Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 69 of 129
Found at i:13120373 original size:20 final size:20
Alignment explanation
Indices: 13120336--13120373 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13120326 AAGCTTTTTG
*
13120336 TTTTTTAATTCTCTTTTTAA
1 TTTTTTAATTCTCCTTTTAA
*
13120356 TTTTTTAATTTTCCTTTT
1 TTTTTTAATTCTCCTTTT
13120374 TTTCCTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTTAATTCTCCTTTTAA
Found at i:13120862 original size:31 final size:31
Alignment explanation
Indices: 13120820--13120899 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
13120810 ACTATGAGCA
*
13120820 TTTT-TTTATTTTTTCTTTTTTTTTTC-AGTT
1 TTTTATTTATTTTTT-TTTTATTTTTCAAGTT
*
13120850 TTTTATTTA-TTTTTTTTTATTTTTCAATTT
1 TTTTATTTATTTTTTTTTTATTTTTCAAGTT
*
13120880 TTTTGATTTATTTTGTTTTT
1 TTTT-ATTTATTTTTTTTTT
13120900 GGCACTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 10 0.23
30 16 0.37
31 9 0.21
32 8 0.19
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.81
Consensus pattern (31 bp):
TTTTATTTATTTTTTTTTTATTTTTCAAGTT
Found at i:13128062 original size:64 final size:66
Alignment explanation
Indices: 13127948--13128076 Score: 167
Period size: 64 Copynumber: 2.0 Consensus size: 66
13127938 TCAAAAACCC
* *
13127948 AAATCCTTTCCTTACTGTTGGAACCAAGAAATTTTTTTTTTATTTCAAAAA-CCTAAATCCTTTC
1 AAATCCTTTCCATACTGTTGGAACCAAGAAATTTTTTTTTGATTTCAAAAATCC-AAATCCTTTC
13128012 CT
65 CT
* * *
13128014 AAATCTTTTCCATATTGTTTGAACC-A-AAATTTTTTGTTTGA-TTCAAAAATCCAAATCCTTTC
1 AAATCCTTTCCATACTGTTGGAACCAAGAAATTTTTT-TTTGATTTCAAAAATCCAAATCCTTTC
13128076 C
65 C
13128077 CTATTCTTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
64 28 0.50
65 7 0.12
66 21 0.38
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (66 bp):
AAATCCTTTCCATACTGTTGGAACCAAGAAATTTTTTTTTGATTTCAAAAATCCAAATCCTTTCC
T
Found at i:13135400 original size:3 final size:3
Alignment explanation
Indices: 13135392--13135421 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13135382 CATTTTTTAA
13135392 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13135422 TAATATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13135491 original size:13 final size:14
Alignment explanation
Indices: 13135451--13135493 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
13135441 TATTTTTTTC
*
13135451 TCTTTTTTCTTTCCT
1 TCTTTCTTC-TTCCT
*
13135466 TCTTTCTTTTTCCT
1 TCTTTCTTCTTCCT
13135480 TC-TTCTTCTTCCT
1 TCTTTCTTCTTCCT
13135493 T
1 T
13135494 ATCCAGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.44
14 7 0.28
15 7 0.28
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TCTTTCTTCTTCCT
Found at i:13135751 original size:19 final size:20
Alignment explanation
Indices: 13135719--13135763 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
13135709 AGACCCATAA
*
13135719 AAAAAAGAGTTTTCTAGAAT
1 AAAAAAGAGTTTTCCAGAAT
*
13135739 AAAAAAGTG-TTTCCAGAAT
1 AAAAAAGAGTTTTCCAGAAT
13135758 AAAAAA
1 AAAAAA
13135764 AATTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (20 bp):
AAAAAAGAGTTTTCCAGAAT
Found at i:13135764 original size:20 final size:21
Alignment explanation
Indices: 13135718--13135764 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
13135708 GAGACCCATA
*
13135718 AAAAAAAGAGTTTTCTAGAAT
1 AAAAAAAGAGTTTTCCAGAAT
*
13135739 -AAAAAAGTG-TTTCCAGAAT
1 AAAAAAAGAGTTTTCCAGAAT
13135758 AAAAAAA
1 AAAAAAA
13135765 ATTTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.23
Consensus pattern (21 bp):
AAAAAAAGAGTTTTCCAGAAT
Found at i:13135770 original size:19 final size:19
Alignment explanation
Indices: 13135718--13135770 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
13135708 GAGACCCATA
*
13135718 AAAAAAAGAGTTTTCTAGAAT
1 AAAAAAA-A-TTTTCCAGAAT
*
13135739 -AAAAAAGTGTTTCCAGAAT
1 AAAAAAAAT-TTTCCAGAAT
13135758 AAAAAAAATTTTC
1 AAAAAAAATTTTC
13135771 TTTTTGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 13 0.48
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (19 bp):
AAAAAAAATTTTCCAGAAT
Found at i:13137231 original size:19 final size:20
Alignment explanation
Indices: 13137194--13137231 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
13137184 ATATTTGAAT
*
13137194 ATAAAAATAATAAATAAAAA
1 ATAAAAATAATAAAGAAAAA
*
13137214 ATAAAAA-AATCAAGAAAA
1 ATAAAAATAATAAAGAAAA
13137232 TTAATTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (20 bp):
ATAAAAATAATAAAGAAAAA
Found at i:13144143 original size:20 final size:21
Alignment explanation
Indices: 13144092--13144146 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
13144082 CTGTTGTCTT
13144092 TAAAACTTTTAAAAAGTAATG
1 TAAAACTTTTAAAAAGTAATG
13144113 TAAAACTTTTAAAAAGTAATG
1 TAAAACTTTTAAAAAGTAATG
*
13144134 TGAAAC-TTTAAAA
1 TAAAACTTTTAAAA
13144147 CTCTAATTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (21 bp):
TAAAACTTTTAAAAAGTAATG
Found at i:13148703 original size:51 final size:50
Alignment explanation
Indices: 13148588--13149062 Score: 332
Period size: 49 Copynumber: 9.5 Consensus size: 50
13148578 ACAGATGAAA
* * * * *
13148588 ATTTTTTAAGTTGTTGAGCTTTTGCTGAG-AGAAGCTCTTTCCAAAAT-GAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAG-AGC-CTTTTCAAGATAGAG
*
13148638 A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCCTTTTCATGATATGAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAG-CCTTTTCAAGATA-GAG
* * * ** *
13148689 A-TTTTAAAGTTGTTGAACCTCTACTGAGAGGAGTTTTTTC-ATAT-GA-
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTTCAAGATAGAG
* * * *
13148735 AATTTTCAAGTTGTTGAGCTTCTGCTAAG-AGAAG-CTTTTCTAAGATA-AG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAG-AGCCTTTTC-AAGATAGAG
* * * **
13148784 AATTTTTAACGTTTTTGAGCCTCTGCTGAGAGGAGTTTTTTCAAGATGAGAG
1 -ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTTCAAGAT-AGAG
* ** * *
13148836 ATTTTTTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTTCAAGATCA-A-
1 A---TTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTTCAAGAT-AGAG
* * * *
13148888 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGGGAG
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTTCAAGAT-AGAG
* ** *
13148939 ATTTTTTTAAAGTTGTTAAGCCTCTATTGAGATGAG-CTTTTCCAAGATGAGAG
1 A--TTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTT-CAAGAT-AGAG
* * * * *
13148992 ATTTTTAAAGTTATTGAGCCTCTGTTGAGATGAGCTTTTTC-AGATA-AA
1 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTTCAAGATAGAG
*
13149040 AATTTTAAAGTTGTTGAGCCTCT
1 ATTTTTAAAGTTGTTGAGCCTCT
13149063 ACTAAGAGGA
Statistics
Matches: 343, Mismatches: 58, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
46 7 0.02
47 26 0.08
48 26 0.08
49 77 0.22
50 44 0.13
51 73 0.21
52 11 0.03
53 40 0.12
54 39 0.11
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (50 bp):
ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTTCAAGATAGAG
Found at i:13149003 original size:153 final size:147
Alignment explanation
Indices: 13148579--13149079 Score: 501
Period size: 153 Copynumber: 3.3 Consensus size: 147
13148569 ATTTGAAAAA
* * * * *
13148579 CAGATGAAAATTTTTTAAGTTGTTGAGCTTTTGCTGAGAGAAGCTCTTTCCAAAATGAGA-TTTT
1 CAGAT-AAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCT-TTTTCAAAATGAGATTTTT
*
13148643 AAAGTTGTTGAGCCTCTGCTGAGAAGAGCCCTTTTCATGAT-ATGAGA-TTTTAAAGTTGTTGAA
64 AAAGTTGTTGAGCCTCTGCTGAGAAGAG--CTTTTCAAGATGA-GAGATTTTTAAAGTTGTT-AA
* * *
13148706 -CCTCTACTGAGAGGAGTTTTTT
125 GCCTCTATTGAGATGAGCTTTTT
* * * * * *
13148728 CATATGAAA-TTTTCAAGTTGTTGAGCTTCTGCTAAGAGAAGC-TTTTCTAAGATAAGAATTTTT
1 CAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCTTTTTC-AAAATGAG-ATTTTT
* * * *
13148791 AACGTTTTTGAGCCTCTGCTGAGAGGAGTTTTTTCAAGATGAGAGATTTTTTTTAAAGTTGTTAA
64 AAAGTTGTTGAGCCTCTGCTGAGAAGAG-CTTTTCAAGATGAGAGA---TTTTTAAAGTTGTTAA
13148856 GCCTCTATTGAGATGAGCTTTTT
125 GCCTCTATTGAGATGAGCTTTTT
* * *
13148879 CAAGATCAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGGGAGATTTT
1 C-AGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCTTTTTCAAAAT--GAGA--TT
* ** * * *
13148944 TTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATGAGAGATTTTTAAAGTTATTGA
61 TTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTT-CAAGATGAGAGATTTTTAAAGTTGTTAA
*
13149009 GCCTCTGTTGAGATGAGCTTTTT
125 GCCTCTATTGAGATGAGCTTTTT
* * *
13149032 CAGATAAAAATTTTAAAGTTGTTGAGCCTCTACTAAGAGGAGTCTTTT
1 CAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAG-CTTTT
13149080 AAATTTTAAA
Statistics
Matches: 295, Mismatches: 39, Indels: 32
0.81 0.11 0.09
