAGA
13555262 CTGAGAAAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
83 3 0.05
84 28 0.45
87 30 0.48
88 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (84 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAATCAATCCTATCTCCCTGAAGTTGCAACGG
AGCAGATGAAAACAATAGA
Found at i:13555623 original size:27 final size:27
Alignment explanation
Indices: 13555584--13555636 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
13555574 CCGTTTGCAG
* *
13555584 AAATTTAAACCCAGATTATTAA-ACCCA
1 AAATTCAAACCCA-AATATTAATACCCA
*
13555611 AAATTCAAGCCCAAATATTAATACCC
1 AAATTCAAACCCAAATATTAATACCC
13555637 GAATAGCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.25
Consensus pattern (27 bp):
AAATTCAAACCCAAATATTAATACCCA
Found at i:13558528 original size:26 final size:27
Alignment explanation
Indices: 13558475--13558535 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
13558465 TTTTTTTTGT
* **
13558475 ATATTTTAGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAATAGATA
13558502 ATATTTTGGTAAATAAAAAAA-AGATA
1 ATATTTTGGTAAATAAAAAAATAGATA
*
13558528 ACATTTTG
1 ATATTTTG
13558536 ATTATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATAGATA
Found at i:13562534 original size:5 final size:5
Alignment explanation
Indices: 13562524--13562550 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13562514 CTCTCTAACT
13562524 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
13562551 GGTCTCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:13565453 original size:20 final size:20
Alignment explanation
Indices: 13565417--13565456 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13565407 AATTAAAATT
*
13565417 AATTCTAAAAAAGAAATAAA
1 AATTCTAAAAAAAAAATAAA
13565437 AATT-TAAAAAATAAAATAAA
1 AATTCTAAAAAA-AAAATAAA
13565457 TTTTCTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AATTCTAAAAAAAAAATAAA
Found at i:13566194 original size:29 final size:29
Alignment explanation
Indices: 13566148--13566203 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
13566138 ATACATGTTA
* *
13566148 ATTTTTTAAAATTTAAAATTATAAAAACC
1 ATTTTTAAAAATTAAAAATTATAAAAACC
*
13566177 ATTTTTAAAAATTAAAAATTATTAAAA
1 ATTTTTAAAAATTAAAAATTATAAAAA
13566204 TTATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
ATTTTTAAAAATTAAAAATTATAAAAACC
Found at i:13571259 original size:114 final size:114
Alignment explanation
Indices: 13571059--13571289 Score: 417
Period size: 114 Copynumber: 2.0 Consensus size: 114
13571049 GAGTTGAAAT
* *
13571059 TGAAGTCTTGAAGATTAGCAAAGTCACTTTCTAAGGTTGAAGACTTTGGATTACATGGAGACTCT
1 TGAAGACTTGAAGATTAGCAAAGTCACTTTCTAAAGTTGAAGACTTTGGATTACATGGAGACTCT
*
13571124 TATGAAAGTTTTATCTTATGTTGTTTTTTAGTTTTACTTTATAAAAAAG
66 TATGAAAGTTTTATCTTATGTTATTTTTTAGTTTTACTTTATAAAAAAG
*
13571173 TGAAGACTTGAAGATTAGTAAAGTCACTTTCTAAAGTTGAAGACTTTGGATTACATGGAGACTCT
1 TGAAGACTTGAAGATTAGCAAAGTCACTTTCTAAAGTTGAAGACTTTGGATTACATGGAGACTCT
*
13571238 TATGAAAGTTTTATTTTATGTTATTTTTTAGTTTTACTTTATAAAAAAG
66 TATGAAAGTTTTATCTTATGTTATTTTTTAGTTTTACTTTATAAAAAAG
13571287 TGA
1 TGA
13571290 TTAGATTATA
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (114 bp):
TGAAGACTTGAAGATTAGCAAAGTCACTTTCTAAAGTTGAAGACTTTGGATTACATGGAGACTCT
TATGAAAGTTTTATCTTATGTTATTTTTTAGTTTTACTTTATAAAAAAG
Found at i:13582500 original size:42 final size:41
Alignment explanation
Indices: 13582445--13582581 Score: 139
Period size: 42 Copynumber: 3.3 Consensus size: 41
13582435 CAAAGGCTAC
* * *
13582445 ACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAAC-GAAACCCATAAGGGTTAA
* * * * *
13582487 ACGGAAGCTCATAAGAGCTGAACGGAAGCTCATAAAGGTTAA
1 ACAGAAGCTCATAAGAGCTAAAC-GAAACCCATAAGGGTTAA
* * * *
13582529 ACAGAAGCTCAAAAGAGTTTAACGAAAACCTATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACG-AAACCCATAAGGGTTAA
13582571 ACAGAAGCTCA
1 ACAGAAGCTCA
13582582 ATAGAGTTGA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 1 0.01
42 76 0.99
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (41 bp):
ACAGAAGCTCATAAGAGCTAAACGAAACCCATAAGGGTTAA
Found at i:13582537 original size:21 final size:21
Alignment explanation
Indices: 13582436--13582581 Score: 84
Period size: 21 Copynumber: 7.0 Consensus size: 21
13582426 CCAGAAGCCC
* * *
13582436 AAAGGCTACACAGAAGCACAT
1 AAAGGTTAAACAGAAGCTCAT
* * *
13582457 -AAGTGCTAAACAGAAACCCAT
1 AAAG-GTTAAACAGAAGCTCAT
* * *
13582478 AAGGGTTGAACGGAAGCTCAT
1 AAAGGTTAAACAGAAGCTCAT
* * *
13582499 -AAGAGCTGAACGGAAGCTCAT
1 AAAG-GTTAAACAGAAGCTCAT
13582520 AAAGGTTAAACAGAAGCTCA-
1 AAAGGTTAAACAGAAGCTCAT
* * *
13582540 AAAGAGTTTAACGAAAACCT-AT
1 AAAG-GTTAAAC-AGAAGCTCAT
*
13582562 AAGGGTTAAACAGAAGCTCA
1 AAAGGTTAAACAGAAGCTCA
13582582 ATAGAGTTGA
Statistics
Matches: 96, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
20 14 0.15
21 69 0.72
22 13 0.14
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAGGTTAAACAGAAGCTCAT
Found at i:13582582 original size:42 final size:41
Alignment explanation
Indices: 13582469--13582599 Score: 145
Period size: 42 Copynumber: 3.1 Consensus size: 41
13582459 GTGCTAAACA
* * * * *
13582469 GAAACCCATAAGGGTTGAACGGAAGCTCATAAGAGCTGAAC
1 GAAACCTATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAAC
* * * *
13582510 GGAAGCTCATAAAGGTTAAACAGAAGCTCAAAAGAGTTTAAC
1 GAAACCT-ATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAAC
*
