Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 59 of 84
Found at i:13257677 original size:19 final size:19
Alignment explanation
Indices: 13257653--13257690 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13257643 ACATGTTATC
* *
13257653 CATATATCTATATCTATAT
1 CATATATATATATATATAT
13257672 CATATATATATATATATAT
1 CATATATATATATATATAT
13257691 GTATGTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
CATATATATATATATATAT
Found at i:13258064 original size:19 final size:19
Alignment explanation
Indices: 13258028--13258066 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13258018 ATCGTTGGGT
*
13258028 TTTTCAAATGTCTATTGAA
1 TTTTCAAATGGCTATTGAA
13258047 TTTTCAAATTGGCT-TTGAA
1 TTTTCAAA-TGGCTATTGAA
13258066 T
1 T
13258067 AATTGAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TTTTCAAATGGCTATTGAA
Found at i:13259519 original size:104 final size:104
Alignment explanation
Indices: 13259339--13259547 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
13259329 AATAAATCTT
13259339 ACCAAATTATTAAAAAACTTTACTAATTATTTTTTTAAATAAAATATATTAATAAATCTGACGAT
1 ACCAAATTATTAAAAAACTTTACTAATTATTTTTTTAAATAAAATATATTAATAAATCTGACGAT
13259404 GAAACCTTTTTAAAGTGAAACACTATTTAACATGAATAC
66 GAAACCTTTTTAAAGTGAAACACTATTTAACATGAATAC
13259443 ACCAAATTATTAAAAAACTTTACTAATTATTTTTTTAAATAAAATATATTAATAAATCTGACGAT
1 ACCAAATTATTAAAAAACTTTACTAATTATTTTTTTAAATAAAATATATTAATAAATCTGACGAT
*
13259508 GAAGCCTTTTTAAAGTGAAACACTATTTAACATGAATAC
66 GAAACCTTTTTAAAGTGAAACACTATTTAACATGAATAC
13259547 A
1 A
13259548 ACTGAAATGA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.36
Consensus pattern (104 bp):
ACCAAATTATTAAAAAACTTTACTAATTATTTTTTTAAATAAAATATATTAATAAATCTGACGAT
GAAACCTTTTTAAAGTGAAACACTATTTAACATGAATAC
Found at i:13260502 original size:3 final size:3
Alignment explanation
Indices: 13260488--13260520 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
13260478 AATTTTGTCC
*
13260488 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13260521 ATTTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13260530 original size:15 final size:16
Alignment explanation
Indices: 13260490--13260539 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
13260480 TTTTGTCCTA
*
13260490 TTATTGTTATTATTATT
1 TTATTATTATTA-TATT
13260507 ATTATTATTATTATATT
1 -TTATTATTATTATATT
*
13260524 TTA-TATTTTTATATT
1 TTATTATTATTATATT
13260539 T
1 T
13260540 GTTATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 12 0.40
16 3 0.10
17 4 0.13
18 11 0.37
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTATTATTATTATATT
Found at i:13260547 original size:15 final size:15
Alignment explanation
Indices: 13260493--13260545 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
13260483 TGTCCTATTA
13260493 TTGTTATTATTAT-T
1 TTGTTATTATTATAT
*
13260507 ATTATTATTATTATAT
1 -TTGTTATTATTATAT
*
13260523 TT-TATATTTTTATAT
1 TTGT-TATTATTATAT
13260538 TTGTTATT
1 TTGTTATT
13260546 TTAACAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 1 0.03
15 30 0.91
16 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (15 bp):
TTGTTATTATTATAT
Found at i:13262161 original size:143 final size:144
Alignment explanation
Indices: 13261985--13262450 Score: 380
Period size: 144 Copynumber: 3.2 Consensus size: 144
13261975 AATTATTATT
* * *
13261985 TATTATAAAATTGAGATTTAAAAATTTTCATGAAAATCTTAG-TCAAGAAGGCCAAATTATGAAA
1 TATTATAAAATTGAGATATAAAAAGTTTCATGAAAATCTAAGATCAAGAAGGCCAAATTATGAAA
*** * * * * * * *
13262049 ATACCCTTATGGGGTATTTCGA-TAATTTTATACCTTTCGGGGTATTGCTATGATTTCAAAAGCT
66 ATACCCTTAAAAGATA-TTCGAGTAAGTTCACACCTTTCGGGATACTACTATGATTTCAAAAG-T
13262113 -TCAAAAATCATGAAA
129 ATCAAAAATCATGAAA
* * * * * * * *
13262128 TATTATGAAATTGAGATCTAAAAAGTTTCATGAAGATCTGAGCTCAAGAAGGTCAAAATA-CATA
1 TATTATAAAATTGAGATATAAAAAGTTTCATGAAAATCTAAGATCAAGAAGGCCAAATTATGA-A
* * * * * * *
13262192 AATACCCCTAAAAGATATTCTAGTGAGTTCACATCTTTCGTGATACTACTGTGATTTCAAATGTA
65 AATACCCTTAAAAGATATTCGAGTAAGTTCACACCTTTCGGGATACTACTATGATTTCAAAAGTA
13262257 TCAAAAATCATGAAA
130 TCAAAAATCATGAAA
* * * *
13262272 TATTATAAAATTGATATATGAAAAGTTTCATAAAAATCTAAGAT-TAGAAAGGCCAAATTATG-A
1 TATTATAAAATTGAGATATAAAAAGTTTCATGAAAATCTAAGATCAAG-AAGGCCAAATTATGAA
* * * ** *
13262335 AATACCCTTAAAGGATATTTTG-GTGA-TGTCACA--TGTTCTGGGATACGGCTGTGATTTTCAA
65 AATACCCTTAAAAGATA-TTCGAGTAAGT-TCACACCT-TTC-GGGATACTACTATGA-TTTCAA
* *
13262396 TA-CATCAAAAATCAT-AAA
125 AAGTATCAAAAATCATGAAA
* *
13262414 TATTATGAAATTGAGATATGAAAAGTTTCATGCAAAA
1 TATTATAAAATTGAGATATAAAAAGTTTCATG-AAAA
13262451 AAATGACCTC
Statistics
Matches: 261, Mismatches: 50, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
141 1 0.00
142 36 0.14
143 98 0.38
144 126 0.48
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (144 bp):
TATTATAAAATTGAGATATAAAAAGTTTCATGAAAATCTAAGATCAAGAAGGCCAAATTATGAAA
ATACCCTTAAAAGATATTCGAGTAAGTTCACACCTTTCGGGATACTACTATGATTTCAAAAGTAT
CAAAAATCATGAAA
Found at i:13262261 original size:144 final size:143
Alignment explanation
Indices: 13262099--13262450 Score: 385
Period size: 144 Copynumber: 2.5 Consensus size: 143
13262089 GGTATTGCTA
* * * *
13262099 TGATTTCAAAAGCT-TCAAAAATCATGAAATATTATGAAATTGAGATCTAAAAAGTTTCATGAAG
1 TGATTTCAAATG-TATCAAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATGAAA
* *
13262163 ATCTGAGCTCAAG-AAGGTCAAAATACAT-AAATACCCCTAAAAGATATTCTAGTGA-GTTCACA
65 ATCTAAGAT-AAGAAAGG-CAAAAT-CATGAAATACCCCTAAAAGATATTCTAGTGATG-TCACA
* * *
13262225 TCTT-TCGTGATACTACTG
126 TGTTCT-GGGATACGACTG
* * *
13262243 TGATTTCAAATGTATCAAAAATCATGAAATATTATAAAATTGATATATGAAAAGTTTCATAAAAA
1 TGATTTCAAATGTATCAAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATGAAAA
* * * * * * *
13262308 TCTAAGATTAGAAAGGCCAAATTATGAAATACCCTTAAAGGATATTTTGGTGATGTCACATGTTC
66 TCTAAGATAAGAAAGGCAAAATCATGAAATACCCCTAAAAGATATTCTAGTGATGTCACATGTTC
*
13262373 TGGGATACGGCTG
131 TGGGATACGACTG
**
13262386 TGATTTTC-AATACATCAAAAATCAT-AAATATTATGAAATTGAGATATGAAAAGTTTCATGCAA
1 TGA-TTTCAAATGTATCAAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATG-AA
13262449 AA
64 AA
13262451 AAATGACCTC
Statistics
Matches: 176, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
142 34 0.19
143 70 0.40
144 72 0.41
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (143 bp):
TGATTTCAAATGTATCAAAAATCATGAAATATTATGAAATTGAGATATGAAAAGTTTCATGAAAA
TCTAAGATAAGAAAGGCAAAATCATGAAATACCCCTAAAAGATATTCTAGTGATGTCACATGTTC
TGGGATACGACTG
Found at i:13263415 original size:70 final size:70
Alignment explanation
Indices: 13263336--13263615 Score: 230
Period size: 70 Copynumber: 4.0 Consensus size: 70
13263326 AAAATATACC
* * *
13263336 TAGGATTGAACCGCAAGTAGAAAAATAAAAATGATTGGGTTTGAACTACAAGTCGAAGAAT-AAA
1 TAGGATTGAACCGCAAGTAGAAAAATAAAAATGATTGGGATTGAACTATAAGTCAAAGAATGAAA
13263400 TATGAT
66 -ATGAT
* * ** * *
13263406 TAGGATTGAACCGCAAGTCA-AAAAATGAAAATTATCAGGATTGAA-TAGTGAGTCAAAAAATGA
1 TAGGATTGAACCGCAAGT-AGAAAAATAAAAATGATTGGGATTGAACTA-TAAGTCAAAGAATGA
*
13263469 AAATGAC
64 AAATGAT
* * * * * * * *
13263476 TAGAATTGAACCACGAGTCGAAAAATAAAAATGACTGAGATTGAAATGTAAGTC-AAGAAATGAA
1 TAGGATTGAACCGCAAGTAGAAAAATAAAAATGATTGGGATTGAACTATAAGTCAAAG-AATGAA
13263540 AAT-AT
65 AATGAT
* * * * * * * *
13263545 TCAAGATTGAACCGCAAGTCGAAGAATAAATATGATTGAGATTTAACCATGAGTCAAAGAAT-AA
1 T-AGGATTGAACCGCAAGTAGAAAAATAAAAATGATTGGGATTGAACTATAAGTCAAAGAATGAA
13263609 ATATGAT
65 A-ATGAT
13263616 CGGGATTAAA
Statistics
Matches: 164, Mismatches: 36, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
69 9 0.05
70 145 0.88
71 10 0.06
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (70 bp):
TAGGATTGAACCGCAAGTAGAAAAATAAAAATGATTGGGATTGAACTATAAGTCAAAGAATGAAA
ATGAT
Found at i:13263587 original size:35 final size:35
Alignment explanation
Indices: 13263339--13263763 Score: 169
Period size: 35 Copynumber: 12.2 Consensus size: 35
13263329 ATATACCTAG
* * * *
13263339 GATTGAACCGCAAGTAGAAAAATAAAAATGATTGG
1 GATTGAACCGCAAGTCGAAGAATAAATATGATTGA
* **
13263374 GTTTGAACTACAAGTCGAAGAATAAATATGATT-A
1 GATTGAACCGCAAGTCGAAGAATAAATATGATTGA
* * * *
13263408 GGATTGAACCGCAAGTCAAAAAATGAAA-ATTA-TCA
1 -GATTGAACCGCAAGTCGAAGAAT-AAATATGATTGA
** ** * * *
13263443 GGATTGAATAGTGAGTCAAAAAATGAAA-ATGACT-A
1 -GATTGAACCGCAAGTCGAAGAAT-AAATATGATTGA
* * * * *
13263478 GAATTGAACCACGAGTCGAAAAATAAAAATGACTGA
1 G-ATTGAACCGCAAGTCGAAGAATAAATATGATTGA
** * *
13263514 GATTGAAATGTAAGTC-AAGAAATGAAA-AT-ATTCAA
1 GATTGAACCGCAAGTCGAAG-AAT-AAATATGATT-GA
13263549 GATTGAACCGCAAGTCGAAGAATAAATATGATTGA
1 GATTGAACCGCAAGTCGAAGAATAAATATGATTGA
* *** * * *
13263584 GATTTAACCATGAGTCAAAGAATAAATATGATCGG
1 GATTGAACCGCAAGTCGAAGAATAAATATGATTGA
* ** * * *
13263619 GATTAAACTAC-AGTCAAAGAAT-AATAATGACTGC
1 GATTGAACCGCAAGTCGAAGAATAAAT-ATGATTGA
* * *
13263653 GATTAAACCGTAAGTCG-AGAAATGAAA-ATGA-TCA
1 GATTGAACCGCAAGTCGAAG-AAT-AAATATGATTGA
* * * * *
13263687 CAATTGAACTG-AGAATTGAAGAATAAAAATGATT-A
1 -GATTGAACCGCA-AGTCGAAGAATAAATATGATTGA
* *
13263722 GGATTGAATCGCAAGTCAAAGAATAAATATGATTGA
1 -GATTGAACCGCAAGTCGAAGAATAAATATGATTGA
13263758 GATTGA
1 GATTGA
13263764 GCCATGAGTT
Statistics
Matches: 298, Mismatches: 67, Indels: 50
0.72 0.16 0.12
Matches are distributed among these distances:
33 3 0.01
34 43 0.14
35 230 0.77
36 20 0.07
37 2 0.01
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (35 bp):
GATTGAACCGCAAGTCGAAGAATAAATATGATTGA
Found at i:13263593 original size:105 final size:104
Alignment explanation
Indices: 13263279--13263615 Score: 290
Period size: 105 Copynumber: 3.2 Consensus size: 104
13263269 ATTGAGTCAT
* * * ** *
13263279 GAGTCAAAGAATGAAAATGATCGAGATTG-AATGTGAGTCGAGCTATGAAAATATACCTAGGATT
1 GAGTCAAAGAATAAAAATGAT-GAGATTGAAATGTAAGTCAAGAAATGAAAATATATC-AGGATT
* * *
13263343 GAACCGCAAGTAGAAAAATAAAAATGATTG-GGTTTGAACTAC
64 GAACCGCAAGTCGAAAAAT-AAAATGATTGAGATTT-AACCAC
* * * * ** * *
13263385 AAGTCGAAGAATAAATATGATTAGGATTGAACCGCAAGTCAAAAAATGAAAAT-TATCAGGATTG
1 GAGTCAAAGAATAAAAATGATGA-GATTGAAATGTAAGTCAAGAAATGAAAATATATCAGGATTG
** ** * * *
13263449 AATAGTGAGTCAAAAAATGAAAATGACT-AGAATTGAACCAC
65 AACCGCAAGTCGAAAAAT-AAAATGATTGAG-ATTTAACCAC
*
13263490 GAGTCGAAA-AATAAAAATGACTGAGATTGAAATGTAAGTCAAGAAATGAAAATAT-TCAAGATT
1 GAGTC-AAAGAATAAAAATGA-TGAGATTGAAATGTAAGTCAAGAAATGAAAATATATCAGGATT
* *
13263553 GAACCGCAAGTCGAAGAATAAATATGATTGAGATTTAACCAT
64 GAACCGCAAGTCGAAAAATAAA-ATGATTGAGATTTAACCAC
*
13263595 GAGTCAAAGAATAAATATGAT
1 GAGTCAAAGAATAAAAATGAT
13263616 CGGGATTAAA
Statistics
Matches: 177, Mismatches: 44, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
104 7 0.04
105 121 0.68
106 34 0.19
107 15 0.08
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (104 bp):
GAGTCAAAGAATAAAAATGATGAGATTGAAATGTAAGTCAAGAAATGAAAATATATCAGGATTGA
ACCGCAAGTCGAAAAATAAAATGATTGAGATTTAACCAC
Found at i:13263674 original size:139 final size:139
Alignment explanation
Indices: 13263491--13263754 Score: 319
Period size: 139 Copynumber: 1.9 Consensus size: 139
13263481 TTGAACCACG
*