Matches are distributed among these distances:
145 4 0.01
146 6 0.02
147 44 0.15
148 33 0.11
149 4 0.01
150 2 0.01
151 33 0.11
152 43 0.15
153 75 0.25
154 6 0.02
155 6 0.02
156 39 0.13
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (147 bp):
CAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCTTTTTCAAAATGAGATTTTTAA
AGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCAAGATGAGAGATTTTTAAAGTTGTTAAGCCTCT
ATTGAGATGAGCTTTTT
Found at i:13149027 original size:104 final size:104
Alignment explanation
Indices: 13148767--13149033 Score: 403
Period size: 104 Copynumber: 2.6 Consensus size: 104
13148757 TGCTAAGAGA
* * * * *
13148767 AGCTTTTCTAAGATAAGAATTTTTAACGTTTTTGAGCCTCTGCTGAGAGGAGTTTTTTCAAGATG
1 AGCTTTTCCAAGATAAGAATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATG
13148832 AGAGATTTTTTTTAAAGTTGTTAAGCCTCTATTGAGATG
66 AGAGATTTTTTTTAAAGTTGTTAAGCCTCTATTGAGATG
* * *
13148871 AGCTTTTTCAAGATCA-AATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATG
1 AGCTTTTCCAAGATAAGAATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATG
*
13148935 GGAGA-TTTTTTTAAAGTTGTTAAGCCTCTATTGAGATG
66 AGAGATTTTTTTTAAAGTTGTTAAGCCTCTATTGAGATG
* * *
13148973 AGCTTTTCCAAGATGAGAGATTTTTAAAGTTATTGAGCCTCTGTTGAGATGAGCTTTTTCA
1 AGCTTTTCCAAGATAAGA-ATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTCA
13149034 GATAAAAATT
Statistics
Matches: 148, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
102 47 0.32
103 49 0.33
104 52 0.35
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (104 bp):
AGCTTTTCCAAGATAAGAATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATG
AGAGATTTTTTTTAAAGTTGTTAAGCCTCTATTGAGATG
Found at i:13149045 original size:102 final size:103
Alignment explanation
Indices: 13148639--13149063 Score: 385
Period size: 104 Copynumber: 4.2 Consensus size: 103
13148629 CAAAATGAGA
* ** * * * *
13148639 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCCTTTT-CATGATATGAGA-TTTTAAAGTTGT
1 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAG--CTTTTCCAAGATAAGA-ATTTTTAAAGTTAT
* * * *
13148702 TGAACCTCTACTGAGAGGAGTTTTTTC-ATATG--AAA---
63 TGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAAAATTT
* * * ** * * * *
13148737 TTTTCAAGTTGTTGAGCTTCTGCTAAGA-GAAGCTTTTCTAAGATAAGAATTTTTAACGTTTTTG
1 TTTTAAAGTTGTTAAGCCTCTATTGAGATG-AGCTTTTCCAAGATAAGAATTTTTAAAGTTATTG
* * *
13148801 AGCCTCTGCTGAGAGGAGTTTTTTCAAGATGAGAGATTTT
65 AGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA-AAAATTT
* * *
13148841 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTTCAAGATCA-AATTTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATAAGAATTTTTAAAGTTATTGA
* ** *
13148905 GCCTCTGCTGAGAGGAGCTTTTTCAAAATGGGAGATTT
66 GCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAAAATTT
*
13148943 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATGAGAGATTTTTAAAGTTATTG
1 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATAAGA-ATTTTTAAAGTTATTG
* *
13149008 AGCCTCTGTTGAGATGAGCTTTTTC-AGAT-AAAAA---
65 AGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAAAATTT
*
13149042 TTTTAAAGTTGTTGAGCCTCTA
1 TTTTAAAGTTGTTAAGCCTCTA
13149064 CTAAGAGGAG
Statistics
Matches: 273, Mismatches: 41, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
96 6 0.02
97 43 0.16
98 31 0.11
99 21 0.08
101 1 0.00
102 49 0.18
103 48 0.18
104 73 0.27
105 1 0.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (103 bp):
TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATAAGAATTTTTAAAGTTATTGA
GCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAAAATTT
Found at i:13149256 original size:3 final size:3
Alignment explanation
Indices: 13149250--13149279 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13149240 CATTTTTTTA
13149250 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13149280 TATTTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13149298 original size:15 final size:15
Alignment explanation
Indices: 13149280--13149322 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
13149270 TATTATTATT
*
13149280 TATTTTTTTGTTTTC
1 TATTTTTTTCTTTTC
13149295 TATTTTTTTCTTTT-
1 TATTTTTTTCTTTTC
13149309 T-TTTCTTTTCTTTT
1 TATTT-TTTTCTTTT
13149323 TTCTTTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 3 0.12
14 10 0.38
15 13 0.50
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (15 bp):
TATTTTTTTCTTTTC
Found at i:13149298 original size:19 final size:18
Alignment explanation
Indices: 13149276--13149324 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
13149266 TTATTATTAT
13149276 TATTTATTTTTTTGTTTTC
1 TATTT-TTTTTTTGTTTTC
*
13149295 TATTTTTTTCTTTTTTTTC
1 TATTTTTTT-TTTGTTTTC
13149314 T-TTTCTTTTTT
1 TATTT-TTTTTT
13149325 CTTTCTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.06, C:0.08, G:0.02, T:0.84
Consensus pattern (18 bp):
TATTTTTTTTTTGTTTTC
Found at i:13149305 original size:10 final size:9
Alignment explanation
Indices: 13149285--13149351 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 9
13149275 TTATTTATTT
13149285 TTTTGTTTTC
1 TTTT-TTTTC
13149295 TATTTTTTTC
1 T-TTTTTTTC
13149305 TTTTTTTTC
1 TTTTTTTTC
13149314 TTTTCTTTT-
1 TTTT-TTTTC
* *
13149323 TTCTTTCTC
1 TTTTTTTTC
13149332 TTTCTTTCCTTC
1 TTT-TTT--TTC
13149344 TTTTTTTT
1 TTTTTTTT
13149352 TCCTTGTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
8 3 0.06
9 19 0.40
10 14 0.30
11 6 0.13
12 5 0.11
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:13149317 original size:14 final size:14
Alignment explanation
Indices: 13149282--13149364 Score: 53
Period size: 15 Copynumber: 5.7 Consensus size: 14
13149272 TTATTATTTA
*
13149282 TTTTTTTGTTTTCT
1 TTTTTTTCTTTTCT
13149296 ATTTTTTTCTTTT-T
1 -TTTTTTTCTTTTCT
13149310 TTTCTTTTCTTTTTTCT
1 TTT-TTTTC--TTTTCT
* *
13149327 TTCTCTTTCTTTCCT
1 TT-TTTTTCTTTTCT
* *
13149342 TCTTTTT-TTTTCC
1 TTTTTTTCTTTTCT
*
13149355 TTGTTTTCTT
1 TTTTTTTCTT
13149365 CCTTATCCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
13 12 0.23
14 12 0.23
15 17 0.32
16 4 0.08
17 7 0.13
18 1 0.02
ACGTcount: A:0.01, C:0.17, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTTTCTTTTCT
Found at i:13150631 original size:18 final size:19
Alignment explanation
Indices: 13150599--13150634 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13150589 TAACGATAAA
*
13150599 TAAAAAGTAATTAATATAT
1 TAAAAAATAATTAATATAT
13150618 TAAAAAATAA-TAATATA
1 TAAAAAATAATTAATATA
13150635 AATAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAAAAATAATTAATATAT
Found at i:13150827 original size:11 final size:12
Alignment explanation
Indices: 13150803--13150833 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
13150793 CAAAATTAAA
13150803 AATAAAATAATT
1 AATAAAATAATT
13150815 AATAAAA-AATT
1 AATAAAATAATT
13150826 AATAAAAT
1 AATAAAAT
13150834 TTTTGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAAAATAATT
Found at i:13155974 original size:16 final size:16
Alignment explanation
Indices: 13155950--13155992 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
13155940 AAAACAAAAT
* *
13155950 AAATCAAAAAAATTGAA
1 AAAT-AAAAAAAATAAA
13155967 AAATAAAAAAAATAAA
1 AAATAAAAAAAATAAA
13155983 AAATAAAAAA
1 AAATAAAAAA
13155993 GTGCTCATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (16 bp):
AAATAAAAAAAATAAA
Found at i:13156454 original size:20 final size:20
Alignment explanation
Indices: 13156437--13156481 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13156427 AATAAAAAGA
13156437 AAAAAAGAAAATTAAAAAAT
1 AAAAAAGAAAATTAAAAAAT
* * *
13156457 TAAAAAGAGAATTAAAAAAC
1 AAAAAAGAAAATTAAAAAAT
13156477 AAAAA
1 AAAAA
13156482 GCTTATCGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAAAAGAAAATTAAAAAAT
Found at i:13156578 original size:16 final size:15
Alignment explanation
Indices: 13156559--13156588 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13156549 AAATTCATTT
13156559 AATTAAAAAACAAAAA
1 AATTAAAAAA-AAAAA
13156575 AATTAAAAAAAAAA
1 AATTAAAAAAAAAA
13156589 GTAAATTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
AATTAAAAAAAAAAA
Found at i:13156662 original size:9 final size:9
Alignment explanation
Indices: 13156645--13156677 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
13156635 AAATTTATCT
*
13156645 AAATTAAAA
1 AAATAAAAA
13156654 AAATAAAAA
1 AAATAAAAA
13156663 AAAT-AAAA
1 AAATAAAAA
13156671 AAATAAA
1 AAATAAA
13156678 GTAACATGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAATAAAAA
Found at i:13165118 original size:16 final size:16
