Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 13 of 128
Found at i:3871706 original size:32 final size:32
Alignment explanation
Indices: 3871665--3871852 Score: 243
Period size: 32 Copynumber: 5.9 Consensus size: 32
3871655 GCTGCGATGC
* *
3871665 TACTGATGGCTTTGTGTCGATCATAATATCGT
1 TACTGATGGCTTTGTGCCGATCATATTATCGT
* *
3871697 TACTGATGGCTTTGTACCGATCATATTCTCGT
1 TACTGATGGCTTTGTGCCGATCATATTATCGT
3871729 TACTGATGGCTTTGTGCCGATCATATTATCGT
1 TACTGATGGCTTTGTGCCGATCATATTATCGT
* * *
3871761 TACTGATGGCTTTGTACCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTATCGT
* * * *
3871793 TACTAATGGCTGTGTGCCGATCATATCA-CTGC
1 TACTGATGGCTTTGTGCCGATCATATTATC-GT
* *
3871825 TACTGATGACTTTGTGCCAATCATATTA
1 TACTGATGGCTTTGTGCCGATCATATTA
3871853 CTGTACTTAT
Statistics
Matches: 135, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
31 1 0.01
32 134 0.99
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTATCGT
Found at i:3876006 original size:20 final size:21
Alignment explanation
Indices: 3875977--3876027 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
3875967 TTACCTTAGA
3875977 TGAT-GAAAAACCT-AACGTT
1 TGATCGAAAAACCTGAACGTT
3875996 TGATCGAAAAA-CTGAACGTT
1 TGATCGAAAAACCTGAACGTT
3876016 TGATC-AAAAACC
1 TGATCGAAAAACC
3876028 CAAAAGACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (21 bp):
TGATCGAAAAACCTGAACGTT
Found at i:3884088 original size:42 final size:43
Alignment explanation
Indices: 3884011--3884092 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
3884001 TCTTACATGT
* *
3884011 AATCAAATATCGATGTCACTATCCCAGACAGGGTCTTACACAA
1 AATCAAATATCGATGTCAATATCCCAAACAGGGTCTTACACAA
* * *
3884054 AATCATATAT-GATGTCAATGTCCCAAACATGGTCTTACA
1 AATCAAATATCGATGTCAATATCCCAAACAGGGTCTTACA
3884093 TGTAAATCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 25 0.74
43 9 0.26
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (43 bp):
AATCAAATATCGATGTCAATATCCCAAACAGGGTCTTACACAA
Found at i:3886795 original size:18 final size:20
Alignment explanation
Indices: 3886772--3886831 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
3886762 ATATATATTT
3886772 ATAATTTGT-ACTTTTT-AA
1 ATAATTTGTAACTTTTTAAA
* *
3886790 ATAATTTTTAATTTTTTAAA
1 ATAATTTGTAACTTTTTAAA
*
3886810 ATAATTTATATA-TTTTTAAA
1 ATAATTTGTA-ACTTTTTAAA
3886830 AT
1 AT
3886832 TTTTAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 8 0.22
19 6 0.17
20 21 0.58
21 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
ATAATTTGTAACTTTTTAAA
Found at i:3886811 original size:20 final size:20
Alignment explanation
Indices: 3886783--3886831 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3886773 TAATTTGTAC
*
3886783 TTTTT-AAATAATTTTTA-A
1 TTTTTAAAATAATTTATATA
3886801 TTTTTTAAAATAATTTATATA
1 -TTTTTAAAATAATTTATATA
3886822 TTTTTAAAAT
1 TTTTTAAAAT
3886832 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATAATTTATATA
Found at i:3886834 original size:8 final size:9
Alignment explanation
Indices: 3886744--3886851 Score: 60
Period size: 9 Copynumber: 11.4 Consensus size: 9
3886734 NNNNNTAATT
3886744 AATTTTTAA
1 AATTTTTAA
3886753 AATTTTATAA
1 AATTTT-TAA
* *
3886763 TATATATTTAT
1 -A-ATTTTTAA
*
3886774 AATTTGT--
1 AATTTTTAA
*
3886781 ACTTTTTAAA
1 AATTTTT-AA
3886791 TAATTTTT-A
1 -AATTTTTAA
*
3886800 ATTTTTTAA
1 AATTTTTAA
*
3886809 AATAATTTATA
1 AAT-TTTTA-A
*
3886820 TATTTTTAA
1 AATTTTTAA
3886829 AATTTTTAA
1 AATTTTTAA
3886838 AATTTTTAGA
1 AATTTTTA-A
3886848 AATT
1 AATT
3886852 AATTACCTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
7 5 0.07
8 6 0.08
9 31 0.41
10 17 0.23
11 12 0.16
12 4 0.05
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (9 bp):
AATTTTTAA
Found at i:3890266 original size:18 final size:19
Alignment explanation
Indices: 3890231--3890266 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3890221 GTGTATTGAG
3890231 TTTAAATCTTATTATATAT
1 TTTAAATCTTATTATATAT
*
3890250 TTTAAATTTTA-TATATA
1 TTTAAATCTTATTATATA
3890267 ATTATAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTAAATCTTATTATATAT
Found at i:3900639 original size:30 final size:32
Alignment explanation
Indices: 3900592--3900652 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
3900582 TTTTAGGGGC
3900592 TAAAATCTTTATAATTTTTAAAAGA-TTAAAT
1 TAAAATCTTTATAATTTTTAAAAGAGTTAAAT
* *
3900623 TAAAAT-TTTATTATTTTTAGAAGAGTTAAA
1 TAAAATCTTTATAATTTTTAAAAGAGTTAAA
3900653 AGGACAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (32 bp):
TAAAATCTTTATAATTTTTAAAAGAGTTAAAT
Found at i:3900699 original size:15 final size:15
Alignment explanation
Indices: 3900679--3900708 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3900669 TATTAATTTA
*
3900679 AAAATTTTAAAAATT
1 AAAATTATAAAAATT
3900694 AAAATTATAAAAATT
1 AAAATTATAAAAATT
3900709 CCATTCCCGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTATAAAAATT
Found at i:3901561 original size:79 final size:79
Alignment explanation
Indices: 3901474--3901633 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 79
3901464 GATGAATTAA
*
3901474 GGGGATTATTATGGTGGCATTGTTATCCTGAAGATTTTCATCATATTGCTAACTTTAACCAATTA
1 GGGGATTATTATCGTGGCATTGTTATCCTGAAGATTTTCATCATATTGCTAACTTTAACCAATTA
3901539 GCTTAAAAATAAAG
66 GCTTAAAAATAAAG
3901553 GGGGATTATTATCGTGGCATTGTTATCCTGAAGATTTTCATCATATTGCTAACTTTAACCAATTA
1 GGGGATTATTATCGTGGCATTGTTATCCTGAAGATTTTCATCATATTGCTAACTTTAACCAATTA
3901618 GCTTAAAAATAAAG
66 GCTTAAAAATAAAG
3901632 GG
1 GG
3901634 TCTATAGTAG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (79 bp):
GGGGATTATTATCGTGGCATTGTTATCCTGAAGATTTTCATCATATTGCTAACTTTAACCAATTA
GCTTAAAAATAAAG
Found at i:3903998 original size:38 final size:37
Alignment explanation
Indices: 3903955--3904088 Score: 151
Period size: 38 Copynumber: 3.5 Consensus size: 37
3903945 ACTAAGCATG
3903955 CTAGGCACAAAGCCTAAATAACACTGACACAAAGCCTA
1 CTAGGCACAAAGCCTAAATAACAC-GACACAAAGCCTA
* * *
3903993 TTAGGCACAAAGCCTAAATAACACCGGCACTAAGCCTA
1 CTAGGCACAAAGCCTAAATAACA-CGACACAAAGCCTA
* * * * *
3904031 CTAGGAATAAAGCCTGAATAACACCAGCACAAAGCCTG
1 CTAGGCACAAAGCCTAAATAACACGA-CACAAAGCCTA
* *
3904069 CTAGGCACAAATCCTGAATA
1 CTAGGCACAAAGCCTAAATA
3904089 TCAATATAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 78 0.98
39 1 0.01
ACGTcount: A:0.42, C:0.28, G:0.16, T:0.15
Consensus pattern (37 bp):
CTAGGCACAAAGCCTAAATAACACGACACAAAGCCTA
Found at i:3904074 original size:76 final size:76
Alignment explanation
Indices: 3903937--3904088 Score: 189
Period size: 76 Copynumber: 2.0 Consensus size: 76
3903927 ACTTTTTAAT
* * * * *
3903937 ACACTGGCACTAAGCATGCTAGGCACAAAGCCTAAATAACACTGACACAAAGCCTATTAGGCACA
1 ACACCGGCACTAAGCATACTAGGAACAAAGCCTAAATAACACAGACACAAAGCCTACTAGGCACA
3904002 AAGCCTAAATA
66 AAGCCTAAATA
* * * *
3904013 ACACCGGCACTAAGCCTACTAGGAATAAAGCCTGAATAACACCAG-CACAAAGCCTGCTAGGCAC
1 ACACCGGCACTAAGCATACTAGGAACAAAGCCTAAATAACA-CAGACACAAAGCCTACTAGGCAC
* *
3904077 AAATCCTGAATA
65 AAAGCCTAAATA
3904089 TCAATATAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
76 62 0.97
77 2 0.03
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.15
Consensus pattern (76 bp):
ACACCGGCACTAAGCATACTAGGAACAAAGCCTAAATAACACAGACACAAAGCCTACTAGGCACA
AAGCCTAAATA
Found at i:3908381 original size:12 final size:12
Alignment explanation
Indices: 3908364--3908394 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3908354 AAGTGTTGAA
3908364 ATAGTTCAACAC
1 ATAGTTCAACAC
*
3908376 ATAGTTCAACGC
1 ATAGTTCAACAC
3908388 ATAGTTC
1 ATAGTTC
3908395 TTATTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (12 bp):
ATAGTTCAACAC
Found at i:3917475 original size:27 final size:28
Alignment explanation
Indices: 3917384--3917502 Score: 116
Period size: 28 Copynumber: 4.3 Consensus size: 28
3917374 GAGGTGTTAC
* * *
3917384 AGATAGTCCATACAGGCACTTGCTTG-A
1 AGATAGTCCATGCAGACAATTGCTTGAA
** * ** *
3917411 AGAATAGTCTTTCCAGACTCTTTCTTGAA
1 AG-ATAGTCCATGCAGACAATTGCTTGAA
*
3917440 AGATAGTCCATGCGGACAATTGCTTGAA
1 AGATAGTCCATGCAGACAATTGCTTGAA
*
3917468 A-ATAGTCCATGCAGACACTTGCTTGAA
1 AGATAGTCCATGCAGACAATTGCTTGAA
3917495 AGATAGTC
1 AGATAGTC
3917503 GGTAAGGACT
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
27 27 0.36
28 44 0.59
29 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (28 bp):
AGATAGTCCATGCAGACAATTGCTTGAA
Found at i:3917496 original size:55 final size:56
Alignment explanation
Indices: 3917384--3917502 Score: 152
Period size: 55 Copynumber: 2.1 Consensus size: 56
3917374 GAGGTGTTAC
* ** * *
3917384 AGATAGTCCATACAGGCACTTGCTTGAAGAATAGTCTTTCCAGACTCTTTCTTGAA
1 AGATAGTCCATACAGGCAATTGCTTGAAGAATAGTCCATCCAGACACTTGCTTGAA
* *
3917440 AGATAGTCCATGC-GGACAATTGCTTGAA-AATAGTCCATGCAGACACTTGCTTGAA
1 AGATAGTCCATACAGG-CAATTGCTTGAAGAATAGTCCATCCAGACACTTGCTTGAA
3917495 AGATAGTC
1 AGATAGTC
3917503 GGTAAGGACT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
55 32 0.58
56 23 0.42
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (56 bp):
AGATAGTCCATACAGGCAATTGCTTGAAGAATAGTCCATCCAGACACTTGCTTGAA
Found at i:3917884 original size:17 final size:17
Alignment explanation
Indices: 3917854--3917887 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3917844 TAGCATCATG
*
3917854 TTTCTCTTCTCTTTTCT
1 TTTCTCTTCCCTTTTCT
*
3917871 TTTCTTTTCCCTTTTCT
1 TTTCTCTTCCCTTTTCT
3917888 CCCTTGCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCTCTTCCCTTTTCT
Found at i:3926183 original size:23 final size:23
Alignment explanation
Indices: 3926156--3926203 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
3926146 TTATGTCACC
3926156 CCACACTTTATTTTGCACATTGT
1 CCACACTTTATTTTGCACATTGT
3926179 CCACACTTTATTTTGCACATTGT
1 CCACACTTTATTTTGCACATTGT
3926202 CC
1 CC
3926204 CCAATGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.42
Consensus pattern (23 bp):
CCACACTTTATTTTGCACATTGT
Found at i:3926798 original size:40 final size:40
Alignment explanation
Indices: 3926754--3926830 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
3926744 GTTTGGAAAA
*
3926754 AAAACGCCACTAAAAATCAAGCATTAGTGGCGCTTTTATC
1 AAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTATC
** ** *
3926794 AAAACGCTGCTAAAGGTCGAGCATTAGCGGCGCTTTT
1 AAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT
3926831 TGAAAAATGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (40 bp):
AAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTATC
Found at i:3926984 original size:41 final size:41
Alignment explanation
Indices: 3926923--3927079 Score: 242
Period size: 41 Copynumber: 3.8 Consensus size: 41
3926913 TGAGTTTTTG
*
3926923 GGGCCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
*
3926964 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
3927005 TGGCCTTTATCGGAGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
3927046 TGGCCTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GGGCC-TTTAGCGGCGTTTTTGAAGAAGCGCCGC
3927080 AAAAACATTT