13582552 GAAAACCTATAAGGGTTAAACAGAAGCTCAATAGAGTTGAAC
1 G-AAACCTATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAAC
13582594 GGAAAC
1 -GAAAC
13582600 TCATATGAGT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
41 4 0.05
42 64 0.88
43 5 0.07
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.17
Consensus pattern (41 bp):
GAAACCTATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAAC
Found at i:13582609 original size:21 final size:21
Alignment explanation
Indices: 13582475--13582614 Score: 115
Period size: 21 Copynumber: 6.7 Consensus size: 21
13582465 AACAGAAACC
*
13582475 CATAAGGGTTGAACGGAAGCT
1 CATAAGAGTTGAACGGAAGCT
*
13582496 CATAAGAGCTGAACGGAAGCT
1 CATAAGAGTTGAACGGAAGCT
* *
13582517 CATAA-AGGTTAAACAGAAGCT
1 CATAAGA-GTTGAACGGAAGCT
* * * *
13582538 CAAAAGAGTTTAACGAAAAC-
1 CATAAGAGTTGAACGGAAGCT
* * *
13582558 CTATAAGGGTTAAACAGAAGCT
1 C-ATAAGAGTTGAACGGAAGCT
*
13582580 CA-ATAGAGTTGAACGGAAACT
1 CATA-AGAGTTGAACGGAAGCT
*
13582601 CATATGAGTTGAAC
1 CATAAGAGTTGAAC
13582615 AAAAGCTAGA
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
20 3 0.03
21 86 0.93
22 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (21 bp):
CATAAGAGTTGAACGGAAGCT
Found at i:13582621 original size:42 final size:42
Alignment explanation
Indices: 13582490--13582660 Score: 179
Period size: 42 Copynumber: 4.1 Consensus size: 42
13582480 GGGTTGAACG
* * *
13582490 GAAGCTCATAAGAGCTGAACGGAAGCTCATA-AAGGTTAAACA
1 GAAGCTCAAAAGAGTTGAACGGAAACTCATATAA-GTTAAACA
* *
13582532 GAAGCTCAAAAGAGTTTAACGAAAAC-C-TATAAGGGTTAAACA
1 GAAGCTCAAAAGAGTTGAACGGAAACTCATATAA--GTTAAACA
* * *
13582574 GAAGCTCAATAGAGTTGAACGGAAACTCATATGAGTTGAACA
1 GAAGCTCAAAAGAGTTGAACGGAAACTCATATAAGTTAAACA
* * *
13582616 AAAGCT-AGAAAAAATTGAACGGAAACTCATATAAGTTAAACA
1 GAAGCTCA-AAAGAGTTGAACGGAAACTCATATAAGTTAAACA
13582658 GAA
1 GAA
13582661 TCTCGTGAGA
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.02
41 4 0.04
42 96 0.90
43 1 0.01
44 4 0.04
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (42 bp):
GAAGCTCAAAAGAGTTGAACGGAAACTCATATAAGTTAAACA
Found at i:13584988 original size:8 final size:8
Alignment explanation
Indices: 13584964--13584997 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
13584954 ATTCCATATT
13584964 TAAAATCTA
1 TAAAAT-TA
13584973 TAAAAATTA
1 T-AAAATTA
13584982 TAAAATTA
1 TAAAATTA
13584990 TAAAATTA
1 TAAAATTA
13584998 ACAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 15 0.62
9 4 0.17
10 5 0.21
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
TAAAATTA
Found at i:13585066 original size:17 final size:17
Alignment explanation
Indices: 13585027--13585076 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
13585017 TTATAATTAT
* *
13585027 AAAAATTATTATATAATAT
1 AAAAATT-TTA-AAAATAG
13585046 AAAAATTTTAAAAATAG
1 AAAAATTTTAAAAATAG
*
13585063 AAAATTTTTAAAAA
1 AAAAATTTTAAAAA
13585077 AATATAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 18 0.64
18 3 0.11
19 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAAATTTTAAAAATAG
Found at i:13585373 original size:43 final size:44
Alignment explanation
Indices: 13585316--13585429 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
13585306 AGATTGGTAG
* * *
13585316 TTTATCTGCAAA-TTTGTTATGCATCCATAACCCAGTGAAAGTT
1 TTTATCTGCAAATTTTGTTGTGCATCCACAACCAAGTGAAAGTT
* * * **
13585359 TTTATCTACAAATTTTGTTGTGTATCCACAGCCAAGTGGCAGTT
1 TTTATCTGCAAATTTTGTTGTGCATCCACAACCAAGTGAAAGTT
13585403 TTTATCTGCAAATTTTGTTGTGCATCC
1 TTTATCTGCAAATTTTGTTGTGCATCC
13585430 GCAGCCCAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 11 0.18
44 49 0.82
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (44 bp):
TTTATCTGCAAATTTTGTTGTGCATCCACAACCAAGTGAAAGTT
Found at i:13586693 original size:17 final size:18
Alignment explanation
Indices: 13586673--13586720 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
13586663 AACATAGAAA
13586673 AAAATATTTAAAA-TTTT
1 AAAATATTTAAAACTTTT
**
13586690 AAAATATAGAAAACTTTT
1 AAAATATTTAAAACTTTT
13586708 AAAA-ATTATAAAA
1 AAAATATT-TAAAA
13586721 GTAAACTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAATATTTAAAACTTTT
Found at i:13586720 original size:18 final size:17
Alignment explanation
Indices: 13586673--13586720 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
13586663 AACATAGAAA
*
13586673 AAAATATTTAAAATTTT
1 AAAATATATAAAATTTT
*
13586690 AAAATATAGAAAACTTTT
1 AAAATATATAAAA-TTTT
13586708 AAAA-ATTATAAAA
1 AAAATA-TATAAAA
13586721 GTAAACTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATAAAATTTT
Found at i:13586818 original size:9 final size:9
Alignment explanation
Indices: 13586734--13586882 Score: 53
Period size: 9 Copynumber: 16.6 Consensus size: 9
13586724 AACTATCAAA
13586734 TATAAAAA-
1 TATAAAAAT
13586742 -ATAGAAAAT
1 TATA-AAAAT
13586751 TATTAAAAAT
1 TA-TAAAAAT
13586761 CTAT-AAAAT
1 -TATAAAAAT
*
13586770 TAT-AAAAC
1 TATAAAAAT
*
13586778 TAAAATAAAT
1 TATAA-AAAT
* *
13586788 ATATAGAATT
1 -TATAAAAAT
* * *
13586798 TTTTATAAT
1 TATAAAAAT
13586807 TATAAAAAT
1 TATAAAAAT
*
13586816 TATTATATAA-
1 TA-TA-AAAAT
13586826 TATAAAAAT
1 TATAAAAAT
13586835 TATAAAAA-
1 TATAAAAAT
* *
13586843 TA-GAAACT
1 TATAAAAAT
* *
13586851 TTTAAAAAA
1 TATAAAAAT
*
13586860 TAT-AAGAT
1 TATAAAAAT
13586868 ATATAAAAAT
1 -TATAAAAAT
13586878 TATAA
1 TATAA
13586883 TTTAATCATC
Statistics