Alignment explanation
Indices: 13165068--13165132 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 16
13165058 ATCTAATAAA
13165068 AAAATAAAAGAAGAAAA-
1 AAAA-AAAAGAA-AAAAG
*
13165085 AAAAAGATAAGATGAAAAG
1 AAAAA-A-AAGA-AAAAAG
* *
13165104 AAAAAAAATAAAAAAT
1 AAAAAAAAGAAAAAAG
13165120 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
13165133 TCGAGTTGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
16 17 0.44
17 8 0.21
18 9 0.23
19 5 0.13
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:13165313 original size:12 final size:12
Alignment explanation
Indices: 13165295--13165354 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
13165285 TTGAAAATTT
13165295 TAAAAGAAAAA-
1 TAAAAGAAAAAG
13165306 TGAAAAGAAAAAG
1 T-AAAAGAAAAAG
*
13165319 TAAATAGAAAAAA
1 TAAA-AGAAAAAG
*
13165332 TGATAA-AAAAAG
1 T-AAAAGAAAAAG
13165344 TAAAAGAAAAA
1 TAAAAGAAAAA
13165355 AAGAGGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 4 0.10
12 24 0.60
13 10 0.25
14 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (12 bp):
TAAAAGAAAAAG
Found at i:13165356 original size:26 final size:26
Alignment explanation
Indices: 13165301--13165355 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
13165291 ATTTTAAAAG
13165301 AAAAATGAAAAGAAAAAGTAAATAGA
1 AAAAATGAAAAGAAAAAGTAAATAGA
*
13165327 AAAAATGATAA-AAAAAGTAAA-AGA
1 AAAAATGAAAAGAAAAAGTAAATAGA
13165351 AAAAA
1 AAAAA
13165356 AGAGGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 8 0.29
25 10 0.36
26 10 0.36
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (26 bp):
AAAAATGAAAAGAAAAAGTAAATAGA
Found at i:13165364 original size:25 final size:25
Alignment explanation
Indices: 13165313--13165364 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
13165303 AAATGAAAAG
* *
13165313 AAAAAGTAAATAGAAAAAATGATAA
1 AAAAAGTAAATAGAAAAAAAGAGAA
*
13165338 AAAAAGTAAA-AGAAAAAAAGAGGA
1 AAAAAGTAAATAGAAAAAAAGAGAA
13165362 AAA
1 AAA
13165365 TAACTTGACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (25 bp):
AAAAAGTAAATAGAAAAAAAGAGAA
Found at i:13167771 original size:20 final size:20
Alignment explanation
Indices: 13167748--13167787 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13167738 GAGGAGAAAG
13167748 GAAGAAAAAAAAAAGAAGAA
1 GAAGAAAAAAAAAAGAAGAA
* **
13167768 GAAGAAGAAGGAAAGAAGAA
1 GAAGAAAAAAAAAAGAAGAA
13167788 AAAGGGGAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (20 bp):
GAAGAAAAAAAAAAGAAGAA
Found at i:13167774 original size:23 final size:22
Alignment explanation
Indices: 13167730--13167776 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13167720 AGAAGGAAAT
* * *
13167730 AAAAAAAAGAGGAGAAAGGAAG
1 AAAAAAAAAAGAAGAAAAGAAG
13167752 AAAAAAAAAAGAAGAAGAAGAAG
1 AAAAAAAAAAGAAGAA-AAGAAG
13167775 AA
1 AA
13167777 GGAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAGAAGAAAAGAAG
Found at i:13167797 original size:20 final size:20
Alignment explanation
Indices: 13167759--13167801 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13167749 AAGAAAAAAA
*
13167759 AAAGAAGAAGAAGAAGAAGG
1 AAAGAAGAAAAAGAAGAAGG
**
13167779 AAAGAAGAAAAAGGGGAAGG
1 AAAGAAGAAAAAGAAGAAGG
13167799 AAA
1 AAA
13167802 AGCTATCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAAAAGAAGAAGG
Found at i:13171769 original size:20 final size:18
Alignment explanation
Indices: 13171738--13171807 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 18
13171728 ACTATGAGCA
*
13171738 TTTTTTTATTTTTTCTTT
1 TTTTTTTATTTTTTATTT
13171756 TTTTTTTCAGTTTTTTATTT
1 TTTTTTT-A-TTTTTTATTT
*
13171776 TTTTTTTATTTTTCAATTT
1 TTTTTTTATTTTT-TATTT
*
13171795 TTTGATTTATTTT
1 TTT-TTTTATTTT
13171808 GTTTTTGGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 12 0.27
19 9 0.20
20 24 0.53
ACGTcount: A:0.11, C:0.04, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTTTATTTTTTATTT
Found at i:13171777 original size:27 final size:26
Alignment explanation
Indices: 13171739--13171807 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
13171729 CTATGAGCAT
* *
13171739 TTTTTTATTTTTTCTTTTTTTTTTCAG
1 TTTTTTATTTTTT-TTTTATTTTTCAA
13171766 TTTTTTATTTTTTTTTTATTTTTCAA
1 TTTTTTATTTTTTTTTTATTTTTCAA
*
13171792 TTTTTTGATTTATTTT
1 TTTTTT-ATTTTTTTT
13171808 GTTTTTGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 17 0.45
27 21 0.55
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.81
Consensus pattern (26 bp):
TTTTTTATTTTTTTTTTATTTTTCAA
Found at i:13171813 original size:26 final size:24
Alignment explanation
Indices: 13171753--13171813 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
13171743 TTATTTTTTC
* *
13171753 TTTTTTTTTTCAGTTTTTTATTTTT
1 TTTTTTTTTTCAATTTTTTA-TTTA
13171778 TTTTTATTTTTCAATTTTTTGATTTA
1 TTTTT-TTTTTCAATTTTTT-ATTTA
*
13171804 TTTTGTTTTT
1 TTTTTTTTTT
13171814 GGCACTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 10 0.32
26 20 0.65
27 1 0.03
ACGTcount: A:0.11, C:0.03, G:0.05, T:0.80
Consensus pattern (24 bp):
TTTTTTTTTTCAATTTTTTATTTA
Found at i:13178940 original size:66 final size:66
Alignment explanation
Indices: 13178848--13178978 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
13178838 TCAAAAACCC
* *
13178848 AAATCCTTTCCTTACTGTTGGAACCAAGAAATTTTTT-TTTTATTTCAAAAA-CCTAAATCCTTT
1 AAATCCTTTCCATACTGTTGGAACCAA-AAATTTTTTGTTTGATTTCAAAAATCC-AAATCCTTT
13178911 CCT
64 CCT
* * *
13178914 AAATCTTTTCCATATTGTTTGAACCAAAAATTTTTTGTTTGATTTCAAAAATCCAAATCCTTTCC
1 AAATCCTTTCCATACTGTTGGAACCAAAAATTTTTTGTTTGATTTCAAAAATCCAAATCCTTTCC
13178979 CTATTCTTGG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 9 0.16
66 47 0.81
67 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (66 bp):
AAATCCTTTCCATACTGTTGGAACCAAAAATTTTTTGTTTGATTTCAAAAATCCAAATCCTTTCC
T
Found at i:13186293 original size:3 final size:3
Alignment explanation
Indices: 13186285--13186314 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13186275 CATTTTTTAA
13186285 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13186315 TAATATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13186350 original size:11 final size:11
Alignment explanation
Indices: 13186321--13186378 Score: 53
Period size: 12 Copynumber: 4.9 Consensus size: 11
13186311 TATTTAATAT
*
13186321 TTTTTTCATTTT
1 TTTTTTC-TTTC
*
13186333 TTATTTTTTTCTC
1 TT-TTTTCTT-TC
13186346 TTTTTTCTTTC
1 TTTTTTCTTTC
13186357 TTTTTTCTTTCC
1 TTTTTTCTTT-C
*
13186369 TTCTTTCTTT
1 TTTTTTCTTT
13186379 TTCCTTCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 12 0.31
12 20 0.51
13 7 0.18
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:13186360 original size:19 final size:20
Alignment explanation
Indices: 13186338--13186381 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
13186328 ATTTTTTATT
*
13186338 TTTTTCTCTTT-TTTCTTTC
1 TTTTTCTCTTTCCTTCTTTC
13186357 TTTTT-TCTTTCCTTCTTTC
1 TTTTTCTCTTTCCTTCTTTC
13186376 TTTTTC
1 TTTTTC
13186382 CTTCTTCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTCTCTTTCCTTCTTTC
Found at i:13186395 original size:13 final size:14
Alignment explanation
Indices: 13186354--13186397 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
13186344 TCTTTTTTCT
*
13186354 TTCTTTTTTCTTTCC
1 TTCTTTCTTC-TTCC
*
13186369 TTCTTTCTTTTTCC
1 TTCTTTCTTCTTCC
13186383 TTC-TTCTTCTTCC
1 TTCTTTCTTCTTCC
13186396 TT
1 TT
13186398 ATCCAGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 11 0.42
14 7 0.27
15 8 0.31
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTTTCTTCTTCC
Found at i:13186655 original size:19 final size:20
Alignment explanation
Indices: 13186623--13186667 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
13186613 AGACCCATAA
*
13186623 AAAAAAGAGTTTTCTAGAAT
1 AAAAAAGAGTTTTCCAGAAT
*
13186643 AAAAAAGTG-TTTCCAGAAT
1 AAAAAAGAGTTTTCCAGAAT
13186662 AAAAAA
1 AAAAAA
13186668 AATTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (20 bp):
AAAAAAGAGTTTTCCAGAAT
Found at i:13186668 original size:20 final size:21
Alignment explanation
Indices: 13186622--13186668 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
13186612 GAGACCCATA
*
13186622 AAAAAAAGAGTTTTCTAGAAT
1 AAAAAAAGAGTTTTCCAGAAT
*
13186643 -AAAAAAGTG-TTTCCAGAAT
1 AAAAAAAGAGTTTTCCAGAAT
13186662 AAAAAAA
1 AAAAAAA
13186669 ATTTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.23
Consensus pattern (21 bp):
AAAAAAAGAGTTTTCCAGAAT
Found at i:13186674 original size:19 final size:19
Alignment explanation
Indices: 13186622--13186674 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