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 81 0.76
42 25 0.24
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:3927561 original size:247 final size:247
Alignment explanation
Indices: 3927118--3927628 Score: 995
Period size: 247 Copynumber: 2.1 Consensus size: 247
3927108 TTAATTGGTT
**
3927118 TATTTATATTAATTAAAGTTTAATTTATTTTTAATTGAATATTTCTTAAAAATAGATAAATTTGA
1 TATTTA-ATTAATTATCGTTTAATTTATTTTTAATTGAATATTTCTTAAAAATAGATAAATTTGA
3927183 AATAATGACACGTAGAAATAATTTGAAATAAAAAACATAAAAAATATTTGTTAAAAATAGAAAAA
65 AATAATGACACGTAGAAATAATTTGAAATAAAAAACATAAAAAATATTTGTTAAAAATAGAAAAA
3927248 TTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATTACTGATTGTTTTTTAATT
130 TTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATTACTGATTGTTTTTTAATT
3927313 TATATATTAAATAACTTCTTATAATCGTAAAAGAGATAGCGTTAATTTTAAAA
195 TATATATTAAATAACTTCTTATAATCGTAAAAGAGATAGCGTTAATTTTAAAA
3927366 TATTTAATTAATTATCGTTTAATTTATTTTTAATTGAATATTTCTTAAAAATAGATAAATTTGAA
1 TATTTAATTAATTATCGTTTAATTTATTTTTAATTGAATATTTCTTAAAAATAGATAAATTTGAA
3927431 ATAATGACACGTAGAAATAATTTGAAATAAAAAACATAAAAAATATTTGTTAAAAATAGAAAAAT
66 ATAATGACACGTAGAAATAATTTGAAATAAAAAACATAAAAAATATTTGTTAAAAATAGAAAAAT
3927496 TAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATTACTGATTGTTTTTTAATTT
131 TAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATTACTGATTGTTTTTTAATTT
3927561 ATATATTAAATAACTTCTTATAATCGTAAAAGAGATAGCGTTAATTTTAAAA
196 ATATATTAAATAACTTCTTATAATCGTAAAAGAGATAGCGTTAATTTTAAAA
3927613 TATTTAATTAATTATC
1 TATTTAATTAATTATC
3927629 ATTATAGTTT
Statistics
Matches: 261, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
247 255 0.98
248 6 0.02
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (247 bp):
TATTTAATTAATTATCGTTTAATTTATTTTTAATTGAATATTTCTTAAAAATAGATAAATTTGAA
ATAATGACACGTAGAAATAATTTGAAATAAAAAACATAAAAAATATTTGTTAAAAATAGAAAAAT
TAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATTACTGATTGTTTTTTAATTT
ATATATTAAATAACTTCTTATAATCGTAAAAGAGATAGCGTTAATTTTAAAA
Found at i:3927784 original size:21 final size:20
Alignment explanation
Indices: 3927737--3927797 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
3927727 GGGTTGGGAT
* *
3927737 TTAAGGTTTAGGGGTTAGGG
1 TTAAGGGTTAGAGGTTAGGG
* *
3927757 GTCAGGGTTAGAGGTTAGAGG
1 TTAAGGGTTAGAGGTTAG-GG
3927778 TTAAGGGTTA-AGAGTTAGGG
1 TTAAGGGTTAGAG-GTTAGGG
3927798 ATTTAGGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.25, C:0.02, G:0.44, T:0.30
Consensus pattern (20 bp):
TTAAGGGTTAGAGGTTAGGG
Found at i:3927809 original size:14 final size:14
Alignment explanation
Indices: 3927792--3927818 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3927782 GGGTTAAGAG
3927792 TTAGGGATTTAGGT
1 TTAGGGATTTAGGT
3927806 TTAGGGATTTAGG
1 TTAGGGATTTAGG
3927819 GGTCAAGTTA
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:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (14 bp):
TTAGGGATTTAGGT
Found at i:3927963 original size:27 final size:26
Alignment explanation
Indices: 3927932--3928013 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
3927922 TATATATTAA
3927932 ATAATTTCTTATATAATTGTAAAAGAG
1 ATAATTT-TTATATAATTGTAAAAGAG
* * ** *
3927959 ATAATTTTT-TAT--TTTTATATTAA
1 ATAATTTTTATATAATTGTAAAAGAG
3927982 ATAATTTATTATATAATTGTAAAAGAG
1 ATAATTT-TTATATAATTGTAAAAGAG
3928009 ATAAT
1 ATAAT
3928014 ATAAATTTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
23 13 0.32
24 2 0.05
25 6 0.15
26 2 0.05
27 18 0.44
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (26 bp):
ATAATTTTTATATAATTGTAAAAGAG
Found at i:3927987 original size:50 final size:51
Alignment explanation
Indices: 3927911--3928013 Score: 181
Period size: 50 Copynumber: 2.0 Consensus size: 51
3927901 ATTAATTAGT
*
3927911 ATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATA
1 ATTTTTTAATTTATATATTAAATAATTTATTATATAATTGTAAAAGAGATA
*
3927962 ATTTTTT-ATTTTTATATTAAATAATTTATTATATAATTGTAAAAGAGATA
1 ATTTTTTAATTTATATATTAAATAATTTATTATATAATTGTAAAAGAGATA
3928012 AT
1 AT
3928014 ATAAATTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 43 0.86
51 7 0.14
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (51 bp):
ATTTTTTAATTTATATATTAAATAATTTATTATATAATTGTAAAAGAGATA
Found at i:3931899 original size:207 final size:207
Alignment explanation
Indices: 3931544--3931959 Score: 805
Period size: 207 Copynumber: 2.0 Consensus size: 207
3931534 CAAACATCGC
*
3931544 TTGGGAAGGTTTCGTTATTGGTTCCTAACGGTGAGTTTTATATCGACCATATATCAGTTTGTAGC
1 TTGGGAAGGTTTCGTTATTGGTTCCTAACGGTGAGTTTTATATCGACCATATATCAGTGTGTAGC
*
3931609 TTTCCGTGTTTAAGAAATAAATTCAATTAGTTACAGATTATATGTTGTTCTTTGAATCTGGTCAA
66 TTTCCGTATTTAAGAAATAAATTCAATTAGTTACAGATTATATGTTGTTCTTTGAATCTGGTCAA
3931674 TGAAGTTAATATAAACCATGCTAAGCAGTGGAATACATTCAGCTAGCCTTGTGCAGACCCTTTAA
131 TGAAGTTAATATAAACCATGCTAAGCAGTGGAATACATTCAGCTAGCCTTGTGCAGACCCTTTAA
3931739 CCTTCTTTTTCT
196 CCTTCTTTTTCT
3931751 TTGGGAAGGTTTCGTTATTGGTTCCTAACGGTGAGTTTTATATCGACCATATATCAGTGTGTAGC
1 TTGGGAAGGTTTCGTTATTGGTTCCTAACGGTGAGTTTTATATCGACCATATATCAGTGTGTAGC
*
3931816 TTTCCGTATTTAAGAAATAAATTCAGTTAGTTACAGATTATATGTTGTTCTTTGAATCTGGTCAA
66 TTTCCGTATTTAAGAAATAAATTCAATTAGTTACAGATTATATGTTGTTCTTTGAATCTGGTCAA
3931881 TGAAGTTAATATAAACCATGCTAAGCAGTGGAATACATTCAGCTAGCCTTGTGCAGACCCTTTAA
131 TGAAGTTAATATAAACCATGCTAAGCAGTGGAATACATTCAGCTAGCCTTGTGCAGACCCTTTAA
3931946 CCTTCTTTTTCT
196 CCTTCTTTTTCT
3931958 TT
1 TT
3931960 TTTACTTTGT
Statistics
Matches: 206, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 206 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (207 bp):
TTGGGAAGGTTTCGTTATTGGTTCCTAACGGTGAGTTTTATATCGACCATATATCAGTGTGTAGC
TTTCCGTATTTAAGAAATAAATTCAATTAGTTACAGATTATATGTTGTTCTTTGAATCTGGTCAA
TGAAGTTAATATAAACCATGCTAAGCAGTGGAATACATTCAGCTAGCCTTGTGCAGACCCTTTAA
CCTTCTTTTTCT
Found at i:3933659 original size:43 final size:43
Alignment explanation
Indices: 3933538--3933840 Score: 351
Period size: 43 Copynumber: 7.1 Consensus size: 43
3933528 AATATTTTTT
* * * * *
3933538 TAAAGGTTAT-GTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * ** *
3933580 TAAAGGT-TTGATCTATAGCGGCGTTGGTGACAAAAAGCACCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTG-GGAAAAGCGCCGC
* *
3933623 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
3933666 TAAAGGTCATGGTCTTTAGCGACGCTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
3933709 TAAAGGTCGTGGTCTTTAACGGCGTTTGTGGG-AAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
3933751 TAAAGGTTATGGTCTTTCGCGGCGTTTGTGGGAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
3933794 TAAAGGTCATGGTTTTTAGCGGCGTTTCTTGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
3933837 TAAA
1 TAAA
3933841 AGCCTGTTTT
Statistics
Matches: 219, Mismatches: 38, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.00
42 59 0.27
43 142 0.65
44 17 0.08
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:3944475 original size:58 final size:58
Alignment explanation
Indices: 3944369--3944520 Score: 180
Period size: 58 Copynumber: 2.6 Consensus size: 58
3944359 AATAGAGGAA
* * * *
3944369 TTTGTGGCTATCTCTG-TAAAAGAACACCTTTGTGGCTACCTCTATTAAAGGGACACC
1 TTTGTGGCTATCTCTGTTAATAGAACGCCTTTGTGGCTACCTCTATTAAAAGAACACC
* * * * *
3944426 TTTGTGGCTATCTCTGTTAATGGAACGCCTTTGTGGCTATCTTTCTTAAAAGAACACT
1 TTTGTGGCTATCTCTGTTAATAGAACGCCTTTGTGGCTACCTCTATTAAAAGAACACC
* * * *
3944484 TTTATGGCTATCTATGTTAATTGAATGCCTTTGTGGC
1 TTTGTGGCTATCTCTGTTAATAGAACGCCTTTGTGGC
3944521 AATACTCTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
57 16 0.20
58 65 0.80
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (58 bp):
TTTGTGGCTATCTCTGTTAATAGAACGCCTTTGTGGCTACCTCTATTAAAAGAACACC
Found at i:3944503 original size:29 final size:29
Alignment explanation
Indices: 3944338--3944503 Score: 165
Period size: 29 Copynumber: 5.8 Consensus size: 29
3944328 TAAAAGTGAG
* **
3944338 CCTTTGTGGATATCTCTGTTAAATAGAGGA
1 CCTTTGTGGCTATCTCTGTTAAA-AGAACA
*
3944368 -ATTTGTGGCTATCTCTG-TAAAAGAACA
1 CCTTTGTGGCTATCTCTGTTAAAAGAACA
* * * *
3944395 CCTTTGTGGCTACCTCTATTAAAGGGACA
1 CCTTTGTGGCTATCTCTGTTAAAAGAACA
** *
3944424 CCTTTGTGGCTATCTCTGTTAATGGAACG
1 CCTTTGTGGCTATCTCTGTTAAAAGAACA
* *
3944453 CCTTTGTGGCTATCTTTCTTAAAAGAACA
1 CCTTTGTGGCTATCTCTGTTAAAAGAACA
* * *
3944482 CTTTTATGGCTATCTATGTTAA
1 CCTTTGTGGCTATCTCTGTTAA
3944504 TTGAATGCCT
Statistics
Matches: 111, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
27 4 0.04
28 18 0.16
29 89 0.80
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (29 bp):
CCTTTGTGGCTATCTCTGTTAAAAGAACA
Found at i:3965504 original size:26 final size:25
Alignment explanation
Indices: 3965475--3965556 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 25
3965465 TTTTATCATC
*
3965475 ATTTATTTTTAGTTTTTATATATATT
1 ATTTATTTTAAGTTTTT-TATATATT
* *
3965501 ATTTATTTTAAGTTGCTTTACATATT
1 ATTTATTTTAAGTT-TTTTATATATT
* *
3965527 ATTTATTTAAATTTCTTTTATATATT
1 ATTTATTTTAAGTT-TTTTATATATT
3965553 ATTT
1 ATTT
3965557 TGTTTCGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 45 0.96
27 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (25 bp):
ATTTATTTTAAGTTTTTTATATATT
Found at i:3965965 original size:23 final size:23
Alignment explanation
Indices: 3965912--3965975 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
3965902 ACTAATCCTT
*
3965912 TCTCAAATTTCCTTT-AAATTTCC
1 TCTCAAATTTTCTTTCAAA-TTCC
3965935 TCTC-AATTTTCTTTCAAATTCC
1 TCTCAAATTTTCTTTCAAATTCC
*
3965957 T-TCCAAA-TTTCTCTCAAAT
1 TCT-CAAATTTTCTTTCAAAT
3965976 CCATATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 1 0.03
22 26 0.72
23 9 0.25
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (23 bp):
TCTCAAATTTTCTTTCAAATTCC
Found at i:3965974 original size:11 final size:11
Alignment explanation
Indices: 3965912--3965975 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
3965902 ACTAATCCTT
3965912 TCTCAAATTTC
1 TCTCAAATTTC
*
3965923 -CTTTAAATTTCC
1 TC-TCAAATTT-C
*
3965935 TCTCAATTTTC
1 TCTCAAATTTC
* *
3965946 TTTCAAATTCC
1 TCTCAAATTTC
3965957 T-TCCAAATTTC
1 TCT-CAAATTTC
3965968 TCTCAAAT
1 TCTCAAAT
3965976 CCATATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
10 2 0.05
11 30 0.73
12 8 0.20
13 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (11 bp):
TCTCAAATTTC
Found at i:3968462 original size:25 final size:24
Alignment explanation
Indices: 3968428--3968611 Score: 174
Period size: 25 Copynumber: 7.9 Consensus size: 24
3968418 TATTTTGATA
3968428 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAA-T
*
3968453 TTATTTGATGTAATAAAATAGAAA
1 TTATTTGATGTAATAAAATAGAAT
** *
3968477 TT-TTTGA-GT--T-ATTTTG-AT
1 TTATTTGATGTAATAAAATAGAAT
3968495 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAA-T
3968521 TTATTTGATGTAATAAAATAGAAT
1 TTATTTGATGTAATAAAATAGAAT
* ** *
3968545 TTTTTTGA-GT--T-ATTTTG-AT
1 TTATTTGATGTAATAAAATAGAAT
3968564 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAA-T
