Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 39 of 310
Found at i:11185501 original size:3 final size:3
Alignment explanation
Indices: 11185493--11185521 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11185483 TCAAAATTCT
11185493 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
11185522 TATTGTCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:11187317 original size:17 final size:17
Alignment explanation
Indices: 11187295--11187348 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
11187285 TTCAAATGGG
11187295 TTTGATTGGGTCAGGCT
1 TTTGATTGGGTCAGGCT
*
11187312 TTTGA-T-GGTC---CC
1 TTTGATTGGGTCAGGCT
11187324 TTTGATTGGGTCAGGCT
1 TTTGATTGGGTCAGGCT
11187341 TTTGATTG
1 TTTGATTG
11187349 TGGGACCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 6 0.20
13 1 0.03
14 4 0.13
15 4 0.13
16 1 0.03
17 14 0.47
ACGTcount: A:0.11, C:0.13, G:0.31, T:0.44
Consensus pattern (17 bp):
TTTGATTGGGTCAGGCT
Found at i:11187604 original size:25 final size:25
Alignment explanation
Indices: 11187573--11187633 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
11187563 TGACTCCTAT
11187573 TTTCAGTTAAATTTGAGAAATAATC
1 TTTCAGTTAAATTTGAGAAATAATC
*
11187598 TTTCAGTTCAATTTGAGAAATAATC
1 TTTCAGTTAAATTTGAGAAATAATC
11187623 TTTCAGTTAAA
1 TTTCAGTTAAA
11187634 CTGTGTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (25 bp):
TTTCAGTTAAATTTGAGAAATAATC
Found at i:11195303 original size:21 final size:21
Alignment explanation
Indices: 11195277--11195318 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11195267 CTCAATTGCA
11195277 GGTATGTATTATATCTATAAC
1 GGTATGTATTATATCTATAAC
11195298 GGTATGTATTATATCTATAAC
1 GGTATGTATTATATCTATAAC
11195319 CCAGTCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
GGTATGTATTATATCTATAAC
Found at i:11198169 original size:18 final size:19
Alignment explanation
Indices: 11198136--11198171 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11198126 TTTTTTACTA
11198136 TAAACATTATTTATATATG
1 TAAACATTATTTATATATG
*
11198155 TAAAGATTA-TTATATAT
1 TAAACATTATTTATATAT
11198172 TATATCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (19 bp):
TAAACATTATTTATATATG
Found at i:11198184 original size:20 final size:19
Alignment explanation
Indices: 11198161--11198199 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
11198151 TATGTAAAGA
11198161 TTATTATATATTATATCATT
1 TTATTATATATTAT-TCATT
*
11198181 TTATTATTTATTATTCATT
1 TTATTATATATTATTCATT
11198200 AATTATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATATATTATTCATT
Found at i:11208375 original size:86 final size:85
Alignment explanation
Indices: 11208285--11208739 Score: 259
Period size: 87 Copynumber: 5.2 Consensus size: 85
11208275 ATGTGTTTAT
*
11208285 ACTGAAACAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAACAGATACATAGCAG
1 ACTGAAACAGATCCAAGATAA-AGATCTGGCATCTCTATTTCGACGGAGAACAGATACATAGCAG
11208350 ATCTAACCTTCAGATGATTTC
65 ATCTAACCTTCAGATGATTTC
* * * * * * *
11208371 ACTGAAGCAGATCCAAGAT---GATTTGGCATCCTTGTGTTTAC-AAGGA-ACAAATCGAAGACA
1 ACTGAAACAGATCCAAGATAAAGATCTGGCAT-C-TCTATTT-CGACGGAGA-ACA--G-ATACA
* * * * * *
11208431 TAACAGATTTGACTTTCGGATG-TTCCC
59 TAGCAGATCTAACCTTCAGATGATT-TC
** * * *
11208458 ACACCAAAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGTAGAACAGATACATAGC
1 AC-TGAAA-CAGATCCAAGATAA-AGATCTGGCATCTCTATTTCGACGGAGAACAGATACATAGC
11208523 AGATCTAACCTTCAGATGATTTC
63 AGATCTAACCTTCAGATGATTTC
* * * * * * *
11208546 ACTGAAGCAGATCCAAGAT---GATTTGGCATCCTTGTGTTTAC-AAGGA-ACAAATCGAAGACA
1 ACTGAAACAGATCCAAGATAAAGATCTGGCAT-C-TCTATTT-CGACGGAGA-ACA--G-ATACA
* * * * * *
11208606 TAACAGATTTGACTTTCGGATG-TTCCC
59 TAGCAGATCTAACCTTCAGATGATT-TC
** * * * *
11208633 ACACCAAAGTAGATCCAAGATAATAGATCTGGCATCTCTATTTCGACGAAGAGCAGATCCATAGC
1 AC-TGAAA-CAGATCCAAGATAA-AGATCTGGCATCTCTATTTCGACGGAGAACAGATACATAGC
11208698 AGATCTAACCTTCAGATGATTTC
63 AGATCTAACCTTCAGATGATTTC
* *
11208721 ACTGAAGCAAATCCAAGAT
1 ACTGAAACAGATCCAAGAT
11208740 GATTTGGCAT
Statistics
Matches: 261, Mismatches: 74, Indels: 68
0.65 0.18 0.17
Matches are distributed among these distances:
82 17 0.07
83 4 0.02
84 19 0.07
85 2 0.01
86 46 0.18
87 52 0.20
88 51 0.20
89 29 0.11
90 2 0.01
91 18 0.07
92 4 0.02
93 17 0.07
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (85 bp):
ACTGAAACAGATCCAAGATAAAGATCTGGCATCTCTATTTCGACGGAGAACAGATACATAGCAGA
TCTAACCTTCAGATGATTTC
Found at i:11208583 original size:175 final size:175
Alignment explanation
Indices: 11208292--11208797 Score: 877
Period size: 175 Copynumber: 2.9 Consensus size: 175
11208282 TATACTGAAA
*
11208292 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAACAGATACATAGCAGATCTAAC
1 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGAAGAACAGATACATAGCAGATCTAAC
11208357 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
66 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
11208422 TCGAAGACATAACAGATTTGACTTTCGGATGTTCCCACACCAAAG
131 TCGAAGACATAACAGATTTGACTTTCGGATGTTCCCACACCAAAG
* *
11208467 CAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGTAGAACAGATACATAGCAGATCTAAC
1 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGAAGAACAGATACATAGCAGATCTAAC
11208532 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
66 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
11208597 TCGAAGACATAACAGATTTGACTTTCGGATGTTCCCACACCAAAG
131 TCGAAGACATAACAGATTTGACTTTCGGATGTTCCCACACCAAAG
* * * * *
11208642 TAGATCCAAGATAATAGATCTGGCATCTCTATTTCGACGAAGAGCAGATCCATAGCAGATCTAAC
1 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGAAGAACAGATACATAGCAGATCTAAC
* * * *
11208707 CTTCAGATGATTTCACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTCTTCACAAGGAGCAAA
66 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
* * *
11208772 TCGAAGACACAGCAGATTTGGCTTTC
131 TCGAAGACATAACAGATTTGACTTTC
11208798 ACGTGTTTAC
Statistics
Matches: 315, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 315 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (175 bp):
CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGAAGAACAGATACATAGCAGATCTAAC
CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
TCGAAGACATAACAGATTTGACTTTCGGATGTTCCCACACCAAAG
Found at i:11210707 original size:22 final size:24
Alignment explanation
Indices: 11210679--11210779 Score: 77
Period size: 24 Copynumber: 4.1 Consensus size: 24
11210669 ATTCATGTTT
11210679 TTACTATATTATATTATTTTA-TA
1 TTACTATATTATATTATTTTATTA
*
11210702 TT-CTAT-TATATATTTATATTATTA
1 TTACTATAT-TATA-TTATTTTATTA
11210726 TTAC-ATATTAT-TTATTATGTATTA
1 TTACTATATTATATTATT-T-TATTA
**
11210750 TTTTTATATATATTATTATTTATATTA
1 TTACTATAT-TA-TATTATTT-TATTA
11210777 TTA
1 TTA
11210780 TTTTTATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
21 1 0.02
22 12 0.20
23 10 0.16
24 16 0.26
25 6 0.10
26 2 0.03
27 9 0.15
28 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (24 bp):
TTACTATATTATATTATTTTATTA
Found at i:11210710 original size:20 final size:18
Alignment explanation
Indices: 11210685--11210775 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 18
11210675 GTTTTTACTA
11210685 TATTATATTATTTTATATTC
1 TATTATA-TA-TTTATATTC
*
11210705 TATTATATATTTATATTAT
1 TATTATATATTTATATT-C
*
11210724 TATTACATATTATTTAT-TATG
1 TATT--ATA-TATTTATAT-TC
*
11210745 TATTAT-T-TTTATA-TA
1 TATTATATATTTATATTC
11210760 TATTAT-TATTTATATT
1 TATTATATATTTATATT
11210776 ATTATTTTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
15 8 0.13
16 11 0.18
17 2 0.03
18 8 0.13
19 8 0.13
20 7 0.12
21 8 0.13
22 8 0.13
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (18 bp):
TATTATATATTTATATTC
Found at i:11210726 original size:3 final size:3
Alignment explanation
Indices: 11210685--11210786 Score: 56
Period size: 3 Copynumber: 34.0 Consensus size: 3
11210675 GTTTTTACTA
*
11210685 TAT TA- TAT TAT T-T TA- TAT T-C TAT TAT ATAT T-T ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT
* *
11210727 TACA TAT TATT TAT TAT GTAT TAT TTT TA- TAT ATAT TAT TAT T-T ATAT
1 TA-T TAT TA-T TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT
*
11210775 TAT TAT TTT TAT
1 TAT TAT TAT TAT
11210787 ATTTAAATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
2 11 0.14
3 50 0.65
4 16 0.21
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11214098 original size:21 final size:18
Alignment explanation
Indices: 11214056--11214090 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11214046 TTTAACAAAT
11214056 CACTTCTCTTTTACATAC
1 CACTTCTCTTTTACATAC
11214074 CACTTCTCTTTTACATA
1 CACTTCTCTTTTACATA
11214091 TCACCACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (18 bp):
CACTTCTCTTTTACATAC
Found at i:11214625 original size:26 final size:26
Alignment explanation
Indices: 11214596--11214647 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11214586 GATTAATAAG
11214596 ATTGATTGTTTTGGATTTTACTCAAC
1 ATTGATTGTTTTGGATTTTACTCAAC
11214622 ATTGATTGTTTTGGATTTTACTCAAC
1 ATTGATTGTTTTGGATTTTACTCAAC
11214648 TTTCTCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (26 bp):
ATTGATTGTTTTGGATTTTACTCAAC
Found at i:11218458 original size:21 final size:21
Alignment explanation
Indices: 11218432--11218479 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
11218422 TTGTCGACTC
11218432 TAGTCCCAAAATTAGGAAACT
1 TAGTCCCAAAATTAGGAAACT
11218453 TAGTCCCAAAATTAGGAAACT
1 TAGTCCCAAAATTAGGAAACT
11218474 TAGTCC
1 TAGTCC
11218480 TAAACTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (21 bp):