13186612 GAGACCCATA
*
13186622 AAAAAAAGAGTTTTCTAGAAT
1 AAAAAAA-A-TTTTCCAGAAT
*
13186643 -AAAAAAGTGTTTCCAGAAT
1 AAAAAAAAT-TTTCCAGAAT
13186662 AAAAAAAATTTTC
1 AAAAAAAATTTTC
13186675 TTTTTGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 13 0.48
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (19 bp):
AAAAAAAATTTTCCAGAAT
Found at i:13188125 original size:19 final size:20
Alignment explanation
Indices: 13188088--13188125 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
13188078 ATATTTGAAT
*
13188088 ATAAAAATAATAAATAAAAA
1 ATAAAAATAATAAAGAAAAA
*
13188108 ATAAAAA-AATCAAGAAAA
1 ATAAAAATAATAAAGAAAA
13188126 TTAATTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (20 bp):
ATAAAAATAATAAAGAAAAA
Found at i:13188576 original size:19 final size:21
Alignment explanation
Indices: 13188552--13188595 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
13188542 TATTTTGAAC
*
13188552 AAAAAAAA-AAGT-AAAAA-A
1 AAAAAAAACAAATCAAAAACA
13188570 AAAAAAAACAAATCAAAAACA
1 AAAAAAAACAAATCAAAAACA
13188591 AAAAA
1 AAAAA
13188596 GTTCACACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 5 0.23
21 6 0.27
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (21 bp):
AAAAAAAACAAATCAAAAACA
Found at i:13199300 original size:22 final size:22
Alignment explanation
Indices: 13199270--13199312 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13199260 AAAAAAAGAA
*
13199270 AAATGAAGAATAAAATGGTTAG
1 AAATGAAGAACAAAATGGTTAG
* *
13199292 AAATTAAGAACAAATTGGTTA
1 AAATGAAGAACAAAATGGTTA
13199313 TATAGCAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (22 bp):
AAATGAAGAACAAAATGGTTAG
Found at i:13199640 original size:51 final size:49
Alignment explanation
Indices: 13199587--13200077 Score: 364
Period size: 49 Copynumber: 9.8 Consensus size: 49
13199577 AGATGAAAAT
* * * *
13199587 TTTTTTAAGTTGTTGAGCTTTTGCTGAGAGAAGCTCTTTCCAAAATGAGA
1 TTTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAGCT-TTTTCAAAATGAGA
* *
13199637 -TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGATATGAGA
1 TTTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAA-A-ATGAGA
* * * *
13199688 -TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGTTTTTTC-ATATGA-A
1 TTTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGAGA
* * * * * * *
13199734 ATTTTCAAGTTGTTGAGCTTCTGCTAAGAGAAGC-TTTTCTAAGATAAGA
1 TTTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC-AAAATGAGA
* * * *
13199783 ATTTTTAACGTTTTTGAGCCTCTGCTGAGAGGAGTTTTTTCAAGATGAGAGA
1 TTTTTTAA-GTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAAT--GAGA
* ** * * * *
13199835 TTTTTTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTTCAAGATCAAA
1 --TTTTTT-AAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGAGA
*
13199887 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGGGAGA
1 TTTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAAT--GAGA
* ** * * *
13199938 TTTTTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATGAGAGA
1 -TTTTTT-AAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAAT--GAGA
* * * * * * *
13199991 TTTTTAAAGTTATTGAGCCTCTGTTGAGATGAGCTTTTTC-AGATAAAA
1 TTTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGAGA
* * * *
13200039 ATTTTAAAGTTGTTGAGCCTCTACTAAGAGGAGTCTTTT
1 TTTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTT
13200078 AAATTTTAAA
Statistics
Matches: 359, Mismatches: 63, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
46 6 0.02
47 31 0.09
48 33 0.09
49 82 0.23
50 42 0.12
51 74 0.21
52 15 0.04
53 38 0.11
54 36 0.10
55 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (49 bp):
TTTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGAGA
Found at i:13200001 original size:153 final size:147
Alignment explanation
Indices: 13199576--13200077 Score: 528
Period size: 153 Copynumber: 3.3 Consensus size: 147
13199566 AATTTGAAAA
* * * * *
13199576 CAGATGAAAATTTTTTTAAGTTGTTGAGCTTTTGCTGAGAGAAGCTCTTTCCAAAATGAGA-TTT
1 CAGAT-AAAA-TTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCT-TTTTCAAAATGAGATTTT
13199640 TAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCAAGAT-ATGAGA-TTTTAAAGTTGTTGA
63 TAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTCAAGATGA-GAGATTTTTAAAGTTGTTGA
* * *
13199703 GCCTCTACTGAGAGGAGTTTTTT
125 GCCTCTATTGAGATGAGCTTTTT
* * * * * *
13199726 CATATGAAA-TTTTCAAGTTGTTGAGCTTCTGCTAAGAGAAGC-TTTTCTAAGATAAGAATTTTT
1 CAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCTTTTTC-AAAATGAG-ATTTTT
* * * *
13199789 AACGTTTTTGAGCCTCTGCTGAGAGGAGTTTTTTCAAGATGAGAGATTTTTTTTAAAGTTGTTAA
64 AAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTCAAGATGAGAGA---TTTTTAAAGTTGTTGA
13199854 GCCTCTATTGAGATGAGCTTTTT
125 GCCTCTATTGAGATGAGCTTTTT
* * *
13199877 CAAGATCAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGGGAGATTTT
1 C-AGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCTTTTTCAAAAT--GAGA--TT
* ** * *
13199942 TTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATGAGAGATTTTTAAAGTTATTGA
61 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-CAAGATGAGAGATTTTTAAAGTTGTTGA
*
13200007 GCCTCTGTTGAGATGAGCTTTTT
125 GCCTCTATTGAGATGAGCTTTTT
* * *
13200030 CAGATAAAAATTTTAAAGTTGTTGAGCCTCTACTAAGAGGAGTCTTTT
1 CAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAG-CTTTT
13200078 AAATTTTAAA
Statistics
Matches: 297, Mismatches: 38, Indels: 31
0.81 0.10 0.08
Matches are distributed among these distances:
145 4 0.01
146 6 0.02
147 45 0.15
148 31 0.10
149 3 0.01
150 4 0.01
151 35 0.12
152 43 0.14
153 75 0.25
154 6 0.02
155 6 0.02
156 39 0.13
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.39
Consensus pattern (147 bp):
CAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCTTTTTCAAAATGAGATTTTTAA
AGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCAAGATGAGAGATTTTTAAAGTTGTTGAGCCTCT
ATTGAGATGAGCTTTTT
Found at i:13200025 original size:104 final size:104
Alignment explanation
Indices: 13199637--13200031 Score: 418
Period size: 104 Copynumber: 3.9 Consensus size: 104
13199627 CAAAATGAGA
* ** * * *
13199637 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTT-CAAGATATGAGA-TTTTAAAGTTGT
1 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAG--CTTTTCCAAGATAAGA-ATTTTTAAAGTTAT
* * *
13199700 TGAGCCTCTACTGAGAGGAGTTTTTTC-ATATGA-A-A----
63 TGAGCCTCTGCTGAGAGGAGCTTTTTCAAAATGAGAGATTTT
* * * ** * * * *
13199735 TTTTCAAGTTGTTGAGCTTCTGCTAAGA-GAAGCTTTTCTAAGATAAGAATTTTTAACGTTTTTG
1 TTTTAAAGTTGTTAAGCCTCTATTGAGATG-AGCTTTTCCAAGATAAGAATTTTTAAAGTTATTG
* *
13199799 AGCCTCTGCTGAGAGGAGTTTTTTCAAGATGAGAGATTTT
65 AGCCTCTGCTGAGAGGAGCTTTTTCAAAATGAGAGATTTT
* * *
13199839 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTTCAAGATCA-AATTTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATAAGAATTTTTAAAGTTATTGA
*
13199903 GCCTCTGCTGAGAGGAGCTTTTTCAAAATGGGAGA-TTT
66 GCCTCTGCTGAGAGGAGCTTTTTCAAAATGAGAGATTTT
*
13199941 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATGAGAGATTTTTAAAGTTATTG
1 TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATAAGA-ATTTTTAAAGTTATTG
* *
13200006 AGCCTCTGTTGAGATGAGCTTTTTCA
65 AGCCTCTGCTGAGAGGAGCTTTTTCA
13200032 GATAAAAATT
Statistics
Matches: 256, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
96 6 0.02
97 45 0.18
98 32 0.12
99 1 0.00
100 1 0.00
102 47 0.18
103 49 0.19
104 74 0.29
105 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (104 bp):
TTTTAAAGTTGTTAAGCCTCTATTGAGATGAGCTTTTCCAAGATAAGAATTTTTAAAGTTATTGA
GCCTCTGCTGAGAGGAGCTTTTTCAAAATGAGAGATTTT
Found at i:13200254 original size:3 final size:3
Alignment explanation
Indices: 13200248--13200274 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13200238 CATTTTTTTA
13200248 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
13200275 TATTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13200306 original size:10 final size:9
Alignment explanation
Indices: 13200282--13200367 Score: 50
Period size: 9 Copynumber: 8.9 Consensus size: 9
13200272 ATTTATTTAA
13200282 TTTTT-TTT
1 TTTTTCTTT
*
13200290 GTTTTCTATT
1 TTTTTCT-TT
*
13200300 TTTTTCTCT
1 TTTTTCTTT
13200309 TTTTTCTTTCT
1 TTTTTC-TT-T
13200320 TTTTTCTTT
1 TTTTTCTTT
13200329 CTCTTTTCTTT
1 -T-TTTTCTTT
13200340 CCTTCTTT-TTT
1 --TT-TTTCTTT
* *
13200351 TTTTCCTTG
1 TTTTTCTTT
13200360 TTTTTCTT
1 TTTTTCTT
13200368 CCTTATCCGG
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
8 6 0.10
9 20 0.32
10 12 0.19
11 19 0.31
12 5 0.08