13263491 AGTCGAAAAATAAAAATGACTGAGATTGAAATGTAAGTCAAGAAATGAAAAT-ATTCA-AGATTG
1 AGTCGAAAAATAAAAATGACTGAGATTGAAACGTAAGTCAAGAAATGAAAATGA-TCACA-ATTG
* * *
13263554 AACCGCA-AGTCGAAGAATAAATATGATT-GAGATTTAA-C-CATGAGTCAAAGAATAAATATGA
64 AACCG-AGAATCGAAGAATAAAAATGATTAG-GATTGAATCGCA--AGTCAAAGAATAAATATGA
13263615 TCGGGATTAAACTAC
125 TCGGGATTAAACTAC
* * *
13263630 AGTC-AAAGAATAATAATGACTGCGATT-AAACCGTAAGTCGAGAAATGAAAATGATCACAATTG
1 AGTCGAAA-AATAAAAATGACTGAGATTGAAA-CGTAAGTCAAGAAATGAAAATGATCACAATTG
* *
13263693 AACTGAGAATTGAAGAATAAAAATGATTAGGATTGAATCGCAAGTCAAAGAATAAATATGAT
64 AACCGAGAATCGAAGAATAAAAATGATTAGGATTGAATCGCAAGTCAAAGAATAAATATGAT
13263755 TGAGATTGAG
Statistics
Matches: 108, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
138 7 0.06
139 95 0.88
140 4 0.04
141 2 0.02
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (139 bp):
AGTCGAAAAATAAAAATGACTGAGATTGAAACGTAAGTCAAGAAATGAAAATGATCACAATTGAA
CCGAGAATCGAAGAATAAAAATGATTAGGATTGAATCGCAAGTCAAAGAATAAATATGATCGGGA
TTAAACTAC
Found at i:13263763 original size:70 final size:68
Alignment explanation
Indices: 13263689--13264101 Score: 248
Period size: 70 Copynumber: 5.9 Consensus size: 68
13263679 AATGATCACA
* * *
13263689 ATTGAACTGAGAATTGAAGAATAAAAATGATTAGGATTGAATCGCAAGTCAAAGAATAAATATGA
1 ATTGAACTGAGAGTT-AAGAATAAAAATGACTAGGATTGAATCACAAGTCAAAGAATAAA-ATGA
*
13263754 -TTGAG
64 CTAG-G
* * * * * ** *
13263759 ATTGAGC-CATGAGTTAAGGAATGAAAATGA-TCGGATTGAACCATGAGTCAAAGAAT-GAATGA
1 ATTGAACTGA-GAGTTAA-GAATAAAAATGACTAGGATTGAATCACAAGTCAAAGAATAAAATGA
13263821 CTAGG
64 CTAGG
* * * * * *
13263826 ATTGAACTGTGAGTCAAAGAATAAATATGACTAGGATTGAATCTCAAGTCAAAAAATGAAAATAA
1 ATTGAACTGAGAGT-TAAGAATAAAAATGACTAGGATTGAATCACAAGTCAAAGAAT-AAAATGA
13263891 CTAGG
64 CTAGG
* * ** * * * **
13263896 ACTAAACTGCTAGTCAAAGAATGAAAATGACTAGGATTAAATCACGGGTCAAAGAATGAAAATGA
1 ATTGAACTGAGAGT-TAAGAATAAAAATGACTAGGATTGAATCACAAGTCAAAGAAT-AAAATGA
13263961 -TCAGG
64 CT-AGG
* * * * * *
13263966 ATTGAACTGTGAGTTGAAGAATAAATATGACGAGGATTGAA-CTTCGAGTCGAAGAATAAATATG
1 ATTGAACTGAGAGTT-AAGAATAAAAATGACTAGGATTGAATC-ACAAGTCAAAGAATAAA-ATG
* *
13264030 ATTGGG
63 ACTAGG
* * * * * *
13264036 ATTGAA-TCGTA-AGTCTAAGAATGAAAATGATTAGGATTAAACCACGAGTCGAAGAATAAATAT
1 ATTGAACT-G-AGAGT-TAAGAATAAAAATGACTAGGATTGAATCACAAGTCAAAGAATAAA-AT
13264099 GAC
62 GAC
13264102 AGTGACTAAA
Statistics
Matches: 268, Mismatches: 58, Indels: 34
0.74 0.16 0.09
Matches are distributed among these distances:
67 25 0.09
68 25 0.09
69 30 0.11
70 185 0.69
71 3 0.01
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (68 bp):
ATTGAACTGAGAGTTAAGAATAAAAATGACTAGGATTGAATCACAAGTCAAAGAATAAAATGACT
AGG
Found at i:13263789 original size:35 final size:35
Alignment explanation
Indices: 13263735--13264100 Score: 167
Period size: 35 Copynumber: 10.6 Consensus size: 35
13263725 TTGAATCGCA
* *
13263735 AGTCAAAGAAT-AAATATGATTGAGATTGAGCCATG
1 AGTCAAAGAATGAAATATGATCG-GATTGAACCATG
* *
13263770 AGTTAAGGAATGAAA-ATGATCGGATTGAACCATG
1 AGTCAAAGAATGAAATATGATCGGATTGAACCATG
* **
13263804 AGTCAAAGAATG--A-ATGACTAGGATTGAACTGTG
1 AGTCAAAGAATGAAATATGA-TCGGATTGAACCATG
*
13263837 AGTCAAAGAAT-AAATATGACTAGGATTGAATCTCA--
1 AGTCAAAGAATGAAATATGA-TCGGATTGAA-C-CATG
* * * * *
13263872 AGTCAAAAAATGAAA-ATAACTAGGACT-AAAC-TG
1 AGTCAAAGAATGAAATATGA-TCGGATTGAACCATG
* * * *
13263905 CTAGTCAAAGAATGAAA-ATGACTAGGATTAAATCACG
1 --AGTCAAAGAATGAAATATGA-TCGGATTGAACCATG
* **
13263942 GGTCAAAGAATGAAA-ATGATCAGGATTGAACTGTG
1 AGTCAAAGAATGAAATATGATC-GGATTGAACCATG
** *
13263977 AGTTGAAGAAT-AAATATGA-CGAGGATTGAA-CTTCG
1 AGTCAAAGAATGAAATATGATC--GGATTGAACCAT-G
* * * * *
13264012 AGTCGAAGAAT-AAATATGATTGGGATTGAATCGTA
1 AGTCAAAGAATGAAATATGA-TCGGATTGAACCATG
* * * *
13264047 AGTCTAAGAATGAAA-ATGATTAGGATTAAACCACG
1 AGTCAAAGAATGAAATATGA-TCGGATTGAACCATG
*
13264082 AGTCGAAGAAT-AAATATGA
1 AGTCAAAGAATGAAATATGA
13264101 CAGTGACTAA
Statistics
Matches: 264, Mismatches: 44, Indels: 46
0.75 0.12 0.13
Matches are distributed among these distances:
32 6 0.02
33 23 0.09
34 33 0.12
35 186 0.70
36 15 0.06
37 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.24
Consensus pattern (35 bp):
AGTCAAAGAATGAAATATGATCGGATTGAACCATG
Found at i:13264021 original size:105 final size:105
Alignment explanation
Indices: 13263376--13264101 Score: 254
Period size: 105 Copynumber: 7.0 Consensus size: 105
13263366 ATGATTGGGT
* * * * * * * * *
13263376 TTGAACTACAAGTCGAAGAATAAATATGATTAGGATTGAACCGCAAGTCAAAAAATGAAAATTAT
1 TTGAACTTCGAGTCAAAGAATAAATATGACTAGGATTAAATCACAAGTCAAAGAATGAAAATGAT
* * * * * * *
13263441 CAGGATTGAA-TAGTGAGTCAAAAAATGAAA-ATGACTAGAA
66 CAGGATTAAACCA-CGAGTCGAAGAAT-AAATATGACGAGGA
** * **
13263481 TTGAACCACGAGTCGAAA-AATAAAAATGACT-GAGATTGAAAT-GTAAGTC-AAGAAATGAAAA
1 TTGAACTTCGAGTC-AAAGAATAAATATGACTAG-GATT-AAATCACAAGTCAAAG-AATGAAAA
* * * * *
13263542 T-ATTCAAGATTGAACCGCAAGTCGAAGAATAAATATGATTGA-GA
62 TGA-TCAGGATTAAACCACGAGTCGAAGAATAAATATGA-CGAGGA
* * *
13263586 TTTAACCAT-GAGTCAAAGAATAAATATGA-TCGGGATTAAA-CTAC-AGTCAAAGAAT-AATAA
1 TTGAA-CTTCGAGTCAAAGAATAAATATGACT-AGGATTAAATC-ACAAGTCAAAGAATGAA-AA
* *** **
13263646 TGA-CTGCGATTAAACCGTAAGTCG-AGAAATGAAA-ATGATC-ACAA
62 TGATCAG-GATTAAACCACGAGTCGAAG-AAT-AAATATGA-CGAGGA
** * ** * * * *
13263690 TTGAACTGAGAATTGAAGAATAAAAATGATTAGGATTGAATCGCAAGTCAAAGAAT-AAATATGA
1 TTGAACTTCGAGTCAAAGAATAAATATGACTAGGATTAAATCACAAGTCAAAGAATGAAA-ATGA
* * * * *
13263754 T-TGAGATTGAGCCATGAGT-TAAGGAATGAAA-ATGATC--GGA
65 TCAG-GATTAAACCACGAGTCGAA-GAAT-AAATATGA-CGAGGA
* * * ***
13263794 TTGAACCAT-GAGTCAAAGAAT-GA-ATGACTAGGATTGAA-CTGTGAGTCAAAGAAT-AAATAT
1 TTGAA-CTTCGAGTCAAAGAATAAATATGACTAGGATTAAATC-ACAAGTCAAAGAATGAAA-AT
* * * * * * * *
13263854 GA-CTAGGATTGAATCTCAAGTCAAAAAATGAAA-ATAACTAGGA
63 GATC-AGGATTAAACCACGAGTCGAAGAAT-AAATATGACGAGGA
* * * * **
13263897 CTAAACTGCTAGTCAAAGAATGAAA-ATGACTAGGATTAAATCACGGGTCAAAGAATGAAAATGA
1 TTGAACTTCGAGTCAAAGAAT-AAATATGACTAGGATTAAATCACAAGTCAAAGAATGAAAATGA
* *** *
13263961 TCAGGATTGAACTGTGAGTTGAAGAATAAATATGACGAGGA
65 TCAGGATTAAACCACGAGTCGAAGAATAAATATGACGAGGA
* * * * ** *
13264002 TTGAACTTCGAGTCGAAGAATAAATATGATTGGGATTGAATCGTAAGTCTAAGAATGAAAATGAT
1 TTGAACTTCGAGTCAAAGAATAAATATGACTAGGATTAAATCACAAGTCAAAGAATGAAAATGAT
*
13264067 TAGGATTAAACCACGAGTCGAAGAATAAATATGAC
66 CAGGATTAAACCACGAGTCGAAGAATAAATATGAC
13264102 AGTGACTAAA
Statistics
Matches: 471, Mismatches: 106, Indels: 88
0.71 0.16 0.13
Matches are distributed among these distances:
101 2 0.00
102 55 0.12
103 28 0.06
104 98 0.21
105 275 0.58
106 13 0.03
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.23
Consensus pattern (105 bp):
TTGAACTTCGAGTCAAAGAATAAATATGACTAGGATTAAATCACAAGTCAAAGAATGAAAATGAT
CAGGATTAAACCACGAGTCGAAGAATAAATATGACGAGGA
Found at i:13264129 original size:105 final size:105
Alignment explanation
Indices: 13263947--13264135 Score: 231
Period size: 105 Copynumber: 1.8 Consensus size: 105
13263937 TCACGGGTCA
* *** * * *
13263947 AAGAATGAAAATGATCAGGATTGAACTGTGAGTTGAAGAATAAATATGACGAGGATTGAACTTCG
1 AAGAATGAAAATGATCAGGATTAAACCACGAGTCGAAGAATAAATATGACGAGGACTGAAATTCG
* * *
13264012 AGTCGAAGAATAAATATGATTGGGATTGAATCGTAAGTCT
66 AGTCAAAAAATAAAAATGATTGGGATTGAATCGTAAGTCT
*
13264052 AAGAATGAAAATGATTAGGATTAAACCACGAGTCGAAGAATAAATATGAC-AGTGACT-AAATT-
1 AAGAATGAAAATGATCAGGATTAAACCACGAGTCGAAGAATAAATATGACGAG-GACTGAAATTC
13264114 GTAAGTCAAAAAATAAAAATGA
65 G--AGTCAAAAAATAAAAATGA
13264136 CTGAGACTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
103 1 0.01
104 6 0.09
105 63 0.90
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (105 bp):
AAGAATGAAAATGATCAGGATTAAACCACGAGTCGAAGAATAAATATGACGAGGACTGAAATTCG
AGTCAAAAAATAAAAATGATTGGGATTGAATCGTAAGTCT
Found at i:13264136 original size:35 final size:36
Alignment explanation
Indices: 13264090--13264181 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 36
13264080 CGAGTCGAAG
* *
13264090 AATAAATATGACAGTGACTAAA-TTGTAAGTCAAAA
1 AATAAATATGACTGAGACTAAATTTGTAAGTCAAAA
* * **
13264125 AATAAAAATGACTGAGACTAAATTTGTGAGTCAATG
1 AATAAATATGACTGAGACTAAATTTGTAAGTCAAAA
*
13264161 AATAAATATGACTGGGACTAA
1 AATAAATATGACTGAGACTAA
13264182 GCTACAAGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 19 0.40
36 29 0.60
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (36 bp):
AATAAATATGACTGAGACTAAATTTGTAAGTCAAAA
Found at i:13264165 original size:36 final size:34
Alignment explanation
Indices: 13264081--13264181 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 34
13264071 ATTAAACCAC
* *
13264081 GAGTCGAAGAATAAATATGACAGTGACTAAATTGT
1 GAGTC-AAGAATAAATATGACTGAGACTAAATTGT
* * *
13264116 AAGTCAAAAAATAAAAATGACTGAGACTAAATTTGT
1 GAGTC-AAGAATAAATATGACTGAGACTAAA-TTGT
*
13264152 GAGTCAATGAATAAATATGACTGGGACTAA
1 GAGTCAA-GAATAAATATGACTGAGACTAA
13264182 GCTACAAGTC
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
35 27 0.50
36 27 0.50
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.25
Consensus pattern (34 bp):
GAGTCAAGAATAAATATGACTGAGACTAAATTGT
Found at i:13266245 original size:12 final size:12
Alignment explanation
Indices: 13266228--13266268 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
13266218 GTCATAACCA
13266228 TTTTTTTGTCTT
1 TTTTTTTGTCTT
*
13266240 TTTTTTTCTCTCT
1 TTTTTTTGTCT-T
*
13266253 TTTTTTTGGCTT
1 TTTTTTTGTCTT
13266265 TTTT
1 TTTT
13266269 ACTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTTGTCTT
Found at i:13266969 original size:3 final size:3
Alignment explanation
Indices: 13266963--13266996 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
13266953 TTTTTTAGGG
*
13266963 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13266997 GGGACCTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13271783 original size:3 final size:3
Alignment explanation
Indices: 13271775--13271819 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
13271765 AATCGCTTCC
13271775 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13271820 ATTTTATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13271844 original size:15 final size:14
Alignment explanation
Indices: 13271775--13271846 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
13271765 AATCGCTTCC
* *
13271775 TATTATTATTATTA
1 TATTTTTATTTTTA
* *
13271789 TTATTATTATTATTA
1 -TATTTTTATTTTTA
* *
13271804 TTATTATTATTATTA
1 -TATTTTTATTTTTA
13271819 TATTTTATATTTTTA
1 TATTTT-TATTTTTA
13271834 TATTTGTTATTTT
1 TATTT-TTATTTT
13271847 AACAAAATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.09
15 47 0.89
16 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (14 bp):
TATTTTTATTTTTA
Found at i:13273570 original size:143 final size:146
Alignment explanation
Indices: 13273264--13273604 Score: 358
Period size: 143 Copynumber: 2.4 Consensus size: 146
13273254 GATTTTAAAG
* * *
13273264 CACCAAAA-ATCATTATATATTATAAAATTGAGATCTAAAAA-TTTTCATGAAAATTAGAGCTCA
1 CACCAAAAGATCATAAAATAATATAAAATTGAGATCTAAAAAGTTTTCATGAAAATTAGAGCTCA
* * * * * *