TAGTCCCAAAATTAGGAAACT
Found at i:11223739 original size:33 final size:32
Alignment explanation
Indices: 11223676--11223739 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
11223666 AAAACCAAAC
* * *
11223676 ATTTAATCTAATTAACAGAAACTATGCAAAAT
1 ATTTAAACTAATTAACAAAAACTATACAAAAT
11223708 ATTTAAACTAATTAACTAAAAACTCA-ACAAAA
1 ATTTAAACTAATTAAC-AAAAACT-ATACAAAA
11223740 CCCAAAACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 15 0.56
33 11 0.41
34 1 0.04
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (32 bp):
ATTTAAACTAATTAACAAAAACTATACAAAAT
Found at i:11228353 original size:5 final size:5
Alignment explanation
Indices: 11228343--11228374 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11228333 TTGTGTGTTC
11228343 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
11228375 TTAGTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:11228357 original size:9 final size:9
Alignment explanation
Indices: 11228343--11228373 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11228333 TTGTGTGTTC
11228343 TTTATTTTA
1 TTTATTTTA
11228352 TTTATTTTA
1 TTTATTTTA
11228361 TTTTATTTTA
1 -TTTATTTTA
11228371 TTT
1 TTT
11228374 TTTAGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11231875 original size:30 final size:30
Alignment explanation
Indices: 11231834--11231896 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
11231824 GAACATTGGA
11231834 AAGCGGGTCAGTGGATTTTAAGATACTTAC
1 AAGCGGGTCAGTGGATTTTAAGATACTTAC
*
11231864 AAGCGGTTCAGTGGATTTTAAGATACTTAC
1 AAGCGGGTCAGTGGATTTTAAGATACTTAC
11231894 AAG
1 AAG
11231897 GCACTACTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (30 bp):
AAGCGGGTCAGTGGATTTTAAGATACTTAC
Found at i:11232829 original size:5 final size:5
Alignment explanation
Indices: 11232819--11232850 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11232809 TTGTGTGTTC
11232819 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
11232851 TCAACAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:11232833 original size:9 final size:9
Alignment explanation
Indices: 11232819--11232849 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11232809 TTGTGTGTTC
11232819 TTTATTTTA
1 TTTATTTTA
11232828 TTTATTTTA
1 TTTATTTTA
11232837 TTTTATTTTA
1 -TTTATTTTA
11232847 TTT
1 TTT
11232850 TTCAACAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11235523 original size:12 final size:12
Alignment explanation
Indices: 11235506--11235530 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11235496 TTGGTTAACT
11235506 TTCTAGAAATTC
1 TTCTAGAAATTC
11235518 TTCTAGAAATTC
1 TTCTAGAAATTC
11235530 T
1 T
11235531 ATCACGTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTCTAGAAATTC
Found at i:11237788 original size:13 final size:12
Alignment explanation
Indices: 11237758--11237786 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11237748 TCCCCTACCA
11237758 TTTTTTCCTTCT
1 TTTTTTCCTTCT
11237770 TTTTTTCCTT-T
1 TTTTTTCCTTCT
11237781 TTTTTT
1 TTTTTT
11237787 TTTTGTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCCTTCT
Found at i:11241975 original size:18 final size:19
Alignment explanation
Indices: 11241945--11241980 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11241935 TACAAAATAA
*
11241945 TTCAAAATAATTTTTAAAT
1 TTCAAAATAATTTATAAAT
11241964 TTCAAAAT-ATTTATAAA
1 TTCAAAATAATTTATAAA
11241981 AATTCTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCAAAATAATTTATAAAT
Found at i:11242276 original size:26 final size:25
Alignment explanation
Indices: 11242247--11242298 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
11242237 ATTTCACTCG
* * *
11242247 ATTTTATTTGATTCGACTCGACTTAA
1 ATTTCATTTGACTCAACTCGA-TTAA
*
11242273 ATTTCATTTTACTCAACTCGATTAA
1 ATTTCATTTGACTCAACTCGATTAA
11242298 A
1 A
11242299 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (25 bp):
ATTTCATTTGACTCAACTCGATTAA
Found at i:11251276 original size:6 final size:6
Alignment explanation
Indices: 11251255--11251288 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11251245 AGGTTTCAAA
* *
11251255 AAATGG AAACGG AAATGA AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
11251289 AATCCATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.56, C:0.03, G:0.26, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:11251277 original size:18 final size:18
Alignment explanation
Indices: 11251254--11251288 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11251244 TAGGTTTCAA
11251254 AAAATGGAAACGGAAATG
1 AAAATGGAAACGGAAATG
*
11251272 AAAATGGAAATGGAAAT
1 AAAATGGAAACGGAAAT
11251289 AATCCATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.26, T:0.14
Consensus pattern (18 bp):
AAAATGGAAACGGAAATG
Found at i:11251481 original size:26 final size:25
Alignment explanation
Indices: 11251437--11251508 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
11251427 TATTTTCTCG
*
11251437 AAATTTTCTAGGGGAAAAATCATCA
1 AAATTTTCTAGGGGTAAAATCATCA
* **
11251462 AAATTTTACTAGAGGTAAAATTGTCA
1 AAATTTT-CTAGGGGTAAAATCATCA
*
11251488 AATTTTTGCTAGGGGTAAAAT
1 AAATTTT-CTAGGGGTAAAAT
11251509 AGGGATGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 7 0.18
26 32 0.82
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (25 bp):
AAATTTTCTAGGGGTAAAATCATCA
Found at i:11253118 original size:27 final size:27
Alignment explanation
Indices: 11253067--11253119 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
11253057 TACTAGTTTC
* *
11253067 TTTTATAGTAAAATTGTCGTCACTTTA
1 TTTTATAGTAAAATCGTCATCACTTTA
*
11253094 TTTTATAGTAAAATCGTCATTACTTT
1 TTTTATAGTAAAATCGTCATCACTTT
11253120 GATGGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.49
Consensus pattern (27 bp):
TTTTATAGTAAAATCGTCATCACTTTA
Found at i:11253558 original size:22 final size:21
Alignment explanation
Indices: 11253508--11253559 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
11253498 GTCAAAAAGT
*
11253508 ATAAAATTTTATTTTCTTAGA
1 ATAAAATTTTATTTTCTTAAA
*
11253529 ATTAAATTTTATTTT-TTGAAA
1 ATAAAATTTTATTTTCTT-AAA
11253550 ATAATAATTT
1 ATAA-AATTT
11253560 CTACCTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
ATAAAATTTTATTTTCTTAAA
Found at i:11264190 original size:20 final size:20
Alignment explanation
Indices: 11264148--11264188 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11264138 TACAACATAA
*
11264148 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
11264168 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
11264187 TT
1 TT
11264189 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:11264980 original size:13 final size:13
Alignment explanation
Indices: 11264962--11264986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11264952 AACTAGCTTC
11264962 ATAAATATTTTTA
1 ATAAATATTTTTA
11264975 ATAAATATTTTT
1 ATAAATATTTTT
11264987 GAGTCCGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAAATATTTTTA
Found at i:11268181 original size:17 final size:17
Alignment explanation
Indices: 11268159--11268191 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11268149 TCTCACTTTA
11268159 TAAGTGAATTTAGGGAG
1 TAAGTGAATTTAGGGAG
11268176 TAAGTGAATTTAGGGA
1 TAAGTGAATTTAGGGA
11268192 TGGTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (17 bp):
TAAGTGAATTTAGGGAG
Found at i:11273915 original size:57 final size:57
Alignment explanation
Indices: 11273837--11273952 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
11273827 TCTAAACAAC
* *
11273837 ATAAATTTAACTTTAAAAAAAATTTAATTTCATTGTTTGAGACCTTTCTTAGAAGAG
1 ATAAATTTAACTTTAAAAAAAAATCAATTTCATTGTTTGAGACCTTTCTTAGAAGAG
* * *
11273894 ATAAGTTTAACTTTGAAAAAAAATCAATTTCATTGTTTGAGACTTTTCTTAGAAGAG
1 ATAAATTTAACTTTAAAAAAAAATCAATTTCATTGTTTGAGACCTTTCTTAGAAGAG
11273951 AT
1 AT
11273953 TTGAAAAGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (57 bp):
ATAAATTTAACTTTAAAAAAAAATCAATTTCATTGTTTGAGACCTTTCTTAGAAGAG
Found at i:11276905 original size:24 final size:24
Alignment explanation
Indices: 11276877--11276928 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11276867 TTTCTAGAAG
* *
11276877 ATTTAGTATTTATGAATATAATAT
1 ATTTAGCATTTATGAACATAATAT
* *
11276901 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAACATAATAT
11276925 ATTT
1 ATTT
11276929 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:11277430 original size:26 final size:26
Alignment explanation
Indices: 11277401--11277508 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
11277391 TGGTACAAAT
11277401 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11277427 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11277453 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11277479 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11277505 TGAT
1 TGAT
11277509 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11279148 original size:27 final size:27
Alignment explanation
Indices: 11279108--11279248 Score: 148
Period size: 27 Copynumber: 5.2 Consensus size: 27
11279098 AGGAAGCGTC
*
11279108 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
11279135 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
11279161 CCTAGTGGCTAC-GCCACGATTATCTGAT
1 -CTGGTGGCT-CTGCCACAATTATCTGAT
* *
11279189 CTGGTGGCTCTGCCA-TATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
11279216 CTGGTGGCTCTGCCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
11279243 CTGGTG
1 CTGGTG
11279249 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