Matches: 100, Mismatches: 26, Indels: 29
0.65 0.17 0.19
Matches are distributed among these distances:
7 6 0.06
8 22 0.22
9 41 0.41
10 21 0.21
11 10 0.10
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
TATAAAAAT
Found at i:13587345 original size:18 final size:18
Alignment explanation
Indices: 13587269--13587347 Score: 63
Period size: 18 Copynumber: 4.3 Consensus size: 18
13587259 ATTTTAATAT
*
13587269 TTTTTAAAAGTTTTCTATA
1 TTTTTATAAG-TTTCTATA
* *
13587288 TTATTTATAAATTTTTAATA
1 TT-TTTATAAGTTTCT-ATA
* * *
13587308 ATTTAATAA-TTT-TTTA
1 TTTTTATAAGTTTCTATA
13587324 TTTTTATAAGTTTCTATA
1 TTTTTATAAGTTTCTATA
13587342 TTTTTA
1 TTTTTA
13587348 AATATCTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
16 9 0.19
17 4 0.09
18 12 0.26
19 12 0.26
20 10 0.21
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTTATAAGTTTCTATA
Found at i:13587358 original size:55 final size:56
Alignment explanation
Indices: 13587269--13587376 Score: 143
Period size: 55 Copynumber: 1.9 Consensus size: 56
13587259 ATTTTAATAT
13587269 TTTTTAAAAGTTTTCTATATTATTTATAAATTTTTAATAA-TTTAATAATTTTTTA
1 TTTTTAAAAGTTTTCTATATTATTTATAAATTTTTAATAATTTTAATAATTTTTTA
* *
13587324 TTTTTATAAG-TTTCTATATT-TTTA-AATATCTTTTTTATAATTTTAATAATTTT
1 TTTTTAAAAGTTTTCTATATTATTTATAA-A--TTTTTAATAATTTTAATAATTTT
13587377 AGTGATTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
52 2 0.04
53 5 0.11
54 10 0.21
55 18 0.38
56 12 0.26
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (56 bp):
TTTTTAAAAGTTTTCTATATTATTTATAAATTTTTAATAATTTTAATAATTTTTTA
Found at i:13588013 original size:21 final size:21
Alignment explanation
Indices: 13587968--13588013 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13587958 TTATAAAAAT
* * *
13587968 AAAAAAATTCTAATAAATTAC
1 AAAAAAATTCTAACAAAATAA
*
13587989 AAAAAAATTTTAACAAAATAA
1 AAAAAAATTCTAACAAAATAA
13588010 AAAA
1 AAAA
13588014 TATTTAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAAATTCTAACAAAATAA
Found at i:13588041 original size:21 final size:21
Alignment explanation
Indices: 13588009--13588069 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 21
13587999 TAACAAAATA
13588009 AAAAATATTTAAAATTTTATAT
1 AAAAATA-TTAAAATTTTATAT
13588031 AAAAATATTAAAA--TTATAT
1 AAAAATATTAAAATTTTATAT
*
13588050 AAAAATCATAAAAATATTTA
1 AAAAAT-ATTAAAAT-TTTA
13588070 AAAAACATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 12 0.35
20 6 0.18
21 6 0.18
22 7 0.21
23 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATATTAAAATTTTATAT
Found at i:13588078 original size:19 final size:19
Alignment explanation
Indices: 13588026--13588082 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
13588016 TTTAAAATTT
* *
13588026 TATATAAAAATA-TTAAAAT
1 TATATAAAAA-ACATAAAAA
*
13588045 TATATAAAAATCATAAAAA
1 TATATAAAAAACATAAAAA
*
13588064 TATTTAAAAAACATAAAAA
1 TATATAAAAAACATAAAAA
13588083 CTTGATCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
TATATAAAAAACATAAAAA
Found at i:13588079 original size:28 final size:28
Alignment explanation
Indices: 13588029--13588082 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
13588019 AAAATTTTAT
* *
13588029 ATAAAAATATTAAAATTATATAAAAATC
1 ATAAAAATATTAAAATAACATAAAAATC
13588057 ATAAAAATATTTAAAA-AACATAAAAA
1 ATAAAAATA-TTAAAATAACATAAAAA
13588083 CTTGATCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (28 bp):
ATAAAAATATTAAAATAACATAAAAATC
Found at i:13588344 original size:26 final size:27
Alignment explanation
Indices: 13588303--13588356 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
13588293 TTTAAAATAC
* *
13588303 TTTTAAAATAATTTTTTTATTTTTTAT
1 TTTTAAAATAATTTTTTTAATGTTTAT
13588330 TTTTAAAATAA-TTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTTAATGTTTAT
13588356 T
1 T
13588357 AAAAAAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTAAAATAATTTTTTTAATGTTTAT
Found at i:13588363 original size:26 final size:27
Alignment explanation
Indices: 13588307--13588364 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
13588297 AAATACTTTT
* * ***
13588307 AAAATAATTTTTTTATTTTTTATTTTT
1 AAAATAATTTTTTTAATGTTTATTAAA
13588334 AAAATAA-TTTTTTAATGTTTATTAAA
1 AAAATAATTTTTTTAATGTTTATTAAA
13588360 AAAAT
1 AAAAT
13588365 GGGTCGGGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
AAAATAATTTTTTTAATGTTTATTAAA
Found at i:13588795 original size:27 final size:28
Alignment explanation
Indices: 13588765--13588829 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
13588755 TTTAAATAAG
*
13588765 TTTTATTAATTTCATAAT-TTAT-TGTTT
1 TTTTA-TAATTTCATAATATTATATGATT
*
13588792 TTTTAT-ATTTCATAATATTTTATGATT
1 TTTTATAATTTCATAATATTATATGATT
13588819 TTTTATAATTT
1 TTTTATAATTT
13588830 TAATAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 10 0.30
26 4 0.12
27 15 0.45
28 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTATAATTTCATAATATTATATGATT
Found at i:13588822 original size:28 final size:28
Alignment explanation
Indices: 13588735--13588822 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
13588725 TGGCAAATAC
* *
13588735 ATTTTTTT-TATTTTA-AATATTTTAAATA
1 ATTTTTTTATATTTCATAATATTTT--ATG
* *
13588763 AGTTTTATTA-ATTTCATAAT-TTAT-TG
1 A-TTTTTTTATATTTCATAATATTTTATG
13588789 -TTTTTTTATATTTCATAATATTTTATG
1 ATTTTTTTATATTTCATAATATTTTATG
13588816 ATTTTTT
1 ATTTTTT
13588823 ATAATTTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