3968590 TTATTTGATGTAATAAAATAGA
1 TTATTTGATGTAATAAAATAGA
3968612 GATTATACGA
Statistics
Matches: 128, Mismatches: 16, Indels: 30
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.01
19 7 0.05
20 16 0.12
21 5 0.04
22 2 0.02
23 9 0.07
24 16 0.12
25 70 0.55
26 2 0.02
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (24 bp):
TTATTTGATGTAATAAAATAGAAT
Found at i:3968610 original size:69 final size:68
Alignment explanation
Indices: 3968384--3968611 Score: 393
Period size: 69 Copynumber: 3.3 Consensus size: 68
3968374 TATTTTGATA
* * **
3968384 TTATTTTATGTAATAAAATAAAAAAAATTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAAT-AGAAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
3968449 AAGT
65 AAGT
3968453 TTATTTGATGTAATAAAATAGAAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
1 TTATTTGATGTAATAAAATAGAAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
3968518 AGT
66 AGT
*
3968521 TTATTTGATGTAATAAAATAGAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATAGAA-ATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
3968586 AAGT
65 AAGT
3968590 TTATTTGATGTAATAAAATAGA
1 TTATTTGATGTAATAAAATAGA
3968612 GATTATACGA
Statistics
Matches: 153, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
68 69 0.45
69 84 0.55
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (68 bp):
TTATTTGATGTAATAAAATAGAAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
AGT
Found at i:3969711 original size:42 final size:43
Alignment explanation
Indices: 3969631--3969790 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 43
3969621 TTTTTTCTAA
*
3969631 AAACGCCACT-AATACCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
3969673 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC-TTTCCCTAA
1 AAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCC-AC
* * * * *
3969716 AAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTTCCAC
1 AAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
*
3969759 AAACGCCACTAAAG-CTCATGACCTTTAGCGGC
1 AAACGCCACTAAAGAC-CAGGACCTTTAGCGGC
3969791 ACCTCTATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 15 0.15
43 82 0.80
44 5 0.05
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:3969751 original size:86 final size:85
Alignment explanation
Indices: 3969627--3969855 Score: 234
Period size: 86 Copynumber: 2.7 Consensus size: 85
3969617 CGTTTTTTTT
* * * * *
3969627 CTAAAAACGCCACTAATACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC-CA
1 CTAAAAACGCCACTAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAG-CTCA
3969691 GGACCTTTAGCGGCGCTTTCC
65 GGACCTTTAGCGGCGCTTTCC
* *
3969712 CTAAAAACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTTCCACAAACGCCACTAAAGCTCA
1 CTAAAAACGCCACT-AAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAGCTCA
* * * *
3969777 TGACCTTTAGCGGCAC-CTCTA
65 GGACCTTTAGCGGCGCTTTC-C
* * * * *
3969798 TTAAAAACGCCGCT-ATAACATTA-ACTTTTAGCGACGCTTTT-TCACAAACGCCACTAAA
1 CTAAAAACGCCACTAAGAACA--AGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAA
3969856 AGCATAACTT
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
84 21 0.17
85 33 0.27
86 70 0.56
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (85 bp):
CTAAAAACGCCACTAAGAACAAGACCTTTAGCGACGCTTTTCCCACAAACGCCACTAAAGCTCAG
GACCTTTAGCGGCGCTTTCC
Found at i:3972611 original size:32 final size:33
Alignment explanation
Indices: 3972556--3972620 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
3972546 CATTATAAGC
*
3972556 AAAACCCAGAAAACATAACAAATTACAAATAAA
1 AAAACACAGAAAACATAACAAATTACAAATAAA
3972589 AAAACACAGAAAA-ATAACAAATTACAAATAAA
1 AAAACACAGAAAACATAACAAATTACAAATAAA
3972621 CAAATTCCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.69, C:0.15, G:0.03, T:0.12
Consensus pattern (33 bp):
AAAACACAGAAAACATAACAAATTACAAATAAA
Found at i:3974449 original size:14 final size:14
Alignment explanation
Indices: 3974430--3974613 Score: 117
Period size: 14 Copynumber: 12.9 Consensus size: 14
3974420 CTAGTTAATC
3974430 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
3974444 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
3974457 TAAAACCCTAAAACCA
1 T-AAACCCT-AAACCA
*
3974473 TAAACCCTTAA-CA
1 TAAACCCTAAACCA
* *
3974486 AATAACCTCTAAACCT
1 TA-AACC-CTAAACCA
* *
3974502 TAAACCC-CAACCTT
1 TAAACCCTAAACC-A
*
3974516 TAAACCATAAACCA
1 TAAACCCTAAACCA
* *
3974530 TAAACCATAACCCA
1 TAAACCCTAAACCA
*
3974544 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
3974559 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* *
3974571 TGGTAACACCTAAACCT
1 T--AAAC-CCTAAACCA
*
3974588 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
3974602 TATACCCTAAAC
1 TAAACCCTAAAC
3974614 TATAGTGATA
Statistics
Matches: 132, Mismatches: 24, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
12 2 0.02
13 16 0.12
14 63 0.48
15 42 0.32
16 8 0.06
17 1 0.01
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:3974464 original size:8 final size:7
Alignment explanation
Indices: 3974429--3974569 Score: 65
Period size: 7 Copynumber: 19.7 Consensus size: 7
3974419 ACTAGTTAAT
3974429 CTAAACC
1 CTAAACC
3974436 CTAAACC
1 CTAAACC
*
3974443 ATAAA-C
1 CTAAACC
3974449 CTAAACC
1 CTAAACC
3974456 CTAAAACC
1 CT-AAACC
3974464 CTAAAACC
1 CT-AAACC
*
3974472 ATAAACC
1 CTAAACC
*
3974479 CTTAA-C
1 CTAAACC
**
3974485 AAATAACC
1 CTA-AACC
3974493 TCTAAACC
1 -CTAAACC
*
3974501 TTAAACC
1 CTAAACC
*
3974508 C-CAACC
1 CTAAACC
*
3974514 TTTAAACC
1 -CTAAACC
*
3974522 ATAAACC
1 CTAAACC
*
3974529 ATAAACC
1 CTAAACC
*
3974536 AT-AACC
1 CTAAACC
3974542 CATAAACC
1 C-TAAACC
*
3974550 CATAATCC
1 C-TAAACC
*
3974558 ATAAACC
1 CTAAACC
*
3974565 TTAAA
1 CTAAA
3974570 ATGGTAACAC
Statistics
Matches: 104, Mismatches: 21, Indels: 18
0.73 0.15 0.13
Matches are distributed among these distances:
6 14 0.13
7 55 0.53
8 34 0.33
9 1 0.01
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:3974552 original size:22 final size:21
Alignment explanation
Indices: 3974520--3974561 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
3974510 AACCTTTAAA
3974520 CCATAAACCATAAACCATAAC
1 CCATAAACCATAAACCATAAC
*
3974541 CCATAAACCCATAATCCATAA
1 CCATAAA-CCATAAACCATAA
3974562 ACCTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
CCATAAACCATAAACCATAAC
Found at i:3974613 original size:86 final size:86
Alignment explanation
Indices: 3974430--3974613 Score: 193
Period size: 86 Copynumber: 2.1 Consensus size: 86
3974420 CTAGTTAATC
3974430 TAAACCCTAAACCATAAACCTAAACCCTAAAACCCTAAAACCATAAACCCTTAACAAATAACCTC
1 TAAACCCTAAACCATAAACCTAAACCCTAAAACCCTAAAACCATAAACCCTTAACAAATAACCTC
* *
3974495 TAAACCTTAAACCCCAACCTT
66 TAAACCTTAAACCCAAACCTA
* * *
3974516 TAAACCATAAACCATAAACC-ATAACCC-ATAAACCC-ATAATCCATAAA-CCTTAA-AATGGTA
1 TAAACCCTAAACCATAAACCTA-AACCCTA-AAACCCTA-AAACCATAAACCCTTAACAA--ATA
*
3974576 ACAC-CTAAACCTTAAACTCTAAACC-A
61 AC-CTCTAAACCTTAAAC-CCAAACCTA
*
3974602 TATACCCTAAAC
1 TAAACCCTAAAC
3974614 TATAGTGATA
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
84 2 0.02
85 9 0.11
86 66 0.80
87 6 0.07
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (86 bp):
TAAACCCTAAACCATAAACCTAAACCCTAAAACCCTAAAACCATAAACCCTTAACAAATAACCTC
TAAACCTTAAACCCAAACCTA
Found at i:3975881 original size:41 final size:40
Alignment explanation
Indices: 3975829--3976107 Score: 355
Period size: 41 Copynumber: 6.8 Consensus size: 40
3975819 AAAATAGAGA
3975829 ATTAGCGGCGCTACTT-CAAAAACGCCGCTAAAGCCCTGAGT-
1 ATTAGCGGCGCT--TTCCAAAAACGCCGCTAAAGCCCTGA-TC
* * * *
3975870 ATTAGCAGCGCTTCCCCAAAAACGCTGCTAAATCCCTGATC
1 ATTAGCGGCGCTT-TCCAAAAACGCCGCTAAAGCCCTGATC
* *
3975911 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTAATC
1 ATTAGCGGCGCTTT-CCAAAAACGCCGCTAAAGCCCTGATC
*
3975952 ATTAGCGGCGCTTTTCCAAAAACGCCGCTATAGCCCTGATC
1 ATTAGCGGCGC-TTTCCAAAAACGCCGCTAAAGCCCTGATC
*
3975993 ATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCTGATC
1 ATTAGCGGCGCTTT-CCAAAAACGCCGCTAAAGCCCTGATC
* *
3976034 ATTAGCGGCGCTTTCCCAAAAACGACGCTAAAGCCCTGAGC
1 ATTAGCGGCGCTTT-CCAAAAACGCCGCTAAAGCCCTGATC
*
3976075 ATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAA
1 ATTAGCGGCGCTTTC-C-AAAAACGCCGCTAAA
3976108 ACCCCGAAAG
Statistics
Matches: 212, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.00
40 5 0.02
41 190 0.90
42 16 0.08
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (40 bp):
ATTAGCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTGATC
Found at i:3975997 original size:123 final size:123
Alignment explanation
Indices: 3975829--3976107 Score: 400
Period size: 123 Copynumber: 2.3 Consensus size: 123
3975819 AAAATAGAGA
*
3975829 ATTAGCGGCGCTACTT-CAAAAACGCCGCTAAAGCCCTGAGTATTAGCAGCGCTTCCCCAAAAAC
1 ATTAGCGGCGCT-TTTCCAAAAACGCCGCTAAAGCCCTGAGTATTAGCAGCGCTTCCCCAAAAAC
* * * * *
3975893 GCTGCTAAATCCCTGATCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTAATC
65 GCCGCTAAAGCCCTGATCATTAGCGGCGCTTTCCCAAAAACGACGCTAAAGCCCTAAGC
* * *
3975952 ATTAGCGGCGCTTTTCCAAAAACGCCGCTATAGCCCTGA-TCATTAGCGGCGCTTTCCCAAAAAC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGT-ATTAGCAGCGCTTCCCCAAAAAC
* *
3976016 GCCGCTAAAGGCCTGATCATTAGCGGCGCTTTCCCAAAAACGACGCTAAAGCCCTGAGC
65 GCCGCTAAAGCCCTGATCATTAGCGGCGCTTTCCCAAAAACGACGCTAAAGCCCTAAGC
* *
3976075 ATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAA
1 ATTAGCGGCGCTTT-TCCAAAAACGCCGCTAAA
3976108 ACCCCGAAAG
Statistics
Matches: 139, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
122 3 0.02
123 121 0.87
124 15 0.11
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (123 bp):
ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGTATTAGCAGCGCTTCCCCAAAAACG
CCGCTAAAGCCCTGATCATTAGCGGCGCTTTCCCAAAAACGACGCTAAAGCCCTAAGC
Found at i:3976606 original size:125 final size:125
Alignment explanation
Indices: 3976382--3976630 Score: 408
Period size: 125 Copynumber: 2.0 Consensus size: 125
3976372 CAAACATGCT
* * *
3976382 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCTTCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGACGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
* * *
3976447 GAAGCAATTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTCTTCCAGGACCA
66 AAAGCAATTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCA
* *
3976507 ACTGTAGCAAAAGTGCGTCCACGTGGACGCGATTTAACAAATTCTTCTCATAAATCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGACGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
* *
3976572 AAAGCGATTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACC
66 AAAGCAATTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACC
3976631 TAAAAACCTT
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 114 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGACGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
AAAGCAATTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCA
Found at i:3981797 original size:14 final size:15
Alignment explanation
Indices: 3981771--3981803 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3981761 TGCCAAATAG
*
3981771 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
3981786 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
3981800 GGAA
1 GGAA
3981804 AAGCGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:3981899 original size:5 final size:5
Alignment explanation
Indices: 3981891--3981944 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
3981881 CATAAAATAA
3981891 AAAAG AAAAG AAAAG AAAAAG AAAA- AAGAAG AAAAAG AAAAG -AAA-
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AA-AAG -AAAAG AAAAG AAAAG
3981936 AAAAG AAAA
1 AAAAG AAAA
3981945 AAGAGAGCCC
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
4 8 0.19
5 25 0.58
6 8 0.19
7 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:3981909 original size:22 final size:22
Alignment explanation
Indices: 3981884--3981946 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
3981874 AATATTTCAT
*
3981884 AAAATAAAAAAGAAAAGAAAAGA
1 AAAAAAAAAAAGAAAA-AAAAGA
* *
3981907 AAAAGAAAAAAGAAGAAAAAGA
1 AAAAAAAAAAAGAAAAAAAAGA
*
3981929 AAAGAAAAAAAGAAAAAA
1 AAAAAAAAAAAGAAAAAA
3981947 GAGAGCCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 21 0.60
23 14 0.40
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAAAGAAAAAAAAGA
Found at i:3981911 original size:16 final size:16
Alignment explanation
Indices: 3981890--3981948 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
3981880 TCATAAAATA
3981890 AAAAAGAAAAGAAAAG
1 AAAAAGAAAAGAAAAG
3981906 AAAAAGAAAA-AAGAAG
1 AAAAAGAAAAGAA-AAG
3981922 AAAAAGAAAAGAAAA-
1 AAAAAGAAAAGAAAAG
3981937 AAAGAA-AAAAGA
1 AAA-AAGAAAAGA
3981949 GAGCCCAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.28
16 27 0.68
17 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAG
Found at i:3981929 original size:32 final size:29
Alignment explanation
Indices: 3981889--3981948 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
3981879 TTCATAAAAT
3981889 AAAA-AAG-AAAAGAAAAG--AAAAAGAA
1 AAAAGAAGAAAAAGAAAAGAAAAAAAGAA
3981914 AAAAGAAGAAAAAGAAAAGAAAAAAAGAA
1 AAAAGAAGAAAAAGAAAAGAAAAAAAGAA
3981943 AAAAGA
1 AAAAGA
3981949 GAGCCCAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 4 0.13
26 3 0.10
27 10 0.32
29 14 0.45
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (29 bp):
AAAAGAAGAAAAAGAAAAGAAAAAAAGAA
Found at i:3982893 original size:44 final size:43
Alignment explanation
Indices: 3982830--3983307 Score: 225
Period size: 44 Copynumber: 10.6 Consensus size: 43
3982820 CATATCAAAC
*
3982830 CTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAA-T
* *
3982874 CTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGTTA-C-AAT
* * * * *
3982919 CTTATTTCCCTTAAGTTGCAGTGGAACATGTTGAAGCTATTAATTGTAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAG---TT-A---CA-AT
* * * * * *
3982970 CTTATCTCTCTGAAGTTGCAGTAGAGC-AGAT-CA-TATAAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGT-TACAAT
* * * * *
3983011 CTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTAC-AAT
* ** **
3983055 CTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAACATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTA-C-AAT
* * * *
3983100 CTTATTTCCCTGAAATTGTAGTGGA--ATGGATTGAAGCTATAAATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-AG-TTGAAG-T-T--A---CA-AT
* * * ** *
3983151 CTTATCTCCCTGAAGTTACAGTGGATC-AGATCGAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGTTAC-AAT
* * *
3983195 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTA-CAAT
** * *
3983239 CTTATCTCCCAAAAGTTGTAGTGGAGC-AGATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGTTAC-AAT
* **
3983283 CCTATCTCTGTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
3983308 TCGGATTAAA
Statistics
Matches: 323, Mismatches: 78, Indels: 66
0.69 0.17 0.14
Matches are distributed among these distances:
41 23 0.07
42 3 0.01
43 8 0.02
44 154 0.48
45 64 0.20
46 4 0.01
47 2 0.01
48 1 0.00
49 3 0.01
50 4 0.01
51 57 0.18
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGTTACAAT
Found at i:3983125 original size:181 final size:181
Alignment explanation
Indices: 3982816--3983266 Score: 595
Period size: 181 Copynumber: 2.5 Consensus size: 181
3982806 GATGGATTGA
* * *
3982816 AGATCATATCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCT
1 AGATCATATAAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
* * * * *
3982881 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTTAAGTTGCAGTGGAAC
66 CCCTAAAGTTGCAGTGGAGCAAACTGAACATAGCGAATCTTATTTCCCTGAAATTGCAGTGG-A-
* * * *
3982946 AT-G-TTGAAGCTATTAATTGTAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
129 ATGGATTGAAGCTATAAATTGCAGATCTTATCTCCCTGAAGTTACAGTAGAGC
* * * *
3982997 AGATCATATAAAACCTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTTACTAGTCTTATCT
1 AGATCATATAAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
*
3983062 CCCTAAAGTTGCAGTGGAGCAAACTGAACATAGCGAATCTTATTTCCCTGAAATTGTAGTGGAAT
66 CCCTAAAGTTGCAGTGGAGCAAACTGAACATAGCGAATCTTATTTCCCTGAAATTGCAGTGGAAT
* *
3983127 GGATTGAAGCTATAAATTGCAGATCTTATCTCCCTGAAGTTACAGTGGATC
131 GGATTGAAGCTATAAATTGCAGATCTTATCTCCCTGAAGTTACAGTAGAGC
* * *
3983178 AGATCGA-AGCCACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAA-TCT
1 AGATC-ATA--TA-AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGTCT
* *
3983241 TATCTCCCAAAAGTTGTAGTGGAGCA
61 TATCTCCCTAAAGTTGCAGTGGAGCA
3983267 GATTGAAGCT
Statistics
Matches: 235, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
179 2 0.01
180 2 0.01
181 162 0.69
182 1 0.00
183 1 0.00
184 65 0.28
185 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (181 bp):
AGATCATATAAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
CCCTAAAGTTGCAGTGGAGCAAACTGAACATAGCGAATCTTATTTCCCTGAAATTGCAGTGGAAT
GGATTGAAGCTATAAATTGCAGATCTTATCTCCCTGAAGTTACAGTAGAGC
Found at i:3984877 original size:26 final size:26
Alignment explanation
Indices: 3984846--3984930 Score: 118
Period size: 26 Copynumber: 3.3 Consensus size: 26
3984836 TTTTATCATC
*
3984846 ATTTATTTTAAGTTT-TTATATATATT
1 ATTTATTTTAA-TTTCTTTTATATATT
* *
3984872 ATTTATTTTAATTTGTTTTACATATT
1 ATTTATTTTAATTTCTTTTATATATT
*
3984898 ATTTATTTAAATTTCTTTTATATATT
1 ATTTATTTTAATTTCTTTTATATATT
3984924 ATTTATT
1 ATTTATT
3984931 GTAAACTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
25 3 0.06
26 50 0.94
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
ATTTATTTTAATTTCTTTTATATATT
Found at i:3984945 original size:26 final size:25
Alignment explanation
Indices: 3984846--3984947 Score: 87
Period size: 26 Copynumber: 3.9 Consensus size: 25
3984836 TTTTATCATC
* *
3984846 ATTTATTTTAAGTTTTTATATATATT
1 ATTTA-TTTAAATTATTATATATATT
* * * *
3984872 ATTTATTTTAATTTGTTTTACATATT
1 ATTTA-TTTAAATTATTATATATATT
* *
3984898 ATTTATTTAAATTTCTTTTATATATT
1 ATTTATTTAAA-TTATTATATATATT
*
3984924 ATTTATTGTAAACTATTATATATA
1 ATTTATT-TAAATTATTATATATA
3984948 ACTTTCAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
25 5 0.08
26 55 0.86
27 4 0.06
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (25 bp):
ATTTATTTAAATTATTATATATATT
Found at i:3987451 original size:12 final size:13
Alignment explanation
Indices: 3987411--3987457 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 13
3987401 AATGTGTATG
3987411 TATATA-TTAT-A
1 TATATAGTTATAA
3987422 TATAT-GTTAT-A
1 TATATAGTTATAA
3987433 TATATAGTTATAA
1 TATATAGTTATAA
*
3987446 TA-ATAGTAATAA
1 TATATAGTTATAA
3987458 ATCAAATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 15 0.47
12 14 0.44
13 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (13 bp):
TATATAGTTATAA
Found at i:3988839 original size:29 final size:29
Alignment explanation
Indices: 3988779--3988945 Score: 176
Period size: 29 Copynumber: 5.8 Consensus size: 29
3988769 ACTAAATGCT
* ** * * *
3988779 AAAAGGGATAGTTTCGACTATCGACTATA
1 AAAAGGGATGGTGACGACCATCAACTATG
*
3988808 AAAAGGGATGGTGA-GACCATTAACTATG
1 AAAAGGGATGGTGACGACCATCAACTATG
*
3988836 AAAAGGGATGGTGATGACCATCAACTATG
1 AAAAGGGATGGTGACGACCATCAACTATG
* * * *
3988865 AAAAGGGATAGTGACGATCATCGATTAATG
1 AAAAGGGATGGTGACGACCATCAACT-ATG
3988895 AAAAGGGATGGTGACGACCATCGAA-TATG
1 AAAAGGGATGGTGACGACCATC-AACTATG
* *
3988924 AAAAGGGGTGGTTACGACCATC
1 AAAAGGGATGGTGACGACCATC
3988946 GTTAACACAC
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 24 0.21
29 68 0.58
30 24 0.21
31 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.22
Consensus pattern (29 bp):
AAAAGGGATGGTGACGACCATCAACTATG
Found at i:3988946 original size:59 final size:58
Alignment explanation
Indices: 3988833--3988950 Score: 166
Period size: 59 Copynumber: 2.0 Consensus size: 58
3988823 ACCATTAACT
* *
3988833 ATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATAGTGACGATCATCGATTA
1 ATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATAGTGACGACCATCG-TTA
* * *
3988892 ATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGGTGGTTACGACCATCGTTA
1 ATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAGGGATAGTGACGACCATCGTTA
3988950 A
1 A
3988951 CACACTTCGT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 4 0.08
59 47 0.89
60 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATAGTGACGACCATCGTTA
Found at i:3990119 original size:30 final size:30
Alignment explanation
Indices: 3990083--3990146 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
3990073 ACGGCTTAAG
*
3990083 ACACGGTTGTGTGTCTCAGCCGTGTGAGTC
1 ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
* ** *
3990113 ACACGGTCGTGTGTTTCAGTTGTGTGTGTC
1 ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
3990143 ACAC
1 ACAC
3990147 ATGTTGGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (30 bp):
ACACGGTCGTGTGTCTCAGCCGTGTGAGTC
Found at i:3991004 original size:15 final size:15
Alignment explanation
Indices: 3990984--3991021 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
3990974 TGATTCGACA
3990984 TAACCTTTC-TGCGAT
1 TAACCTTTCATGC-AT
3990999 TAACCTTTCATGCAT
1 TAACCTTTCATGCAT
3991014 TAATCCTT
1 TAA-CCTT
3991022 AAGTCCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (15 bp):
TAACCTTTCATGCAT
Found at i:3992649 original size:262 final size:262
Alignment explanation
Indices: 3992184--3992709 Score: 928
Period size: 262 Copynumber: 2.0 Consensus size: 262
3992174 TTTGGATCCA
*
3992184 ATGCGAATTAATAAACTGCCAGTTGATAAAATTCACAAATATGGAGCTGAAATATTTAGAGCTAT
1 ATGCGAATTAATAAACCGCCAGTTGATAAAATTCACAAATATGGAGCTGAAATATTTAGAGCTAT
* * *
3992249 AGTTGATGATGATCCGAGGAGAATTCTGGTTAAAAAATACTATTAGAGTTTTCGATGAGTTATCT
66 AGTTGATGATGATCCGAGGAGAATTCTAGTTAAAAAATACTATCAGAGTTTTCGACGAGTTATCT
*
3992314 TATTCATCGCCAGAGTGTGTAAAATGTGCCGTATCTCTATTAAAAGATTCATCTTTGGTTTTAGT
131 TATTCATCGCCAGAGTGTGTAAAATGTGCCGTATCTCTATTAAAAGATTCATATTTGGTTTTAGT