26 11 0.11
27 81 0.84
28 5 0.05
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:11279187 original size:54 final size:54
Alignment explanation
Indices: 11279105--11279248 Score: 202
Period size: 54 Copynumber: 2.7 Consensus size: 54
11279095 TGGAGGAAGC
*
11279105 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
11279159 GTCCTAGTGGCTACGCCACGATTATCTGATCTGGTGGCTCTGCCATATATATCT
1 GTCCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
11279213 GTTCTGGTGGCT-CTGCCACAA-TATCTATATCTGGTG
1 GTCCTGGTGGCTAC-GCCACAATTATCT-GATCTGGTG
11279249 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:11285212 original size:6 final size:6
Alignment explanation
Indices: 11285203--11285229 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11285193 AAGAAGAAGA
11285203 AGAAAG AGAAAG AGAAAG AGAAAG AGA
1 AGAAAG AGAAAG AGAAAG AGAAAG AGA
11285230 GAAAATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (6 bp):
AGAAAG
Found at i:11285281 original size:17 final size:18
Alignment explanation
Indices: 11285259--11285292 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11285249 TATTAAATGA
11285259 TAATTT-TATTTTATTTG
1 TAATTTATATTTTATTTG
*
11285276 TAATTTATTTTTTATTT
1 TAATTTATATTTTATTT
11285293 AATAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TAATTTATATTTTATTTG
Found at i:11285575 original size:15 final size:15
Alignment explanation
Indices: 11285555--11285584 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11285545 TTTTTATTTT
11285555 TGAAATATAAAATCA
1 TGAAATATAAAATCA
*
11285570 TGAAATATAATATCA
1 TGAAATATAAAATCA
11285585 ACATCAAGGA
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:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (15 bp):
TGAAATATAAAATCA
Found at i:11292660 original size:60 final size:59
Alignment explanation
Indices: 11292567--11292686 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 59
11292557 CCTTAACGAA
11292567 GATGAACTGTATTTGAGGGAAACTTTAGCTGCTTATAGGACAGCCGCTGATGCAGCTGC
1 GATGAACTGTATTTGAGGGAAACTTTAGCTGCTTATAGGACAGCCGCTGATGCAGCTGC
*
11292626 NGATGAACTGTATTTGAGGGAAACTTTAGCTGCTTATAGGACAGCCGCTGATGCGGCTGC
1 -GATGAACTGTATTTGAGGGAAACTTTAGCTGCTTATAGGACAGCCGCTGATGCAGCTGC
11292686 G
1 G
11292687 CGCATAAACA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 1 0.02
60 58 0.98
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (59 bp):
GATGAACTGTATTTGAGGGAAACTTTAGCTGCTTATAGGACAGCCGCTGATGCAGCTGC
Found at i:11294433 original size:17 final size:18
Alignment explanation
Indices: 11294411--11294444 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11294401 AAACATGTCA
11294411 AATTATC-TCTAAAAATG
1 AATTATCATCTAAAAATG
*
11294428 AATTATCATCTATAAAT
1 AATTATCATCTAAAAAT
11294445 ACTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTATCATCTAAAAATG
Found at i:11298540 original size:41 final size:41
Alignment explanation
Indices: 11298494--11298575 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
11298484 TTGTTGACTT
* *
11298494 CATTTTATTAGGTTAAAGAATAAACAAATAAATTTAAATTA
1 CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATTA
11298535 CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATTA
1 CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATTA
11298576 TTTCCATCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (41 bp):
CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATTA
Found at i:11298592 original size:41 final size:40
Alignment explanation
Indices: 11298495--11298602 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 40
11298485 TGTTGACTTC
* * * *
11298495 ATTTTATTAGGTTAAAGAATAAACAAATAAATTTAAATTA
1 ATTTCATTAGATTAAAAAATAAACAAACAAATTTAAATTA
* *
11298535 CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATT-
1 -ATTTCATTAGATTAAAAAATAAACAAACAAATTTAAATTA
11298575 ATTTCCATCTAGATTAAAAAAATAAACA
1 ATTT-CAT-TAGATT-AAAAAATAAACA
11298603 TACTTGGGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
39 4 0.07
40 2 0.03
41 42 0.70
42 12 0.20
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.34
Consensus pattern (40 bp):
ATTTCATTAGATTAAAAAATAAACAAACAAATTTAAATTA
Found at i:11300088 original size:25 final size:25
Alignment explanation
Indices: 11300059--11300109 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
11300049 ATTCTACCAC
11300059 AGTGTTAGTAAAAACCTTACTTTCA
1 AGTGTTAGTAAAAACCTTACTTTCA
*
11300084 AGTGTTAGTAAAAATCTTACTTTCA
1 AGTGTTAGTAAAAACCTTACTTTCA
11300109 A
1 A
11300110 AACTGAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (25 bp):
AGTGTTAGTAAAAACCTTACTTTCA
Found at i:11305386 original size:14 final size:16
Alignment explanation
Indices: 11305361--11305392 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11305351 AAAAGACAAC
11305361 AATTTCACACA-TATA
1 AATTTCACACATTATA
11305376 AATTT-ACACATTATA
1 AATTTCACACATTATA
11305391 AA
1 AA
11305393 CATAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTTCACACATTATA
Found at i:11314846 original size:26 final size:26
Alignment explanation
Indices: 11314817--11314873 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
11314807 ATCCTCTCTC
* *
11314817 GAGCCATTGAA-CACGAAACTCGCAAA
1 GAGCCATT-AATCAAGAAACTCACAAA
*
11314843 GAGCCATTAATCAAGAAGCTCACAAA
1 GAGCCATTAATCAAGAAACTCACAAA
11314869 GAGCC
1 GAGCC
11314874 TTTCAGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.12
Consensus pattern (26 bp):
GAGCCATTAATCAAGAAACTCACAAA
Found at i:11324887 original size:13 final size:13
Alignment explanation
Indices: 11324866--11324899 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
11324856 CCAAACGTTA
11324866 AAATTTTCGAACG
1 AAATTTTCGAACG
*
11324879 AATTTTTCGAACG
1 AAATTTTCGAACG
11324892 AAATTTTC
1 AAATTTTC
11324900 AATAAACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (13 bp):
AAATTTTCGAACG
Found at i:11327088 original size:22 final size:22
Alignment explanation
Indices: 11327063--11327111 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11327053 TTTTAATATT
*
11327063 ATTTT-CTCCCTATTTTGCTACC
1 ATTTTACT-CCTATGTTGCTACC
* *
11327085 ATTTTACTCTTATGTTGCTACT
1 ATTTTACTCCTATGTTGCTACC
11327107 ATTTT
1 ATTTT
11327112 GTTGTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.16, C:0.22, G:0.06, T:0.55
Consensus pattern (22 bp):
ATTTTACTCCTATGTTGCTACC
Found at i:11327182 original size:30 final size:30
Alignment explanation
Indices: 11327148--11327210 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11327138 ACTTATTTTA
*
11327148 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
11327178 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11327208 TTG
1 TTG
11327211 CTTGTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11327617 original size:26 final size:25
Alignment explanation
Indices: 11327549--11327624 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
11327539 ATATATTTTC
*
11327549 TCAAAATTTTAGTAGGGGCAAAATCG
1 TCAAAATTTT-GTAGGGGTAAAATCG
*** *
11327575 TCAAAATCTTACCAGGGGTAAATTCG
1 TCAAAAT-TTTGTAGGGGTAAAATCG
11327601 TCAAAATTTTGTTAGGGGTAAAAT
1 TCAAAATTTTG-TAGGGGTAAAAT
11327625 AGACATGAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.05
26 35 0.90
27 2 0.05
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (25 bp):
TCAAAATTTTGTAGGGGTAAAATCG
Found at i:11332429 original size:25 final size:26
Alignment explanation
Indices: 11332388--11332436 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
11332378 CCTCATCCCT
11332388 ATTTTACCTCTAGTAAAATTTTGACG
1 ATTTTACCTCTAGTAAAATTTTGACG
11332414 ATTTTACC-CTAGTAAAATTTTGA
1 ATTTTACCTCTAGTAAAATTTTGA
11332437 GAAAGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (26 bp):
ATTTTACCTCTAGTAAAATTTTGACG
Found at i:11332845 original size:28 final size:28
Alignment explanation
Indices: 11332813--11332866 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
11332803 TTGGATTTTT
11332813 GCATATTAATTATAAACTCATTTAGTGA
1 GCATATTAATTATAAACTCATTTAGTGA
11332841 GCATATTAATTATAAACTCATTTAGT
1 GCATATTAATTATAAACTCATTTAGT
11332867 CACGAAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (28 bp):
GCATATTAATTATAAACTCATTTAGTGA
Found at i:11335179 original size:18 final size:18
Alignment explanation
Indices: 11335158--11335220 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
11335148 CTATTTTGTC
11335158 TTTCATTTATTATTTTCT
1 TTTCATTTATTATTTTCT
* *
11335176 TTTCACATTT-TTGGCTTTTTCC
1 TTT--CATTTATT---ATTTTCT
11335198 TTTCATTTATTATTTTCT
1 TTTCATTTATTATTTTCT
11335216 TTTCA
1 TTTCA
11335221 CATTTTTGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
18 13 0.37
19 2 0.06
20 10 0.29
21 2 0.06
22 8 0.23
ACGTcount: A:0.14, C:0.16, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTCATTTATTATTTTCT
Found at i:11335196 original size:22 final size:22
Alignment explanation
Indices: 11335170--11335235 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
11335160 TCATTTATTA
11335170 TTTTCTTTTCACATTTTTGGCT
1 TTTTCTTTTCACATTTTTGGCT
* *
11335192 TTTTCCTTT--CATTTATT---A
1 TTTTCTTTTCACATTT-TTGGCT
11335210 TTTTCTTTTCACATTTTTGGCT
1 TTTTCTTTTCACATTTTTGGCT
11335232 TTTT
1 TTTT
11335236 TACTCCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
18 8 0.24
19 2 0.06
20 10 0.29
21 2 0.06
22 12 0.35
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTCTTTTCACATTTTTGGCT
Found at i:11335201 original size:40 final size:40
Alignment explanation
Indices: 11335157--11335235 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