ACGTcount: A:0.01, C:0.17, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:13200340 original size:15 final size:15
Alignment explanation
Indices: 13200322--13200371 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
13200312 TTCTTTCTTT
*
13200322 TTTCTTTCTCTTTTC
1 TTTCCTTCTCTTTTC
* *
13200337 TTTCCTTCTTTTTTT
1 TTTCCTTCTCTTTTC
*
13200352 TTTCCTTGT-TTTTC
1 TTTCCTTCTCTTTTC
13200366 -TTCCTT
1 TTTCCTT
13200372 ATCCGGTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 6 0.20
14 4 0.13
15 20 0.67
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTCCTTCTCTTTTC
Found at i:13200347 original size:26 final size:23
Alignment explanation
Indices: 13200293--13200353 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 23
13200283 TTTTTTTGTT
* *
13200293 TTCTATTTTTTTCTCTTTTTTCT
1 TTCTTTTTTTTTCTCTTTTTTCC
13200316 TTCTTTTTTCTTTCTCTTTTCTTTCC
1 TTCTTTTTT-TTTCTC-TTT-TTTCC
13200342 TTCTTTTTTTTT
1 TTCTTTTTTTTT
13200354 TCCTTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 8 0.24
24 6 0.18
25 6 0.18
26 13 0.39
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (23 bp):
TTCTTTTTTTTTCTCTTTTTTCC
Found at i:13200348 original size:13 final size:11
Alignment explanation
Indices: 13200292--13200340 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
13200282 TTTTTTTTGT
13200292 TTTCTATTTTT-
1 TTTCT-TTTTTC
13200303 TTCTCTTTTTTC
1 TT-TCTTTTTTC
13200315 TTTCTTTTTTC
1 TTTCTTTTTTC
*
13200326 TTTCTCTTTTC
1 TTTCTTTTTTC
13200337 TTTC
1 TTTC
13200341 CTTCTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
11 30 0.86
12 5 0.14
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:13200355 original size:26 final size:24
Alignment explanation
Indices: 13200298--13200368 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
13200288 TTGTTTTCTA
*
13200298 TTTTTTTCTCTTTTTTCTTTCTTT
1 TTTTTTTCTCTTTTTTCCTTCTTT
*
13200322 TTTCTTTCTCTTTTCTTTCCTTCTTT
1 TTTTTTTCTC-TTT-TTTCCTTCTTT
*
13200348 TTTTTTTC-CTTGTTTTTCTTC
1 TTTTTTTCTCTT-TTTTCCTTC
13200369 CTTATCCGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 18 0.45
25 5 0.12
26 17 0.43
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.77
Consensus pattern (24 bp):
TTTTTTTCTCTTTTTTCCTTCTTT
Found at i:13201630 original size:18 final size:19
Alignment explanation
Indices: 13201598--13201633 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13201588 TAACGATAAA
*
13201598 TAAAAAGTAATTAATATAT
1 TAAAAAATAATTAATATAT
13201617 TAAAAAATAA-TAATATA
1 TAAAAAATAATTAATATA
13201634 AATAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAAAAATAATTAATATAT
Found at i:13201819 original size:12 final size:12
Alignment explanation
Indices: 13201804--13201835 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13201794 CAAAATTAAA
13201804 AATAAAATAATT
1 AATAAAATAATT
*
13201816 AATAAAAAAATT
1 AATAAAATAATT
13201828 AATAAAAT
1 AATAAAAT
13201836 TTTTGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAAAATAATT
Found at i:13211116 original size:12 final size:12
Alignment explanation
Indices: 13211099--13211171 Score: 65
Period size: 12 Copynumber: 5.9 Consensus size: 12
13211089 TTAGAAACAT
*
13211099 CATTTAGCAAAC
1 CATTCAGCAAAC
* *
13211111 CATTTAGAAATAC
1 CATTCAGCAA-AC
*
13211124 CATTCAGGAAAC
1 CATTCAGCAAAC
* *
13211136 TATTCAGAAACAC
1 CATTCAGCAA-AC
*
13211149 CATTTAGCAAAC
1 CATTCAGCAAAC
13211161 CATTCAGCAAA
1 CATTCAGCAAA
13211172 TCAATATCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
12 31 0.62
13 19 0.38
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (12 bp):
CATTCAGCAAAC
Found at i:13211165 original size:25 final size:25
Alignment explanation
Indices: 13211091--13211167 Score: 100
Period size: 25 Copynumber: 3.1 Consensus size: 25
13211081 AAATGTGTTT
* *
13211091 AGAAACATCATTTAGCAAACCATTT
1 AGAAACACCATTTAGCAAACCATTC
* * * *
13211116 AGAAATACCATTCAGGAAACTATTC
1 AGAAACACCATTTAGCAAACCATTC
13211141 AGAAACACCATTTAGCAAACCATTC
1 AGAAACACCATTTAGCAAACCATTC
13211166 AG
1 AG
13211168 CAAATCAATA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.23
Consensus pattern (25 bp):
AGAAACACCATTTAGCAAACCATTC
Found at i:13212402 original size:317 final size:318
Alignment explanation
Indices: 13211962--13212581 Score: 847
Period size: 317 Copynumber: 2.0 Consensus size: 318
13211952 ATTTTTAGTC
* * * * **
13211962 AAAAACACTGTAATAATCTCATCGCATTCATTGATATAAAAATTATAAGTGAAGGTGTTTCTGCC
1 AAAAACACTATAATAATCTCACCGCATTCACTAATATAAAAATTATAAGTGAAGGTGTTTCAACC
* * * *
13212027 AAAAATACCTTCAGTAATCGCTTTAAAATTTGACTATTAGATTATTGAAGGCGTTTTTACTAAAA
66 AAAAATACCTTCAATAATCCCCTTAAAATTTGACTATGAGATTATTGAAGGCGTTTTTACTAAAA
**
13212092 GACACATTTAATAAT-CTCACAAAAAA-ATTT-AAAAAAATTATTAAAGGCATTTTTTTTTTAAA
131 GACACATTTAATAATCCT-A-AAAAAATATTTAAAAAAAATTATTAAAGGCATTTTTTTTAGAAA
* **** * *
13212154 ATGCCTTCAATAATTTGGTTCATTTTTTT-AATAACTTGTTTATTGAAGGCATTTTATGCCAAAA
194 ATGCATTCAATAATCCAATTCATTTTTTTCAATAACTTATTTATTGAAGACATTTTATGCCAAAA
* *
13212218 ACTCCTTCAATAATCCAGTCTAAAAATATTACGAGGATTATTGAAGGCATTTTATAAAAA
259 ACGCCTTCAATAATCCAGTCCAAAAATATTACGAGGATTATTGAAGGCATTTTATAAAAA
*
13212278 AAAAAC-CTATAATAATCTCACCGTC-TTCACTAATATAAAAATTATAAGTGAAGGCATTTTTCA
1 AAAAACACTATAATAATCTCACCG-CATTCACTAATATAAAAATTATAAGTGAAGG--TGTTTCA
* *
13212341 ACCAAAAATATCTTCAATAATCCCCTTAAAATTTGACTATGAGATTATTGAAGGTGTTTTTACTA
63 ACCAAAAATACCTTCAATAATCCCCTTAAAATTTGACTATGAGATTATTGAAGGCGTTTTTACTA
** * * *
13212406 AAAGATGCCTTTAATAATCCTAAAAAAATTTTTAAAAAAAATTATTGAAGGCATTTTTTTTAGAA
128 AAAGACACATTTAATAATCCTAAAAAAATATTTAAAAAAAATTATTAAAGGCATTTTTTTTAGAA
* **
13212471 AATGCATTCAATAATCCAATTCATTTTTTTCAATAGCTTATTTATTGAAGATGTTTTATGCCAAA
193 AATGCATTCAATAATCCAATTCATTTTTTTCAATAACTTATTTATTGAAGACATTTTATGCCAAA
* *
13212536 AACGCCTTTAATAATCCAGTCCAAAAATATTATGAGGATTATTGAA
258 AACGCCTTCAATAATCCAGTCCAAAAATATTACGAGGATTATTGAA
13212582 AGTATATTAT
Statistics
Matches: 263, Mismatches: 34, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
315 42 0.16
316 13 0.05
317 82 0.31
318 55 0.21
319 71 0.27
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.36
Consensus pattern (318 bp):
AAAAACACTATAATAATCTCACCGCATTCACTAATATAAAAATTATAAGTGAAGGTGTTTCAACC
AAAAATACCTTCAATAATCCCCTTAAAATTTGACTATGAGATTATTGAAGGCGTTTTTACTAAAA
GACACATTTAATAATCCTAAAAAAATATTTAAAAAAAATTATTAAAGGCATTTTTTTTAGAAAAT
GCATTCAATAATCCAATTCATTTTTTTCAATAACTTATTTATTGAAGACATTTTATGCCAAAAAC
GCCTTCAATAATCCAGTCCAAAAATATTACGAGGATTATTGAAGGCATTTTATAAAAA
Found at i:13212853 original size:127 final size:128
Alignment explanation
Indices: 13212722--13212951 Score: 275
Period size: 127 Copynumber: 1.8 Consensus size: 128
13212712 TTTTTGGTAT
* * * * * * *
13212722 AAAATCGCCTTCACTGATATTCCCCAAATAACAATGAAGGGAATTATTGAAGGTATATTT-T-GC
1 AAAATCACCTTCACTGATATTCACCAAATAAAAATGAAGAGAATTATTAAAAGTAT-TTTCTAGA
* *
13212785 AAAAAAATACCTTCAATAAATTCCTTTAAAAATTTTAAGAAATTAGTGAAGGTGTTTGTAGTCA
65 AAAAAAATACCTTCAATAAATTCCGTTAAAAAATTTAAGAAATTAGTGAAGGTGTTTGTAGTCA
* * ** * *
13212849 AAAATTACCTTCAGTGATATTCACCTGATAAAAATGGAGAGAATTATTAAAAGTATTTTCTATAA
1 AAAATCACCTTCACTGATATTCACCAAATAAAAATGAAGAGAATTATTAAAAGTATTTTCTAGAA
* * *
13212914 AAAAAATGCCTTTAATAAATTTCGTTAAAAAATTTAAG
66 AAAAAATACCTTCAATAAATTCCGTTAAAAAATTTAAG
13212952 GGGTTAAGTG
Statistics
Matches: 83, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
126 3 0.04
127 46 0.55
128 34 0.41
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (128 bp):
AAAATCACCTTCACTGATATTCACCAAATAAAAATGAAGAGAATTATTAAAAGTATTTTCTAGAA
AAAAAATACCTTCAATAAATTCCGTTAAAAAATTTAAGAAATTAGTGAAGGTGTTTGTAGTCA
Found at i:13220889 original size:30 final size:30
Alignment explanation
Indices: 13220853--13220911 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
13220843 ATTAATTTAA
13220853 AAAATGACTCACAGTTCCTTAGGTAACTTC
1 AAAATGACTCACAGTTCCTTAGGTAACTTC
*
13220883 AAAATGACTCTCAGTTCCTTAGGTAACTT
1 AAAATGACTCACAGTTCCTTAGGTAACTT
13220912 TTAGGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (30 bp):
AAAATGACTCACAGTTCCTTAGGTAACTTC
Found at i:13222879 original size:2 final size:2
Alignment explanation
Indices: 13222872--13222899 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13222862 TATAAAATCA
13222872 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
13222900 GACACAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13226235 original size:21 final size:21
Alignment explanation
Indices: 13226211--13226293 Score: 134
Period size: 21 Copynumber: 4.0 Consensus size: 21
13226201 AATTTAAACG
13226211 AATGAACCCTAAACGAATATA
1 AATGAACCCTAAACGAATATA