13273327 AGAATACCAAATAACAAAAATACCCCTAAAGGGTATTTTGGTAATTTCATACCTTTCAAGGTGCT
66 AGAAGACCAAATAACAAAAATACCCATAAAGAGTATTTTAGTAATTTCACACCTTTCAAGGTACT
13273392 ACTATGATTTCAAATA
131 ACTATGATTTCAAATA
* * * *
13273408 TACCAAAAGATCATGAAATAATATGAAATTGAGATCTAAAAAGTTTT-GTGAAAATTAGAGC-C-
1 CACCAAAAGATCATAAAATAATATAAAATTGAGATCTAAAAAGTTTTCATGAAAATTAGAGCTCA
* * * * * * *
13273470 GGAAGGCCAAATTACAAAAATACCTATAAAATAGTATTTTAGTAATTTCACATC-TTCTGAGGTA
66 AGAAGACCAAATAACAAAAATACCCAT-AAAGAGTATTTTAGTAATTTCACACCTTTC-AAGGTA
* *
13273534 CTGCTAT-ATTTCAAATG
129 CTACTATGATTTCAAATA
* * * *
13273551 CACTAAAA-ATCATAAAAATATTATAAAATTAAGATCTAAAAAG-TTTCATAAAAA
1 CACCAAAAGATCAT-AAAATAATATAAAATTGAGATCTAAAAAGTTTTCATGAAAA
13273605 AATAACCTCA
Statistics
Matches: 162, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
142 8 0.05
143 69 0.43
144 39 0.24
145 42 0.26
146 4 0.02
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (146 bp):
CACCAAAAGATCATAAAATAATATAAAATTGAGATCTAAAAAGTTTTCATGAAAATTAGAGCTCA
AGAAGACCAAATAACAAAAATACCCATAAAGAGTATTTTAGTAATTTCACACCTTTCAAGGTACT
ACTATGATTTCAAATA
Found at i:13276673 original size:152 final size:152
Alignment explanation
Indices: 13276397--13276705 Score: 519
Period size: 152 Copynumber: 2.0 Consensus size: 152
13276387 CCAATTTGAC
* *
13276397 TACTTATATAGGGAACCTAAAACATTTCAAAAAATTGACAGCATGATCAAAGCCTGAAAGAAGTC
1 TACTTATATAGGGAACCTAAAACATTTCAAAAAATTGACAGCATAATCAAAGCCTGAAAAAAGTC
* *
13276462 AAAGAGAGTGAGTCATAGGTTGTTTATCAAAAAAGTCACTCATGGGTATTTGATATGGAAAGCCA
66 AAAGAAAGTGAGTCATAGGTTGTTTATCAAAAAAGTCACTCATGGATATTTGATATGGAAAGCCA
*
13276527 AGTGGGACAAAGAGATTGTGTT
131 AGTGGGACAAAGAGATTATGTT
* *
13276549 TACTTATATAGGGAACCTAAAACATTTTAAAAAATTGATAGCATAATCAAAGCCTGAAAAAAGTC
1 TACTTATATAGGGAACCTAAAACATTTCAAAAAATTGACAGCATAATCAAAGCCTGAAAAAAGTC
* *
13276614 AAAGAAAGTGAGTCTTAGGTTGTTTATCGAAAAAGTCACTCATGGATATTTGATATGGAAAGCCA
66 AAAGAAAGTGAGTCATAGGTTGTTTATCAAAAAAGTCACTCATGGATATTTGATATGGAAAGCCA
* *
13276679 AGTGGGATAAGGAGATTATGTT
131 AGTGGGACAAAGAGATTATGTT
13276701 TACTT
1 TACTT
13276706 CCAAAAATCA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
152 146 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (152 bp):
TACTTATATAGGGAACCTAAAACATTTCAAAAAATTGACAGCATAATCAAAGCCTGAAAAAAGTC
AAAGAAAGTGAGTCATAGGTTGTTTATCAAAAAAGTCACTCATGGATATTTGATATGGAAAGCCA
AGTGGGACAAAGAGATTATGTT
Found at i:13285973 original size:65 final size:65
Alignment explanation
Indices: 13285899--13286109 Score: 196
Period size: 65 Copynumber: 3.2 Consensus size: 65
13285889 GACTCAGATC
* *
13285899 TAGTCATTTTTAACCTTGGCCCTA-TTCAGGTCATTTTATTTTCTAACTTGTGGTTCAATTCT-A
1 TAGTCATTTTTAACCTTGG-CTTAGTTCAGGTCATTTTATTTTCTAACTTATGGTTCAA-TCTAA
13285962 GT
64 GT
* * * * * * *
13285964 TAGTCATTTTCAACCTCGGCTTAGTCCTGGTCATTTAATTTTTTGACTTATGGTTCAATCTAAGT
1 TAGTCATTTTTAACCTTGGCTTAGTTCAGGTCATTTTATTTTCTAACTTATGGTTCAATCTAAGT
* * * *** * *
13286029 CAATCATTTTTTACCTCAACTTAGTTCGGGTCA-TTTATTTTTCTAACTTACGGTTCAATCTCAA
1 TAGTCATTTTTAACCTTGGCTTAGTTCAGGTCATTTTA-TTTTCTAACTTATGGTTCAATCT-AA
13286093 -T
64 GT
*
13286094 TAGTCATTTTTTACCT
1 TAGTCATTTTTAACCT
13286110 CAACTCATTC
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
64 9 0.08
65 108 0.91
66 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.46
Consensus pattern (65 bp):
TAGTCATTTTTAACCTTGGCTTAGTTCAGGTCATTTTATTTTCTAACTTATGGTTCAATCTAAGT
Found at i:13286110 original size:65 final size:65
Alignment explanation
Indices: 13285927--13286150 Score: 215
Period size: 65 Copynumber: 3.4 Consensus size: 65
13285917 GCCCTATTCA
* * ** ** *
13285927 GGTCATTT-TATTTTCTAACTTGTGGTTCAAT-TCTAGTTAGTCATTTTCAACCTCGGCTTAGTC
1 GGTCATTTAT-TTTTCTAACTTATGGTTCAATCTC-AATTAGTCATTTTTTACCTCAACTTAGTT
*
13285990 CT
64 CG
* * *
13285992 GGTCATTTAATTTTT-TGACTTATGGTTCAATCT-AAGTCAATCATTTTTTACCTCAACTTAGTT
1 GGTCATTT-ATTTTTCTAACTTATGGTTCAATCTCAA-TTAGTCATTTTTTACCTCAACTTAGTT
13286055 CG
64 CG
* *
13286057 GGTCATTTATTTTTCTAACTTACGGTTCAATCTCAATTAGTCATTTTTTACCTCAACTCA-TTCT
1 GGTCATTTATTTTTCTAACTTATGGTTCAATCTCAATTAGTCATTTTTTACCTCAACTTAGTTC-
13286121 G
65 G
* * * *
13286122 TGTCGTTTATTTTTTTAACTTGTGGTTCA
1 GGTCATTTATTTTTCTAACTTATGGTTCA
13286151 GTGCTAGTCA
Statistics
Matches: 131, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
64 10 0.08
65 113 0.86
66 7 0.05
67 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (65 bp):
GGTCATTTATTTTTCTAACTTATGGTTCAATCTCAATTAGTCATTTTTTACCTCAACTTAGTTCG
Found at i:13286110 original size:130 final size:130
Alignment explanation
Indices: 13285925--13286207 Score: 295
Period size: 130 Copynumber: 2.2 Consensus size: 130
13285915 TGGCCCTATT
** * ** *
13285925 CAGGTCATTT-TATTTTCTAACTTGTGGTTCAATTCTAGTTAGTCATTTTCAACCTCGGCTTAGT
1 CAGGTCATTTAT-TTTTCTAACTTACGGTTCAATTCTAATTAGTCATTTTCAACCTCAACTCA-T
* **
13285989 CCTG-GTCATTTAATTTTTTGACTTATGGTTCAAT-CTAAGTCAATCATTTTTTACCTCAACTTA
64 CCTGTGTCATTTAATTTTTTAACTTATGGTTCAATGCT-AGTCAATCATTTTGGACCTCAACTTA
*
13286052 GTT
128 GTC
* ** *
13286055 CGGGTCATTTATTTTTCTAACTTACGGTTCAA-TCTCAATTAGTCATTTTTTACCTCAACTCATT
1 CAGGTCATTTATTTTTCTAACTTACGGTTCAATTCT-AATTAGTCATTTTCAACCTCAACTCATC
* * * * * * * *
13286119 CTGTGTCGTTTATTTTTTTAACTTGTGGTTCAGTGCTAGTCACTCATTTTGGACTTTAGCTTAGT
65 CTGTGTCATTTAATTTTTTAACTTATGGTTCAATGCTAGTCAATCATTTTGGACCTCAACTTAGT
13286184 C
130 C
*
13286185 CAAGTCATTTATTTTTCTAACTT
1 CAGGTCATTTATTTTTCTAACTT
13286208 GCAATTCAAT
Statistics
Matches: 125, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
129 7 0.06
130 115 0.92
131 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (130 bp):
CAGGTCATTTATTTTTCTAACTTACGGTTCAATTCTAATTAGTCATTTTCAACCTCAACTCATCC
TGTGTCATTTAATTTTTTAACTTATGGTTCAATGCTAGTCAATCATTTTGGACCTCAACTTAGTC
Found at i:13286166 original size:65 final size:65
Alignment explanation
Indices: 13285992--13286168 Score: 198
Period size: 65 Copynumber: 2.7 Consensus size: 65
13285982 GCTTAGTCCT
* * *
13285992 GGTCATTTAATTTTTTGACTTATGGTTCAATCTAAGTCAATCATTTTTTACCTCAACTTAGTTCG
1 GGTCATTTATTTTTTTAACTTATGGTTCAATCTAAGTCAATCATTTTTTACCTCAACTCAGTTCG
* * * *
13286057 GGTCATTTATTTTTCTAACTTACGGTTCAATCTCAA-TTAGTCATTTTTTACCTCAACTCA-TTC
1 GGTCATTTATTTTTTTAACTTATGGTTCAATCT-AAGTCAATCATTTTTTACCTCAACTCAGTTC
13286120 TG
65 -G
* * * * *
13286122 TGTCGTTTATTTTTTTAACTTGTGGTTCAGTGCT-AGTCACTCATTTT
1 GGTCATTTATTTTTTTAACTTATGGTTCAAT-CTAAGTCAATCATTTT
13286169 GGACTTTAGC
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
64 4 0.04
65 85 0.91
66 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (65 bp):
GGTCATTTATTTTTTTAACTTATGGTTCAATCTAAGTCAATCATTTTTTACCTCAACTCAGTTCG
Found at i:13286610 original size:14 final size:15
Alignment explanation
Indices: 13286591--13286619 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13286581 CCAATTTTCA
13286591 AATT-GGCTTTGAAT
1 AATTGGGCTTTGAAT
13286605 AATTGGGCTTTGAAT
1 AATTGGGCTTTGAAT
13286620 TGATTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (15 bp):
AATTGGGCTTTGAAT
Found at i:13288264 original size:25 final size:25
Alignment explanation
Indices: 13288214--13288262 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
13288204 AAATATTAAA
13288214 TAATTTAATTTTTATATATAATTTT
1 TAATTTAATTTTTATATATAATTTT
*
13288239 TAATTTAATATTT-TA-ATAATTTT
1 TAATTTAATTTTTATATATAATTTT
13288262 T
1 T
13288263 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
24 2 0.09
25 12 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TAATTTAATTTTTATATATAATTTT
Found at i:13289727 original size:3 final size:3
Alignment explanation
Indices: 13289719--13289767 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
13289709 CTTTAGGTAG
*
13289719 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA GGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13289767 A
1 A
13289768 AGGGAAAGCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13299062 original size:40 final size:43
Alignment explanation
Indices: 13299018--13299103 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 43
13299008 GCAGAGGTTC
13299018 AATAAAATTA-ACT-CTCTATACAAAGGCAAACAA-ATTAAGA
1 AATAAAATTAGACTCCTCTATACAAAGGCAAACAACATTAAGA
* * *
13299058 AATAAAATTAGGCTCCTCTATATAAAGGCAAACAACTTTAAGA
1 AATAAAATTAGACTCCTCTATACAAAGGCAAACAACATTAAGA
13299101 AAT
1 AAT
13299104 GGGTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
40 10 0.25
41 2 0.05
42 19 0.47
43 9 0.22
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.24
Consensus pattern (43 bp):
AATAAAATTAGACTCCTCTATACAAAGGCAAACAACATTAAGA
Found at i:13299142 original size:43 final size:43
Alignment explanation
Indices: 13299095--13299189 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
13299085 GCAAACAACT
* *
13299095 TTAAGAAATGGGTTTTTTTATACAGAAGCTAAACAACTTTAAA
1 TTAAGAAATGGGATCTTTTATACAGAAGCTAAACAACTTTAAA
* * *
13299138 TTAAGAAATGTGATCTTTTATACAGAGGCTAAACAATTTTAAA
1 TTAAGAAATGGGATCTTTTATACAGAAGCTAAACAACTTTAAA
*
13299181 TTAAAAAAT
1 TTAAGAAAT
13299190 TAGCTCCTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (43 bp):
TTAAGAAATGGGATCTTTTATACAGAAGCTAAACAACTTTAAA
Found at i:13299203 original size:43 final size:43
Alignment explanation
Indices: 13299113--13299228 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
13299103 TGGGTTTTTT
* * *
13299113 TATACAGAAGCTAAACAACTTTAAATTAAGAAATGTGATCTTT
1 TATACAGAAGCTAAACAACTTTAAATTAAAAAATGTGATCCTC
* * *
13299156 TATACAGAGGCTAAACAATTTTAAATTAAAAAAT-TAGCTCCTC
1 TATACAGAAGCTAAACAACTTTAAATTAAAAAATGT-GATCCTC
**
13299199 TATACA-ACAGCTAAATGACTTTAAA-TAAAA
1 TATACAGA-AGCTAAACAACTTTAAATTAAAA
13299229 TCTTCTAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 7 0.11
43 54 0.89
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (43 bp):
TATACAGAAGCTAAACAACTTTAAATTAAAAAATGTGATCCTC
Found at i:13300093 original size:55 final size:55
Alignment explanation
Indices: 13300009--13300121 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
13299999 TCATAGCTTT
13300009 TTAAAATATACTAGCTCTCATGTTCGTGCAACCTCCAAATGATGTTGTACTTTCC
1 TTAAAATATACTAGCTCTCATGTTCGTGCAACCTCCAAATGATGTTGTACTTTCC
13300064 TTAAAATATACTAGCTCTCATGTTCGTGCAACCTCCAAATGATGTTGTACTTTCC
1 TTAAAATATACTAGCTCTCATGTTCGTGCAACCTCCAAATGATGTTGTACTTTCC
13300119 TTA
1 TTA
13300122 TCCAAGTCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (55 bp):
TTAAAATATACTAGCTCTCATGTTCGTGCAACCTCCAAATGATGTTGTACTTTCC
Found at i:13309614 original size:12 final size:13
Alignment explanation
Indices: 13309592--13309618 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13309582 GGCATATATA
13309592 TTTTCCTTTTTTT
1 TTTTCCTTTTTTT
13309605 TTTTCCTTTTTTT
1 TTTTCCTTTTTTT
13309618 T
1 T
13309619 CTTATATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCCTTTTTTT
Found at i:13310061 original size:24 final size:25
Alignment explanation
Indices: 13310014--13310085 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
13310004 CAAATTAACA
*
13310014 TAAATATAACAAAAACTTATAATAT
1 TAAATACAACAAAAACTTATAATAT