11335147 TCTATTTTGT
11335157 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
1 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
11335197 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTT
1 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTT
11335236 TACTCCAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.13, C:0.16, G:0.05, T:0.66
Consensus pattern (40 bp):
CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
Found at i:11335224 original size:20 final size:20
Alignment explanation
Indices: 11335161--11335225 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
11335151 TTTTGTCTTT
11335161 CATTTATTATTTTCTTTTCA
1 CATTTATTATTTTCTTTTCA
* *
11335181 CATTT-TTGGCTTTTTCCTTT--
1 CATTTATT---ATTTTCTTTTCA
11335201 CATTTATTATTTTCTTTTCA
1 CATTTATTATTTTCTTTTCA
11335221 CATTT
1 CATTT
11335226 TTGGCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
18 8 0.23
19 2 0.06
20 15 0.43
21 2 0.06
22 8 0.23
ACGTcount: A:0.15, C:0.17, G:0.03, T:0.65
Consensus pattern (20 bp):
CATTTATTATTTTCTTTTCA
Found at i:11341027 original size:57 final size:58
Alignment explanation
Indices: 11340927--11341044 Score: 175
Period size: 57 Copynumber: 2.1 Consensus size: 58
11340917 ATACAAATGG
* *
11340927 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAGTATAGTTTTCTCTAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
* * * *
11340985 TGAAAATGGAGAAATG-GAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
11341042 TGA
1 TGA
11341045 CCTAAAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 38 0.70
58 16 0.30
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
Found at i:11342780 original size:20 final size:20
Alignment explanation
Indices: 11342755--11342794 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11342745 GAATAATGTC
11342755 ACATGTACTTGTCATGCATA
1 ACATGTACTTGTCATGCATA
11342775 ACATGTACTTGTCATGCATA
1 ACATGTACTTGTCATGCATA
11342795 TATTGATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
ACATGTACTTGTCATGCATA
Found at i:11349377 original size:20 final size:20
Alignment explanation
Indices: 11349348--11349421 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
11349338 TATAAACATT
*
11349348 AAATATATATATAAAAATAG
1 AAATAAATATATAAAAATAG
**
11349368 AAATAAATATATAAAAATTC
1 AAATAAATATATAAAAATAG
* **
11349388 AAGAAAAATATATAAATCTAG
1 AA-ATAAATATATAAAAATAG
*
11349409 AAA-AAAAATATAA
1 AAATAAATATATAA
11349422 TTTATAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 9 0.20
20 20 0.45
21 15 0.34
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (20 bp):
AAATAAATATATAAAAATAG
Found at i:11349414 original size:19 final size:19
Alignment explanation
Indices: 11349354--11349421 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
11349344 CATTAAATAT
**
11349354 ATATATAAAAATAGAAATAA
1 ATATATAAATCTAGAAA-AA
*
11349374 ATATATAAAAATTCAAG-AAAA
1 ATATAT--AAA-TCTAGAAAAA
11349395 ATATATAAATCTAGAAAAA
1 ATATATAAATCTAGAAAAA
*
11349414 AAATATAA
1 ATATATAA
11349422 TTTATAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.10
19 14 0.36
20 6 0.15
21 8 0.21
22 5 0.13
23 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (19 bp):
ATATATAAATCTAGAAAAA
Found at i:11349445 original size:14 final size:15
Alignment explanation
Indices: 11349412--11349446 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11349402 AATCTAGAAA
*
11349412 AAAAATATAATTTAT
1 AAAAATAAAATTTAT
*
11349427 AAAAATAAAATTTAC
1 AAAAATAAAATTTAT
11349442 AAAAA
1 AAAAA
11349447 AATACGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATAAAATTTAT
Found at i:11351021 original size:38 final size:39
Alignment explanation
Indices: 11350949--11351031 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 39
11350939 CATATAACTC
*
11350949 GAGAATATGCAAACAAGGGTAGATCTCATTATATTACCT
1 GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
* * *
11350988 GAGAATTTGC-AACCAGGTTAGACCTCATTATATTACCT
1 GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
11351026 GAGAAT
1 GAGAAT
11351032 CTACAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 31 0.77
39 9 0.22
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (39 bp):
GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
Found at i:11351507 original size:18 final size:18
Alignment explanation
Indices: 11351474--11351575 Score: 75
Period size: 17 Copynumber: 5.8 Consensus size: 18
11351464 CGTGATCCGA
*
11351474 TTGAAAA-ACGAGAATTT
1 TTGAAAACACGAAAATTT
*
11351491 TTTAAAACACGAAAA-TT
1 TTGAAAACACGAAAATTT
*
11351508 TTGAAAACACGAAACTTT
1 TTGAAAACACGAAAATTT
** * **
11351526 TTGGGATC-CGAATTTTT
1 TTGAAAACACGAAAATTT
* *
11351543 TTTAAAACACGAAAAATT
1 TTGAAAACACGAAAATTT
* *
11351561 TTGGAAACGCGAAAA
1 TTGAAAACACGAAAA
11351576 GTTTACAGCA
Statistics
Matches: 63, Mismatches: 19, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
17 32 0.51
18 31 0.49
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:11352099 original size:26 final size:27
Alignment explanation
Indices: 11352056--11352109 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
11352046 TATGTATACC
*
11352056 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
11352082 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
11352109 A
1 A
11352110 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:11352210 original size:41 final size:40
Alignment explanation
Indices: 11352115--11352211 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 40
11352105 AATAATAAGC
11352115 ATAATAATAAATATAATGATAAATAAAATTAATACTATAT
1 ATAATAATAAATATAATGATAAATAAAATTAATACTATAT
*
11352155 ATAA-AAGTATATATATATG-TACAATAAAA-TATATACTA-AT
1 ATAATAA-TAAATATA-ATGATA-AATAAAATTA-ATACTATAT
11352195 ATTAATAATAAATATAA
1 A-TAATAATAAATATAA
11352212 CAGGGGTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
39 2 0.04
40 19 0.39
41 26 0.53
42 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (40 bp):
ATAATAATAAATATAATGATAAATAAAATTAATACTATAT
Found at i:11354028 original size:21 final size:21
Alignment explanation
Indices: 11353999--11354052 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
11353989 AGGATAGGAT
* **
11353999 CTGCGACTTCAATGTGCTCCA
1 CTGCAACTTCAATCAGCTCCA
*
11354020 CTGCAACTTCGATCAGCTCCA
1 CTGCAACTTCAATCAGCTCCA
* *
11354041 TTGTAACTTCAA
1 CTGCAACTTCAA
11354053 GGCTCTGCTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (21 bp):
CTGCAACTTCAATCAGCTCCA
Found at i:11354323 original size:13 final size:13
Alignment explanation
Indices: 11354295--11354329 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
11354285 TGAGTTGATT
11354295 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
11354308 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
11354322 TTTGAAAA
1 TTTGAAAA
11354330 TACCTCGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:11354327 original size:88 final size:88
Alignment explanation
Indices: 11354173--11354390 Score: 235
Period size: 88 Copynumber: 2.5 Consensus size: 88
11354163 ATGTGACCGG
* * *
11354173 AGGCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAACTAGACATTAAAAACAGAAATT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACTAGACATTAAAAACAGAAATT
* * * *
11354237 GAAAATAGCTCAGCACGTGAGCTA
65 GAAAATACCTCAGCACGTAACCCA
* * * **
11354261 AGGCTCAACTCGCTTCTTGCAATATGAGTTGATTTTTGAAAAC-AGA-ATTTGCAAAACAGATTT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACTAGACA-TT-AAAAACAGAAAT
* * *
11354324 TGAAAATACCTCGGCATGTAACCCG
64 TGAAAATACCTCAGCACGTAACCCA
* *
11354349 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAA
11354391 GCATAATTGA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.01
87 9 0.08
88 98 0.91
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (88 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACTAGACATTAAAAACAGAAATTG
AAAATACCTCAGCACGTAACCCA
Found at i:11354507 original size:73 final size:73
Alignment explanation
Indices: 11354348--11354611 Score: 372
Period size: 73 Copynumber: 3.6 Consensus size: 73
11354338 CATGTAACCC
* * *
11354348 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCA-TAATTGAAAATACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACCAGAAATTGAAAATACCTCAG
11354412 CGTGCCCT
66 CGTGCCCT
*
11354420 GAGGCTCAACTCACCTCTCGCAATAT-ACGTTGATTTTTGACAAA-CAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGA-GTTGATTTTTGA-AAACCAGAAATTGAAAATACCTC
*
11354483 AGCGTGTCCT
64 AGCGTGCCCT
* ** * *
11354493 GAGGCCCAACTCACCTCTCATAATGTAAGTTGATTTTTTTGAAAACCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACCAGAAATTGAAAATACCTC
11354558 AGCGTGCCCT
64 AGCGTGCCCT
*
11354568 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
11354612 ATCAAAATAC
Statistics
Matches: 169, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
71 1 0.01
72 39 0.23
73 64 0.38
74 4 0.02
75 61 0.36
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACCAGAAATTGAAAATACCTCAG
CGTGCCCT
Found at i:11354563 original size:75 final size:72
Alignment explanation
Indices: 11354308--11354612 Score: 371
Period size: 75 Copynumber: 4.1 Consensus size: 72
11354298 GAAAACAGAA
** * *
11354308 TTTGCAAAACAGATTTTGAAAATACCTCGGCATGTAACCC-GAGGCTCAACTCACCTCTCGTAAT
1 TTTG-AAAACAGAAATTGAAAATACCTCAGC--GT-GCCCTGAGGCTCAACTCACCTCTCGTAAT
*
11354372 ATGAGTTGATT
62 ATAAGTTGATT
* *
11354383 TTTGAAAAGCA-TAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATA
1 TTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATA
*