13226232 AATGAACCCTAAACGAATATA
1 AATGAACCCTAAACGAATATA
13226253 AATGAACCCTAAACGAATATA
1 AATGAACCCTAAACGAATATA
**
13226274 AACAAACCC-AAACGAA-ATA
1 AATGAACCCTAAACGAATATA
13226293 A
1 A
13226294 GCGAACCTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
19 4 0.07
20 7 0.12
21 49 0.82
ACGTcount: A:0.55, C:0.20, G:0.08, T:0.16
Consensus pattern (21 bp):
AATGAACCCTAAACGAATATA
Found at i:13228390 original size:29 final size:28
Alignment explanation
Indices: 13228334--13228391 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
13228324 ACCTGATTTG
*
13228334 GGTCTAAAAAGATTTAAGTTTATGCAAGT
1 GGTCTAAAAAGATTGAAGTTTA-GCAAGT
13228363 GGTCTCAAAAAGATTGAAGTTGTA-CAAGT
1 GGTCT-AAAAAGATTGAAGTT-TAGCAAGT
13228392 TAGGTTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 10 0.38
30 14 0.54
31 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (28 bp):
GGTCTAAAAAGATTGAAGTTTAGCAAGT
Found at i:13231338 original size:79 final size:82
Alignment explanation
Indices: 13231253--13231414 Score: 248
Period size: 79 Copynumber: 2.0 Consensus size: 82
13231243 AACAATAAAA
*
13231253 AAAGAAAGAAAATCCACTCCAAATACTTAAATTTCAGT-A-A-CAATCTTTTTGTTTTTGTACAG
1 AAAGAAAGAAAATCCACTCCAAATACTCAAATTTCAGTAAGATCAATCTTTTTGTTTTTGTACAG
13231315 ACAATAATACACAATCT
66 ACAATAATACACAATCT
*
13231332 ----AAAGAAAATCCACTCCAAATACTCAAATTTCGGTAATGATCAATCTTTTTGTTTTTGTACA
1 AAAGAAAGAAAATCCACTCCAAATACTCAAATTTCAGTAA-GATCAATCTTTTTGTTTTTGTACA
13231393 GACAATAATACACAATCT
65 GACAATAATACACAATCT
13231411 AAAG
1 AAAG
13231415 CTGCTAGAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
75 32 0.44
76 1 0.01
78 1 0.01
79 39 0.53
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (82 bp):
AAAGAAAGAAAATCCACTCCAAATACTCAAATTTCAGTAAGATCAATCTTTTTGTTTTTGTACAG
ACAATAATACACAATCT
Found at i:13234235 original size:31 final size:31
Alignment explanation
Indices: 13234200--13234271 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
13234190 TTTAAACTTT
13234200 AGGTACCAAAACAGGAATTTGACTATAGCTC
1 AGGTACCAAAACAGGAATTTGACTATAGCTC
*
13234231 AGGTACCAAAACAGGAATTTGACTATAGTTC
1 AGGTACCAAAACAGGAATTTGACTATAGCTC
13234262 AGGTACCAAA
1 AGGTACCAAA
13234272 TGTGTAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (31 bp):
AGGTACCAAAACAGGAATTTGACTATAGCTC
Found at i:13236124 original size:25 final size:25
Alignment explanation
Indices: 13236095--13236146 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
13236085 AATCTTAGGA
13236095 ACCAAAAGATTAAATCATGTGTGAG
1 ACCAAAAGATTAAATCATGTGTGAG
13236120 ACCAAAAGATTAAATCATGTGTGAG
1 ACCAAAAGATTAAATCATGTGTGAG
13236145 AC
1 AC
13236147 TATTATGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.23
Consensus pattern (25 bp):
ACCAAAAGATTAAATCATGTGTGAG
Found at i:13238301 original size:24 final size:25
Alignment explanation
Indices: 13238260--13238317 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
13238250 TAGTTTTTAT
*
13238260 TTATTTTATATATATATTGGAGAAA
1 TTATTTAATATATATATTGGAGAAA
* *
13238285 TTATTTAATAT-TTTATTGGTGAAA
1 TTATTTAATATATATATTGGAGAAA
*
13238309 TTTTTTAAT
1 TTATTTAAT
13238318 TTTATAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (25 bp):
TTATTTAATATATATATTGGAGAAA
Found at i:13238668 original size:24 final size:23
Alignment explanation
Indices: 13238625--13238672 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
13238615 CTTTAATAAA
13238625 ATAATAAATATAACACAAATATAT
1 ATAATAAATATAACACAAAT-TAT
* *
13238649 ATAATAAATATAATATAAATTAT
1 ATAATAAATATAACACAAATTAT
13238672 A
1 A
13238673 ACTTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAATAAATATAACACAAATTAT
Found at i:13239574 original size:27 final size:27
Alignment explanation
Indices: 13239522--13239598 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 27
13239512 AATCATAATA
* **
13239522 TTTA-TTTTATTTTTAAAATATTATTTT
1 TTTACTTTTATTTTT-TAATAAAATTTT
13239549 TTTACTTTTATTTTTTAATAAAA---T
1 TTTACTTTTATTTTTTAATAAAATTTT
* *
13239573 TTGACTTATATTTTTTAATAAAATTT
1 TTTACTTTTATTTTTTAATAAAATTT
13239599 GACTTAATCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 22 0.54
27 9 0.22
28 10 0.24
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTACTTTTATTTTTTAATAAAATTTT
Found at i:13239584 original size:24 final size:24
Alignment explanation
Indices: 13239552--13239604 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
13239542 TTATTTTTTT
*
13239552 ACTTTTATTTTTTAATAAAATTTG
1 ACTTATATTTTTTAATAAAATTTG
13239576 ACTTATATTTTTTAATAAAATTTG
1 ACTTATATTTTTTAATAAAATTTG
13239600 ACTTA
1 ACTTA
13239605 ATCTTGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
ACTTATATTTTTTAATAAAATTTG
Found at i:13242537 original size:1 final size:1
Alignment explanation
Indices: 13242531--13242565 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
13242521 AAACCAAACC
* *
13242531 AAAAAAAAAAAAAAAAAAAAAAAACAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13242566 CCACACAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.03, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:13243400 original size:255 final size:255
Alignment explanation
Indices: 13242944--13243459 Score: 987
Period size: 255 Copynumber: 2.0 Consensus size: 255
13242934 TCTTTTCATC
13242944 TTACCATTTTACAAGGTCCCAAATAATGAACATGAAGATAATCATGGCAATAATCTTGGATTTGA
1 TTACCATTTTACAAGGTCCCAAATAATGAACATGAAGATAATCATGGCAATAATCTTGGATTTGA
* *
13243009 ATTTGAAAACTTAATTCATGTTGATGAACTTGATAATAAGGAAGATTCAGATAATTACACATTGT
66 ATTTGAAAACTTAATTCATGTTGATGAACTTGATAATAAGGAAGATTCAGATAATTACACACTAT
13243074 CTCTTGATTTGTTAAAATTAATGGAATATGAAGATAAGCCAATTGAACCCCACCAAAAAATAGTC
131 CTCTTGATTTGTTAAAATTAATGGAATATGAAGATAAGCCAATTGAACCCCACCAAAAAATAGTC
* *
13243139 GAATCAGTAAATTTGAGAGATGATGAAAATAAAAGAGAGGTTAAAGTTGGTACATCTATT
196 GAATCAGTAAATTTGAGAGATGATGAAAACAAAAGAGAAGTTAAAGTTGGTACATCTATT
*
13243199 TTACTATTTTACAAGGTCCCAAATAATGAACATGAAGATAATCATGGCAATAATCTTGGATTTGA
1 TTACCATTTTACAAGGTCCCAAATAATGAACATGAAGATAATCATGGCAATAATCTTGGATTTGA
13243264 ATTTGAAAACTTAATTCATGTTGATGAACTTGATAATAAGGAAGATTCAGATAATTACACACTAT
66 ATTTGAAAACTTAATTCATGTTGATGAACTTGATAATAAGGAAGATTCAGATAATTACACACTAT
13243329 CTCTTGATTTGTTAAAATTAATGGAATATGAAGATAAGCCAATTGAACCCCACCAAAAAATAGTC
131 CTCTTGATTTGTTAAAATTAATGGAATATGAAGATAAGCCAATTGAACCCCACCAAAAAATAGTC
13243394 GAATCAGTAAATTTGAGAGATGATGAAAACAAAAGAGAAGTTAAAGTTGGTACATCTATT
196 GAATCAGTAAATTTGAGAGATGATGAAAACAAAAGAGAAGTTAAAGTTGGTACATCTATT
13243454 TTACCA
1 TTACCA
13243460 GCTAAAAGGT
Statistics
Matches: 255, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
255 255 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (255 bp):
TTACCATTTTACAAGGTCCCAAATAATGAACATGAAGATAATCATGGCAATAATCTTGGATTTGA
ATTTGAAAACTTAATTCATGTTGATGAACTTGATAATAAGGAAGATTCAGATAATTACACACTAT
CTCTTGATTTGTTAAAATTAATGGAATATGAAGATAAGCCAATTGAACCCCACCAAAAAATAGTC
GAATCAGTAAATTTGAGAGATGATGAAAACAAAAGAGAAGTTAAAGTTGGTACATCTATT
Found at i:13247649 original size:97 final size:96
Alignment explanation
Indices: 13247471--13248675 Score: 1058
Period size: 97 Copynumber: 12.5 Consensus size: 96
13247461 AACAAATGAA
* * * *
13247471 AAGATTTCAAAGTTGTTGAGCTTCTGCTGAGAAGAGCCCTTTT--AAATATGAGAATTTTAAAGT
1 AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTCCAAA-ATGAAAATTTTAAAGT
*
13247534 TGTTGAGCCTCTACTGAGAGAAGCTTTTCTAGAT
63 TGTTGAGCCTCTACTGAGAGAAGCTTTTCAAGAT
* * * * *
13247568 AAGGTTTTAAAATTGTTGAGTCTCTGTTGAGAAGAGCTTTTCCAAAGATGAAAATTTTAAAGTTG
1 AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAA-ATGAAAATTTTAAAGTTG
* * * *
13247633 TTAAGCATCTACTGAGATG-AGCCCTTTTAAATAT
65 TTGAGCCTCTACTGAGA-GAAG--CTTTTCAAGAT
* * * * * ** *
13247667 GAAAATTTTAAAATTGTTAAG-CTCTTGCTGAGATGAGCTTTTTC-GGATG-AGATTTTAAAGTT
1 -AAGATTTTAAAGTTGTTGAGCCTC-TGCTGAGAGGAGCTTTTCCAAAATGAAAATTTTAAAGTT
* *
13247729 GTTGAGCCTCTGCTAAGAGAAGCTTTTCCAAAGAT
64 GTTGAGCCTCTACTGAGAGAAGCTTTT-C-AAGAT
* * * * *
13247764 TAGAATTTTAAAGTTGTTAAGCCTTTGCTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTG
1 AAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGAAAATTTTAAAGTTG
* * *
13247829 TTGAGCCTTTACTGAGAGAAGCTTTTTCAAAAC
65 TTGAGCCTCTACTGAGAGAAGC-TTTTCAAGAT
* * * * * * * *
13247862 GAGAATTTTAAAGTTGTTAAGCTTCTGCTGAGAGAAGATTTTTCAAAATGAGATTCTTTAAAGTT
1 AAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGAAAAT-TTTAAAGTT
* * *
13247927 GTTGAACCTCTACTGAGAGGAGCTTTTCCAGAT
64 GTTGAGCCTCTACTGAGAGAAGCTTTTCAAGAT
* * *
13247960 GAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAAAATGAGAATTTTAAAGTTG
1 AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC-AAAATGAAAATTTTAAAGTTG
* *
13248025 TTGAGCCTCT-GTGAGATG-AGCTTTTCCAGAT
65 TTGAGCCTCTACTGAGA-GAAGCTTTTCAAGAT
* * * *
13248056 GAGATTTTAAAGTTGTTGAGCCTCTACTAAAAGGAGCTTTTCC-AAAT-AAAATTTTAAAGTTGT
1 AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGAAAATTTTAAAGTTGT
*
13248119 TGAGCCTCTGCTGAGAGAAGCTTTTCAA-AT
66 TGAGCCTCTACTGAGAGAAGCTTTTCAAGAT
* * *
13248149 ATGAGAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-TTTTCCAAGATGAGAATTTTAAAGT
1 A--AG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGAAAATTTTAAAGT
* * * *
13248213 TATAGAGCCTCTACTGAGAGGAGCTTTTCCAAAAT
63 TGTTGAGCCTCTACTGAGAGAAGCTTTT-CAAGAT
* * * * * * **
13248248 GAGAAATTTAAAGTTGTTGAGCTTCTACTAATAGGAGCTTTTCCAAAATGACATTTTTTAAAGTT
1 AAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGA-AAATTTTAAAGTT
* *
13248313 GTTGAGCCTTTGCTGAGATG-AGCTTTTTCAAGA-
64 GTTGAGCCTCTACTGAGA-GAAGC-TTTTCAAGAT
* * *
13248346 AA-A-TTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTC--AA-GACAATTTTAAAGTTGT
1 AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGAAAATTTTAAAGTTGT
* *
13248406 TGAGCCTCTACTGAGAGGAGCTTTTCCAAAAT
66 TGAGCCTCTACTGAGAGAAGCTTTT-CAAGAT
* * * ** * *
13248438 GAGAAATTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCTTTT--TTAA-GAGAATTTTAAAGTAG
1 AAG-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGAAAATTTTAAAGTTG
*
13248500 TTGAGCC-CTACTGAGAGGAGCTTTTTCAAGA-
65 TTGAGCCTCTACTGAGAGAAGC-TTTTCAAGAT
* * * * * *
13248531 GA-ATTTTAAAGTTATTGAGCCCCTGTTGAAAGGAACTTTTCCAAAATGAGAAA-TTTAAAGTTG
1 AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGA-AAATTTTAAAGTTG
* * * * *
13248594 TTAAGCCTCTGCTGAGAGGAGTTTTTACAAAAT
65 TTGAGCCTCTACTGAGAGAAGCTTTT-CAAGAT
* * * *
13248627 AAGATTTTTTAAAGTTGTTGAGCCTTTACTGAGATGAGCTTTTCAAAAA
1 AAGA--TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAA
13248676 AAATTATAAT
Statistics
Matches: 917, Mismatches: 141, Indels: 98
0.79 0.12 0.08
Matches are distributed among these distances:
90 5 0.01
91 64 0.07
92 3 0.00
93 33 0.04
94 58 0.06
95 131 0.14
96 93 0.10
97 253 0.28
98 96 0.10
99 139 0.15
100 42 0.05
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (96 bp):
AAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAAATGAAAATTTTAAAGTTGT
TGAGCCTCTACTGAGAGAAGCTTTTCAAGAT
Found at i:13247836 original size:49 final size:49
Alignment explanation
Indices: 13247474--13248670 Score: 1183
Period size: 49 Copynumber: 24.8 Consensus size: 49
13247464 AAATGAAAAG
* * * * *
13247474 ATTTCAAAGTTGTTGAGCTTCTGCTGAGAAGAGCCCTTTT-AAATATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTCCAAGATGAGA
* * * *
13247524 ATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTT-CTAGATAAG-
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * * * *
13247571 GTTTTAAAATTGTTGAGTCTCTGTTGAGAAGAGCTTTTCCAAAGATGAAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC-AAGATGAGA
* * * * * * *
13247621 ATTTTAAAGTTGTTAAGCATCTACTGAGATGAGCCCTTTT-AAATATGAAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTCCAAGATGAGA
* * * * *
13247671 ATTTTAAAATTGTTAAG-CTCTTGCTGAGATGAGCTTTTTC-GGATGAG-
1 ATTTTAAAGTTGTTGAGCCTC-TGCTGAGAGGAGCTTTTCCAAGATGAGA
* * *
13247718 ATTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCTTTTCCAAAGATTAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC-AAGATGAGA
* *
13247768 ATTTTAAAGTTGTTAAGCCTTTGCTGAGAGGAGCTTTTCCAAGATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * * * *
13247817 ATTTTAAAGTTGTTGAGCCTTTACTGAGAGAAGCTTTTTCAAAACGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * * * *
13247866 ATTTTAAAGTTGTTAAGCTTCTGCTGAGAGAAGATTTTTCAAAATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * *
13247915 TTCTTTAAAGTTGTTGAACCTCTACTGAGAGGAGCTTTTCC-AGATGAG-
1 AT-TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* *
13247963 ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAAAATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC-AAGATGAGA
*
13248013 ATTTTAAAGTTGTTGAGCCTCTG-TGAGATGAGCTTTTCC-AGATGAG-
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * *
13248059 ATTTTAAAGTTGTTGAGCCTCTACTAAAAGGAGCTTTTCCAA-AT-AAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * *
13248106 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCTTTTCAAATATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
*
13248155 ATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG-TTTTCCAAGATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * *
13248203 ATTTTAAAGTTATAGAGCCTCTACTGAGAGGAGCTTTTCCAAAATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * * * * *
13248252 AATTTAAAGTTGTTGAGCTTCTACTAATAGGAGCTTTTCCAAAATGACA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * *
13248301 TTTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTTTCAAGA--A-A
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * *
13248348 A-TTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTC-A-A-GACA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* *
13248393 ATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAAATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * **
13248442 AATTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCTTTT-TTA-A-GAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * *
13248488 ATTTTAAAGTAGTTGAGCC-CTACTGAGAGGAGCTTTTTC-A-A-GAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * * * *
13248533 ATTTTAAAGTTATTGAGCCCCTGTTGAAAGGAACTTTTCCAAAATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * * * *
13248582 AATTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGTTTTTACAAAATAAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
* * * *
13248631 TTTTTTAAAGTTGTTGAGCCTTTACTGAGATGAGCTTTTC
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTC
13248671 AAAAAAAATT
Statistics
Matches: 958, Mismatches: 155, Indels: 68
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.00
44 2 0.00
45 77 0.08
46 95 0.10
47 158 0.16
48 73 0.08
49 304 0.32
50 243 0.25
52 5 0.01
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (49 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGA
Found at i:13248717 original size:24 final size:23
Alignment explanation
Indices: 13248690--13248738 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
13248680 TATAATAAAT
* *
13248690 AAATAAAAATAACAATAAAGCAAA
1 AAATAAAAATAAAAAAAAAG-AAA
*
13248714 AAATAATAATAAAAAAAAAGAAA
1 AAATAAAAATAAAAAAAAAGAAA
13248737 AA
1 AA
13248739 CTTTAGAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (23 bp):
AAATAAAAATAAAAAAAAAGAAA
Found at i:13248892 original size:3 final size:3
Alignment explanation
Indices: 13248878--13248926 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
13248868 ATTTCCAGTT
* ** *
13248878 TAA TAT TAA TAA TAA TTT TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13248926 T
1 T
13248927 TAAAAGAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:13248898 original size:12 final size:12
Alignment explanation
Indices: 13248878--13248926 Score: 80
Period size: 12 Copynumber: 4.1 Consensus size: 12
13248868 ATTTCCAGTT
13248878 TAATATTAATAA
1 TAATATTAATAA
*
13248890 TAATTTTAATAA
1 TAATATTAATAA
13248902 TAATATTAATAA
1 TAATATTAATAA
*
13248914 TAATAATAATAA
1 TAATATTAATAA
13248926 T
1 T
13248927 TAAAAGAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:13250040 original size:17 final size:17
Alignment explanation
Indices: 13250018--13250073 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
13250008 TTAATTTTAA
13250018 AATAAAATTTAAAATAT
1 AATAAAATTTAAAATAT
* *
13250035 AATAAAA-TGAAAAAAT
1 AATAAAATTTAAAATAT
* *
13250051 AATGAAACTTTATAATAAT
1 AAT-AAAATTTAAAAT-AT
13250070 AATA
1 AATA
13250074 TTGATATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 10 0.33
17 10 0.33
18 5 0.17
19 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
AATAAAATTTAAAATAT
Found at i:13250294 original size:20 final size:20
Alignment explanation
Indices: 13250244--13250294 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
13250234 TTTGTTAACA
*
13250244 ATAAATAAAAATTAATTAAT
1 ATAAATAAAAAATAATTAAT
*
13250264 AT-ATTAAAAAATAA-TAAT
1 ATAAATAAAAAATAATTAAT
13250282 ATAAATAAGAAAA
1 ATAAATAA-AAAA
13250295 AAGAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.23
19 14 0.54
20 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAATAAAAAATAATTAAT
Found at i:13251489 original size:27 final size:27
Alignment explanation