* *
13310039 TAAATACATCAAAAATTTA-AATAT
1 TAAATACAACAAAAACTTATAATAT
* *
13310063 CAAATA-AACACAAAC--ATAATAT
1 TAAATACAACAAAAACTTATAATAT
13310085 T
1 T
13310086 GTCATTTTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 6 0.16
24 10 0.26
25 16 0.42
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATACAACAAAAACTTATAATAT
Found at i:13310457 original size:24 final size:24
Alignment explanation
Indices: 13310421--13310467 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
13310411 AATTGTAGAT
* *
13310421 TTTGTTATATTACATTTCTACAAG
1 TTTGTTAGATTACATCTCTACAAG
*
13310445 TTTGTTAGGTTACATCTCTACAA
1 TTTGTTAGATTACATCTCTACAA
13310468 TATTATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.47
Consensus pattern (24 bp):
TTTGTTAGATTACATCTCTACAAG
Found at i:13316584 original size:2 final size:2
Alignment explanation
Indices: 13316571--13316605 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
13316561 TGCATATAGC
*
13316571 AT AT AC AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13316606 GTATTAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13316589 original size:21 final size:21
Alignment explanation
Indices: 13316564--13316605 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13316554 TAAACTATGC
*
13316564 ATATAGCATATACATATATAT
1 ATATAGAATATACATATATAT
* *
13316585 ATATATAATATATATATATAT
1 ATATAGAATATACATATATAT
13316606 GTATTAATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATAGAATATACATATATAT
Found at i:13316595 original size:13 final size:13
Alignment explanation
Indices: 13316579--13316604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13316569 GCATATACAT
13316579 ATATATATATATA
1 ATATATATATATA
13316592 ATATATATATATA
1 ATATATATATATA
13316605 TGTATTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:13317222 original size:23 final size:22
Alignment explanation
Indices: 13317175--13317226 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
13317165 GTTGAAACAA
*
13317175 ATAATTTTAAAAAATAATTTTTT
1 ATAATTTTAAAAAATAA-TTCTT
13317198 ATAATTTTAACAAATATAA-TCTT
1 ATAATTTTAA-AAA-ATAATTCTT
13317221 ATAATT
1 ATAATT
13317227 CTAATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 19 0.73
24 3 0.12
25 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATTTTAAAAAATAATTCTT
Found at i:13317613 original size:40 final size:40
Alignment explanation
Indices: 13317551--13317673 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 40
13317541 ATTTTTTATG
* **
13317551 TTTTCAACAAAAACTA-AGTTTTTATTTTAAAAATGTCATC
1 TTTTCAACAAAAATTACA-TTTTTATTTTAAAAACATCATC
* ***
13317591 TTTTCAATAAAAATTACATTTTTATTTCGGAAACATCATC
1 TTTTCAACAAAAATTACATTTTTATTTTAAAAACATCATC
* * * * *
13317631 TTTTTAACAAAGATTACATATTTATTTTAGAAACATTATC
1 TTTTCAACAAAAATTACATTTTTATTTTAAAAACATCATC
13317671 TTT
1 TTT
13317674 ATTGAATTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 67 0.99
41 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (40 bp):
TTTTCAACAAAAATTACATTTTTATTTTAAAAACATCATC
Found at i:13318656 original size:26 final size:26
Alignment explanation
Indices: 13318607--13318671 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
13318597 TAATGTAACT
* *
13318607 ATTAAAATAT-TAAAAATTGTTTATG
1 ATTAAAATATATTAAAATTATTTATG
* *
13318632 ATTAAAATATATTGAAATTATTTATT
1 ATTAAAATATATTAAAATTATTTATG
13318658 ATTAAAAT-TATTAA
1 ATTAAAATATATTAA
13318672 TATTCAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (26 bp):
ATTAAAATATATTAAAATTATTTATG
Found at i:13318680 original size:16 final size:16
Alignment explanation
Indices: 13318640--13318734 Score: 59
Period size: 16 Copynumber: 5.6 Consensus size: 16
13318630 TGATTAAAAT
*
13318640 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
13318656 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
*
13318671 ATATTCAAAA-AATTTA
1 ATATT-AAAATTATTTA
* *
13318687 TATTTTAATAAGAATATTTA
1 -ATATT-A-AA-ATTATTTA
13318707 ATATTAAAATTTATATTA
1 ATATTAAAA-TTAT-TTA
*
13318725 ATATAAAAAT
1 ATATTAAAAT
13318735 GCTTAAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
15 8 0.13
16 18 0.30
17 11 0.18
18 14 0.23
19 5 0.08
20 5 0.08
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:13319064 original size:29 final size:29
Alignment explanation
Indices: 13319032--13319088 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
13319022 AAATATTATT
* *
13319032 TAATATATTATTATTTATTATTAAAATAA
1 TAATATAATAGTATTTATTATTAAAATAA
* *
13319061 TAATTTAATAGTATTTATTATTGAAATA
1 TAATATAATAGTATTTATTATTAAAATA
13319089 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (29 bp):
TAATATAATAGTATTTATTATTAAAATAA
Found at i:13319108 original size:24 final size:25
Alignment explanation
Indices: 13319072--13319122 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
13319062 AATTTAATAG
13319072 TATTTATTATTGA-AATATTA-AAAA
1 TATTTATTATTGATAATA-TACAAAA
13319096 TATTTATGT-TTGATAATATACAAAA
1 TATTTAT-TATTGATAATATACAAAA
13319121 TA
1 TA
13319123 GAAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (25 bp):
TATTTATTATTGATAATATACAAAA
Found at i:13319543 original size:14 final size:14
Alignment explanation
Indices: 13319524--13319552 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13319514 TTAAAAAAAG
13319524 AAAAACATAATTTT
1 AAAAACATAATTTT
13319538 AAAAACATAATTTT
1 AAAAACATAATTTT
13319552 A
1 A
13319553 TTTTTTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAACATAATTTT
Found at i:13325798 original size:18 final size:18
Alignment explanation
Indices: 13325771--13325805 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13325761 ATAGTAGTGA
13325771 GAAGGAAAACGCAGAAAT
1 GAAGGAAAACGCAGAAAT
* *
13325789 GAAGGTAAACGCGGAAA
1 GAAGGAAAACGCAGAAA
13325806 CTAAAATAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.31, T:0.06
Consensus pattern (18 bp):
GAAGGAAAACGCAGAAAT
Found at i:13334584 original size:306 final size:298
Alignment explanation
Indices: 13333834--13334756 Score: 779
Period size: 306 Copynumber: 3.0 Consensus size: 298
13333824 TTTGGCAGAG
* * * **
13333834 AATGCCATTAATAATCTATAGGAAAAATATTGAATCA-ATTCTTGAAGGCGTTTTTTGCTGAATT
1 AATGCCATTAATAATCTATA-GAAAAATATGGAAT-AGATTCTTGAAGACG-TTTTTGGTGAAAA
* * *
13333898 CACCTTCAATAATCCAATCAATAAATTTTTAAATTGGATTATTAAAGGCTA-TTTTTGTCAAAAA
63 CGCCTTCAATAATCCAATCAATAAATTTTTAAA-AGAATTATTAAA-GC-AGTTTTT-T-AAAAA
* * *
13333962 CA-CCTTCAATAAT-TCATACACAAAAGTTAGAATGGATTCTTAAAGGTA-TTTTTGACTCAAAA
123 AAGCCTTCAATAATCT-ATACACAAAAGTTAGAA-AGATTCTTGAAGGTATTTTTTG-CTCAAAA
* * * * * ** *
13334024 TGCCTTTAATATTTCACACGATAAATTTGAATGGTCAG-ATTATTGAAGGTGATTTTTTTCAAAA
185 TGCATTTAATATTTCACACAATAAATTT-TA-GGT-AGAATTATTAAAGGCGATTTTGGTAAAAA
** * *
13334088 ACG-CTTTCAATAACATTTTGTTAAGGATTATTTAAGCCGTTTTC-AGTAGAAA
247 ACGCCTTT-AATAACATTTTGTTAAGGATTATTTAAGGTGTTTTCTTGT-TAAA
* * * * * * ** *
13334140 AATGCCTTTAATAATCCATATGAAAAGTATGAAACAGATTTATTGAAGTTGTTTTTGGTCGAAAG
1 AATGCCATTAATAATCTATA-GAAAAATATGGAATAGA-TTCTTGAAGACGTTTTTGGT-GAAAA
* * * * *** * * ** ** *
13334205 CGCTTTCAATAATCCATTAAATTAATTTTTAGTTGGTATTATTGAAGGTGATTTTTTTTAAAACG
63 CGCCTTCAATAATCCAATCAATAAATTTTTA-AAAGAATTATTAAAGCAG-TTTTTTAAAAAAAG
* *
13334270 CCTTCAATAATCTATACAAAAAAGTTAGAACAGATTCTTGAAGGTATTTTTTGCCCAAAATGCAT
126 CCTTCAATAATCTATACACAAAAGTTAGAA-AGATTCTTGAAGGTATTTTTTGCTCAAAATGCAT
* *
13334335 TTACTATTTCACACAATAAATTATTAGGTAGAATTATTAAAGGCGATTTTGGTAAAAAATGCCTT
190 TTAATATTTCACACAATAAATT-TTAGGTAGAATTATTAAAGGCGATTTTGGTAAAAAACGCCTT
* * *
13334400 TAATAATATTTTGTTAGGGATTATTGAAGGTGTTTTCTTGTTAAA
254 TAATAACATTTTGTTAAGGATTATTTAAGGTGTTTTCTTGTTAAA
* * *
13334445 TATGCCCTTAATAATCTATAGAAAAAATATGGAATGGATTCTTGAAGACGTTTTTGGGTGAAAAC
1 AATGCCATTAATAATCTATAG-AAAAATATGGAATAGATTCTTGAAGACGTTTTT-GGTGAAAAC
*
13334510 GCCTTCAATAATCCAATCAATAAATTTTTAACAAAAATTATTAAAGACAGTTTTTATAAAAAAAT
64 GCCTTCAATAATCCAATCAATAAATTTTTAA-AAGAATTATTAAAG-CAGTTTTT-TAAAAAAA-
* * * * * *
13334575 GCATTCAATAATCTATACACAATA-TTTGAAATGGATTTTTGAAAGCGT-TTTTGT-CTCAAAAC
125 GCCTTCAATAATCTATACACAAAAGTTAGAAA--GATTCTTG-AAG-GTATTTTTTGCTCAAAAT
* * * * * * ** *
13334637 ACTTTTATTATTCCACACAATATATTTTTAGGTGGAATTATTAAAGGCGATTTTGGTTGAAAACA
186 GCATTTAATATTTCACACAATA-AATTTTAGGTAGAATTATTAAAGGCGATTTTGGTAAAAAACG
* * * *
13334702 CCTTCAATAACATTTTGTTATGGATGATTTAAGGTGTTTTCTTGCTAAA
250 CCTTTAATAACATTTTGTTAAGGATTATTTAAGGTGTTTTCTTGTTAAA
13334751 AATGCC
1 AATGCC
13334757 TTCATTAATC
Statistics
Matches: 491, Mismatches: 102, Indels: 48
0.77 0.16 0.07
Matches are distributed among these distances:
304 63 0.13
305 107 0.22
306 248 0.51
307 71 0.14
308 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (298 bp):
AATGCCATTAATAATCTATAGAAAAATATGGAATAGATTCTTGAAGACGTTTTTGGTGAAAACGC
CTTCAATAATCCAATCAATAAATTTTTAAAAGAATTATTAAAGCAGTTTTTTAAAAAAAGCCTTC
AATAATCTATACACAAAAGTTAGAAAGATTCTTGAAGGTATTTTTTGCTCAAAATGCATTTAATA
TTTCACACAATAAATTTTAGGTAGAATTATTAAAGGCGATTTTGGTAAAAAACGCCTTTAATAAC
ATTTTGTTAAGGATTATTTAAGGTGTTTTCTTGTTAAA
Found at i:13337450 original size:25 final size:25
Alignment explanation
Indices: 13337422--13337476 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
13337412 CAGTAATGTG
* * *
13337422 TTCAGACACACCCTTCAGTAAACCA
1 TTCAGAAACACCATTCAGCAAACCA
*
13337447 TTCAGAAACACCATTTAGCAAACCA
1 TTCAGAAACACCATTCAGCAAACCA
13337472 TTCAG
1 TTCAG
13337477 TATACGATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (25 bp):
TTCAGAAACACCATTCAGCAAACCA
Found at i:13337525 original size:28 final size:28
Alignment explanation
Indices: 13337483--13337557 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
13337473 TCAGTATACG
* * *
13337483 ATTCAGCATACCAATATCATACAATAAC
1 ATTCAGCAAAACAATATCACACAATAAC
*
13337511 ATTCAGCAAAACAATATCACACAATAAG
1 ATTCAGCAAAACAATATCACACAATAAC
13337539 ATTCAGCAAATCACAATAT
1 ATTCAGCAAA--ACAATAT
13337558 TTAAAGAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 34 0.83
30 7 0.17
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (28 bp):
ATTCAGCAAAACAATATCACACAATAAC
Found at i:13337915 original size:77 final size:77
Alignment explanation
Indices: 13337792--13337947 Score: 267
Period size: 77 Copynumber: 2.0 Consensus size: 77
13337782 AAGGATAAAG
* *
13337792 AAACCAAAAATCTGATAGAAATGTGTTTATGGGTTTGGTTTAGTTGATTAATGTAGCTTTTAATC
1 AAACCAAAAATCTGATAGAAATGTGTTTATGGGTTTGGTTTAGTTGATTAATGCAACTTTTAATC
13337857 ATTCTCTATACT
66 ATTCTCTATACT
* *
13337869 AAACCAAAAGTCTGATAGAAATGTGTTTATGGGTTTGGTTTGGTTGATTAATGCAACTTTTAATC
1 AAACCAAAAATCTGATAGAAATGTGTTTATGGGTTTGGTTTAGTTGATTAATGCAACTTTTAATC
*
13337934 GTTCTCTATACT
66 ATTCTCTATACT
13337946 AA
1 AA
13337948 CAGCTTGTGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (77 bp):
AAACCAAAAATCTGATAGAAATGTGTTTATGGGTTTGGTTTAGTTGATTAATGCAACTTTTAATC
ATTCTCTATACT
Found at i:13338724 original size:187 final size:185
Alignment explanation
Indices: 13338350--13338928 Score: 714
Period size: 187 Copynumber: 3.1 Consensus size: 185
13338340 ATACTAAAAA