24 7 0.15
25 10 0.21
26 4 0.09
27 2 0.04
28 7 0.15
29 14 0.30
30 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (28 bp):
ATTTTTTTATATTTCATAATATTTTATG
Found at i:13592247 original size:13 final size:13
Alignment explanation
Indices: 13592229--13592276 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
13592219 CTATCTCGTC
13592229 TCTTTTTCTTTTT
1 TCTTTTTCTTTTT
13592242 TCTTTTTCTTTCCTT
1 TCTTTTTCTTT--TT
*
13592257 T-TCTTTTCTTCTT
1 TCT-TTTTCTTTTT
13592270 TCTTTTT
1 TCTTTTT
13592277 AGGCCACCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 18 0.60
14 2 0.07
15 10 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TCTTTTTCTTTTT
Found at i:13594493 original size:24 final size:23
Alignment explanation
Indices: 13594461--13594539 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
13594451 TCATAAACAA
*
13594461 ATTTTAAATTTATCATGTATGTTT
1 ATTTAAAATTTATCATGTAT-TTT
* * *
13594485 ATTTCAAATTTATTATGTATTAT
1 ATTTAAAATTTATCATGTATTTT
* *
13594508 AATTAAAATTTGTCATGTATTTT
1 ATTTAAAATTTATCATGTATTTT
13594531 -TTTAAAATT
1 ATTTAAAATT
13594540 CAATATAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
22 8 0.17
23 20 0.43
24 18 0.39
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
ATTTAAAATTTATCATGTATTTT
Found at i:13597002 original size:3 final size:3
Alignment explanation
Indices: 13596994--13597033 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
13596984 ATATGTAGGT
*
13596994 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13597034 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13597017 original size:15 final size:12
Alignment explanation
Indices: 13596996--13597047 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
13596986 ATGTAGGTAT
13596996 AATAATAATATATA
1 AATAATAATA-A-A
13597010 ATATAATAATAAA
1 A-ATAATAATAAA
13597023 AATAATAATAACA
1 AATAATAATAA-A
*
13597036 AA-ATTAATAAA
1 AATAATAATAAA
13597047 A
1 A
13597048 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:13597293 original size:19 final size:21
Alignment explanation
Indices: 13597255--13597293 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
13597245 CCTTTTTTAA
*
13597255 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
13597276 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
13597294 AAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:13598810 original size:36 final size:36
Alignment explanation
Indices: 13598763--13598948 Score: 237
Period size: 36 Copynumber: 4.9 Consensus size: 36
13598753 GCTAAGCTAC
*
13598763 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
13598799 CACTTATCACTTTTTCACTTGATTAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
13598835 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * *
13598877 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
13598917 CACTTATCACTTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
13598949 GTGGCTAAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 20
0.82 0.05 0.12
Matches are distributed among these distances:
36 93 0.70
38 3 0.02
40 3 0.02
42 3 0.02
44 2 0.02
46 28 0.21
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:13598886 original size:46 final size:45
Alignment explanation
Indices: 13598835--13598989 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 45
13598825 ATAAGTATAG
13598835 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGT-GCTAAAGCTAC
* *
13598881 CACTTATCACTTTGTCTCTTGATCAGATAA--GTG-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTGCTAAAGCTAC
*
13598917 CACTTATCACTTTTTCACTTGATCAGATAAGTGTGGCTAAAACTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGT-GCTAAAGCTAC
* *
13598963 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
13598990 AGTACTCAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
36 28 0.30
38 2 0.02
39 1 0.01
40 3 0.03
42 2 0.02
43 1 0.01
44 2 0.02
46 53 0.58
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTGCTAAAGCTAC
Found at i:13598889 original size:82 final size:82
Alignment explanation
Indices: 13598799--13598989 Score: 319
Period size: 82 Copynumber: 2.3 Consensus size: 82
13598789 ATAAGTATAG
* * *
13598799 CACTTATCACTTTTTCACTTGATTAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
*
13598864 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAACTAC
* *
13598881 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
*
13598946 AGTGTGGCTAAAACTAC
66 AGTGTAGCTAAAACTAC
13598963 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
13598990 AGTACTCAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 102 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCTAAAACTAC
Found at i:13598894 original size:118 final size:115
Alignment explanation
Indices: 13598720--13598948 Score: 386
Period size: 118 Copynumber: 2.0 Consensus size: 115
13598710 TACTTATGAT
13598720 CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
*
13598785 TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATTAGATAAGTATAG
66 TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* * *
13598835 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
*
13598900 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGT
63 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGT
13598949 GTGGCTAAAA
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