11354447 CGTTGATT
65 AGTTGATT
* * * * *
11354455 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCATAATGTA
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATA
11354520 AGTTGATTTT
65 AGTTGA--TT
* *
11354530 TTTGAAAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATA
*
11354595 AGTTAATT
65 AGTTGATT
11354603 TTTGAAAACA
1 TTTGAAAACA
11354613 TCAAAATACC
Statistics
Matches: 199, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
71 3 0.02
72 43 0.22
73 64 0.32
74 22 0.11
75 67 0.34
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (72 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATAA
GTTGATT
Found at i:11354581 original size:148 final size:144
Alignment explanation
Indices: 11354348--11354612 Score: 415
Period size: 148 Copynumber: 1.8 Consensus size: 144
11354338 CATGTAACCC
* * * * *
11354348 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAATTGAAAATACCTCAGC
1 GAGGCCCAACTCACCTCTCATAATATAAGTTGATTTTTGAAAACCAAAATTGAAAATACCTCAGC
*
11354413 GTGCCCTGAGGCTCAACTCACCTCTCGCAATAT-ACGTTGATTTTTGACAAACAGAAATTGAAAT
66 GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA-GTTAATTTTTGA-AAACAGAAATTGAAAT
11354477 TACCTCAGCGTGTCCT
129 TACCTCAGCGTGTCCT
*
11354493 GAGGCCCAACTCACCTCTCATAATGTAAGTTGATTTTTTTGAAAACCAGAAATTGAAAATACCTC
1 GAGGCCCAACTCACCTCTCATAATATAAGTTGA--TTTTTGAAAACCA-AAATTGAAAATACCTC
11354558 AGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACA
63 AGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACA
11354613 TCAAAATACC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
145 29 0.27
147 17 0.16
148 62 0.57
149 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (144 bp):
GAGGCCCAACTCACCTCTCATAATATAAGTTGATTTTTGAAAACCAAAATTGAAAATACCTCAGC
GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAACAGAAATTGAAATTA
CCTCAGCGTGTCCT
Found at i:11358575 original size:93 final size:93
Alignment explanation
Indices: 11358416--11358586 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
11358406 CCCATAAGTA
*
11358416 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
11358481 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* * *
11358509 AACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
11358574 GAGTTCGGATGCC
66 GAGCTCGGATGCC
11358587 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:11358582 original size:46 final size:46
Alignment explanation
Indices: 11358407--11358582 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
11358397 TGTAACCCGC
* *
11358407 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
11358453 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
11358499 ACATCTCTCGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
11358546 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
11358583 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 67 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:11358601 original size:46 final size:46
Alignment explanation
Indices: 11358416--11358601 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 46
11358406 CCCATAAGTA
* * * * *
11358416 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAT--AAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCTAGTG
* * *
11358462 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAGTG
* * * * *
11358509 AACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCAT--AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGTG
* *
11358555 AACTCGGACTCAACTTAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTG
11358601 A
1 A
11358602 CATGTCACTT
Statistics
Matches: 108, Mismatches: 21, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
44 12 0.11
45 2 0.02
46 60 0.56
47 30 0.28
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTG
Found at i:11367391 original size:272 final size:272
Alignment explanation
Indices: 11366902--11367441 Score: 981
Period size: 272 Copynumber: 2.0 Consensus size: 272
11366892 CGCAACTTCT
* * *
11366902 ATGTGTCCAAGGACCTTCGGGAAGATGATCAAACCGTAAATGGCCAGAGCGAATAGATTTACCCT
1 ATGTGTCCAAGGACCTTCGGGAAGATGATCAAACCATAAATGGCCAGAGCAAACAGATTTACCCT
11366967 TTTCAACATGTCGGGATGGTTCAGAACCAAGTCTCATAGGGAAGACCATAGAATGCAAATAGTTT
66 TTTCAACATGTCGGGATGGTTCAGAACCAAGTCTCATAGGGAAGACCATAGAATGCAAATAGTTT
11367032 CATTCTTCTTCTTTATCTGTTTTTCGGCCCACGCGTCAGTCATGTCTGTCAATCTCACTAACTTT
131 CATTCTTCTTCTTTATCTGTTTTTCGGCCCACGCGTCAGTCATGTCTGTCAATCTCACTAACTTT
*
11367097 TTCTTGAAGGTCATTGGCTTAGGTTCTTTCACATATATCTTATAAGGTTGTACGTTTTCGACACG
196 TTCTTGAAGGTCATTAGCTTAGGTTCTTTCACATATATCTTATAAGGTTGTACGTTTTCGACACG
11367162 AAGCAAAGTAGC
261 AAGCAAAGTAGC
11367174 ATGTGTCCAAGGACCTTCGGGAAGATGATCAAACCATAAATGGCCAGAGCAAACAGATTTACCCT
1 ATGTGTCCAAGGACCTTCGGGAAGATGATCAAACCATAAATGGCCAGAGCAAACAGATTTACCCT
* * * *
11367239 TTTCAACATGTCGGGATGGTTCAGAATCAAGTCTCGTAGGGAAGACCATGGAATGCAAATGGTTT
66 TTTCAACATGTCGGGATGGTTCAGAACCAAGTCTCATAGGGAAGACCATAGAATGCAAATAGTTT
* *
11367304 CATTCTTTTTCTTTATCTGTTTTTCGGCCCACGCGTCAGTCTTGTCTGTCAATCTCACTAACTTT
131 CATTCTTCTTCTTTATCTGTTTTTCGGCCCACGCGTCAGTCATGTCTGTCAATCTCACTAACTTT
*
11367369 TTCTTGAAGGTCATTAGCTTAGGTTCTTTCACATATATCTTATAGGGTTGTACGTTTTCGACACG
196 TTCTTGAAGGTCATTAGCTTAGGTTCTTTCACATATATCTTATAAGGTTGTACGTTTTCGACACG
11367434 AAGCAAAG
261 AAGCAAAG
11367442 CAGCGTACTC
Statistics
Matches: 257, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
272 257 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (272 bp):
ATGTGTCCAAGGACCTTCGGGAAGATGATCAAACCATAAATGGCCAGAGCAAACAGATTTACCCT
TTTCAACATGTCGGGATGGTTCAGAACCAAGTCTCATAGGGAAGACCATAGAATGCAAATAGTTT
CATTCTTCTTCTTTATCTGTTTTTCGGCCCACGCGTCAGTCATGTCTGTCAATCTCACTAACTTT
TTCTTGAAGGTCATTAGCTTAGGTTCTTTCACATATATCTTATAAGGTTGTACGTTTTCGACACG
AAGCAAAGTAGC
Found at i:11367807 original size:102 final size:102
Alignment explanation
Indices: 11367631--11367829 Score: 362
Period size: 102 Copynumber: 2.0 Consensus size: 102
11367621 TTCCAAACCC
11367631 GAACCAAATCTTCAAGGTTATTCTGGCGAACATTCACAGTTACGTGCTCGGGCAAATTGGCAATA
1 GAACCAAATCTTCAAGGTTATTCTGGCGAACATTCACAGTTACGTGCTCGGGCAAATTGGCAATA
11367696 CATCCCTCCACTAGACTATCACCTCTTTCTTTTTGAG
66 CATCCCTCCACTAGACTATCACCTCTTTCTTTTTGAG
* * *
11367733 GAACCAAATCTTCAAGGTTATTCTGGCGAACATTTACAGTTATGTGCTCGGGTAAATTGGCAATA
1 GAACCAAATCTTCAAGGTTATTCTGGCGAACATTCACAGTTACGTGCTCGGGCAAATTGGCAATA
*
11367798 CATCCCTCCACTAGACTATCCCCTCTTTCTTT
66 CATCCCTCCACTAGACTATCACCTCTTTCTTT
11367830 CCGAGTCTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (102 bp):
GAACCAAATCTTCAAGGTTATTCTGGCGAACATTCACAGTTACGTGCTCGGGCAAATTGGCAATA
CATCCCTCCACTAGACTATCACCTCTTTCTTTTTGAG
Found at i:11377263 original size:6 final size:6
Alignment explanation
Indices: 11377239--11377275 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
11377229 GAGATTTGGA
*
11377239 GTTT-T GTTAAT GTTT-T GTTTAT GTTTAT GTTTAT GTT
1 GTTTAT GTTTAT GTTTAT GTTTAT GTTTAT GTTTAT GTT
11377276 CTTCAGAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 8 0.29
6 20 0.71
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.68
Consensus pattern (6 bp):
GTTTAT
Found at i:11377271 original size:12 final size:11
Alignment explanation
Indices: 11377239--11377275 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
11377229 GAGATTTGGA
*
11377239 GTTTTGTTAAT
1 GTTTTGTTTAT
11377250 GTTTTGTTTAT
1 GTTTTGTTTAT
11377261 GTTTATGTTTAT
1 GTTT-TGTTTAT
11377273 GTT
1 GTT
11377276 CTTCAGAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.68
Consensus pattern (11 bp):
GTTTTGTTTAT
Found at i:11382680 original size:27 final size:27
Alignment explanation
Indices: 11382650--11382701 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11382640 ATCACATAGG
11382650 GGCAAAATAGTCATCTTACCATATAAA
1 GGCAAAATAGTCATCTTACCATATAAA
* * *
11382677 GGCAAAATAGTTATTTTATCATATA
1 GGCAAAATAGTCATCTTACCATATA
11382702 TAGGGGATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (27 bp):
GGCAAAATAGTCATCTTACCATATAAA
Found at i:11385365 original size:17 final size:18
Alignment explanation
Indices: 11385343--11385376 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11385333 AGTTGAATTG
11385343 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
*
11385360 AAATTGTGAAAATTAAA
1 AAATTGCGAAAATTAAA
11385377 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:11386117 original size:10 final size:9
Alignment explanation
Indices: 11386102--11386167 Score: 69
Period size: 10 Copynumber: 6.7 Consensus size: 9
11386092 ATTCTAAAAG
11386102 ATAAATACAA
1 ATAAATA-AA
11386112 ATAAATACAA
1 ATAAATA-AA
*
11386122 ATAATTAAA
1 ATAAATAAA
11386131 GATAAATAAA
1 -ATAAATAAA
11386141 GATAAATAAAA
1 -ATAAAT-AAA
11386152 ATAAATGAAA
1 ATAAAT-AAA
11386162 ATAAAT
1 ATAAAT
11386168 CCTAAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
9 2 0.04
10 46 0.90
11 3 0.06
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:11386130 original size:24 final size:24
Alignment explanation
Indices: 11386103--11386149 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11386093 TTCTAAAAGA
* *
11386103 TAAATACAAATAAATACAAATAAT
1 TAAAGACAAATAAAGACAAATAAT
* *
11386127 TAAAGATAAATAAAGATAAATAA
1 TAAAGACAAATAAAGACAAATAA
11386150 AAATAAATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
TAAAGACAAATAAAGACAAATAAT
Found at i:11386134 original size:30 final size:30
Alignment explanation
Indices: 11386098--11386155 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
11386088 TTAAATTCTA
*
11386098 AAAGATAAATACAA-ATAAATACAAATAATT