* * *
13338350 ACACCTTTAATAAT-TCTAAAAATTTTTAAAAAGAAATTATTGAATGAGTTTGTTCTTAAAAAAT
1 ACACCTTTAATAATCTC-AAAAATTTTTAAAAAAAAATTATTGAA-GAATTTGTTCTAAAAAAAT
* *
13338414 GCCTTCAATAATTTTTAGTTGGACAAAAATTAAAACG-AATTAGTGAAGGCATTTTTCTAGAATA
64 GCCTTCAATAA---TTA--TGTAC-AAAATTAAAA-GAAATTAGTGAAGGTATTTTTCTAGAATA
* * *
13338478 AATGCCTTCACTAACCATCTTAAAATTTGAATAGT-AAATTATTGAATGCATTTTTCACTAGAAG
122 AATGCCTTCACTAACCATTTTAAAATTTGAGTAGTGAAA-TATTGAAGGCATTTTTCACTAGAAG
* *
13338542 ACACATTTAATAATCTCAAAAAATTTTAAAAAAAAATTATTGAAGATATTTGTTCTAAAAAAATG
1 ACACCTTTAATAATCTCAAAAATTTTTAAAAAAAAATTATTGAAGA-ATTTGTTCTAAAAAAATG
* * *
13338607 CCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTGAAGGTATTTTTCTGGAATAAATGCTT
65 CCTTCAATAATTATGTACAAAA-TTAAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCT
* * **
13338672 TCACTAATCATTTTAAAATTTGAGTATTGGTATATTGAAGGCATTTTTCACTAGAAG
129 TCACTAACCATTTTAAAATTTGAGTAGTGAAATATTGAAGGCATTTTTCACTAGAAG
* * * * * *
13338729 ACACCTTTAATAATCTCAAAAATTTTTAAAATAAAATTATTAAAGGCATTTATTCTCAAAAAATA
1 ACACCTTTAATAATCTCAAAAATTTTTAAAAAAAAATTATTGAA-GAATTTGTTCTAAAAAAATG
* * * *
13338794 CCTTTAATAATTATGTACATAAATTAAATGAAATTAGTGAAGGTATTTTTCTAGAATATATACCT
65 CCTTCAATAATTATGTACA-AAATTAAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCT
* * * *
13338859 TCACTAACCGTTTTAAAATTTAAGTAGTGAAATATTGAAGGTATTTTGCACTAGAAG
129 TCACTAACCATTTTAAAATTTGAGTAGTGAAATATTGAAGGCATTTTTCACTAGAAG
* *
13338916 ACGCCTTCAATAA
1 ACACCTTTAATAA
13338929 ATTCTTTCAA
Statistics
Matches: 338, Mismatches: 42, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
186 5 0.01
187 257 0.76
188 5 0.01
189 3 0.01
191 2 0.01
192 64 0.19
193 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (185 bp):
ACACCTTTAATAATCTCAAAAATTTTTAAAAAAAAATTATTGAAGAATTTGTTCTAAAAAAATGC
CTTCAATAATTATGTACAAAATTAAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTC
ACTAACCATTTTAAAATTTGAGTAGTGAAATATTGAAGGCATTTTTCACTAGAAG
Found at i:13338986 original size:187 final size:183
Alignment explanation
Indices: 13338436--13338990 Score: 596
Period size: 187 Copynumber: 3.0 Consensus size: 183
13338426 TTTTAGTTGG
* * *
13338436 ACAAAAATTAAAACG-AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACCATCTTA
1 ACAAAATTTAAAA-GAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATTTTA
* *
13338500 AAATTTGAA-TAGT-AAATTATTGAATGCATTTTTCACTAGAAGACACATTTAATAATCTCAAAA
65 AAATTT-AAGTAGTGAAA-TATTGAAGGCATTTTTCACTAGAAGACACCTTTAATAATCTCAAAA
* * * * * *
13338563 AATTTTAAAAAAAAATTATTGAAGATATTTGTTCTAAAAAAATGCCTTCAATAATTATGT
128 AA---T-AAAATAAATTATTAAAGGTATTTATTCTAAAAAAATACCTTTAATAATTATGT
* * * *
13338623 ACAAAATTTAAAAGAAATTATTGAAGGTATTTTTCTGGAATAAATGCTTTCACTAATCATTTTAA
1 ACAAAATTTAAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATTTTAA
* * **
13338688 AATTTGAGTATTGGTATATTGAAGGCATTTTTCACTAGAAGACACCTTTAATAATCTCAAAAATT
66 AATTTAAGTAGTGAAATATTGAAGGCATTTTTCACTAGAAGACACCTTTAATAATCTCAAAAA--
* * *
13338753 TTTAAAATAAAATTATTAAAGGCATTTATTCTCAAAAAATACCTTTAATAATTATGT
129 -ATAAAAT-AAATTATTAAAGGTATTTATTCTAAAAAAATACCTTTAATAATTATGT
* * * *
13338810 ACATAAA-TTAAATGAAATTAGTGAAGGTATTTTTCTAGAATATATACCTTCACTAACCGTTTTA
1 ACA-AAATTTAAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATTTTA
* * * *
13338874 AAATTTAAGTAGTGAAATATTGAAGGTATTTTGCACTAGAAGACGCCTTCAATAAATTCTTTCAA
65 AAATTTAAGTAGTGAAATATTGAAGGCATTTTTCACTAGAAGACACCTTTAAT-AA-TC--TCAA
* * * * * * * *
13338939 AAAATAAAATGAATTAGTCAAGGTATTTTTTTTGAATAAACACCTTTAATAA
126 AAAATAAAATAAATTATTAAAGGTATTTATTCTAAAAAAATACCTTTAATAA
13338991 CCCTTTAAAA
Statistics
Matches: 308, Mismatches: 48, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
186 6 0.02
187 281 0.91
188 12 0.04
189 2 0.01
191 7 0.02
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (183 bp):
ACAAAATTTAAAAGAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATTTTAA
AATTTAAGTAGTGAAATATTGAAGGCATTTTTCACTAGAAGACACCTTTAATAATCTCAAAAAAT
AAAATAAATTATTAAAGGTATTTATTCTAAAAAAATACCTTTAATAATTATGT
Found at i:13341500 original size:6 final size:6
Alignment explanation
Indices: 13341489--13341610 Score: 100
Period size: 6 Copynumber: 19.8 Consensus size: 6
13341479 CTGGAGGCTT
* * * * *
13341489 TGGTGC TGGTGC TGGTGC TGGAGGC TTTGGTGC CGGCGC CGGTGC TGGCGC
1 TGGTGC TGGTGC TGGTGC TGG-TGC --TGGTGC TGGTGC TGGTGC TGGTGC
* * * * * *
13341540 TGGAGC TGGCGC CGGTGC TGGTGC CGGTGC CGGTGC TGGTGC CGGTGC
1 TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC TGGTGC
* *
13341588 TGGTGC TGGCGC TGGCGC TGGTG
1 TGGTGC TGGTGC TGGTGC TGGTG
13341611 GTTTCGGGGG
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
6 88 0.93
7 2 0.02
8 2 0.02
9 3 0.03
ACGTcount: A:0.02, C:0.25, G:0.50, T:0.24
Consensus pattern (6 bp):
TGGTGC
Found at i:13341509 original size:27 final size:27
Alignment explanation
Indices: 13341479--13341560 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
13341469 GGAGCCGTTT
* * *
13341479 CTGGAGGCTTTGGTGCTGGTGCTGGTG
1 CTGGAGGCTTTGGTGCCGGCGCCGGTG
13341506 CTGGAGGCTTTGGTGCCGGCGCCGGTG
1 CTGGAGGCTTTGGTGCCGGCGCCGGTG
* * *
13341533 CTGG-CGC--TGGAGCTGGCGCCGGTG
1 CTGGAGGCTTTGGTGCCGGCGCCGGTG
13341557 CTGG
1 CTGG
13341561 TGCCGGTGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
24 19 0.39
26 2 0.04
27 28 0.57
ACGTcount: A:0.04, C:0.23, G:0.49, T:0.24
Consensus pattern (27 bp):
CTGGAGGCTTTGGTGCCGGCGCCGGTG
Found at i:13341674 original size:30 final size:30
Alignment explanation
Indices: 13341634--13341774 Score: 185
Period size: 30 Copynumber: 4.7 Consensus size: 30
13341624 TTCTTTGGGT
* *
13341634 TTCTCAGGTTCCTTGGGCTTTTCGGGTTTC
1 TTCTCTGGTTCCTTGGGCTTTTCAGGTTTC
* *
13341664 TTCTCTGGTTCTTTAGGCTTTTCAGGTTTC
1 TTCTCTGGTTCCTTGGGCTTTTCAGGTTTC
*
13341694 TTCTCTGGTTCCTTGGGCTTTTCGGGTTTC
1 TTCTCTGGTTCCTTGGGCTTTTCAGGTTTC
* * *
13341724 TTCACTGGTTCTTTAGGCTTTTCAGGTTTC
1 TTCTCTGGTTCCTTGGGCTTTTCAGGTTTC
* *
13341754 TTCTCAGGATCCTTGGG-TTTT
1 TTCTCTGGTTCCTTGGGCTTTT
13341775 GGAGGTGGTT
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 4 0.04
30 91 0.96
ACGTcount: A:0.06, C:0.21, G:0.23, T:0.50
Consensus pattern (30 bp):
TTCTCTGGTTCCTTGGGCTTTTCAGGTTTC
Found at i:13341704 original size:60 final size:60
Alignment explanation
Indices: 13341634--13341774 Score: 248
Period size: 60 Copynumber: 2.4 Consensus size: 60
13341624 TTCTTTGGGT
*
13341634 TTCTCAGGTTCCTTGGGCTTTTCGGGTTTCTTCTCTGGTTCTTTAGGCTTTTCAGGTTTC
1 TTCTCAGGTTCCTTGGGCTTTTCGGGTTTCTTCACTGGTTCTTTAGGCTTTTCAGGTTTC
*
13341694 TTCTCTGGTTCCTTGGGCTTTTCGGGTTTCTTCACTGGTTCTTTAGGCTTTTCAGGTTTC
1 TTCTCAGGTTCCTTGGGCTTTTCGGGTTTCTTCACTGGTTCTTTAGGCTTTTCAGGTTTC
*
13341754 TTCTCAGGATCCTTGGG-TTTT
1 TTCTCAGGTTCCTTGGGCTTTT
13341775 GGAGGTGGTT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
59 4 0.05
60 73 0.95
ACGTcount: A:0.06, C:0.21, G:0.23, T:0.50
Consensus pattern (60 bp):
TTCTCAGGTTCCTTGGGCTTTTCGGGTTTCTTCACTGGTTCTTTAGGCTTTTCAGGTTTC
Found at i:13354703 original size:21 final size:23
Alignment explanation
Indices: 13354660--13354705 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
13354650 TTATTCTATC
*
13354660 TTTTCTTCCTATTTTCTTTGTTT
1 TTTTCTTCCTATTTTCTTCGTTT
*
13354683 TTTTTTTCC-ATTTT-TTCGTTT
1 TTTTCTTCCTATTTTCTTCGTTT
13354704 TT
1 TT
13354706 ATATTATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTTCTTCCTATTTTCTTCGTTT
Found at i:13373051 original size:52 final size:51
Alignment explanation
Indices: 13372896--13373052 Score: 206
Period size: 52 Copynumber: 3.0 Consensus size: 51
13372886 TATAACCATA
* * * *
13372896 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCT-TTCTCTTAGAATTCTTCTCTTGCAAGT
* *
13372948 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTGCCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTCTTGCAAGT
* * *
13373000 CAAACTTACCTATTAAGAATCCTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCTCTTAGAATTCTTCTCTTGCAAGT
13373052 C
1 C
13373053 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.01
52 87 0.95
53 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:13373089 original size:11 final size:11
Alignment explanation
Indices: 13373073--13373097 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13373063 TCAAACAATA
13373073 TCTAACAAATC
1 TCTAACAAATC
13373084 TCTAACAAATC
1 TCTAACAAATC
13373095 TCT
1 TCT
13373098 TATGGGATTT
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:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:13373906 original size:63 final size:63
Alignment explanation
Indices: 13373807--13373928 Score: 208
Period size: 63 Copynumber: 1.9 Consensus size: 63
13373797 ATGACCCATT
*
13373807 GGAATATTAGGTTTGGATGACACTCATGGGTTTTTTAATCATCTTTTAAAAACATTTTCAGGA
1 GGAATATTAGGTTTGAATGACACTCATGGGTTTTTTAATCATCTTTTAAAAACATTTTCAGGA
* * *
13373870 GGAATATTAGGTTTGAATGAGAGTCATGGTTTTTTTAATCATCTTTTAAAAACATTTTC
1 GGAATATTAGGTTTGAATGACACTCATGGGTTTTTTAATCATCTTTTAAAAACATTTTC
13373929 TTGAATTGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (63 bp):
GGAATATTAGGTTTGAATGACACTCATGGGTTTTTTAATCATCTTTTAAAAACATTTTCAGGA
Found at i:13374620 original size:16 final size:16
Alignment explanation
Indices: 13374595--13374628 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13374585 ATATCTTAAG
*
13374595 AAATTTATTTTTAATT
1 AAATTAATTTTTAATT
13374611 AAATTAATTTTTAATT
1 AAATTAATTTTTAATT
13374627 AA
1 AA
13374629 TTCACATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTAATTTTTAATT
Found at i:13376285 original size:2 final size:2
Alignment explanation
Indices: 13376278--13376307 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13376268 CGTTTTAAAC
13376278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13376308 GTTATACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13381237 original size:20 final size:20
Alignment explanation
Indices: 13381212--13381250 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13381202 AGATCCAAGG
*
13381212 TACTATCCTATACCATATTA
1 TACTATACTATACCATATTA
*
13381232 TACTATACTATACTATATT
1 TACTATACTATACCATATT
13381251 GTGCAATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TACTATACTATACCATATTA
Found at i:13382257 original size:15 final size:15
Alignment explanation
Indices: 13382237--13382275 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
13382227 CATCCATAGT
*
13382237 GAAGGATGAAGAGAA
1 GAAGGAAGAAGAGAA
13382252 GAAGGAAGAAGAGAA
1 GAAGGAAGAAGAGAA
*
13382267 GAAAGAAGA
1 GAAGGAAGA
13382276 GAAGGAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (15 bp):
GAAGGAAGAAGAGAA
Found at i:13382259 original size:12 final size:12
Alignment explanation
Indices: 13382244--13382302 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
13382234 AGTGAAGGAT
13382244 GAAGAGAAGAAG
1 GAAGAGAAGAAG
13382256 GAAGA-AGAGAAG
1 GAAGAGA-AGAAG
*
13382268 AAAGA-AGAGAAG
1 GAAGAGA-AGAAG
13382280 GAAGAGAAAGAAG
1 GAAGAG-AAGAAG
13382293 G-AGAGAAGAA
1 GAAGAGAAGAA