115 9 0.08
116 5 0.05
117 20 0.19
118 72 0.68
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (115 bp):
CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:13600079 original size:12 final size:12
Alignment explanation
Indices: 13600062--13600086 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13600052 AATGACACTC
13600062 TAAAAATATTTA
1 TAAAAATATTTA
13600074 TAAAAATATTTA
1 TAAAAATATTTA
13600086 T
1 T
13600087 GGCTCGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTTA
Found at i:13600373 original size:21 final size:21
Alignment explanation
Indices: 13600347--13600422 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
13600337 AATCATATCT
13600347 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
13600368 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
13600389 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
13600408 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
13600423 CCTCGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:13600382 original size:19 final size:19
Alignment explanation
Indices: 13600360--13600423 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
13600350 AAGATTGTAT
13600360 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
13600379 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
13600400 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
13600419 ATATC
1 ATATC
13600424 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:13601136 original size:20 final size:20
Alignment explanation
Indices: 13601096--13601134 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13601086 TATGGTTAAT
*
13601096 TAATTAAAGTTTAATTAAAA
1 TAATTAAAGATTAATTAAAA
13601116 TAATT-AAGATTAATTAAAA
1 TAATTAAAGATTAATTAAAA
13601135 ATTAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TAATTAAAGATTAATTAAAA
Found at i:13607604 original size:41 final size:41
Alignment explanation
Indices: 13607559--13607658 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
13607549 TGTGCCTAGC
*
13607559 AGGCTTTGTGCCAGTGTATTGATTTAGACTTTATGCCAAGA
1 AGGCTTTGTGCCGGTGTATTGATTTAGACTTTATGCCAAGA
* ** * * *
13607600 AGGCTTTGTGTCGGTGTATTGATTTAGGTTTTGTGCCTAGC
1 AGGCTTTGTGCCGGTGTATTGATTTAGACTTTATGCCAAGA
13607641 AGGCTTTGTGCCGGTGTA
1 AGGCTTTGTGCCGGTGTA
13607659 ATGAATCAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.14, G:0.30, T:0.39
Consensus pattern (41 bp):
AGGCTTTGTGCCGGTGTATTGATTTAGACTTTATGCCAAGA
Found at i:13607681 original size:41 final size:41
Alignment explanation
Indices: 13607552--13607687 Score: 112
Period size: 41 Copynumber: 3.3 Consensus size: 41
13607542 CAGGTTTTGT
* * * * * *
13607552 GCCTAGCAGGCTTTGTGCCAGTGTATTGATTTA-GACTTTA
1 GCCTAGCAGGCTTTGTGCCGGTGTAATGAATCAGGCCTTGA
* * * * * * ** *
13607592 TGCCAAGAAGGCTTTGTGTCGGTGTATTGATTTAGGTTTTGT
1 -GCCTAGCAGGCTTTGTGCCGGTGTAATGAATCAGGCCTTGA
13607634 GCCTAGCAGGCTTTGTGCCGGTGTAATGAATCAGGCCTTGA
1 GCCTAGCAGGCTTTGTGCCGGTGTAATGAATCAGGCCTTGA
*
13607675 GTCTAGCAGGCTT
1 GCCTAGCAGGCTT
13607688 CGTTCTGGTG
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
41 73 0.96
42 3 0.04
ACGTcount: A:0.18, C:0.17, G:0.29, T:0.35
Consensus pattern (41 bp):
GCCTAGCAGGCTTTGTGCCGGTGTAATGAATCAGGCCTTGA
Found at i:13610261 original size:11 final size:11
Alignment explanation
Indices: 13610234--13610276 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
13610224 TGACCTTTCC
13610234 AAGGTATGGG-
1 AAGGTATGGGA
*
13610244 TAGGTATGGGA
1 AAGGTATGGGA
*
13610255 AAGGTATGGGC
1 AAGGTATGGGA
13610266 AAGGTATGGGA
1 AAGGTATGGGA
13610277 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:13610273 original size:22 final size:21
Alignment explanation
Indices: 13610234--13610276 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13610224 TGACCTTTCC
*
13610234 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
13610255 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
13610277 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:13614344 original size:18 final size:18
Alignment explanation
Indices: 13614321--13614413 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
13614311 CCCAACTACT
*
13614321 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
13614339 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
*
13614357 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
*
13614375 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
13614393 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
13614411 GTA
1 GTA
13614414 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:13614975 original size:11 final size:11
Alignment explanation
Indices: 13614948--13614990 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
13614938 TGACCTTTCC
13614948 AAGGTATGGG-
1 AAGGTATGGGA
*
13614958 TAGGTATGGGA
1 AAGGTATGGGA
*
13614969 AAGGTATGGGC
1 AAGGTATGGGA
13614980 AAGGTATGGGA
1 AAGGTATGGGA
13614991 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:13614987 original size:22 final size:21
Alignment explanation
Indices: 13614948--13614990 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13614938 TGACCTTTCC
*
13614948 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
13614969 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
13614991 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:13626386 original size:38 final size:41