1 AAAGATAAATA-AAGATAAATAAAAATAATT
11386128 AAAGATAAATAAAGATAAATAAAAATAA
1 AAAGATAAATAAAGATAAATAAAAATAA
11386156 ATGAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (30 bp):
AAAGATAAATAAAGATAAATAAAAATAATT
Found at i:11386153 original size:16 final size:16
Alignment explanation
Indices: 11386134--11386166 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11386124 AATTAAAGAT
11386134 AAATAAA-GATAAATAA
1 AAATAAATGA-AAATAA
11386150 AAATAAATGAAAATAA
1 AAATAAATGAAAATAA
11386166 A
1 A
11386167 TCCTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATAAATGAAAATAA
Found at i:11386166 original size:30 final size:30
Alignment explanation
Indices: 11386098--11386167 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
11386088 TTAAATTCTA
* *
11386098 AAAGATAAATACAAATAAATACAAATAATT
1 AAAGATAAATACAAATAAATAAAAATAATG
11386128 AAAGATAAATA-AAGATAAATAAAAATAAATG
1 AAAGATAAATACAA-ATAAATAAAAAT-AATG
11386159 AAA-ATAAAT
1 AAAGATAAAT
11386168 CCTAAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 2 0.06
30 28 0.78
31 6 0.17
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (30 bp):
AAAGATAAATACAAATAAATAAAAATAATG
Found at i:11386200 original size:13 final size:13
Alignment explanation
Indices: 11386184--11386208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11386174 TTTAAATCTA
11386184 AATAATTATCCTT
1 AATAATTATCCTT
11386197 AATAATTATCCT
1 AATAATTATCCT
11386209 ATTATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTATCCTT
Found at i:11386985 original size:96 final size:97
Alignment explanation
Indices: 11386804--11386989 Score: 286
Period size: 96 Copynumber: 1.9 Consensus size: 97
11386794 ATTTTATTTA
* * * *
11386804 TTTATTTTTACTTAGGAATATATTGAACATTTTGACGCGAAGAGAGATGACAGCCAAGCATCCCA
1 TTTATTTTTACTGAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAACATCCCA
11386869 CCCCGGTTACTCAGCCCAACACATTCCTAATT
66 CCCCGGTTACTCAGCCCAACACATTCCTAATT
* *
11386901 TTTATTTTT-CTGAAGAATATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAACA-CCTC
1 TTTATTTTTACTGAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAACATCC-C
*
11386964 ACCCCGGTTACTCAGCGCAACACATT
65 ACCCCGGTTACTCAGCCCAACACATT
11386990 TTTAAAAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 2 0.02
96 70 0.86
97 9 0.11
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTGAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAACATCCCA
CCCCGGTTACTCAGCCCAACACATTCCTAATT
Found at i:11387754 original size:12 final size:12
Alignment explanation
Indices: 11387734--11387795 Score: 78
Period size: 12 Copynumber: 5.5 Consensus size: 12
11387724 CATCCAAAAT
11387734 AAAAA-AAATAA
1 AAAAATAAATAA
*
11387745 AAAAATAAATAG
1 AAAAATAAATAA
*
11387757 TAAAATAAATAA
1 AAAAATAAATAA
11387769 AAAAAT--A-AA
1 AAAAATAAATAA
11387778 AAAAATAAATAA
1 AAAAATAAATAA
11387790 AAAAAT
1 AAAAAT
11387796 TGAGTTGCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.19
10 1 0.02
11 6 0.14
12 28 0.65
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAAATAAATAA
Found at i:11387763 original size:20 final size:20
Alignment explanation
Indices: 11387738--11387795 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
11387728 CAAAATAAAA
11387738 AAAATAAA-AAAATAAATAGT
1 AAAATAAATAAAA-AAATAGT
**
11387758 AAAATAAATAAAAAAATAAAA
1 AAAATAAATAAAAAAAT-AGT
11387779 AAAATAAATAAAAAAAT
1 AAAATAAATAAAAAAAT
11387796 TGAGTTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 12 0.35
21 22 0.65
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAATAAATAAAAAAATAGT
Found at i:11387795 original size:8 final size:8
Alignment explanation
Indices: 11387729--11387791 Score: 65
Period size: 9 Copynumber: 7.5 Consensus size: 8
11387719 ATCAACATCC
11387729 AAAATAAAA
1 AAAAT-AAA
11387738 AAAATAAA
1 AAAATAAA
11387746 AAAAT-AA
1 AAAATAAA
* *
11387753 ATAGTAAA
1 AAAATAAA
11387761 ATAAATAAA
1 A-AAATAAA
11387770 AAAATAAAA
1 AAAAT-AAA
11387779 AAAATAAA
1 AAAATAAA
11387787 TAAAA
1 -AAAA
11387792 AAATTGAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 5 0.11
8 18 0.39
9 23 0.50
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:11387795 original size:33 final size:33
Alignment explanation
Indices: 11387730--11387795 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
11387720 TCAACATCCA
**
11387730 AAATAAAAAAAATAAAAAAATAAATAGTAAAAT
1 AAATAAAAAAAATAAAAAAATAAATAAAAAAAT
11387763 AAAT-AAAAAAATAAAAAAAATAAATAAAAAAAT
1 AAATAAAAAAAAT-AAAAAAATAAATAAAAAAAT
11387796 TGAGTTGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 8 0.27
33 22 0.73
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.17
Consensus pattern (33 bp):
AAATAAAAAAAATAAAAAAATAAATAAAAAAAT
Found at i:11390666 original size:17 final size:18
Alignment explanation
Indices: 11390644--11390677 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11390634 ATTTGAATTG
11390644 AAATTGC-AAAATTAAAT
1 AAATTGCGAAAATTAAAT
11390661 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
11390678 ATGAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:11391427 original size:10 final size:10
Alignment explanation
Indices: 11391400--11391459 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
11391390 TTAAATTCTA
11391400 AAAGATAAAT
1 AAAGATAAAT
11391410 ACAA-ATAAAT
1 A-AAGATAAAT
*
11391420 AAAGATAATT
1 AAAGATAAAT
*
11391430 AAAGACAAAT
1 AAAGATAAAT
11391440 AAAGATAAAT
1 AAAGATAAAT
11391450 GAAA-ATAAAT
1 -AAAGATAAAT
11391460 CCTAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:11392331 original size:123 final size:123
Alignment explanation
Indices: 11392107--11392357 Score: 412
Period size: 123 Copynumber: 2.0 Consensus size: 123
11392097 GTCGGGACTA
* ** * *
11392107 AAAATACGAACTCTAAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGTGCTCTTTCAAAGGG
1 AAAACACGAACTCTAAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGGG
* *
11392172 CACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAGGATGATGATAGG
66 AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
* * *
11392230 AAAACACGAACTCTAATTTGAATCTCTGGAGGAAAAGCCTATGGCTATGGCACCCTGTCAAAGGG
1 AAAACACGAACTCTAAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGGG
11392295 AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
66 AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
11392353 AAAAC
1 AAAAC
11392358 CTCACACAAT
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (123 bp):
AAAACACGAACTCTAAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGGG
AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
Found at i:11396973 original size:30 final size:30
Alignment explanation
Indices: 11396937--11397018 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
11396927 TAGGCATTCT
*
11396937 CACACGGGCTGAG-CACACGCCCGTATGAGC
1 CACACGGGCTG-GCCACACGCCCGTATGAGA
* *
11396967 CACACGGGCTGGCCACACGTCCGTGTGAGA
1 CACACGGGCTGGCCACACGCCCGTATGAGA
11396997 CACACGGGCTGGCCACACGCCC
1 CACACGGGCTGGCCACACGCCC
11397019 ATGTGCCAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
29 1 0.02
30 46 0.98
ACGTcount: A:0.21, C:0.39, G:0.30, T:0.10
Consensus pattern (30 bp):
CACACGGGCTGGCCACACGCCCGTATGAGA
Found at i:11400860 original size:110 final size:111
Alignment explanation
Indices: 11400674--11400886 Score: 340
Period size: 110 Copynumber: 1.9 Consensus size: 111
11400664 TATATATATA
* * *
11400674 AAAGGAAGGTCCAGGTTTACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGA
1 AAAGGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGA
*
11400739 TTTATTTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTT
66 TTTAATTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTT
* * *
11400785 AAAGGAAGCTCCAGCTTAACTCTTAGA-TTTTAAATTACATT-AATTATACAATTAATTATAGCG
1 AAAGGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGA-ACAATTAATTATAACG
11400848 ATTTAATTAGAGAAATGGAAGAGTTTGAGATGGTACACC
65 ATTTAATTAGAGAAATGGAAGAGTTTGAGATGGTACACC
11400887 CATCTTAATT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
109 4 0.04
110 67 0.71
111 23 0.24
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (111 bp):
AAAGGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGA
TTTAATTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTT
Found at i:11404629 original size:14 final size:14
Alignment explanation
Indices: 11404610--11404654 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
11404600 AACTCATCTT
*
11404610 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
11404624 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
11404637 AATTTAATTTAATG
1 AGTTTAATTTAATG
11404651 AGTT
1 AGTT
11404655 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:11407523 original size:43 final size:43
Alignment explanation
Indices: 11407474--11407561 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
11407464 TGACGTTTAT
* *
11407474 TTAAAAAAACGCCACTAAAAGCCATGACTTTTAGCGGCGTTTG
1 TTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAGCGTTTG
* * * *
11407517 TTAAAAAAGCACCACTAAAAGTCATGGCTTTTAGTAGCGTTTG
1 TTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAGCGTTTG
11407560 TT
1 TT
11407562 GGGATGGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (43 bp):
TTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAGCGTTTG
Found at i:11407732 original size:31 final size:31
Alignment explanation
Indices: 11407697--11407779 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
11407687 CTTCCTGCAT
* *