13382303 AGAGGGTGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
11 6 0.14
12 29 0.69
13 6 0.14
14 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (12 bp):
GAAGAGAAGAAG
Found at i:13382302 original size:15 final size:15
Alignment explanation
Indices: 13382246--13382305 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 15
13382236 TGAAGGATGA
* *
13382246 AGAGAAGAAGGAAGA
1 AGAGAAGAAAGAAGG
13382261 AGAGAAGAAAGAA-G
1 AGAGAAGAAAGAAGG
13382275 AGAAGGAAGAGAAAGAAGG
1 AG-A-G-A-AGAAAGAAGG
13382294 AGAGAAGAAAGA
1 AGAGAAGAAAGA
13382306 GGGTGAAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 2 0.05
15 20 0.53
16 2 0.05
17 2 0.05
18 9 0.24
19 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AGAGAAGAAAGAAGG
Found at i:13385721 original size:23 final size:24
Alignment explanation
Indices: 13385695--13385742 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13385685 TTTCTAAATA
13385695 TTTTA-AAAATTTTCAAACACCTT
1 TTTTAGAAAATTTTCAAACACCTT
* *
13385718 TTTTAGAGAATTTTCAAACATCTT
1 TTTTAGAAAATTTTCAAACACCTT
13385742 T
1 T
13385743 AAACTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (24 bp):
TTTTAGAAAATTTTCAAACACCTT
Found at i:13390516 original size:27 final size:27
Alignment explanation
Indices: 13390486--13390542 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
13390476 GAGAAATTAC
13390486 ATTACTTCATTTATACATATGTAATTT
1 ATTACTTCATTTATACATATGTAATTT
* * *
13390513 ATTACTTTATTTATTCATGTGTAATTT
1 ATTACTTCATTTATACATATGTAATTT
13390540 ATT
1 ATT
13390543 TGAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (27 bp):
ATTACTTCATTTATACATATGTAATTT
Found at i:13391092 original size:13 final size:14
Alignment explanation
Indices: 13391073--13391111 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
13391063 TGTAAAAAAA
13391073 TATTTTTATTTTA-
1 TATTTTTATTTTAG
13391086 TCA-TTTTATTTTAG
1 T-ATTTTTATTTTAG
13391100 TATTTTTATTTT
1 TATTTTTATTTT
13391112 TGAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (14 bp):
TATTTTTATTTTAG
Found at i:13391379 original size:14 final size:14
Alignment explanation
Indices: 13391360--13391389 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13391350 CTAAAATAAG
13391360 AAATCATTATAAAA
1 AAATCATTATAAAA
13391374 AAATCATTATAAAA
1 AAATCATTATAAAA
13391388 AA
1 AA
13391390 TTATTCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATCATTATAAAA
Found at i:13391399 original size:13 final size:13
Alignment explanation
Indices: 13391355--13391390 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
13391345 TAATACTAAA
*
13391355 ATAAGAAATCATT
1 ATAAAAAATCATT
13391368 ATAAAAAAATCATT
1 AT-AAAAAATCATT
13391382 ATAAAAAAT
1 ATAAAAAAT
13391391 TATTCTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (13 bp):
ATAAAAAATCATT
Found at i:13393877 original size:12 final size:13
Alignment explanation
Indices: 13393845--13393878 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
13393835 ATTTTGATGA
13393845 ATTGAACTTTACG
1 ATTGAACTTTACG
13393858 ATTTGAACTTTAC-
1 A-TTGAACTTTACG
13393871 ATTGAACT
1 ATTGAACT
13393879 AGATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 2 0.10
14 11 0.55
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (13 bp):
ATTGAACTTTACG
Found at i:13394700 original size:104 final size:105
Alignment explanation
Indices: 13394548--13394784 Score: 300
Period size: 104 Copynumber: 2.3 Consensus size: 105
13394538 AATATGAGGC
* *** *
13394548 ATTGAAACTTTGAAAATTTAAAAT-TTTTTGCCTAAAGGTCTTACAGATTATG-CTTGGAGGTTT
1 ATTGAAACTTTAAAAATTTAAAATGTTTTTGCCTAAAGGTCTTACAGATTATGTC-CAAAGGTCT
* *
13394611 TACAAATCTCAATATCTTTGAATGCTCATCGTATCAAAAGT
65 TACAAATCTCAACATCTTTGAATGCTCATCATATCAAAAGT
* *
13394652 ATTGAAACTTTAAAAATTTAAAATGTTTTT-CCTAGAGGTCTTAGAGATTATGTCCAAAGGTCTT
1 ATTGAAACTTTAAAAATTTAAAATGTTTTTGCCTAAAGGTCTTACAGATTATGTCCAAAGGTCTT
** * *
13394716 ACAAATCTTGACATCTTTGAATGCTCCTCATATCAAAGGT
66 ACAAATCTCAACATCTTTGAATGCTCATCATATCAAAAGT
* * *
13394756 GTTGAAATTTTAAAATTTTAAAATGTTTT
1 ATTGAAACTTTAAAAATTTAAAATGTTTT
13394785 CCCAAAAATC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
104 109 0.95
105 6 0.05
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (105 bp):
ATTGAAACTTTAAAAATTTAAAATGTTTTTGCCTAAAGGTCTTACAGATTATGTCCAAAGGTCTT
ACAAATCTCAACATCTTTGAATGCTCATCATATCAAAAGT
Found at i:13394818 original size:22 final size:22
Alignment explanation
Indices: 13394793--13394841 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13394783 TTCCCAAAAA
* *
13394793 TCTTAAAGATTATACCCGGATG
1 TCTTAAAGATTATACCCGAAAG
* *
13394815 TCTTAGAGATTATGCCCGAAAG
1 TCTTAAAGATTATACCCGAAAG
13394837 TCTTA
1 TCTTA
13394842 CAAATCTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (22 bp):
TCTTAAAGATTATACCCGAAAG
Found at i:13395881 original size:80 final size:80
Alignment explanation
Indices: 13395789--13395941 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 80
13395779 TTGTGAACAC
* * * * * * * * *
13395789 AAGTGATGTGAATGCGAAGACTTTTTTTGTTTTTGCAACATGTAGATCAAATATCTTTCTGATTA
1 AAGTGACGTGAATGCGAAAACTCTTTTTATTTTTGCAACAAGCAAATCAAATATCTTTCTAATGA
13395854 TGCACATGTAAATGT
66 TGCACATGTAAATGT
*
13395869 AAGTGACGTGAATGCGAAAACTCTTTTTATTTTTGCAACAAGCAAATCAAATGTCTTTCTAATGA
1 AAGTGACGTGAATGCGAAAACTCTTTTTATTTTTGCAACAAGCAAATCAAATATCTTTCTAATGA
13395934 TGCACATG
66 TGCACATG
13395942 CAATTGATAC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (80 bp):
AAGTGACGTGAATGCGAAAACTCTTTTTATTTTTGCAACAAGCAAATCAAATATCTTTCTAATGA
TGCACATGTAAATGT
Found at i:13402123 original size:38 final size:38
Alignment explanation
Indices: 13402081--13402176 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 38
13402071 TGGGATGAAA
* *
13402081 TACATGTATCATTTT-TTATTGATGTGCATGAGAT-ATGG
1 TACATATATCATTTTATTA-TCATGTGCATGAGATGA-GG
*
13402119 TACATATATTATTTTATTATCATGTGCATGAGATGAGG
1 TACATATATCATTTTATTATCATGTGCATGAGATGAGG
* *
13402157 TACATATATTATCTTATTAT
1 TACATATATCATTTTATTAT
13402177 TTTAATTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
38 48 0.92
39 4 0.08
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (38 bp):
TACATATATCATTTTATTATCATGTGCATGAGATGAGG
Found at i:13420353 original size:23 final size:22
Alignment explanation
Indices: 13420310--13420358 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
13420300 TTAAACTTTG
13420310 TTTTAAATAAAAATAAATATTA
1 TTTTAAATAAAAATAAATATTA
* * *
13420332 TTTTAAAATAATAATGATTATTA
1 TTTT-AAATAAAAATAAATATTA
13420355 TTTT
1 TTTT
13420359 TAGATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTAAATAAAAATAAATATTA
Found at i:13428319 original size:13 final size:13
Alignment explanation
Indices: 13428301--13428325 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13428291 TTTATTTTAT
13428301 AAAAAATATTTTC
1 AAAAAATATTTTC
13428314 AAAAAATATTTT
1 AAAAAATATTTT
13428326 TATTTTTAAA
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTC
Found at i:13428538 original size:28 final size:28
Alignment explanation
Indices: 13428485--13428539 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
13428475 TATCAATGTA
*
13428485 TTTGAATACAATTTTATTTAAGTCAAAC
1 TTTGAATACAATTTTATTTAACTCAAAC
* *
13428513 TTTGTATATAATTTT-TTTAAACTCAAA
1 TTTGAATACAATTTTATTT-AACTCAAA
13428540 TTTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.47
Consensus pattern (28 bp):
TTTGAATACAATTTTATTTAACTCAAAC
Found at i:13428801 original size:15 final size:15
Alignment explanation
Indices: 13428781--13428836 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
13428771 AAGTCTTTTG
13428781 ATATTTTAATTTTAA
1 ATATTTTAATTTTAA
**
13428796 ATATTTTAATTTTGT
1 ATATTTTAATTTTAA
* * *
13428811 ATTTTATTAAATATAA
1 ATATT-TTAATTTTAA
13428827 ATATTTTAAT
1 ATATTTTAAT
13428837 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 21 0.68
16 10 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
ATATTTTAATTTTAA
Found at i:13428858 original size:39 final size:38
Alignment explanation
Indices: 13428815--13428918 Score: 94
Period size: 37 Copynumber: 2.8 Consensus size: 38
13428805 TTTTGTATTT
13428815 TATTAAATATAAATATTTTAATATTTTAATAATAA-ATA
1 TATT-AATATAAATATTTTAATATTTTAATAATAACATA
* * * *
13428853 GTATT-ATATTATTATTTTAATA-ATAAATAATAACATA
1 -TATTAATATAAATATTTTAATATTTTAATAATAACATA
* *
13428890 TA-TAATA-ATAT-TTTTATTATTTTAATAAT
1 TATTAATATAAATATTTTAATATTTTAATAAT
13428919 TAATGCTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
34 7 0.13
35 9 0.17
36 14 0.27
37 18 0.35
39 4 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (38 bp):
TATTAATATAAATATTTTAATATTTTAATAATAACATA
Found at i:13428939 original size:42 final size:42
Alignment explanation
Indices: 13428842--13428946 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
13428832 TTAATATTTT
*
13428842 AATAAT-AAATAGTATTATATTATTATTTTAATAATAAATAATA
1 AATAATAAAATAATATT-T-TTATTATTTTAATAATAAATAATA
* * **
13428885 ACAT-ATATAATAATATTTTTATTATTTTAATAATTAATGCTA
1 A-ATAATAAAATAATATTTTTATTATTTTAATAATAAATAATA
13428927 AATAATAAAATAATATTTTT
1 AATAATAAAATAATATTTTT
13428947 TTAATATGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.04
42 37 0.70
43 4 0.08
44 10 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (42 bp):
AATAATAAAATAATATTTTTATTATTTTAATAATAAATAATA
Found at i:13429171 original size:20 final size:20
Alignment explanation
Indices: 13429142--13429180 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13429132 TTTTAGTATT
13429142 AATAAAAATAAT-ATTTTAAC
1 AATAAAAAT-ATGATTTTAAC
*
13429162 AATAATAATATGATTTTAA
1 AATAAAAATATGATTTTAA
13429181 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAAAAATATGATTTTAAC
Found at i:13429211 original size:28 final size:28
Alignment explanation
Indices: 13429148--13429211 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
13429138 TATTAATAAA
*
13429148 AATAATATTTTAACAATAATAATATGAT
1 AATAATATTTTAACAATAATAATATGAG
** *
13429176 TTTAAATATTTTAA-AATATTAATATGAAG
1 AAT-AATATTTTAACAATAATAATATG-AG
13429205 AATAATA
1 AATAATA
13429212 AATAGTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (28 bp):
AATAATATTTTAACAATAATAATATGAG
Found at i:13429301 original size:20 final size:20
Alignment explanation
Indices: 13429229--13429302 Score: 54
Period size: 18 Copynumber: 4.0 Consensus size: 20
13429219 TTATTTTAAG
13429229 TATTTTTT-ATATTAAT-A-
1 TATTTTTTAATATTAATAAT
* *
13429246 TAATATTTAATATTAA-ATAT
1 TATTTTTTAATATTAATA-AT
* *
13429266 TA-TTATTAA-AAT-ATAAT
1 TATTTTTTAATATTAATAAT
13429283 TATTTTTTAATATTAATAAT
1 TATTTTTTAATATTAATAAT
13429303 GTTAATAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
17 11 0.26
18 16 0.38
19 8 0.19
20 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTTTAATATTAATAAT
Found at i:13429325 original size:25 final size:25
Alignment explanation
Indices: 13429297--13429362 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
13429287 TTTTAATATT
13429297 AATAATGTTAATAATAAATA-ATTTC
1 AATAAT-TTAATAATAAATATATTTC
*