Alignment explanation
Indices: 13626291--13626386 Score: 92
Period size: 38 Copynumber: 2.4 Consensus size: 41
13626281 TTTTAGAATG
* *
13626291 ATTTTTAAATAATTATAATAAATATATAGAAAATTATTTAAA
1 ATTTTTAAA-AATTATAAGAAATATATAGAAAATTAGTTAAA
* * * *
13626333 ATTATTAATACTTATAAG-AATTTATTAGAAAA-T-GTT-AA
1 ATTTTTAAAAATTATAAGAAATATA-TAGAAAATTAGTTAAA
13626371 ATTTTTAAAAATTATA
1 ATTTTTAAAAATTATA
13626387 TATATACACA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
38 15 0.34
39 2 0.05
40 6 0.14
41 14 0.32
42 7 0.16
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (41 bp):
ATTTTTAAAAATTATAAGAAATATATAGAAAATTAGTTAAA
Found at i:13631722 original size:31 final size:32
Alignment explanation
Indices: 13631687--13631757 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
13631677 TTTGGAACGT
*
13631687 GACTAAAATTTTA-AAATTTGAAAAT-TATAAG
1 GACTAAAATTTGACAAATTTG-AAATGTATAAG
*
13631718 GACTAAAA-TTGACCAATTTGAAATGTATAAG
1 GACTAAAATTTGACAAATTTGAAATGTATAAG
*
13631749 AACTAAAAT
1 GACTAAAAT
13631758 CGATCAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 7 0.21
31 27 0.79
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (32 bp):
GACTAAAATTTGACAAATTTGAAATGTATAAG
Found at i:13632666 original size:18 final size:18
Alignment explanation
Indices: 13632620--13632667 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
13632610 TAGAAAAATG
*
13632620 AAATAAAAAT-AATTTAT
1 AAATAAAAATAAATGTAT
13632637 AAATAAATAATAAATGTAT
1 AAATAAA-AATAAATGTAT
*
13632656 AATTAAAAATAA
1 AAATAAAAATAA
13632668 TTATATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 12 0.44
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATAAAAATAAATGTAT
Found at i:13632675 original size:15 final size:16
Alignment explanation
Indices: 13632623--13632676 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 16
13632613 AAAAATGAAA
*
13632623 TAAAAATAATTTATAAA
1 TAAAAATAA-TTATAAT
13632640 TAAATAATAAATGTATAAT
1 TAAA-AAT-AAT-TATAAT
13632659 TAAAAATAATTAT-AT
1 TAAAAATAATTATAAT
13632674 TAA
1 TAA
13632677 TATTAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 5 0.15
16 3 0.09
17 7 0.21
18 7 0.21
19 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAAATAATTATAAT
Found at i:13634492 original size:17 final size:17
Alignment explanation
Indices: 13634470--13634522 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
13634460 TATATATTGA
13634470 TTATTTTTTATATTTTT
1 TTATTTTTTATATTTTT
* * **
13634487 TTATTTTGTAAAAATTT
1 TTATTTTTTATATTTTT
13634504 TTATTTTTCTAT-TTTTT
1 TTATTTTT-TATATTTTT
13634521 TT
1 TT
13634523 GAAATTATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (17 bp):
TTATTTTTTATATTTTT
Found at i:13641317 original size:65 final size:66
Alignment explanation
Indices: 13641212--13641336 Score: 234
Period size: 65 Copynumber: 1.9 Consensus size: 66
13641202 CATTTCAGAG
*
13641212 AGCACACTCCCGTGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
1 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
13641277 T
66 T
13641278 AGCACACTCCCGCGAACC-CATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
13641337 TAATAAAAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 41 0.71
66 17 0.29
ACGTcount: A:0.26, C:0.37, G:0.18, T:0.18
Consensus pattern (66 bp):
AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
T
Found at i:13641550 original size:57 final size:60
Alignment explanation
Indices: 13641457--13641604 Score: 205
Period size: 57 Copynumber: 2.5 Consensus size: 60
13641447 ACCTTAATTC
* * *
13641457 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
13641515 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATA
*
13641576 GGATCACGCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
13641605 ACCGTCAATT
Statistics
Matches: 79, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
56 6 0.08
57 45 0.57
60 1 0.01
61 1 0.01
62 20 0.25
63 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
Found at i:13649228 original size:4 final size:4
Alignment explanation
Indices: 13649221--13649253 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
13649211 ACGTACGTAC
13649221 GTAT GTAT GTAT GTAT GTAT GTAT GTAT -TAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
13649254 GGTTTTACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
GTAT
Found at i:13654126 original size:21 final size:22
Alignment explanation
Indices: 13654097--13654139 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
13654087 TTATCTTTTC
*
13654097 TAAAGTTAAAAGTCAAAACTAT
1 TAAAGTTAAAAGGCAAAACTAT
13654119 TAAA-TTAAAAGGCAAAACTAT
1 TAAAGTTAAAAGGCAAAACTAT
13654140 GTCGTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (22 bp):
TAAAGTTAAAAGGCAAAACTAT
Found at i:13654625 original size:5 final size:5
Alignment explanation
Indices: 13654617--13654660 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
13654607 TTTGATAAAA
13654617 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
13654661 AGGGCCTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:13666947 original size:22 final size:23
Alignment explanation
Indices: 13666898--13666953 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
13666888 CCGTTTTCTA
* *
13666898 ATTAAAATTAAAATTATATTTTT
1 ATTAAAATTAAAACTATATTGTT