* *
3992379 TGTGTTGAGGGAGTGTATTTGATGCCAACTGGCCCGGGTTGAT-TGAGTCGTTTCATGTAGTTGC
196 TGTGTTGAGGGAGTGTATTTGATGCCAACTGGCCCGAGTTGATCT-AGTCGTTTCACGTAGTTGC
3992443 CCG
260 CCG
3992446 ATGCGAATTAATAAACCGCCAGTTGATAAAATTCACAAATATGGAGCTGAAATATTTAGAGCTAT
1 ATGCGAATTAATAAACCGCCAGTTGATAAAATTCACAAATATGGAGCTGAAATATTTAGAGCTAT
*
3992511 AGTTGATGATGATCCGAGGAGAATTCTAGTTAAAAAATACTATCATAGTTTTCGACGAGTTATCT
66 AGTTGATGATGATCCGAGGAGAATTCTAGTTAAAAAATACTATCAGAGTTTTCGACGAGTTATCT
* * *
3992576 TGTTCATCGCCAGAGTGTTTAAAATGTGTCGTATCTCTATTAAAAGATTCATATTTGGTTTTAGT
131 TATTCATCGCCAGAGTGTGTAAAATGTGCCGTATCTCTATTAAAAGATTCATATTTGGTTTTAGT
*
3992641 TGTGTTGAGGGAGTGTATTTGATGCGAACTGGCCCGAGTTGATCTAGTCGTTTCACGTAGTTGCC
196 TGTGTTGAGGGAGTGTATTTGATGCCAACTGGCCCGAGTTGATCTAGTCGTTTCACGTAGTTGCC
3992706 CG
261 CG
3992708 AT
1 AT
3992710 CATCGACGAG
Statistics
Matches: 251, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
262 250 1.00
263 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (262 bp):
ATGCGAATTAATAAACCGCCAGTTGATAAAATTCACAAATATGGAGCTGAAATATTTAGAGCTAT
AGTTGATGATGATCCGAGGAGAATTCTAGTTAAAAAATACTATCAGAGTTTTCGACGAGTTATCT
TATTCATCGCCAGAGTGTGTAAAATGTGCCGTATCTCTATTAAAAGATTCATATTTGGTTTTAGT
TGTGTTGAGGGAGTGTATTTGATGCCAACTGGCCCGAGTTGATCTAGTCGTTTCACGTAGTTGCC
CG
Found at i:3998215 original size:20 final size:20
Alignment explanation
Indices: 3998192--3998240 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
3998182 ACGAGCTCAA
3998192 TGAGCTGAATTGAGCTC-ATG
1 TGAGCTGAATTGAGCTCGA-G
*
3998212 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
3998232 TGAGCTGAA
1 TGAGCTGAA
3998241 CCACATGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:3999795 original size:48 final size:48
Alignment explanation
Indices: 3999724--3999824 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 48
3999714 GGGTTACCGC
*
3999724 CAATTAGAGAGGCTGCCATTGAGTTAGTACCGGGAACATCATCGATAT
1 CAATTAGAGAGGCTACCATTGAGTTAGTACCGGGAACATCATCGATAT
*
3999772 CAATTAGAGAGGCTACCATTGAGTTAGTACCGGGAACATCGTCGATAT
1 CAATTAGAGAGGCTACCATTGAGTTAGTACCGGGAACATCATCGATAT
3999820 CAATT
1 CAATT
3999825 GCTCCTTACA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (48 bp):
CAATTAGAGAGGCTACCATTGAGTTAGTACCGGGAACATCATCGATAT
Found at i:4005101 original size:11 final size:11
Alignment explanation
Indices: 4005085--4005143 Score: 95
Period size: 11 Copynumber: 5.5 Consensus size: 11
4005075 GAATGGGTGA
4005085 GCTCACACATC
1 GCTCACACATC
4005096 GCTCACACATC
1 GCTCACACATC
*
4005107 GGTCACACATC
1 GCTCACACATC
4005118 GCTCACACATC
1 GCTCACACATC
4005129 GCT--CACATC
1 GCTCACACATC
4005138 GCTCAC
1 GCTCAC
4005144 TACTTAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.20
11 35 0.80
ACGTcount: A:0.25, C:0.44, G:0.12, T:0.19
Consensus pattern (11 bp):
GCTCACACATC
Found at i:4005198 original size:11 final size:11
Alignment explanation
Indices: 4005182--4005206 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4005172 GCCTTCGAGA
4005182 ACACATCGCTC
1 ACACATCGCTC
4005193 ACACATCGCTC
1 ACACATCGCTC
4005204 ACA
1 ACA
4005207 TCACTCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.44, G:0.08, T:0.16
Consensus pattern (11 bp):
ACACATCGCTC
Found at i:4013352 original size:15 final size:16
Alignment explanation
Indices: 4013323--4013352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4013313 CAAGCATACT
4013323 TTAACACATTATCAAA
1 TTAACACATTATCAAA
4013339 TTAACACA-TATCAA
1 TTAACACATTATCAA
4013353 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:4014494 original size:25 final size:25
Alignment explanation
Indices: 4014465--4014529 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
4014455 TCCTATACAT
4014465 GTATGCTCATATGAGCTATAAATCA
1 GTATGCTCATATGAGCTATAAATCA
* * * *
4014490 GTATGCTC-TCACGGGCTGTAAATCG
1 GTATGCTCAT-ATGAGCTATAAATCA
*
4014515 GTAAGCTCATATGAG
1 GTATGCTCATATGAG
4014530 TTGAGAATCG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (25 bp):
GTATGCTCATATGAGCTATAAATCA
Found at i:4014538 original size:25 final size:25
Alignment explanation
Indices: 4014510--4014572 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
4014500 ACGGGCTGTA
* *
4014510 AATCGGTAAGCTCATATGAGTTGAG
1 AATCGGTAAGCTCATACGAGCTGAG
*
4014535 AATCGGTAAGCTTATACGAGCTGAG
1 AATCGGTAAGCTCATACGAGCTGAG
*
4014560 AATCAGTAAGCTC
1 AATCGGTAAGCTC
4014573 TCAAGAGCCG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (25 bp):
AATCGGTAAGCTCATACGAGCTGAG
Found at i:4014580 original size:25 final size:24
Alignment explanation
Indices: 4014510--4014580 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
4014500 ACGGGCTGTA
* * *
4014510 AATCGGTAAGCTCATATGAGTTGAG
1 AATCAGTAAGCTC-TAAGAGCTGAG
*
4014535 AATCGGTAAGCT-TATACGAGCTGAG
1 AATCAGTAAGCTCTA-A-GAGCTGAG
4014560 AATCAGTAAGCTCTCAAGAGC
1 AATCAGTAAGCTCT-AAGAGC
4014581 CGCAATCGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.05
25 34 0.87
26 2 0.05
27 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (24 bp):
AATCAGTAAGCTCTAAGAGCTGAG
Found at i:4021478 original size:39 final size:39
Alignment explanation
Indices: 4021361--4021495 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 39
4021351 CATTTGGACA
* * *
4021361 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTCTAT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTTT
* ** * *
4021401 AAAAACACCGCTAAAGGTCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTTT
*
4021441 GAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTTT
1 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTTT
*
4021480 AAAAGCGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
4021496 GCCTAAGCCC
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
38 5 0.06
39 27 0.35
40 46 0.59
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTT
Found at i:4021593 original size:41 final size:41
Alignment explanation
Indices: 4021531--4021854 Score: 450
Period size: 41 Copynumber: 7.9 Consensus size: 41
4021521 TGAGTTTTTG
* *
4021531 GGGCATTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
4021572 GGGCCTTTAGCGGTGATTTTGAAAAAGCGCTGTTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
4021613 GGGCCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
4021654 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * * *
4021695 GTGCCTTTAGCGGCGTTTTTGAATAAGAGCCGCTAATTCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
4021736 GGGCCTTTAGCAGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
4021777 GGGCCTTTAGCAGCGTTTTTGAATAAGCGCCGCTAATGATC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
4021818 AGGCCTTTAGCTGCGTTTTTGAAAGAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
4021855 AATAATAAAA
Statistics
Matches: 252, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 252 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:4022717 original size:33 final size:32
Alignment explanation
Indices: 4022680--4022742 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
4022670 TAGGGGTTAT
*
4022680 GGATTCAGGGTCGGGTTAGGGTTTAAGGATTAG
1 GGATTCAGGGTCGAGTTAGGGTTT-AGGATTAG
*
4022713 GGATTTAGGGTCGAGTTAGGGTTTAGGATT
1 GGATTCAGGGTCGAGTTAGGGTTTAGGATT
4022743 TAGATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 6 0.21
33 22 0.79
ACGTcount: A:0.21, C:0.05, G:0.41, T:0.33
Consensus pattern (32 bp):
GGATTCAGGGTCGAGTTAGGGTTTAGGATTAG
Found at i:4023733 original size:21 final size:21
Alignment explanation
Indices: 4023708--4023753 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4023698 CCCTCCCCCC
*
4023708 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTAAAATCCCCAA-TT
*
4023729 TCCCCCCTAAAATCCCTAATT
1 TCCCCCCTAAAATCCCCAATT
4023750 TCCC
1 TCCC
4023754 ACATCCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.24, C:0.50, G:0.02, T:0.24
Consensus pattern (21 bp):
TCCCCCCTAAAATCCCCAATT
Found at i:4023734 original size:22 final size:21
Alignment explanation
Indices: 4023709--4023753 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
4023699 CCTCCCCCCT
*
4023709 CCCCCCGAAATCCCCAACTTTC
1 CCCCCCAAAATCCCCAA-TTTC
* *
4023731 CCCCCTAAAATCCCTAATTTC
1 CCCCCCAAAATCCCCAATTTC
4023752 CC
1 CC
4023754 ACATCCAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.24, C:0.51, G:0.02, T:0.22
Consensus pattern (21 bp):
CCCCCCAAAATCCCCAATTTC
Found at i:4026405 original size:129 final size:129
Alignment explanation
Indices: 4026170--4026441 Score: 341
Period size: 129 Copynumber: 2.1 Consensus size: 129
4026160 TAGTTCATAA
* * * *
4026170 TCTTTAGCAGCGTTTGTGGAAAAAGTGTCGGTAAAGGTCATAGTCTTTAGCGGCGTTTGTGGGAA
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATAGTCTTTAGCGGCGTTTGTGGGAA
**
4026235 AAGCGCCGCTAAAGGTCAAGGTCTATAGCGACATTCTTGGGAAAAGCGCCGCTAAAGGTCTTGG
66 AAGCGAAGCTAAAGGTCAAGGTCTATAGCGACATTCTTGGGAAAAGCGCCGCTAAAGGTCTTGG
* * * * *
4026299 TCTTTAGCGGCGTTTGTGTG-TAAAGCGCCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGGT
1 TCTTTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGGTCATAGTCTTTAGCGGCGTTTGTGGGA
* ** * * * *
4026363 AAAGCGAATCTAAAGGTCTTGTTCTTTAGCGACGTT-TGTGGGAAAAGCGCTGCTAAAGGTCTTG
65 AAAGCGAAGCTAAAGGTCAAGGTCTATAGCGACATTCT-TGGGAAAAGCGCCGCTAAAGGTCTTG
4026427 G
129 G
*
4026428 TCTTTAGTGGCGTT
1 TCTTTAGCGGCGTT
4026442 CTTTTCTAAA
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
128 1 0.01
129 120 0.98
130 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (129 bp):
TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATAGTCTTTAGCGGCGTTTGTGGGAA
AAGCGAAGCTAAAGGTCAAGGTCTATAGCGACATTCTTGGGAAAAGCGCCGCTAAAGGTCTTGG
Found at i:4026424 original size:43 final size:43
Alignment explanation
Indices: 4026170--4026434 Score: 300
Period size: 43 Copynumber: 6.2 Consensus size: 43
4026160 TAGTTCATAA
* * * * * *
4026170 TCTTTAGC-AGCGTTTGTGGAAAAAGTGTCGGTAAAGGTCATAG
1 TCTTTAGCGA-CGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG
* **
4026213 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGG
1 TCTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG
* *
4026256 TCTATAGCGACATTCT-TGGGAAAAGCGCCGCTAAAGGTCTTGG
1 TCTTTAGCGACGTT-TGTGGGAAAAGCGCCGCTAAAGGTCTTGG
* * *
4026299 TCTTTAGCGGCGTTTGTGTGTAAAGCGCCGCTAAAGGTCTTGG
1 TCTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG
* * * *** *
4026342 TTTTTAGCGGCGTTTGTGGGTAAAGCGAATCTAAAGGTCTTGT
1 TCTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG
*
4026385 TCTTTAGCGACGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGG
1 TCTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG
4026428 TCTTTAG
1 TCTTTAG
4026435 TGGCGTTCTT
Statistics
Matches: 189, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 187 0.99
44 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (43 bp):
TCTTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG
Found at i:4030657 original size:50 final size:50
Alignment explanation