13429322 AATATATTTAAATAATAAATATATTTT
1 AATA-ATTT-AATAATAAATATATTTC
*
13429349 AATATTTTAATAAT
1 AATAATTTAATAAT
13429363 TATATTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 12 0.33
26 16 0.44
27 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
AATAATTTAATAATAAATATATTTC
Found at i:13429342 original size:26 final size:25
Alignment explanation
Indices: 13429304--13429362 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
13429294 ATTAATAATG
13429304 TTAATAATAAATA-ATTTCAATATAT
1 TTAATAATAAATATATTTCAATAT-T
*
13429329 TTAAATAATAAATATATTTTAATATT
1 TT-AATAATAAATATATTTCAATATT
13429355 TTAATAAT
1 TTAATAAT
13429363 TATATTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 8 0.26
26 14 0.45
27 9 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAATAATAAATATATTTCAATATT
Found at i:13430509 original size:17 final size:17
Alignment explanation
Indices: 13430489--13430523 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13430479 TTGTAATGTA
*
13430489 ATTATTAAATTGATTTT
1 ATTATCAAATTGATTTT
13430506 ATTATCAAATTGATTTT
1 ATTATCAAATTGATTTT
13430523 A
1 A
13430524 AACTCATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (17 bp):
ATTATCAAATTGATTTT
Found at i:13430965 original size:15 final size:16
Alignment explanation
Indices: 13430945--13430978 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
13430935 TTAGCTTAAA
*
13430945 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
13430960 AATATAAAATAATTAT
1 AATATAAAATAATTAT
13430976 AAT
1 AAT
13430979 TTTAAGATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:13433902 original size:660 final size:648
Alignment explanation
Indices: 13432642--13433967 Score: 1705
Period size: 660 Copynumber: 2.0 Consensus size: 648
13432632 TGTGTTGTAG
* *
13432642 GTTAATTAATAAGATAATTTTAAATTATAAAAGTTAATATTGAAATAATGAAAATTGTAAATGAA
1 GTTAATTAATAAGATAACTTTAAATTATAAAAGTTAATATTGAAATAATAAAAATTGTAAATGAA
* * * *
13432707 TAATGGTAAGTTGATTGATATTGAAATATTTTATTATGCCATTAACATTTACATATCCCTTAATT
66 CAATGATAAATTGATTGATATTGAAATATTTTATTATGCCATTAACATTTACAAATCCCTTAATT
* * * * *
13432772 TAGAACACTAAAACAAATTAAATTTTTTGTATTTAATAATGACACTAAAACATATTAAATTTTAA
131 TAGAACAATAAAACAAATTAAATTTGTTATATTTAATAATGACAATAAAACAAATTAAATTTTAA
**
13432837 TTAAATCAATGTGCATTAATATATAGATTTTAAAATTATAAAACGTTACTAATGAAATCAAATGA
196 TTAAATCAATGTGCATTAATATATAGATAATAAAATTATAAAACGTTA-TAATGAAAT-AAA-GA
* *
13432902 AATTCATGTGCATTAATATTTTATCAAATGTGCATTAATATTTTACCAACTGAAATCATATTTAA
258 AA-TCA---G-AATAATA---TATCAAACGTGCATTAATATTTTACCAACTGAAATCATATTTAA
* *
13432967 TGAAATATAAATCTATCAATCAAATATAAATTAATAAAATATTTTATCCCATTAATTTAGTTACG
315 TGAAAAATAAATCTATCAATCAAATATAAATTAATAAAATATTTTATCCCATTAATTTAATTACG
* * * *
13433032 AAGAATTAATTTAATGTATTTGCTTTCTATATTTACACATGAAATACATCAATTACTTAAATGGA
380 AAAAATTAATTTAATATATTTGCTTTATATATTTACACATGAAATACATCAATTACTCAAATGGA
* * *
13433097 TACTATATTTAATCAAATATAAATATATCAAATAATTGATTAGAGAAGTAATTATTTTATAATTA
445 TACAATATCTAATCAAATATAAATATATCAAATAATTGATTAGAGAAGTAACTATTTTATAATTA
* * *
13433162 TAATTGTAGTATTTATTAAATTATTAATTATATATTGATTGATTTAATTTGTCAAATTAAGAAAA
510 TAATTGTAATATTTATTAAATTATTAATTATATATTGATTAATTTAATTTATCAAATTAAGAAAA
* *
13433227 TTTTAAAATTTTAATACTTTTAATATGAATTGAATTGAGAA-TGATTTAAAATTAATAGTAAAAA
575 TTTTAAAAATTTAATACTTTTAATATGAATTGAATTGA-AAGTGATTTAAAATTAATAATAAAAA
*
13433291 CATAAATATA
639 CAAAAATATA
13433301 GTTAATTAATAAGATAACTTTAAATTATGAAAA-TTAATATTGAAATAATAAAAATTATGAGTGA
1 GTTAATTAATAAGATAACTTTAAATTAT-AAAAGTTAATATTGAAATAATAAAAA-T-T--GT--
*
13433365 ATAATGGTTTAACAATGATAAATTGATTGATATTGAAATATTTTATTCTGCCATTAACATTTACA
59 A-AAT-G---AACAATGATAAATTGATTGATATTGAAATATTTTATTATGCCATTAACATTTACA
**
13433430 AATCCCTTAATTTAGAACAATAAAACAAATTAAATTTGTTATATTTAATAATGGTAATAAAACAA
119 AATCCCTTAATTTAGAACAATAAAACAAATTAAATTTGTTATATTTAATAATGACAATAAAACAA
*
13433495 ATTAAATTTTAATTAAATCAATGTGTATTAATATCA-A-ATAATAAAATTATAAAACG-T-T-AT
184 ATTAAATTTTAATTAAATCAATGTGCATTAATAT-ATAGATAATAAAATTATAAAACGTTATAAT
**
13433555 -AAAT-AA-AAA-CA-AATAA-A-ATC-AACGTGCATTAATATTTTATTGAA-TGAAATCATATT
248 GAAATAAAGAAATCAGAATAATATATCAAACGTGCATTAATATTTTA-CCAACTGAAATCATATT
* **
13433611 TAATGAAAAATAAATGTATCAATCAAATATAAATTAATAAAAATATTTTATGTCATTAATTTAAT
312 TAATGAAAAATAAATCTATCAATCAAATATAAATTAAT-AAAATATTTTATCCCATTAATTTAAT
* *
13433676 TATGAAAAATTAATTTGATATATTTGCTTTATATATTTACTCATGAAATGCATCATGAAATACAT
376 TACGAAAAATTAATTTAATATATTTGCTTTATATA--T--T--T---A--CA-CATGAAATACAT
* * * *
13433741 TAATTACTCAAATGGATACAATATCTAATCAAATATAAATGTATTAAATAATTGATTAGAGAATT
429 CAATTACTCAAATGGATACAATATCTAATCAAATATAAATATATCAAATAATTGATTAGAGAAGT
* *
13433806 AACTATTTTATAATTGTAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATT
494 AACTATTTTATAATTATAATTGTAATATTTATTAAATTATTAATTATATATTGATTAATTTAATT
**
13433871 TATCAAATTAA-AATTTTTTTAAAAATTTAATACTTTTAATATGAATTGAATTGAAAGTGATTTA
559 TATCAAATTAAGAA-AATTTTAAAAATTTAATACTTTTAATATGAATTGAATTGAAAGTGATTTA
* *
13433935 AAGTTAATAATAAAAATAAAAATATA
623 AAATTAATAATAAAAACAAAAATATA
*
13433961 ATTAATT
1 GTTAATT
13433968 TAATTTTTGA
Statistics
Matches: 586, Mismatches: 52, Indels: 57
0.84 0.07 0.08
Matches are distributed among these distances:
647 66 0.11
648 58 0.10
650 1 0.00
652 2 0.00
653 4 0.01
654 1 0.00
657 1 0.00
658 2 0.00
659 53 0.09
660 220 0.38
661 1 0.00
662 2 0.00
663 2 0.00
664 4 0.01
665 3 0.01
666 4 0.01
667 1 0.00
668 1 0.00
669 17 0.03
670 142 0.24
671 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (648 bp):
GTTAATTAATAAGATAACTTTAAATTATAAAAGTTAATATTGAAATAATAAAAATTGTAAATGAA
CAATGATAAATTGATTGATATTGAAATATTTTATTATGCCATTAACATTTACAAATCCCTTAATT
TAGAACAATAAAACAAATTAAATTTGTTATATTTAATAATGACAATAAAACAAATTAAATTTTAA
TTAAATCAATGTGCATTAATATATAGATAATAAAATTATAAAACGTTATAATGAAATAAAGAAAT
CAGAATAATATATCAAACGTGCATTAATATTTTACCAACTGAAATCATATTTAATGAAAAATAAA
TCTATCAATCAAATATAAATTAATAAAATATTTTATCCCATTAATTTAATTACGAAAAATTAATT
TAATATATTTGCTTTATATATTTACACATGAAATACATCAATTACTCAAATGGATACAATATCTA
ATCAAATATAAATATATCAAATAATTGATTAGAGAAGTAACTATTTTATAATTATAATTGTAATA
TTTATTAAATTATTAATTATATATTGATTAATTTAATTTATCAAATTAAGAAAATTTTAAAAATT
TAATACTTTTAATATGAATTGAATTGAAAGTGATTTAAAATTAATAATAAAAACAAAAATATA
Found at i:13435388 original size:2 final size:2
Alignment explanation
Indices: 13435381--13435417 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
13435371 TTTGGAGAAG
* *
13435381 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13435418 CGGCTCATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13443586 original size:24 final size:22
Alignment explanation
Indices: 13443547--13443632 Score: 75
Period size: 23 Copynumber: 3.6 Consensus size: 22
13443537 TTATTAAGAT
13443547 ATATTAAAATTATATTTTTTTA
1 ATATTAAAATTATATTTTTTTA
*
13443569 ATATCTAAAATT-TTTATTTTTTA
1 ATAT-TAAAATTATAT-TTTTTTA
* *
13443592 TATTTTAAAATTATATTTATTTTTTC
1 -ATATTAAAATTATA--T-TTTTTTA
13443618 ATATTAAAAATTATA
1 ATATT-AAAATTATA
13443633 AAATTTTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
22 6 0.12
23 21 0.40
24 4 0.08
25 4 0.08
26 17 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTAAAATTATATTTTTTTA
Found at i:13443610 original size:26 final size:25
Alignment explanation
Indices: 13443545--13443632 Score: 87
Period size: 26 Copynumber: 3.6 Consensus size: 25
13443535 ATTTATTAAG
*
13443545 ATATATTAAAATTATA-TT-TTTTTA
1 ATAT-TTAAAATTATATTTATTTTTT
*
13443569 ATATCTAAAA-T-T-TTTATTTTTT
1 ATATTTAAAATTATATTTATTTTTT
13443591 ATATTTTAAAATTATATTTATTTTTT
1 ATA-TTTAAAATTATATTTATTTTTT
*
13443617 CATATTAAAAATTATA
1 -ATATTTAAAATTATA
13443633 AAATTTTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.06
22 9 0.17
23 11 0.21
24 5 0.09
25 1 0.02
26 21 0.40
27 3 0.06
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTTAAAATTATATTTATTTTTT
Found at i:13443638 original size:25 final size:24
Alignment explanation
Indices: 13443584--13443663 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
13443574 TAAAATTTTT
* **
13443584 ATTTTTTATATTTTAAAATTATATTT
1 ATTTTTTATA-TTAAAAATTATA-AA
13443610 ATTTTTTCATATTAAAAATTATAAA
1 ATTTTTT-ATATTAAAAATTATAAA
*
13443635 ATTTTAATTTTA-TAAAAATTATAAA
1 ATTTT--TTATATTAAAAATTATAAA
13443660 ATTT
1 ATTT
13443664 AATATTAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 22 0.47
26 20 0.43
27 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTTTATATTAAAAATTATAAA
Found at i:13443664 original size:24 final size:25
Alignment explanation
Indices: 13443622--13443679 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
13443612 TTTTTCATAT
*
13443622 TAAAAATTATAAAATTTTAATTTTA
1 TAAAAATTATAAAATTTTAATATTA
13443647 TAAAAATTATAAAA-TTTAATATTA
1 TAAAAATTATAAAATTTTAATATTA
13443671 -AATAAATTA
1 TAA-AAATTA
13443680 AAATTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 2 0.06
24 15 0.48
25 14 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAAAATTATAAAATTTTAATATTA
Found at i:13445344 original size:50 final size:50
Alignment explanation
Indices: 13445269--13445374 Score: 212
Period size: 50 Copynumber: 2.1 Consensus size: 50
13445259 GATTTCTCAA
13445269 TTGCTGACGATTTTGTTGATGAGTTAGAAGATAAAGAGAATGCTTTAATT
1 TTGCTGACGATTTTGTTGATGAGTTAGAAGATAAAGAGAATGCTTTAATT
13445319 TTGCTGACGATTTTGTTGATGAGTTAGAAGATAAAGAGAATGCTTTAATT
1 TTGCTGACGATTTTGTTGATGAGTTAGAAGATAAAGAGAATGCTTTAATT
13445369 TTGCTG
1 TTGCTG
13445375 TCATCTTTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (50 bp):
TTGCTGACGATTTTGTTGATGAGTTAGAAGATAAAGAGAATGCTTTAATT
Found at i:13447828 original size:22 final size:21
Alignment explanation
Indices: 13447798--13447882 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
13447788 CAAATAAATC
13447798 ATATCATAATAAAATCATGCAA
1 ATATCATAAT-AAATCATGCAA
* *
13447820 ATATTATAATACATCATGC-A
1 ATATCATAATAAATCATGCAA
*
13447840 ATAT-A-AA-AGCATCATGC-A
1 ATATCATAATA-AATCATGCAA
* *
13447858 TTAATCATAATTAATCATGCAA
1 AT-ATCATAATAAATCATGCAA
13447880 ATA
1 ATA
13447883 ATATTATGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
17 1 0.02
18 12 0.24
19 3 0.06
20 6 0.12
21 18 0.35
22 11 0.22
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (21 bp):
ATATCATAATAAATCATGCAA
Found at i:13448071 original size:19 final size:19
Alignment explanation
Indices: 13448049--13448094 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
13448039 AAAAAGAAAG
13448049 AAAA-AAAAACAAAAAATAT
1 AAAACAAAAA-AAAAAATAT
*
13448068 AAAACAAAAAATAAAATAT
1 AAAACAAAAAAAAAAATAT
13448087 AAAACAAA
1 AAAACAAA
13448095 GATAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAACAAAAAAAAAAATAT
Found at i:13448101 original size:18 final size:19
Alignment explanation
Indices: 13448061--13448118 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
13448051 AAAAAAACAA
13448061 AAAATATAAAACAAAAAAT
1 AAAATATAAAACAAAAAAT
*
13448080 AAAATATAAAAC-AAAGAT
1 AAAATATAAAACAAAAAAT
*
13448098 AAAATA-AAAATAATAAAAT
1 AAAATATAAAACAA-AAAAT
13448117 AA
1 AA
13448119 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.12