13666921 ATTAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
13666943 ATTAAAATTAA
1 ATTAAAATTAA
13666954 TTGTTATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:13666948 original size:16 final size:16
Alignment explanation
Indices: 13666927--13666983 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
13666917 TTTTATTAAA
*
13666927 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
13666943 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
13666959 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
13666975 ATTAAAATT
1 ATTAAAATT
13666984 GTATCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:13667135 original size:93 final size:93
Alignment explanation
Indices: 13667029--13667211 Score: 330
Period size: 93 Copynumber: 2.0 Consensus size: 93
13667019 TTGTAAAATT
13667029 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATTA
1 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATTA
*
13667094 TATCAAATTATTAATTATTAATTGTTAC
66 TATCAAATTATTAATTACTAATTGTTAC
* *
13667122 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAGTTGTTAGTAAAATTATCAAATTA
1 TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATTA
*
13667187 TATCAAATTATTAATTGCTAATTGT
66 TATCAAATTATTAATTACTAATTGT
13667212 ATTAATTGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 86 1.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (93 bp):
TAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAAATTA
TATCAAATTATTAATTACTAATTGTTAC
Found at i:13678322 original size:15 final size:14
Alignment explanation
Indices: 13678294--13678320 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13678284 CGTGTCTCTT
13678294 TTTTTAAATATTTA
1 TTTTTAAATATTTA
13678308 TTTTTAAATATTT
1 TTTTTAAATATTT
13678321 TACTATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATATTTA
Found at i:13685245 original size:10 final size:11
Alignment explanation
Indices: 13685216--13685249 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13685206 CCTGAATTAC
*
13685216 AACTGAAAAAT
1 AACTAAAAAAT
*
13685227 CACTAAAAAAT
1 AACTAAAAAAT
13685238 AACTAAAAAAT
1 AACTAAAAAAT
13685249 A
1 A
13685250 GGAACAAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (11 bp):
AACTAAAAAAT
Found at i:13689503 original size:25 final size:25
Alignment explanation
Indices: 13689466--13689550 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
13689456 CGGACACACC
* * *
13689466 ACAGCTCGTATGAGCTTCTCGTTTT
1 ACAGCTCGGATGAGCTTCCCATTTT
* *
13689491 ACAGCTCGCATGAGCTTCCCATTAT
1 ACAGCTCGGATGAGCTTCCCATTTT
13689516 ACAGCTCGGATGAGCTTCCCATTATT
1 ACAGCTCGGATGAGCTTCCCATT-TT
13689542 -CAGCTCGGA
1 ACAGCTCGGA
13689551 AGAGATTCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 52 0.98
26 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (25 bp):
ACAGCTCGGATGAGCTTCCCATTTT
Found at i:13692679 original size:12 final size:13
Alignment explanation
Indices: 13692640--13692682 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
13692630 TTTTTCTCTC
*
13692640 TCTTATCTTTTCTTT
1 TCTT-TCTTTTC-CT
13692655 TCTTTCTTTTCCT
1 TCTTTCTTTTCCT
13692668 TCTTTC-TTTCCT
1 TCTTTCTTTTCCT
13692680 TCT
1 TCT
13692683 CTCCTGCTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 7 0.26
15 4 0.15
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (13 bp):
TCTTTCTTTTCCT
Found at i:13694783 original size:50 final size:50
Alignment explanation
Indices: 13694724--13694825 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
13694714 AGTTATTTAT
13694724 AGGCAAAGGTGTCAACTTGCAGTCTAATTTTTTAGAAGGTTATAATTACC
1 AGGCAAAGGTGTCAACTTGCAGTCTAATTTTTTAGAAGGTTATAATTACC
13694774 AGGCAAAGGTGTCAACTTGCAGTCTAATTTTTTAGAAGGTTATAATTACC
1 AGGCAAAGGTGTCAACTTGCAGTCTAATTTTTTAGAAGGTTATAATTACC
13694824 AG
1 AG
13694826 TAGGAAGAGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (50 bp):
AGGCAAAGGTGTCAACTTGCAGTCTAATTTTTTAGAAGGTTATAATTACC
Found at i:13695226 original size:10 final size:11
Alignment explanation
Indices: 13695170--13695255 Score: 57
Period size: 11 Copynumber: 7.7 Consensus size: 11
13695160 ATATCCAAAC
*
13695170 AATAATAACAA
1 AATAGTAACAA
*
13695181 AATAGTATCAA
1 AATAGTAACAA
* * *
13695192 CATAAT-ATAA
1 AATAGTAACAA
13695202 AATAGTAACAA
1 AATAGTAACAA
*
13695213 AATAGTGAAAAA
1 AATAGT-AACAA
* *
13695225 TAATAATAAGAA
1 -AATAGTAACAA
* *
13695237 AATAGCAAAAA
1 AATAGTAACAA
13695248 AATAGTAA
1 AATAGTAA
13695256 TAATTTTTTT
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
10 6 0.11
11 37 0.66
12 8 0.14
13 5 0.09
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (11 bp):
AATAGTAACAA
Found at i:13698716 original size:6 final size:6
Alignment explanation
Indices: 13698705--13698733 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13698695 CAATACATTA
13698705 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
13698734 AGGGCTAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:13699574 original size:18 final size:16
Alignment explanation
Indices: 13699515--13699575 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
13699505 TAATTTATCA
13699515 ATTATATTAATAATTTT
1 ATTAT-TTAATAATTTT
**
13699532 ACAGATTT-ATAATTTT
1 A-TTATTTAATAATTTT
*
13699548 ATTAATTAATAATATTGT
1 ATTATTTAATAAT-TT-T
13699566 ATTATTTAAT
1 ATTATTTAAT
13699576 TACTTCTGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 3 0.09
16 14 0.41
17 5 0.15