Indices: 4030582--4030781 Score: 400
Period size: 50 Copynumber: 4.0 Consensus size: 50
4030572 TGCTAGGTCA
4030582 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
1 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
4030632 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
1 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
4030682 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
1 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
4030732 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
1 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
4030782 AAATTGACTA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 150 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (50 bp):
CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCG
Found at i:4033890 original size:23 final size:23
Alignment explanation
Indices: 4033864--4033907 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4033854 TTTTAATATC
4033864 TAAATTAATAGATTGAATAAAGT
1 TAAATTAATAGATTGAATAAAGT
*
4033887 TAAATTAATATATTGAATAAA
1 TAAATTAATAGATTGAATAAA
4033908 CTTATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (23 bp):
TAAATTAATAGATTGAATAAAGT
Found at i:4034325 original size:88 final size:88
Alignment explanation
Indices: 4034176--4034338 Score: 197
Period size: 88 Copynumber: 1.9 Consensus size: 88
4034166 ACCATCAACT
** * ** * *
4034176 ATGAAAAGGGATGGTGACTACCATCATATATGAAAAGAGATAGTTTCGTCTATCAACTATGAAAA
1 ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAGAGATAGTGACGACCATCAACTATGAAAA
4034241 -GCGATGGTGACAACTACCGATTG
66 TG-GATGGTGACAACTACCGATTG
* *
4034264 ATGAAAAGGGATGGTGAAGACTATCAAATATGAAAA-AGGATGGTGACGACCATCGAA-TATGAA
1 ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAGA-GATAGTGACGACCATC-AACTATGAA
4034327 AATGGATGGTGA
64 AATGGATGGTGA
4034339 TGACCATCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
87 1 0.02
88 59 0.94
89 3 0.05
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (88 bp):
ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAGAGATAGTGACGACCATCAACTATGAAAA
TGGATGGTGACAACTACCGATTG
Found at i:4034354 original size:117 final size:117
Alignment explanation
Indices: 4034147--4034365 Score: 282
Period size: 117 Copynumber: 1.9 Consensus size: 117
4034137 ACTATCGACT
* * * * *
4034147 ATGAAAGGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACTACCATCATATATGAAAA
1 ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAAGGATGGTGACGACCATCATATATGAAAA
* * * *
4034212 GAGATAGTTTCGTCTATCAACTATGAAAAGCGATGGTGACAACTACCGATTG
66 GAGATAGTATCGACCATCAAATATGAAAAGCGATGGTGACAACTACCGATTG
*
4034264 ATGAAAAGGGATGGTGAAGACTATCAAATATGAAAAAGGATGGTGACGACCATCGA-ATATGAAA
1 ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAAGGATGGTGACGACCATC-ATATATGAAA
* *
4034328 ATG-GATGGTGAT-GACCATCAAATATGAAAAGGGATGGT
65 A-GAGATAGT-ATCGACCATCAAATATGAAAAGCGATGGT
4034366 TACGACCTTC
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
117 84 0.97
118 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.22
Consensus pattern (117 bp):
ATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAAGGATGGTGACGACCATCATATATGAAAA
GAGATAGTATCGACCATCAAATATGAAAAGCGATGGTGACAACTACCGATTG
Found at i:4034371 original size:58 final size:58
Alignment explanation
Indices: 4034120--4034372 Score: 249
Period size: 58 Copynumber: 4.3 Consensus size: 58
4034110 ATCGATTAAA
* ** * * * *
4034120 GAAAAGGGATAGTTTCGACTATCGACTATGAAAGGGGATGGTGATGACCATCAACTAT
1 GAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGATGACCATCAAATAT
* * * * * * *
4034178 GAAAAGGGATGGTGACTACCATC-ATATATGAAAAGAGATAGT-TTCGTCTATCAACTAT
1 GAAAAGGGATGGTGACGACCATCGA-ATATGAAAAGGGATGGTGAT-GACCATCAAATAT
* * * * * * *
4034236 GAAAAGCGATGGTGACAACTACCGATTGATGAAAAGGGATGGTGAAGACTATCAAATAT
1 GAAAAGGGATGGTGACGACCATCGAAT-ATGAAAAGGGATGGTGATGACCATCAAATAT
* *
4034295 GAAAAAGGATGGTGACGACCATCGAATATGAAAATGGATGGTGATGACCATCAAATAT
1 GAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGATGACCATCAAATAT
*
4034353 GAAAAGGGATGGTTACGACC
1 GAAAAGGGATGGTGACGACC
4034373 TTCGTTTAAC
Statistics
Matches: 156, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
57 2 0.01
58 108 0.69
59 46 0.29
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (58 bp):
GAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGATGACCATCAAATAT
Found at i:4034372 original size:29 final size:29
Alignment explanation
Indices: 4034146--4034372 Score: 220
Period size: 29 Copynumber: 7.8 Consensus size: 29
4034136 GACTATCGAC
* * *
4034146 TATGAAAGGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAA
* *
4034175 TATGAAAAGGGATGGTGACTACCATCATA
1 TATGAAAAGGGATGGTGACGACCATCAAA
* * ** * * *
4034204 TATGAAAAGAGATAGTTTCGTCTATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAA
* * * * * *
4034233 TATGAAAAGCGATGGTGACAACTACCGAT
1 TATGAAAAGGGATGGTGACGACCATCAAA
* *
4034262 TGATGAAAAGGGATGGTGAAGACTATCAAA
1 T-ATGAAAAGGGATGGTGACGACCATCAAA
* *
4034292 TATGAAAAAGGATGGTGACGACCATCGAA
1 TATGAAAAGGGATGGTGACGACCATCAAA
* *
4034321 TATGAAAATGGATGGTGATGACCATCAAA
1 TATGAAAAGGGATGGTGACGACCATCAAA
*
4034350 TATGAAAAGGGATGGTTACGACC
1 TATGAAAAGGGATGGTGACGACC
4034373 TTCGTTTAAC
Statistics
Matches: 158, Mismatches: 39, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
29 135 0.85
30 23 0.15
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAA
Found at i:4038857 original size:27 final size:27
Alignment explanation
Indices: 4038822--4038900 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
4038812 TATATGATAT
*
4038822 AAATGCCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCA
* * *
4038849 AAATACCCCCATAGGTTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCA
*
4038876 AAATACCCCCATAGGGTAAAGTGAC
1 AAATACCCCCATAGGGTAAAATGAC
4038901 TGTTATACCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCA
Found at i:4038908 original size:27 final size:27
Alignment explanation
Indices: 4038822--4038911 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
4038812 TATATGATAT
* **
4038822 AAATGCCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACTG
*
4038849 AAATACCCCCATAGGTTAAAATGA-TCG
1 AAATACCCCCATAGGGTAAAATGACT-G
*
4038876 AAATACCCCCATAGGGTAAAGTGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
**
4038903 TTATACCCC
1 AAATACCCC
4038912 TAGAAGATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:4042141 original size:29 final size:29
Alignment explanation
Indices: 4042108--4042303 Score: 243
Period size: 29 Copynumber: 6.8 Consensus size: 29
4042098 ATCGATTAAA
* ** * *
4042108 GAAAAGGGATAGTTTCGACTATCGACTAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
4042137 GAAAAGGGATGGTGACGACCATC-AACTAT
1 GAAAAGGGATGGTGACGACCATCGAA-TAT
* *
4042166 GAAAAGGGATGGTGACGACCATTGATTGAT
1 GAAAAGGGATGGTGACGACCATCGAAT-AT
*
4042196 GAAAAGGGATGGTTACGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
4042225 GAAAATGGATGGTGACGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
4042254 GAAAA-GGATGGTGACGACCATCGAATTT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* * *
4042282 GGAAAGGGATGGTTACAACCAT
1 GAAAAGGGATGGTGACGACCAT
4042304 TGTTTAGCAC
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
28 27 0.18
29 93 0.63
30 27 0.18
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (29 bp):
GAAAAGGGATGGTGACGACCATCGAATAT
Found at i:4042203 original size:59 final size:58
Alignment explanation
Indices: 4042134--4042305 Score: 240
Period size: 59 Copynumber: 3.0 Consensus size: 58
4042124 GACTATCGAC
*
4042134 TATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAGGGATGGTGACGACCATTGAT
1 TATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACGACCATTGAA
* * *
4042192 TGATGAAAAGGGATGGTTACGACCATCGAATATGAAAATGGATGGTGACGACCATCGAA
1 T-ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATTGAA
* * * *
4042251 TATGAAAA-GGATGGTGACGACCATCGAATTTGGAAAGGGATGGTTACAACCATTG
1 TATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATTG
4042306 TTTAGCACAC
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
57 40 0.40
58 8 0.08
59 51 0.50
60 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATTGAA
Found at i:4042257 original size:88 final size:86
Alignment explanation
Indices: 4042108--4042303 Score: 270
Period size: 88 Copynumber: 2.3 Consensus size: 86
4042098 ATCGATTAAA
* * * *
4042108 GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGG
1 GAAAAGGGATGGTTACGACCATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAA-G
*
4042173 GATGGTGACGACCATTG-ATTGAT
65 GATGGTGACGACCATCGAATT--T
*
4042196 GAAAAGGGATGGTTACGACCATCGAATATGAAAATGGATGGTGACGACCATCGAA-TATGAAAAG
1 GAAAAGGGATGGTTACGACCATCGAATATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAG
4042260 GATGGTGACGACCATCGAATTT
65 GATGGTGACGACCATCGAATTT
* *
4042282 GGAAAGGGATGGTTACAACCAT
1 GAAAAGGGATGGTTACGACCAT
4042304 TGTTTAGCAC
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
86 21 0.21
87 17 0.17
88 58 0.59
89 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (86 bp):
GAAAAGGGATGGTTACGACCATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGG
ATGGTGACGACCATCGAATTT
Found at i:4051974 original size:16 final size:16
Alignment explanation
Indices: 4051949--4051979 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4051939 ACTTCATAGA
4051949 AATCTCATAAAAATAT
1 AATCTCATAAAAATAT
*
4051965 AATCTTATAAAAATA
1 AATCTCATAAAAATA
4051980 GAAGTTCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
AATCTCATAAAAATAT
Found at i:4055632 original size:18 final size:18
Alignment explanation
Indices: 4055589--4055633 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
4055579 AAGACTGGGA
4055589 TTTTAA-AAAATATATTT
1 TTTTAATAAAATATATTT
4055606 TATTT-ATAAAAT-TATTAT
1 T-TTTAATAAAATATATT-T
4055624 TTTTAATAAA
1 TTTTAATAAA
4055634 TAAATTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAATAAAATATATTT
Found at i:4057818 original size:16 final size:16
Alignment explanation
Indices: 4057797--4057832 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4057787 TTTGGTTCGC
4057797 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
*
4057813 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
4057829 TGTA
1 TGTA
4057833 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:4057879 original size:45 final size:44
Alignment explanation
Indices: 4057812--4057903 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 44
4057802 TGGATTAGAG
* * *
4057812 ATGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGA
* ***
4057857 ATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGA
4057901 ATG
1 ATG
4057904 GAATAAAGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.36
Consensus pattern (44 bp):
ATGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGA
Found at i:4058164 original size:33 final size:33
Alignment explanation