11407697 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
11407728 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
11407759 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
11407780 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:11408024 original size:21 final size:21
Alignment explanation
Indices: 11408000--11408061 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
11407990 TTTTGCTCTA
11408000 CTCTG-CTGCCATCGCTGCTGC
1 CTCTGCCT-CCATCGCTGCTGC
* *
11408021 CTCTGCCTCCCTCGCTGCTGT
1 CTCTGCCTCCATCGCTGCTGC
* * *
11408042 CGCTACCTCCTTCGCTGCTG
1 CTCTGCCTCCATCGCTGCTG
11408062 TCGCTGCCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.03, C:0.45, G:0.21, T:0.31
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTGC
Found at i:11408062 original size:21 final size:21
Alignment explanation
Indices: 11408011--11408066 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
11408001 TCTGCTGCCA
* * *
11408011 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGTCGCTACCTCCC
*
11408032 TCGCTGCTGTCGCTACCTCCT
1 TCGCTGCTGTCGCTACCTCCC
11408053 TCGCTGCTGTCGCT
1 TCGCTGCTGTCGCT
11408067 GCCACTGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.02, C:0.45, G:0.21, T:0.32
Consensus pattern (21 bp):
TCGCTGCTGTCGCTACCTCCC
Found at i:11408077 original size:27 final size:27
Alignment explanation
Indices: 11408016--11408087 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 27
11408006 TGCCATCGCT
*
11408016 GCTGCCTCTGCCTCCCTCGCTGCTGTC
1 GCTGCCACTGCCTCCCTCGCTGCTGTC
*
11408043 GCT---A---CCTCCTTCGCTGCTGTC
1 GCTGCCACTGCCTCCCTCGCTGCTGTC
*
11408064 GCTGCCACTGCCTCCCTCTCTGCT
1 GCTGCCACTGCCTCCCTCGCTGCT
11408088 TCATCGGCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
21 19 0.54
24 1 0.03
27 15 0.43
ACGTcount: A:0.03, C:0.47, G:0.19, T:0.31
Consensus pattern (27 bp):
GCTGCCACTGCCTCCCTCGCTGCTGTC
Found at i:11411843 original size:12 final size:12
Alignment explanation
Indices: 11411828--11411852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11411818 TCATCCTTTC
11411828 CATCAGATTCAT
1 CATCAGATTCAT
11411840 CATCAGATTCAT
1 CATCAGATTCAT
11411852 C
1 C
11411853 CCTCGATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CATCAGATTCAT
Found at i:11413787 original size:15 final size:17
Alignment explanation
Indices: 11413750--11414625 Score: 261
Period size: 18 Copynumber: 50.2 Consensus size: 17
11413740 TATGATATGA
*
11413750 TATATATTTATGTAAGT
1 TATATATTTATCTAAGT
11413767 TATATATTTATCTAAGT
1 TATATATTTATCTAAGT
* *
11413784 TATATAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
* * * *
11413802 TATGTAAGTTATAT-ATT
1 TATAT-ATTTATCTAAGT
* * * *
11413819 TATCAAAGTTATATCAGT
1 TAT-ATATTTATCTAAGT
* *
11413837 TATATAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
* *
11413855 TATATAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
*
11413873 TATATACTTATCTAAGT
1 TATATATTTATCTAAGT
* *
11413890 TATATAAGTTATGTAAG-
1 TATAT-ATTTATCTAAGT
*
11413907 --T-TA--TGT-T-AGT
1 TATATATTTATCTAAGT
11413917 TATATATTTATCTAAGT
1 TATATATTTATCTAAGT
* * *
11413934 TATCTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11413952 TATGTAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
*
11413970 TATATATTTATCAAAGT
1 TATATATTTATCTAAGT
* *
11413987 TATATCAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414005 TATGTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414023 TATATAAGTTATAT-ACT
1 TATAT-ATTTATCTAAGT
* * *
11414040 TATCTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414058 TATGTAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
*
11414076 TATATATTTATCAAAGT
1 TATATATTTATCTAAGT
* *
11414093 TATATCAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414111 TATGTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414129 TATATAAGTTATAT-ACT
1 TATAT-ATTTATCTAAGT
* * *
11414146 TATCTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414164 TATGTAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
*
11414182 TATATATTTATCAAAGT
1 TATATATTTATCTAAGT
* *
11414199 TATATCAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414217 TATGTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414235 TATATAAGTTATAT-ACT
1 TATAT-ATTTATCTAAGT
* * *
11414252 TATCTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414270 TATGTAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
*
11414288 TATATATTTATCAAAGT
1 TATATATTTATCTAAGT
* *
11414305 TATATCAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414323 TATGTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414341 TATATAAGTTATAT-ACT
1 TATAT-ATTTATCTAAGT
* * *
11414358 TATCTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414376 TATGTAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
*
11414394 TATATATTTATCAAAGT
1 TATATATTTATCTAAGT
* *
11414411 TATATCAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414429 TATGTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414447 TATATAAGTTATAT-ACT
1 TATAT-ATTTATCTAAGT
* * *
11414464 TATCTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414482 TATGTAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
*
11414500 TATATATTTATCAAAGT
1 TATATATTTATCTAAGT
* *
11414517 TATATCAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414535 TATGTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * *
11414553 TATATAAGTTATAT-ACT
1 TATAT-ATTTATCTAAGT
* * *
11414570 TATCTAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
* * * *
11414588 TATGTAAGTTATGTTAGT
1 TATAT-ATTTATCTAAGT
11414606 TATATATTTATCTAAGT
1 TATATATTTATCTAAGT
11414623 TAT
1 TAT
11414626 CTAAGTTATA
Statistics
Matches: 714, Mismatches: 119, Indels: 52
0.81 0.13 0.06
Matches are distributed among these distances:
9 2 0.00
10 1 0.00
11 2 0.00
12 1 0.00
13 3 0.00
14 1 0.00
15 3 0.00
16 1 0.00
17 243 0.34
18 457 0.64
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (17 bp):
TATATATTTATCTAAGT
Found at i:11413792 original size:53 final size:53
Alignment explanation
Indices: 11413721--11414661 Score: 1191
Period size: 53 Copynumber: 17.8 Consensus size: 53
11413711 TATTTAAGTA
* * * * * * *
11413721 TTATGTAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATATAT
1 TTATCTAAGTTATATAAGTTATG-TAAGTTATATAAGTTATATAAGTTATATAG
* * *
11413774 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTAT-ATAG
* * *
11413827 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAG
* * * *
11413880 TTATCTAAGTTATATAAGTTATGTAAGTTATGTTAGTTATAT-ATTTATCTAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATAT-AG
* * *
11413933 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTAT-ATAG
* * *
11413986 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAG
* * *
11414039 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTAT-ATAG
* * *
11414092 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAG
* * *
11414145 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTAT-ATAG
* * *
11414198 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAG
* * *
11414251 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTAT-ATAG
* * *
11414304 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAG
* * *
11414357 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTAT-ATAG
* * *
11414410 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAG
* * *
11414463 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTAT-ATAG
* * *
11414516 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAG
* * * *
11414569 TTATCTAAGTTATATAAGTTATGTAAGTTATGTTAGTTATAT-ATTTATCTAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATAT-AG
* *
11414622 TTATCTAAGTTATATAAGTTATGTAAGTTTTGTAAGTTAT
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTAT
11414662 GTTAAATATT
Statistics
Matches: 770, Mismatches: 101, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
52 49 0.06
53 686 0.89
54 35 0.05
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.46
Consensus pattern (53 bp):
TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAG
Found at i:11413849 original size:106 final size:106
Alignment explanation
Indices: 11413721--11414661 Score: 1519
Period size: 106 Copynumber: 8.8 Consensus size: 106
11413711 TATTTAAGTA
* * * ** * *
11413721 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATAT-ATTTATCTAAGTT
1 TTATATAAGTTATGTAAGTTATG-TAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTT
* * * * *
11413785 ATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAG
65 ATGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
* * *
11413827 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTAT-ATAAGTTATATACTTATCTAAGTT
1 TTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCA-AAG---T-TA--TATC--AGTT
* * * * *
11413891 ATATAAGTTATGTAAGTTATGTTAGTTATAT-ATTTATCTAAGTTATCTAAG
56 ATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATAT-ACTTATCTAAG
11413942 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
11414007 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
66 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
11414048 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
11414113 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
66 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
11414154 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
11414219 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
66 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