18 12 0.35
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTATTTAATAATTTT
Found at i:13716527 original size:31 final size:31
Alignment explanation
Indices: 13716492--13716553 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13716482 ATTGAATTAA
13716492 AATTTAACAATAAAAATATTAAAACATATGC
1 AATTTAACAATAAAAATATTAAAACATATGC
13716523 AATTTAACAATAAAAATATTAAAACATATGC
1 AATTTAACAATAAAAATATTAAAACATATGC
13716554 GTGAAATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (31 bp):
AATTTAACAATAAAAATATTAAAACATATGC
Found at i:13724165 original size:36 final size:35
Alignment explanation
Indices: 13724121--13724190 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
13724111 CATTTCACAA
* * *
13724121 TTTTAAGATTACTTTTTAAGTATACTAACCATTATT
1 TTTTAAGATTACATTTTAAGT-TACCAACAATTATT
13724157 TTTTAAGATTACATTTTAAGTTACCAACAATTAT
1 TTTTAAGATTACATTTTAAGTTACCAACAATTAT
13724191 ATTTAAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 11 0.35
36 20 0.65
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (35 bp):
TTTTAAGATTACATTTTAAGTTACCAACAATTATT
Found at i:13734425 original size:18 final size:18
Alignment explanation
Indices: 13734402--13734437 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13734392 ACATAGAAAA
13734402 TGGATATATTACTTTGGT
1 TGGATATATTACTTTGGT
13734420 TGGATATATTACTTTGGT
1 TGGATATATTACTTTGGT
13734438 GTGTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (18 bp):
TGGATATATTACTTTGGT
Found at i:13737314 original size:49 final size:49
Alignment explanation
Indices: 13737257--13737360 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
13737247 TCATGTGTTA
* * * * *
13737257 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACATAATTC
13737306 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACATAATTC
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACATAATTC
13737355 TAATTT
1 TAATTT
13737361 GTTTTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.48
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACATAATTC
Found at i:13738840 original size:17 final size:17
Alignment explanation
Indices: 13738820--13738853 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13738810 AATATTAAGA
13738820 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
13738837 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
13738854 TTAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:13738891 original size:15 final size:13
Alignment explanation
Indices: 13738847--13738908 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 13
13738837 ATTTTATTAA
* *
13738847 ATTATATTTAATA
1 ATTATATTTTATG
*
13738860 ATTATTAATTTA-G
1 ATTA-TATTTTATG
13738873 ATTATATTTTATAG
1 ATTATATTTTAT-G
*
13738887 TATTATATATTATG
1 -ATTATATTTTATG
13738901 ATTATATT
1 ATTATATT
13738909 AAATTCATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 6 0.15
13 15 0.38
14 7 0.18
15 11 0.28
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (13 bp):
ATTATATTTTATG
Found at i:13738903 original size:28 final size:26
Alignment explanation
Indices: 13738847--13738908 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
13738837 ATTTTATTAA
*
13738847 ATTATATTTAATAATTATTAATTTAG
1 ATTATATTTAATAAGTATTAATTTAG
*
13738873 ATTATATTTTAT-AGTATTATATATTATG
1 ATTATATTTAATAAGTATTA-AT-TTA-G
13738901 ATTATATT
1 ATTATATT
13738909 AAATTCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 6 0.19
26 13 0.42
27 3 0.10
28 9 0.29
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (26 bp):
ATTATATTTAATAAGTATTAATTTAG
Found at i:13739022 original size:120 final size:120
Alignment explanation
Indices: 13738751--13739353 Score: 1064
Period size: 120 Copynumber: 5.0 Consensus size: 120
13738741 AAGTAGATTA
*
13738751 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
* *
13738816 AAGAATTTTATTAAATTATATA-TTTTATTAAATTATATTTAATAATTATTAATT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
* *
13738870 TAGATTATATTTTATAGTATTATATATTATGATTATATTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
*
13738935 AAGAATTTTATTAAATTATATATTTTTATTAAATTATAGTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
* *
13738990 TAGATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCACATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
13739055 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
*
13739110 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCACATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
*
13739175 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
** * *
13739230 TAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATTTAAGAATATTTAATACT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
*
13739295 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
13739350 TAAA
1 TAAA
13739354 ATATGATTAA
Statistics
Matches: 467, Mismatches: 16, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
119 84 0.18
120 383 0.82
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
Found at i:13745193 original size:13 final size:13
Alignment explanation
Indices: 13745175--13745200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13745165 CTCATGGATA
13745175 TCTCTTCTTTTTT
1 TCTCTTCTTTTTT
13745188 TCTCTTCTTTTTT
1 TCTCTTCTTTTTT
13745201 CCTTAGATAT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TCTCTTCTTTTTT
Done.