Indices: 4058062--4058164 Score: 81
Period size: 33 Copynumber: 3.2 Consensus size: 33
4058052 TTATTATTAA
4058062 CTTAAATATATTTTTTAAGTTCTATTTCAATAT
1 CTTAAATATATTTTTTAAGTTCTATTTCAATAT
* * * * * *
4058095 -TGAGAA-ATAATTTGT-CGTGACT-TCTT-AATTAA
1 CTTA-AATATATTTTTTAAGT-TCTAT-TTCAA-TAT
4058127 CTTAAATATATTTTTTAAGTTCTATTTCAATAT
1 CTTAAATATATTTTTTAAGTTCTATTTCAATAT
4058160 CTTAA
1 CTTAA
4058165 CAGAAGAGGA
Statistics
Matches: 49, Mismatches: 12, Indels: 18
0.62 0.15 0.23
Matches are distributed among these distances:
31 5 0.10
32 17 0.35
33 22 0.45
34 5 0.10
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.50
Consensus pattern (33 bp):
CTTAAATATATTTTTTAAGTTCTATTTCAATAT
Found at i:4061106 original size:27 final size:27
Alignment explanation
Indices: 4061036--4061107 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
4061026 GGTGGAGGGC
* *
4061036 CTGCCACAGGCAGCACCAGAGGTGTCA
1 CTGCCACAGGCGGCACCAAAGGTGTCA
* * * * *
4061063 GTGGCAGAGGTGACACCAAAGGT-TCCA
1 CTGCCACAGGCGGCACCAAAGGTGT-CA
4061090 CTGCCACAGGCGGCACCA
1 CTGCCACAGGCGGCACCA
4061108 CCCATTATAA
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.26, C:0.32, G:0.31, T:0.11
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCAAAGGTGTCA
Found at i:4061162 original size:20 final size:20
Alignment explanation
Indices: 4061137--4061267 Score: 97
Period size: 20 Copynumber: 6.3 Consensus size: 20
4061127 GATTCGGCTG
*
4061137 AAGGAGAAGATAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
*
4061157 AAGGAGAAGAAAGAAAAAGA
1 AAGGAGAAGAAAGAAAAGGA
* *
4061177 AA-GAAAAGGAAAGGAGAA-GA
1 AAGGAGAA-GAAA-GAAAAGGA
* *
4061197 AAGAAAAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
*
4061217 AAGGAGAAGAAGAGGAAGAAGAA
1 AAGGAGAAGAA-A-GAA-AAGGA
*
4061240 GAAGAAGAAG-AAGAAGAAGGA
1 -AAGGAGAAGAAAGAA-AAGGA
4061261 GAAGGAG
1 -AAGGAG
4061268 GCACAGGAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.09
20 43 0.47
21 23 0.25
22 4 0.04
23 5 0.05
24 8 0.09
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (20 bp):
AAGGAGAAGAAAGAAAAGGA
Found at i:4061176 original size:10 final size:10
Alignment explanation
Indices: 4061143--4061219 Score: 82
Period size: 10 Copynumber: 7.7 Consensus size: 10
4061133 GCTGAAGGAG
*
4061143 AAGATAGAAA
1 AAGAAAGAAA
* * *
4061153 AGGAAAGGAG
1 AAGAAAGAAA
4061163 AAGAAAGAAA
1 AAGAAAGAAA
4061173 AAGAAAGAAA
1 AAGAAAGAAA
* * *
4061183 AGGAAAGGAG
1 AAGAAAGAAA
4061193 AAGAAAGAAA
1 AAGAAAGAAA
4061203 AAGAAAGAAA
1 AAGAAAGAAA
*
4061213 AGGAAAG
1 AAGAAAG
4061220 GAGAAGAAGA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 53 1.00
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:4061182 original size:30 final size:30
Alignment explanation
Indices: 4061143--4061227 Score: 161
Period size: 30 Copynumber: 2.8 Consensus size: 30
4061133 GCTGAAGGAG
*
4061143 AAGATAGAAAAGGAAAGGAGAAGAAAGAAA
1 AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
4061173 AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
1 AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
4061203 AAGAAAGAAAAGGAAAGGAGAAGAA
1 AAGAAAGAAAAGGAAAGGAGAAGAA
4061228 GAGGAAGAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (30 bp):
AAGAAAGAAAAGGAAAGGAGAAGAAAGAAA
Found at i:4061234 original size:6 final size:6
Alignment explanation
Indices: 4061161--4061264 Score: 72
Period size: 6 Copynumber: 17.3 Consensus size: 6
4061151 AAAGGAAAGG
* * * *
4061161 AGAAGAA AGAAAA AGAAAGA A-AAGG A-AAGG AGAAGAA AGAAAA AGAAAGA
1 AGAAG-A AGAAGA AG-AAGA AGAAGA AGAAGA AGAAG-A AGAAGA AG-AAGA
* * *
4061211 A-AAGG A-AAGG AGAAGA AGAGGA AGAAGA AGAAGA AGAAGA AGAAGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA
*
4061257 AGGAGA AG
1 AGAAGA AG
4061265 GAGGCACAGG
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
5 18 0.22
6 47 0.58
7 16 0.20
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (6 bp):
AGAAGA
Found at i:4061236 original size:9 final size:9
Alignment explanation
Indices: 4061161--4061264 Score: 72
Period size: 9 Copynumber: 11.6 Consensus size: 9
4061151 AAAGGAAAGG
4061161 AGAAGAAAGA
1 AGAAG-AAGA
*
4061171 AAAAGAAAGA
1 AGAAG-AAGA
*
4061181 A-AAGGA-A
1 AGAAGAAGA
*
4061188 AGGAGAAGAA
1 AGAAGAAG-A
*
4061198 AGAAAAAGAA
1 AGAAGAAG-A
*
4061208 AGAA-AAGG
1 AGAAGAAGA
*
4061216 A-AAGGAGA
1 AGAAGAAGA
*
4061224 AGAAGAGGA
1 AGAAGAAGA
4061233 AGAAGAAGA
1 AGAAGAAGA
4061242 AGAAGAAGA
1 AGAAGAAGA
*
4061251 AGAAGAAGG
1 AGAAGAAGA
4061260 AGAAG
1 AGAAG
4061265 GAGGCACAGG
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
7 4 0.05
8 8 0.11
9 41 0.54
10 23 0.30
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (9 bp):
AGAAGAAGA
Found at i:4061243 original size:15 final size:15
Alignment explanation
Indices: 4061137--4061257 Score: 83
Period size: 15 Copynumber: 8.0 Consensus size: 15
4061127 GATTCGGCTG
4061137 AAGG-AGAAGATAGAA
1 AAGGAAGAAGA-AGAA
*
4061152 AAGGAAAGGAGAAG-A
1 AAGG-AAGAAGAAGAA
*
4061167 AA-GAAAAAGAAAGAA
1 AAGGAAGAAG-AAGAA
*
4061182 AAGGAAAGGAGAAG-A
1 AAGG-AAGAAGAAGAA
*
4061197 AA-GAAAAAGAAAGAA
1 AAGGAAGAAG-AAGAA
*
4061212 AAGGAAAGGAGAAGAA
1 AAGG-AAGAAGAAGAA
*
4061228 GAGGAAGAAGAAGAA
1 AAGGAAGAAGAAGAA
4061243 GAA-GAAGAAGAAGAA
1 -AAGGAAGAAGAAGAA
4061258 GGAGAAGGAG
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.10
14 8 0.10
15 38 0.46
16 16 0.19
17 13 0.16
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (15 bp):
AAGGAAGAAGAAGAA
Found at i:4061265 original size:6 final size:6
Alignment explanation
Indices: 4061212--4061303 Score: 51
Period size: 6 Copynumber: 14.5 Consensus size: 6
4061202 AAAGAAAGAA
* * * *
4061212 AAGGA- AAGGAG AAGAAGAGG AAGAAG AAGAAG AAGAAG AAGAAG AAGGAG
1 AAGGAG AAGGAG AAG--GA-G AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG
* * * *
4061262 AAGGAGG CACAGGAA AAAGAG AAAGAG AAGGAG AAGAAG AAG
1 AAGGA-G -A-AGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAG
4061304 AGGGAGGAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
5 5 0.07
6 54 0.74
7 3 0.04
8 3 0.04
9 8 0.11
ACGTcount: A:0.59, C:0.02, G:0.39, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:4061368 original size:20 final size:19
Alignment explanation
Indices: 4061343--4061381 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
4061333 TAAGGAAAGG
4061343 TAATTTTTTTGGTATTATTT
1 TAATTTTTTT-GTATTATTT
4061363 TAATTTTTTTGTATTATTT
1 TAATTTTTTTGTATTATTT
4061382 GTGTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (19 bp):
TAATTTTTTTGTATTATTT
Found at i:4061546 original size:16 final size:17
Alignment explanation
Indices: 4061516--4061547 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4061506 GTTTATGAAA
4061516 AAATAAAATACGAAAAG
1 AAATAAAATACGAAAAG
4061533 AAATAAAA-ACGAAAA
1 AAATAAAATACGAAAA
4061548 TAGTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.75, C:0.06, G:0.09, T:0.09
Consensus pattern (17 bp):
AAATAAAATACGAAAAG
Found at i:4061780 original size:159 final size:159
Alignment explanation
Indices: 4061534--4062112 Score: 849
Period size: 152 Copynumber: 3.6 Consensus size: 159
4061524 TACGAAAAGA
** * *
4061534 AATAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCTGA-AAATAAGAAAAATACGAAC
1 AATAAAAACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATAAGAAC
*
4061598 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTTAAAAAACACACTAAAATAATACATTTC
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTTAAAAAACACACTAAATTAATACATTTC
4061663 AAACATAATGTACTAAAATAATATAAAAT
131 AAACATAATGTACTAAAATAATATAAAAT
*
4061692 AATAAAACACGAAAATAGTATATTTTTTGAAAGTAATAAAATTTGAGAAAAAAGAAAAATAAGAA
1 AATAAAA-ACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATAAGAA
*
4061757 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTA-TATAAAAAACACACTAAATTAATACATTT
65 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTTAAAAAACACACTAAATTAATACATTT
*
4061821 CAAACATTATGTACTAAAATTAATAT--AA-
130 CAAACATAATGTACTAAAA-TAATATAAAAT
* *
4061849 AAT---AA-GAAAATAGTATATTTTTTGAAAGTAATAAAA-CTTGGGAAAAAAGAAAAATACGAA
1 AATAAAAACGAAAATAGTATATTTTTTGAAAGTAATAAAATC-TGAGAAAAAAGAAAAATAAGAA
* *
4061909 CAAAGGGCCAAAAGAAGGGTTTTTTACTAAATTTATATT-AAAAA-ACACTAAATTAATACATTT
65 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTTAAAAAACACACTAAATTAATACATTT
4061972 CAAACATAATGTACTAAAATAATATAAAAT
130 CAAACATAATGTACTAAAATAATATAAAAT
*
4062002 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
1 AATAAAA-ACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAAT-----
*
4062067 ATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTGTTTT
60 A-A-GAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTT
4062113 GAAGTTATAG
Statistics
Matches: 381, Mismatches: 19, Indels: 35
0.88 0.04 0.08
Matches are distributed among these distances:
150 6 0.02
151 37 0.10
152 92 0.24
153 5 0.01
154 1 0.00
156 1 0.00
157 4 0.01
158 57 0.15
159 81 0.21
160 57 0.15
163 1 0.00
165 39 0.10
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (159 bp):
AATAAAAACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAAGAAAAATAAGAAC
AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTTAAAAAACACACTAAATTAATACATTTC
AAACATAATGTACTAAAATAATATAAAAT
Found at i:4062263 original size:29 final size:29
Alignment explanation
Indices: 4062222--4062281 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
4062212 AGTTCTATTG
*
4062222 AAAAAGGATATACGTAATATATAGAAATA
1 AAAAAGGATATACGTAACATATAGAAATA
*
4062251 AAAAAGGGTATACGTAACATATAGAAATA
1 AAAAAGGATATACGTAACATATAGAAATA
4062280 AA
1 AA
4062282 TCATGTTAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.22
Consensus pattern (29 bp):
AAAAAGGATATACGTAACATATAGAAATA
Found at i:4064884 original size:40 final size:40
Alignment explanation
Indices: 4064827--4065035 Score: 155
Period size: 40 Copynumber: 5.3 Consensus size: 40
4064817 CTAACACAAT
*
4064827 AATAATAA-TAGTTTTTTACTAAAAATAATACTAACTAAC
1 AATAATAATTAGTGTTTTACTAAAAATAATACTAACTAAC
* *
4064866 AATAATAATTAGGGTTTTACTAAAAAT-A-A-TAACCAAC
1 AATAATAATTAGTGTTTTACTAAAAATAATACTAACTAAC
*** * *
4064903 AATAAT-A-TAGTGTAAAAACTAACAATCATACTAACTAA-
1 AATAATAATTAGTGT-TTTACTAAAAATAATACTAACTAAC
* *** *
4064941 AATAATAATTAGGGGTTTTACTAATCCTAATAACTAACCATAAT
1 AATAATAATTA-GTGTTTTACTAAAAATAAT-ACTAA-C-TAAC
* * *
4064985 AATAAT-ATTAGTTTTTTTACTAACAATAATACTAAGTAAC
1 AATAATAATTAG-TGTTTTACTAAAAATAATACTAACTAAC
*
4065025 AATAATTATTA
1 AATAATAATTA
4065036 ATAACTAAAC
Statistics
Matches: 132, Mismatches: 24, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
35 5 0.04
36 9 0.07
37 14 0.11
38 8 0.06
39 16 0.12
40 35 0.27
41 12 0.09
42 7 0.05
43 20 0.15
44 6 0.05
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (40 bp):
AATAATAATTAGTGTTTTACTAAAAATAATACTAACTAAC
Found at i:4065228 original size:13 final size:13
Alignment explanation
Indices: 4065214--4065254 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