18 12 0.35
19 18 0.53
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAATATAAAACAAAAAAT
Found at i:13448125 original size:24 final size:22
Alignment explanation
Indices: 13448050--13448131 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 22
13448040 AAAAGAAAGA
*
13448050 AAAAAAAACAAAAAATATAAAAC
1 AAAAAAAA-TAAAAATATAAAAC
13448073 --AAAAAAT-AAAATATAAAAC
1 AAAAAAAATAAAAATATAAAAC
*
13448092 AAAGATAAAATAAAAATAATAAAAT
1 AAA-A-AAAATAAAAAT-ATAAAAC
13448117 AATAAAAAATAAAAA
1 AA-AAAAAATAAAAA
13448132 GAAAAACCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.24
21 7 0.14
22 1 0.02
23 5 0.10
24 15 0.30
25 9 0.18
26 1 0.02
ACGTcount: A:0.80, C:0.04, G:0.01, T:0.15
Consensus pattern (22 bp):
AAAAAAAATAAAAATATAAAAC
Found at i:13448131 original size:7 final size:7
Alignment explanation
Indices: 13448038--13448131 Score: 66
Period size: 7 Copynumber: 12.7 Consensus size: 7
13448028 TTAATAATTA
*
13448038 AAAAAAG
1 AAAAAAT
13448045 AAAGAAA-
1 AAA-AAAT
*
13448052 AAAAAAC
1 AAAAAAT
13448059 AAAAAAT
1 AAAAAAT
* *
13448066 ATAAAAC
1 AAAAAAT
13448073 AAAAAAT
1 AAAAAAT
*
13448080 AAAATAT
1 AAAAAAT
13448087 AAAACAA-
1 AAAA-AAT
13448094 AGATAAAAT
1 A-A-AAAAT
13448103 AAAAATAAT
1 -AAAA-AAT
13448112 AAAATAAT
1 AAAA-AAT
13448120 AAAAAAT
1 AAAAAAT
13448127 AAAAA
1 AAAAA
13448132 GAAAAACCTA
Statistics
Matches: 72, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
6 3 0.04
7 41 0.57
8 21 0.29
9 6 0.08
10 1 0.01
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:13449443 original size:43 final size:43
Alignment explanation
Indices: 13449360--13449610 Score: 192
Period size: 43 Copynumber: 5.8 Consensus size: 43
13449350 AAGGCTCATC
* *
13449360 CTCAATAGAGGTTTTGAAACTTTTTTTGAAAATAAAATGCTCCCT
1 CTCACTAGAGGATTTGAAAC--TTTTTGAAAATAAAATGCTCCCT
* * *
13449405 TTTACTAGAGGATTTGAAACTTTTTGAAAACAAAATGCTCCCT
1 CTCACTAGAGGATTTGAAACTTTTTGAAAATAAAATGCTCCCT
* * * *
13449448 CTCACCAGAGGCTTTGAAACTTTTTGAAATTAAAATGCTTTCC-
1 CTCACTAGAGGATTTGAAACTTTTTGAAAATAAAATGC-TCCCT
* * * * * *
13449491 CTAACTA-AGG-TCTTTAAAATTTTTAGAAAATAAAATGTTCTCA
1 CTCACTAGAGGAT-TTGAAACTTTTT-GAAAATAAAATGCTCCCT
* * *
13449534 CTCA-TAAGAAGCTTTGAAAC-TTTTGAAAACTAAAATGCTATCCT
1 CTCACT-AGAGGATTTGAAACTTTTTGAAAA-TAAAATGCT-CCCT
* *
13449578 -TCATTAGA-GACTTTGAAACTTTTAGAAAATAAA
1 CTCACTAGAGGA-TTTGAAACTTTTTGAAAATAAA
13449611 TTTAAGATAC
Statistics
Matches: 164, Mismatches: 30, Indels: 26
0.75 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 22 0.13
43 104 0.63
44 20 0.12
45 17 0.10
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (43 bp):
CTCACTAGAGGATTTGAAACTTTTTGAAAATAAAATGCTCCCT
Found at i:13449601 original size:86 final size:86
Alignment explanation
Indices: 13449372--13449610 Score: 243
Period size: 86 Copynumber: 2.8 Consensus size: 86
13449362 CAATAGAGGT
* * * *
13449372 TTTGAAACTTTTTTTGAAAATAAAATGCTCCCTTTTACTAGAGGA-TTTGAAACTTTTTGAAAAC
1 TTTGAAAC--TTTTTGAAAATAAAATGCTTCC-TTAACTAGAGGACTTTGAAACTTTTAGAAAAT
* * *
13449436 AAAATGCTCCCTCTCACCAGAGGC
63 AAAATGCTCCCACTCACAAGAAGC
* * * * *
13449460 TTTGAAACTTTTTGAAATTAAAATGCTTTCCCTAACTA-AGGTCTTTAAAATTTTTAGAAAATAA
1 TTTGAAACTTTTTGAAAATAAAATGC-TTCCTTAACTAGAGGACTTTGAAACTTTTAGAAAATAA
* * *
13449524 AATGTTCTCACTCATAAGAAGC
65 AATGCTCCCACTCACAAGAAGC
* *
13449546 TTTGAAAC-TTTTGAAAACTAAAATGCTATCCTTCATTAGA-GACTTTGAAACTTTTAGAAAATA
1 TTTGAAACTTTTTGAAAA-TAAAATGCT-TCCTTAACTAGAGGACTTTGAAACTTTTAGAAAATA
13449609 AA
64 AA
13449611 TTTAAGATAC
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
85 12 0.10
86 100 0.81
87 4 0.03
88 8 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (86 bp):
TTTGAAACTTTTTGAAAATAAAATGCTTCCTTAACTAGAGGACTTTGAAACTTTTAGAAAATAAA
ATGCTCCCACTCACAAGAAGC
Found at i:13462326 original size:1 final size:1
Alignment explanation
Indices: 13462320--13462360 Score: 82
Period size: 1 Copynumber: 41.0 Consensus size: 1
13462310 ATGATCTTTG
13462320 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13462361 CTGAGCAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13468203 original size:24 final size:23
Alignment explanation
Indices: 13468167--13468229 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 23
13468157 AACCTTTGAA
* *
13468167 TTTTGGATGTGAATCTAAAAAAAT
1 TTTTGAATATGAATCT-AAAAAAT
13468191 TTTTGAATATGAATTTCTAAAAAAT
1 TTTTGAATATGAA--TCTAAAAAAT
*
13468216 TTTTGAACATGAAT
1 TTTTGAATATGAAT
13468230 TTCTAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 11 0.32
25 19 0.56
26 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (23 bp):
TTTTGAATATGAATCTAAAAAAT
Found at i:13468219 original size:26 final size:25
Alignment explanation
Indices: 13468184--13468236 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
13468174 TGTGAATCTA
*
13468184 AAAAAATTTTTGAATATGAATTTCT
1 AAAAAATTTTTGAACATGAATTTCT
13468209 AAAAAATTTTTGAACATGAATTTCT
1 AAAAAATTTTTGAACATGAATTTCT
13468234 AAA
1 AAA
13468237 TTTTTTCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (25 bp):
AAAAAATTTTTGAACATGAATTTCT
Found at i:13468252 original size:24 final size:24
Alignment explanation
Indices: 13468185--13468253 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
13468175 GTGAATCTAA
13468185 AAAAATTTTTGAATATGAATTTCT
1 AAAAATTTTTGAATATGAATTTCT
*
13468209 AAAAAATTTTTGAACATGAATTTCT
1 -AAAAATTTTTGAATATGAATTTCT
* *
13468234 -AAATTTTTTCGAATGTGAAT
1 AAAAATTTTT-GAATATGAAT
13468254 CTTTGAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
23 8 0.21
24 8 0.21
25 23 0.59
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (24 bp):
AAAAATTTTTGAATATGAATTTCT
Found at i:13468357 original size:46 final size:47
Alignment explanation
Indices: 13468226--13468366 Score: 141
Period size: 45 Copynumber: 3.1 Consensus size: 47
13468216 TTTTGAACAT
* * *
13468226 GAAT-TTCT-AAATTTTTTCGAATGTGAATCTTTGAAA-TTTGGGTGG
1 GAATCTTCTAAAATTTTTT-GAATGTGAATCTTTGAAATTTTAGATGC
* * **
13468271 GAAT-TTCTTAAATTTTTTGAATGTAAAT-TTTTTAATTTTAGATGC
1 GAATCTTCTAAAATTTTTTGAATGTGAATCTTTGAAATTTTAGATGC
* * *
13468316 GAATCTT-TAAAATTTTTTGAATATGAATCTATGAAATTTTAGATGT
1 GAATCTTCTAAAATTTTTTGAATGTGAATCTTTGAAATTTTAGATGC
13468362 GAATC
1 GAATC
13468367 CCTAAGTTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
44 5 0.06
45 45 0.57
46 29 0.37
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.47
Consensus pattern (47 bp):
GAATCTTCTAAAATTTTTTGAATGTGAATCTTTGAAATTTTAGATGC
Found at i:13468364 original size:22 final size:22
Alignment explanation
Indices: 13468304--13468366 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 22
13468294 TAAATTTTTT
* *
13468304 AATTTTAGATGCGAATCTTTAA
1 AATTTTAGATGTGAATCTATAA
* * *
13468326 AATTTTTTGAATATGAATCTATGA
1 AA-TTTTAG-ATGTGAATCTATAA
13468350 AATTTTAGATGTGAATC
1 AATTTTAGATGTGAATC
13468367 CCTAAGTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
22 10 0.31
23 10 0.31
24 12 0.38
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (22 bp):
AATTTTAGATGTGAATCTATAA
Found at i:13468715 original size:18 final size:17
Alignment explanation
Indices: 13468694--13468742 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
13468684 CGAATCATTG
13468694 ATTTCTTATGAATCTAAA
1 ATTT-TTATGAATCTAAA
* * *
13468712 ATTTGTGTGAATCTGAA
1 ATTTTTATGAATCTAAA
*
13468729 AGTTTTATGAATCT
1 ATTTTTATGAATCT
13468743 TCCAACTCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (17 bp):
ATTTTTATGAATCTAAA
Found at i:13468924 original size:17 final size:17
Alignment explanation
Indices: 13468902--13468984 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 17
13468892 AAAAATCTTA
13468902 CAAATTTGAAACCTTTG
1 CAAATTTGAAACCTTTG
*
13468919 CAAATTT-AGAACCTATG
1 CAAATTTGA-AACCTTTG
13468936 CCAAATTTGAAATCC-TTG
1 -CAAATTTGAAA-CCTTTG
* * *
13468954 TAAATATGAAACTTTTG
1 CAAATTTGAAACCTTTG
** *
13468971 TGAATCTGAAACCT
1 CAAATTTGAAACCT
13468985 CTAAGAATCT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.04
17 37 0.70
18 11 0.21
19 3 0.06
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (17 bp):
CAAATTTGAAACCTTTG
Found at i:13470040 original size:13 final size:14
Alignment explanation
Indices: 13470024--13470053 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13470014 ATCTTTTGCT
13470024 TTTTTGGTTA-GAA
1 TTTTTGGTTAGGAA
13470037 TTTTTGGTTAGGAA
1 TTTTTGGTTAGGAA
13470051 TTT
1 TTT
13470054 GGATTCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (14 bp):
TTTTTGGTTAGGAA
Found at i:13470720 original size:21 final size:21
Alignment explanation
Indices: 13470696--13470744 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
13470686 ATGAGTTTAA
** *
13470696 TATATTAATTGTATGATATTT
1 TATATTAATTACATGATAATT
*
13470717 TATATTAGTTACATGATAATT
1 TATATTAATTACATGATAATT
13470738 TATATTA
1 TATATTA
13470745 TTGCTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (21 bp):
TATATTAATTACATGATAATT
Found at i:13470767 original size:19 final size:20
Alignment explanation
Indices: 13470740--13470811 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
13470730 TGATAATTTA
*
13470740 TATTATTGCTTGATTA-TAT
1 TATTATTGCATGATTATTAT
* *
13470759 TATTTTTGCATGGTTATTAT
1 TATTATTGCATGATTATTAT
13470779 TATTA---CATGATATATTATAT
1 TATTATTGCATGAT-TA-T-TAT
13470799 TATTATTGCATGA
1 TATTATTGCATGA
13470812 AATTATTTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 5 0.12
18 2 0.05
19 14 0.34
20 15 0.37
23 5 0.12
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (20 bp):
TATTATTGCATGATTATTAT
Found at i:13470787 original size:17 final size:18
Alignment explanation
Indices: 13470719--13470800 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 18
13470709 TGATATTTTA
*
13470719 TATTAGTTACATGATAATTT
1 TATTA-TTACATGAT-ATAT
* *
13470739 ATATTATTGCTTGATTATAT
1 -TATTATTACATGA-TATAT
* * *
13470759 TATTTTTGCATGGT-TAT
1 TATTATTACATGATATAT
13470776 TATTATTACATGATATAT
1 TATTATTACATGATATAT
13470794 TA-TATTA
1 TATTATTA
13470801 TTATTGCATG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
17 19 0.38
18 6 0.12
19 10 0.20
20 9 0.18
21 6 0.12
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.54
Consensus pattern (18 bp):
TATTATTACATGATATAT
Found at i:13470896 original size:14 final size:13
Alignment explanation
Indices: 13470870--13470895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13470860 TTCAAATTAA
13470870 AAAAAAATGTTTT
1 AAAAAAATGTTTT
13470883 AAAAAAATGTTTT
1 AAAAAAATGTTTT
13470896 TTTATTTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAAAAATGTTTT
Found at i:13471105 original size:17 final size:18
Alignment explanation
Indices: 13471068--13471105 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13471058 TTTTGAGAAT
**
13471068 AAATTGTTTTTACAAGTA
1 AAATTGTTTTTACAACAA
13471086 AAATT-TTTTTACAACAA
1 AAATTGTTTTTACAACAA
13471103 AAA
1 AAA
13471106 GATTCAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (18 bp):
AAATTGTTTTTACAACAA
Done.