11414260 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
11414325 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
66 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
11414366 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
11414431 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
66 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
11414472 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
11414537 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
66 TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
* * * *
11414578 TTATATAAGTTATGTAAGTTATGTTAGTTATATATTTATCTAAGTTATCTAAGTTATATAAGTTA
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
* *
11414643 TGTAAGTTTTGTAAGTTAT
66 TGTAAGTTATATAAGTTAT
11414662 GTTAAATATT
Statistics
Matches: 791, Mismatches: 30, Indels: 28
0.93 0.04 0.03
Matches are distributed among these distances:
105 8 0.01
106 679 0.86
107 6 0.01
108 4 0.01
109 1 0.00
110 4 0.01
111 1 0.00
112 3 0.00
114 14 0.02
115 71 0.09
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.46
Consensus pattern (106 bp):
TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAGTTATATCAGTTATATAAGTTA
TGTAAGTTATATAAGTTATATAAGTTATATACTTATCTAAG
Found at i:11414794 original size:15 final size:15
Alignment explanation
Indices: 11414774--11414858 Score: 90
Period size: 15 Copynumber: 5.8 Consensus size: 15
11414764 TAAGTTGCGG
11414774 ATTAAATAATATTTA
1 ATTAAATAATATTTA
11414789 ATTAAATAATATTT-
1 ATTAAATAATATTTA
11414803 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
11414818 ATTAAATAATATTGA
1 ATTAAATAATATTTA
*
11414833 A--AAATATTATTTTA
1 ATTAAATAATA-TTTA
11414847 ATTAAATAATAT
1 ATTAAATAATAT
11414859 ACATGTCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.03
13 13 0.22
14 8 0.14
15 20 0.34
16 13 0.22
17 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:11414822 original size:29 final size:29
Alignment explanation
Indices: 11414777--11414858 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
11414767 GTTGCGGATT
* *
11414777 AAATAATA-TTTAATTAAATAATATTTATA
1 AAATATTATTTTAATTAAATAATATTGA-A
11414806 AAA-ATTATTTTAATTAAATAATATTGAA
1 AAATATTATTTTAATTAAATAATATTGAA
11414834 AAATATTATTTTAATTAAATAATAT
1 AAATATTATTTTAATTAAATAATAT
11414859 ACATGTCATT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.14
29 42 0.86
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
AAATATTATTTTAATTAAATAATATTGAA
Found at i:11415064 original size:24 final size:24
Alignment explanation
Indices: 11415032--11415102 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
11415022 TTAACTTAGA
11415032 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
11415056 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
11415080 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
11415103 CAATAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:11415223 original size:57 final size:57
Alignment explanation
Indices: 11415150--11415340 Score: 364
Period size: 57 Copynumber: 3.4 Consensus size: 57
11415140 ATATTTTATT
11415150 ATAAATTTATTAAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAA
1 ATAAATTTATTAAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAA
*
11415207 ATAAATTTATTAAAAATCGTATATTTGTATATTAGATGGGACATATTATATTAATAA
1 ATAAATTTATTAAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAA
*
11415264 ATAAATTTATTAAAAATCGTATATTTGTATATTAGATGGGACATATTATATCAATAA
1 ATAAATTTATTAAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAA
11415321 ATAAATTTATTAAAAATCGT
1 ATAAATTTATTAAAAATCGT
11415341 GATAGAAATA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 132 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (57 bp):
ATAAATTTATTAAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAA
Found at i:11415393 original size:114 final size:114
Alignment explanation
Indices: 11415161--11415394 Score: 249
Period size: 114 Copynumber: 2.1 Consensus size: 114
11415151 TAAATTTATT
11415161 AAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAAATAAATTTATTAAAAATCG
1 AAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAAATAAATTTATTAAAAATCG
**** * * * * * * * * **
11415226 TATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATT
66 TATAGAAATATATGAAATAGGAAATATCAAATTAAGAAATAAATGTAGA
*
11415275 AAAAATCGTATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCG
1 AAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAAATAAATTTATTAAAAATCG
** * *
11415340 TGATAGAAATATA-GAAATATTAAATCA-CAAATTACGAAA-ATATGGTAGA
66 T-ATAGAAATATATGAAATAGGAAAT-ATCAAATTAAGAAATAAAT-GTAGA
11415389 AAAAAT
1 AAAAAT
11415395 TAATGTGGCA
Statistics
Matches: 98, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
113 3 0.03
114 87 0.89
115 8 0.08
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (114 bp):
AAAAATCGTATATTTGTATATTAGATGGGACATATTATATAAATAAATAAATTTATTAAAAATCG
TATAGAAATATATGAAATAGGAAATATCAAATTAAGAAATAAATGTAGA
Found at i:11417550 original size:18 final size:18
Alignment explanation
Indices: 11417506--11417553 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
11417496 GCTATGGATT
*
11417506 TTGGGGAAATTTTAGGGA
1 TTGGGGAAATTTTAGGAA
*
11417524 TT-AGGAAATTTGT-GGAA
1 TTGGGGAAATTT-TAGGAA
11417541 TTGGGGAAATTTT
1 TTGGGGAAATTTT
11417554 GTTTTGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (18 bp):
TTGGGGAAATTTTAGGAA
Found at i:11419247 original size:41 final size:41
Alignment explanation
Indices: 11419192--11419362 Score: 213
Period size: 41 Copynumber: 4.2 Consensus size: 41
11419182 GGCGTTTGGT
*
11419192 GGCGTTTGGACTAAAAACGCCGCTACTT-CTCAGTTTTTAGT
1 GGCGTTTGGACTAAAAACGCCGCTA-TTACTCAGTTTTTAGC
* *
11419233 GGCGTTTGGACTAAAAACGCCGCTATTTCTAAGTTTTTAGC
1 GGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTAGC
* * *
11419274 GGCGTTTGGACCAAAAATGCCGCTATTACTCA-ATTTTAGC
1 GGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTAGC
* *
11419314 GGCATTTGGAGC-AAAAACGCCACTATTACTCAGTTTTTTAGC
1 GGCGTTTGGA-CTAAAAACGCCGCTATTACTCAG-TTTTTAGC
*
11419356 AGCGTTT
1 GGCGTTT
11419363 TTGTGAAAAT
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
40 36 0.32
41 65 0.58
42 12 0.11
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (41 bp):
GGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTAGC
Found at i:11425344 original size:21 final size:20
Alignment explanation
Indices: 11425320--11425364 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11425310 TATAACATAA
* * *
11425320 AACAAAATATATAAATAAAG
1 AACAAAAGATAGAAACAAAG
11425340 CAACAAAAGATAGAAACAAAG
1 -AACAAAAGATAGAAACAAAG
11425361 AACA
1 AACA
11425365 GAGGAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.69, C:0.11, G:0.09, T:0.11
Consensus pattern (20 bp):
AACAAAAGATAGAAACAAAG
Found at i:11428171 original size:46 final size:46
Alignment explanation
Indices: 11428114--11428261 Score: 183
Period size: 46 Copynumber: 3.2 Consensus size: 46
11428104 ATGAAATGTG
*
11428114 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
*
11428160 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * * * * * * *
11428206 TAAGACCATAGTTGAAAGACACTATGGCATCACGTCA-AAGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
11428251 TAAGACCATGG
1 TAAGACCATGG
11428262 ATGGGAGACG
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
45 20 0.22
46 69 0.78
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:11428540 original size:23 final size:25
Alignment explanation
Indices: 11428495--11428541 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11428485 AATAAATATA
*
11428495 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
11428520 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
11428542 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:11431144 original size:9 final size:9
Alignment explanation
Indices: 11431126--11431161 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
11431116 CTAATACGTA
11431126 TATATATAT
1 TATATATAT
*
11431135 TATATGTAT
1 TATATATAT
11431144 TATATATAT
1 TATATATAT
*
11431153 TATGTATAT
1 TATATATAT
11431162 ATTTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TATATATAT
Found at i:11431178 original size:24 final size:23
Alignment explanation
Indices: 11431151--11431236 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 23
11431141 TATTATATAT
11431151 ATTATGTATATATTTTTTAATACC
1 ATTATGTATATATTTTTT-ATACC
* *
11431175 ATTA-GTTATATATTTCTTATACT
1 ATTATG-TATATATTTTTTATACC
* * *
11431198 ATTCCATGTATGTATTTTATATCATC
1 ATT--ATGTATATATTTTTTAT-ACC
11431224 -TTATGTATATATT
1 ATTATGTATATATT
11431237 CTTAAATACT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 18 0.37
24 15 0.31
25 14 0.29
26 2 0.04
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (23 bp):
ATTATGTATATATTTTTTATACC
Found at i:11431535 original size:19 final size:19
Alignment explanation
Indices: 11431455--11431539 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 19
11431445 TAATATTTTC
*
11431455 TTTTATTGTAGATATTATTA
1 TTTTA-TGTACATATTATTA
11431475 TTATTAT-TACATACTT-TTA
1 TT-TTATGTACATA-TTATTA
* * *
11431494 TTATATGCATATATATATGTA
1 TTTTATGTACATAT-TAT-TA
11431515 TTTTATGTACATATTATTA
1 TTTTATGTACATATTATTA
11431534 TTTTAT
1 TTTTAT
11431540 ATTATTATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
19 23 0.44
20 9 0.17
21 16 0.31
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.58
Consensus pattern (19 bp):
TTTTATGTACATATTATTA
Done.