4065204 CTATTTTTTT
*
4065214 TCTTCTCTTTCTT
1 TCTTCTCTTTCTC
4065227 TC-TC-CTTTCTC
1 TCTTCTCTTTCTC
*
4065238 TATTCTCTTTCTC
1 TCTTCTCTTTCTC
4065251 TCTT
1 TCTT
4065255 TTTCTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 7 0.30
12 4 0.17
13 12 0.52
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTCTCTTTCTC
Found at i:4065228 original size:24 final size:23
Alignment explanation
Indices: 4065201--4065265 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
4065191 TACCTTATTT
4065201 TTTCTATTTTTTTTCTTCTCTTTC
1 TTTCT-TTTTTTTTCTTCTCTTTC
* * * *
4065225 TTTCTCCTTTCTCTATTCTCTTTC
1 TTTCT-TTTTTTTTCTTCTCTTTC
*
4065249 TCTCTTTTTCTTTTCTT
1 TTTCTTTTT-TTTTCTT
4065266 TTTCCGGCAC
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTCTTTTTTTTTCTTCTCTTTC
Found at i:4065287 original size:3 final size:3
Alignment explanation
Indices: 4065281--4065334 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
4065271 GGCACCACCC
* *
4065281 TCT TCT TCT TCA TCC TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
4065329 TCT TCT
1 TCT TCT
4065335 AATGGTAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:4077724 original size:21 final size:20
Alignment explanation
Indices: 4077694--4077745 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
4077684 TACGGGTTTA
4077694 CACTTTGGTGCTTA-TACTTTG
1 CACTTTGGTGC-TACTA-TTTG
*
4077715 CACTTCGGTGCTACTATTTG
1 CACTTTGGTGCTACTATTTG
4077735 CACTTTGGTGC
1 CACTTTGGTGC
4077746 CCCTGTTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.42
Consensus pattern (20 bp):
CACTTTGGTGCTACTATTTG
Found at i:4079582 original size:22 final size:22
Alignment explanation
Indices: 4079532--4079583 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
4079522 GAAGGGTATT
*
4079532 CTTAACTAAGGGTAATAAATAA
1 CTTAATTAAGGGTAATAAATAA
* * *
4079554 CTAAATTAAGGGTAATTAATTA
1 CTTAATTAAGGGTAATAAATAA
*
4079576 TTTAATTA
1 CTTAATTA
4079584 GATAATTAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (22 bp):
CTTAATTAAGGGTAATAAATAA
Found at i:4082098 original size:13 final size:13
Alignment explanation
Indices: 4082080--4082110 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4082070 GTTACATGGT
4082080 CGTGTCGCCAAGC
1 CGTGTCGCCAAGC
4082093 CGTGTCGCCAAGC
1 CGTGTCGCCAAGC
*
4082106 TGTGT
1 CGTGT
4082111 AACAGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.23
Consensus pattern (13 bp):
CGTGTCGCCAAGC
Found at i:4082783 original size:41 final size:41
Alignment explanation
Indices: 4082736--4082846 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
4082726 TTTATATGAA
** * *
4082736 AAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTGTCAC
1 AAAACGCCGCTAAAGAACA-AACCTTTAGCGACGCTTCTCAC
*
4082778 -AAACGCCCGCTAAAGAACAAACCTTTAGCGGCGCTTCTCAC
1 AAAACG-CCGCTAAAGAACAAACCTTTAGCGACGCTTCTCAC
4082819 AAAAACGCCGCTAAA-AACATAACCTTTA
1 -AAAACGCCGCTAAAGAACA-AACCTTTA
4082847 AAAAAAATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 28 0.47
42 27 0.45
43 5 0.08
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAGAACAAACCTTTAGCGACGCTTCTCAC
Found at i:4084545 original size:40 final size:38
Alignment explanation
Indices: 4084461--4084576 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 38
4084451 GTTTGGATAA
* * ** *
4084461 AAAACACCGCTAAAAATCAATCATTAGCGGCGC-AATCTAA
1 AAAACACCGCTAAAAAT-GAGCATTAGCGGC-CTTTTCT-G
* *
4084501 AAAACACCGCTAAAGATTGAGTATTAGCGGCGCTTTTCTG
1 AAAACACCGCTAAA-AATGAGCATTAGCGGC-CTTTTCTG
*
4084541 AAAACGCCGCTAAAAATGAGCATTAGCGGCCTTTTC
1 AAAACACCGCTAAAAATGAGCATTAGCGGCCTTTTC
4084577 CAAAAAGCGC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
38 6 0.09
39 14 0.22
40 39 0.61
41 5 0.08
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (38 bp):
AAAACACCGCTAAAAATGAGCATTAGCGGCCTTTTCTG
Found at i:4084594 original size:38 final size:39
Alignment explanation
Indices: 4084500--4084594 Score: 95
Period size: 39 Copynumber: 2.4 Consensus size: 39
4084490 GCGCAATCTA
* * * * *
4084500 AAAAACACCGCTAAAGATTGAGTATTAGCGGCGCTTTTCT
1 AAAAACGCCACTAAA-AATGAGCATTAGCGGCGCTTTTCC
* *
4084540 GAAAACGCCGCTAAAAATGAGCATTAGCGGC-CTTTTCC
1 AAAAACGCCACTAAAAATGAGCATTAGCGGCGCTTTTCC
4084578 AAAAAGCGCCAC-AAAAA
1 AAAAA-CGCCACTAAAAA
4084595 CCTAAACCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 15 0.32
39 19 0.40
40 13 0.28
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (39 bp):
AAAAACGCCACTAAAAATGAGCATTAGCGGCGCTTTTCC
Found at i:4084695 original size:41 final size:41
Alignment explanation
Indices: 4084634--4084746 Score: 181
Period size: 41 Copynumber: 2.8 Consensus size: 41
4084624 TTTTTTGGGA
* *
4084634 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCAGGAC
*
4084675 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGAC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCAGGAC
* *
4084716 TTTCGCGGCGTTTTTTAAAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAA
4084747 AAACATTTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCAGGAC
Found at i:4085066 original size:14 final size:14
Alignment explanation
Indices: 4085019--4085066 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4085009 TATCACTATA
* * *
4085019 GTTTAGGGTTTTTA
1 GTTTAGGGATTATG
*
4085033 GTTTAGGGAGTATGG
1 GTTTAGGGATTAT-G
4085048 GTTTAGGGATTATG
1 GTTTAGGGATTATG
4085062 GTTTA
1 GTTTA
4085067 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (14 bp):
GTTTAGGGATTATG
Found at i:4085070 original size:15 final size:15
Alignment explanation
Indices: 4085033--4085066 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4085023 AGGGTTTTTA
4085033 GTTTAGGGAGTATGG
1 GTTTAGGGAGTATGG
*
4085048 GTTTAGGGATTAT-G
1 GTTTAGGGAGTATGG
4085062 GTTTA
1 GTTTA
4085067 AGGGTTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
GTTTAGGGAGTATGG
Found at i:4085087 original size:21 final size:20
Alignment explanation
Indices: 4085053--4085093 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4085043 TATGGGTTTA
*
4085053 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
4085073 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
4085094 AAAGGGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:4085103 original size:15 final size:15
Alignment explanation
Indices: 4085061--4085118 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
4085051 TAGGGATTAT
4085061 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
* *
4085075 GATTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
*
4085090 GGTTAAAGGGTTAGG
1 GGTTTAAGGGTTAGG
*
4085105 GGTTTAGGGGTTAG
1 GGTTTAAGGGTTAG
4085119 ACGTGCTAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
14 10 0.28
15 26 0.72
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:4092268 original size:42 final size:41
Alignment explanation
Indices: 4092209--4092342 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 41
4092199 ATATATTTTT
* *
4092209 TAAAGG-TTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGG
1 TAAAGGTTTAT-TCTTTAGCGGCGTTTTTG-GAGAAGCGCCGC
* * * *
4092251 TAAAGGTTTATTCTTTAGCGGCGTTTGTGATAAAAGTGCCGC
1 TAAAGGTTTATTCTTTAGCGGCGTTTTTG-GAGAAGCGCCGC
* * *
4092293 TAAAGGTTAGAGTCTTTAGCGCCGTTTTTGGAAGAAGCGCCGC
1 TAAAGGTT-TATTCTTTAGCGGCGTTTTTGG-AGAAGCGCCGC
4092336 TAAAGGT
1 TAAAGGT
4092343 CTTGGTCTGT
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 38 0.51
43 37 0.49
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (41 bp):
TAAAGGTTTATTCTTTAGCGGCGTTTTTGGAGAAGCGCCGC
Found at i:4092378 original size:101 final size:101
Alignment explanation
Indices: 4092250--4092451 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
4092240 AGAAGCGCCG
4092250 GTAAAGGTTTATTCTTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTTAGAGTCTTTAGCGC
1 GTAAAGGTTTATTCTTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTTAGAGTCTTTAGCGC
4092315 CGTTTTTGGAAGAAGCGCCGCTAAAGGTCTTGGTCT
66 CGTTTTTGGAAGAAGCGCCGCTAAAGGTCTTGGTCT
4092351 GTAAAGGTTTATTCTTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTTAGAGTCTTTAGCGC
1 GTAAAGGTTTATTCTTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTTAGAGTCTTTAGCGC
4092416 CGTTTTTGGAAGAAGCGCCGCTAAAGGTCTTGGTCT
66 CGTTTTTGGAAGAAGCGCCGCTAAAGGTCTTGGTCT
4092452 TTAGCGGCGT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (101 bp):
GTAAAGGTTTATTCTTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTTAGAGTCTTTAGCGC
CGTTTTTGGAAGAAGCGCCGCTAAAGGTCTTGGTCT
Found at i:4092413 original size:43 final size:43
Alignment explanation
Indices: 4092363--4092592 Score: 309
Period size: 43 Copynumber: 5.3 Consensus size: 43
4092353 AAAGGTTTAT
** * * *
4092363 TCTTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGT-TAGAG
1 TCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTG-G
* * *
4092406 TCTTTAGCGCCGTTTTTGGAAGAAGCGCCGCTAAAGGTCTTGG
1 TCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGG
4092449 TCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGG
1 TCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGG
* * *
4092492 TCTTTAGCGGCGTTTGTGGGAGAAGCACCGCCAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGG
* * * *
4092535 TCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCCAGAGGTCTTGG
1 TCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGG
4092578 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
4092593 TTTCTAAAAA
Statistics
Matches: 168, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 166 0.99
44 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGG
Found at i:4092473 original size:144 final size:143
Alignment explanation
Indices: 4092209--4092494 Score: 362
Period size: 144 Copynumber: 2.0 Consensus size: 143
4092199 ATATATTTTT
* * * * * * * *
4092209 TAAAGGTTATGTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGGTAAAGGTTTATTCTTTAGCGGCG
1 TAAAGGTTATGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTTGAGTCTTTAGCGCCG
* *
4092274 TTTGTGATAAAAGTGCCGCTAAAGGTTAGAGTCTTTAGCGCCGTTTTTGGAAGAAGCGCCGCTAA
66 TTTGTGATAAAAGCGCCGCTAAAGGTTAGAGTCTTTAGCGCCGTTTGTGGAAGAAGCGCCGCTAA
4092339 AGGTCTTGGTCTG
131 AGGTCTTGGTCTG
* *
4092352 TAAAGGTTTAT-TCTTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTTAGAGTCTTTAGCGC
1 TAAAGG-TTATGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTT-GAGTCTTTAGCGC
* * * * *
4092416 CGTTTTTGGA-AGAAGCGCCGCTAAAGGTCTTG-GTCTTTAGCGGCGTTTGTGGGAGAAGCGCCG
64 CGTTTGT-GATAAAAGCGCCGCTAAAGGT-TAGAGTCTTTAGCGCCGTTTGTGGAAGAAGCGCCG
4092479 CTAAAGGTCTTGGTCT
127 CTAAAGGTCTTGGTCT
4092495 TTAGCGGCGT
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
143 38 0.31
144 80 0.66
145 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.32
Consensus pattern (143 bp):
TAAAGGTTATGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTTGAGTCTTTAGCGCCG
TTTGTGATAAAAGCGCCGCTAAAGGTTAGAGTCTTTAGCGCCGTTTGTGGAAGAAGCGCCGCTAA
AGGTCTTGGTCTG
Done.