Indices: 13251458--13251509 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
13251448 AAAATAGATA
13251458 ATGCCAAAAGGAAAAAAAATCTATATC
1 ATGCCAAAAGGAAAAAAAATCTATATC
13251485 ATGCCAAAAGGAAAAAAAATCTATA
1 ATGCCAAAAGGAAAAAAAATCTATA
13251510 ACTTCACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.58, C:0.13, G:0.12, T:0.17
Consensus pattern (27 bp):
ATGCCAAAAGGAAAAAAAATCTATATC
Found at i:13253399 original size:21 final size:20
Alignment explanation
Indices: 13253368--13253413 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
13253358 ATGGTTTATT
* **
13253368 ATTTTTTTTTTGTTTTTGAA
1 ATTTTTTTTTTCTTTTCAAA
13253388 ATTTTTTGTTTTCTTTTCAAA
1 ATTTTTT-TTTTCTTTTCAAA
13253409 ATTTT
1 ATTTT
13253414 GAAAACATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (20 bp):
ATTTTTTTTTTCTTTTCAAA
Found at i:13253647 original size:27 final size:28
Alignment explanation
Indices: 13253607--13253663 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
13253597 ATTTATTCAC
** *
13253607 ATTATAATTTAATAACAT-TTAAATAAT
1 ATTATAATAAAATAAAATATTAAATAAT
13253634 ATTATAATAAAATAAAATATTAAATAAT
1 ATTATAATAAAATAAAATATTAAATAAT
13253662 AT
1 AT
13253664 AATTAGAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
ATTATAATAAAATAAAATATTAAATAAT
Found at i:13253975 original size:17 final size:18
Alignment explanation
Indices: 13253953--13253995 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
13253943 ACATATAAAA
*
13253953 TAATATTATTTAGT-ATT
1 TAATATTATGTAGTCATT
*
13253970 TAATATTAAGTAGTCATT
1 TAATATTATGTAGTCATT
13253988 TAAT-TTAT
1 TAATATTAT
13253996 AAAATAGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (18 bp):
TAATATTATGTAGTCATT
Found at i:13255516 original size:20 final size:20
Alignment explanation
Indices: 13255469--13255517 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
13255459 TTGTCGTTCT
* *
13255469 TCAAAATATTTTGAAATGTC
1 TCAAAATTTTTTGAAATATC
13255489 TCAAAATTTTTTGAAATATC
1 TCAAAATTTTTTGAAATATC
13255509 TCAAAATTT
1 TCAAAATTT
13255518 AAATAGACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (20 bp):
TCAAAATTTTTTGAAATATC
Found at i:13265714 original size:15 final size:14
Alignment explanation
Indices: 13265689--13265736 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
13265679 ATGGGGAATT
*
13265689 AAAAAAAAAAAAAG
1 AAAAAATAAAAAAG
13265703 AGAAAAATAAAAAAG
1 A-AAAAATAAAAAAG
* *
13265718 ATAAGATAAAAAAG
1 AAAAAATAAAAAAG
13265732 CAAAA
1 -AAAA
13265737 TCAATAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.06
Consensus pattern (14 bp):
AAAAAATAAAAAAG
Found at i:13268168 original size:22 final size:22
Alignment explanation
Indices: 13268140--13268197 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
13268130 TAGGAAGCTT
13268140 TGCATGTTAGTTTTGATTACTC
1 TGCATGTTAGTTTTGATTACTC
* * *
13268162 TGCATGTTAGCTTTGTTTACTT
1 TGCATGTTAGTTTTGATTACTC
13268184 TGCATGTTAGTTTT
1 TGCATGTTAGTTTT
13268198 AATTGTACGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (22 bp):
TGCATGTTAGTTTTGATTACTC
Found at i:13268825 original size:86 final size:86
Alignment explanation
Indices: 13268656--13268818 Score: 254
Period size: 86 Copynumber: 1.9 Consensus size: 86
13268646 GAAGATCAAG
* **
13268656 TAACATCATTATTAATTAGACCAACATTGTTAAATTAAATTAGCATGAGAATCAAATTTTTGCAA
1 TAACATCATTATTAATTAAACCAACATTGTTAAATTAAACAAGCATGAGAATCAAATTTTTGCAA
13268721 ATTATTGTATAAAGACTAAGT
66 ATTATTGTATAAAGACTAAGT
* * * * *
13268742 TAACATCGTTATTAATTAAATCAATATTGTTAAATTAAACAAGTATGAGGATCAAATTTTTGCAA
1 TAACATCATTATTAATTAAACCAACATTGTTAAATTAAACAAGCATGAGAATCAAATTTTTGCAA
13268807 ATTATTGTATAA
66 ATTATTGTATAA
13268819 GCACTAAAGT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.37
Consensus pattern (86 bp):
TAACATCATTATTAATTAAACCAACATTGTTAAATTAAACAAGCATGAGAATCAAATTTTTGCAA
ATTATTGTATAAAGACTAAGT
Found at i:13269075 original size:6 final size:6
Alignment explanation
Indices: 13269064--13269095 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
13269054 ATTTAAATGC
13269064 AAAA-A AAAA-A AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
13269096 TAGGGGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:13269849 original size:2 final size:2
Alignment explanation
Indices: 13269844--13269885 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13269834 TATGTGTGTC
13269844 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13269886 AACATACTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13273776 original size:62 final size:63
Alignment explanation
Indices: 13273680--13273963 Score: 190
Period size: 62 Copynumber: 4.5 Consensus size: 63
13273670 GAGAATATTA
* * * *
13273680 AAGGCATTTTTGGCAGAAAAATACCTTCAATAATCTATA-AAAAAAATTTGAAACAGATTCTTG
1 AAGGCATTTTTGGC-CAAAAACACTTTCAATAATCTATACAAAAAAATTTGAAACGGATTCTTG
* * * * * *
13273743 AAGGCATTTTTGGCCAAAAACACTTTCAATAATCTA-ATC-AATAATTTTTATGAGGGATTATTG
1 AAGGCATTTTTGGCCAAAAACACTTTCAATAATCTATA-CAAAAAAATTTGA-AACGGATTCTTG
* * * *
13273806 AAGGTAGTTTTGGCCAAAAATGC-CTTT-AATAATCCATACAAAAAAA-TTGAAATGGATTCTTG
1 AAGGCATTTTTGGCCAAAAA--CACTTTCAATAATCTATACAAAAAAATTTGAAACGGATTCTTG
* * * * * * * * * *
13273868 AAGGCTTTTTTAGCCTAAAATGC-CTTT-AATAATCCACACAATAAAATTTTATTAGGGATTATT
1 AAGGCATTTTTGGCC-AAAA-ACACTTTCAATAATCTATACAAAAAAATTTGA-AACGGATTCTT
13273931 G
63 G
* *
13273932 AAGGCAGTTTTGGTCAAAAACA-TCTTCAATAA
1 AAGGCATTTTTGGCCAAAAACACT-TTCAATAA
13273964 CATTTTGTTA
Statistics
Matches: 172, Mismatches: 35, Indels: 27
0.74 0.15 0.12
Matches are distributed among these distances:
61 1 0.01
62 71 0.41
63 65 0.38
64 34 0.20
65 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (63 bp):
AAGGCATTTTTGGCCAAAAACACTTTCAATAATCTATACAAAAAAATTTGAAACGGATTCTTG
Found at i:13273807 original size:63 final size:60
Alignment explanation
Indices: 13273735--13273952 Score: 170
Period size: 63 Copynumber: 3.5 Consensus size: 60
13273725 ATTTGAAACA
* * * *
13273735 GATTCTTGAAGGCATTTTTGGCCAAAAACACTTTCAATAATCTAATCAATAATTTTTATGAGG
1 GATTATTGAAGGCAGTTTTGGCCAAAAAC-CTTT-AATAATC-AATCAATAAATTTTATAAGG
* * * * * *
13273798 GATTATTGAAGGTAGTTTTGGCCAAAAATGCCTTTAATAATCCATACAAAAAAATTGA-AATG
1 GATTATTGAAGGCAGTTTTGGCCAAAAA--CCTTTAATAATCAAT-CAATAAATTTTATAAGG
* ** * * *
13273860 GATTCTTGAAGGCTTTTTTAGCCTAAAATGCCTTTAATAATCCACA-CAATAAAATTTTATTAGG
1 GATTATTGAAGGCAGTTTTGGCC-AAAA-ACCTTTAATAAT-CA-ATCAAT-AAATTTTATAAGG
*
13273924 GATTATTGAAGGCAGTTTTGGTCAAAAAC
1 GATTATTGAAGGCAGTTTTGGCCAAAAAC
13273953 ATCTTCAATA
Statistics
Matches: 118, Mismatches: 28, Indels: 19
0.72 0.17 0.12
Matches are distributed among these distances:
62 37 0.31
63 55 0.47
64 25 0.21
65 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (60 bp):
GATTATTGAAGGCAGTTTTGGCCAAAAACCTTTAATAATCAATCAATAAATTTTATAAGG
Found at i:13273837 original size:125 final size:126
Alignment explanation
Indices: 13273675--13273963 Score: 336
Period size: 126 Copynumber: 2.3 Consensus size: 126
13273665 GGAGAGAGAA
* * * *
13273675 TATTAAAGGCATTTTTGGCAGAAAAATACCTTCAATAATCTATA-AAAAAAATTTGAAACAGATT
1 TATTGAAGGCAGTTTTGGC-CAAAAATACCTTCAATAATCCATACAAAAAAA-TTGAAACAGATT
* * *
13273739 CTTGAAGGCATTTTTGGCC-AAAA-ACACTTTCAATAATCTA-ATCAAT-AATTTTTATGAGGGA
64 CTTGAAGGCATTTTTAGCCTAAAATAC-CTTT-AATAATCCACA-CAATAAAATTTTATGAGGGA
13273800 T
126 T
* * * **
13273801 TATTGAAGGTAGTTTTGGCCAAAAATGCCTTTAATAATCCATACAAAAAAATTGAAATGGATTCT
1 TATTGAAGGCAGTTTTGGCCAAAAATACCTTCAATAATCCATACAAAAAAATTGAAACAGATTCT
* * *
13273866 TGAAGGCTTTTTTAGCCTAAAATGCCTTTAATAATCCACACAATAAAATTTTATTAGGGAT
66 TGAAGGCATTTTTAGCCTAAAATACCTTTAATAATCCACACAATAAAATTTTATGAGGGAT
* * *
13273927 TATTGAAGGCAGTTTTGGTCAAAAACATCTTCAATAA
1 TATTGAAGGCAGTTTTGGCCAAAAATACCTTCAATAA
13273964 CATTTTGTTA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
125 59 0.43
126 77 0.56
127 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (126 bp):
TATTGAAGGCAGTTTTGGCCAAAAATACCTTCAATAATCCATACAAAAAAATTGAAACAGATTCT
TGAAGGCATTTTTAGCCTAAAATACCTTTAATAATCCACACAATAAAATTTTATGAGGGAT
Found at i:13274122 original size:35 final size:35
Alignment explanation
Indices: 13274051--13274122 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
13274041 ATTATGTATA
*
13274051 TGAAGTTAATTGTAGGTTTATTCCTAGAAAACATT
1 TGAAGTTAATTGTAGGTTTATTCCTAAAAAACATT
* *
13274086 TGAAGTTATTTGTAGGTTTATGTCC-AAAAAATATT
1 TGAAGTTAATTGTAGGTTTAT-TCCTAAAAAACATT
13274121 TG
1 TG
13274123 GTTTATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (35 bp):
TGAAGTTAATTGTAGGTTTATTCCTAAAAAACATT
Found at i:13274907 original size:216 final size:216
Alignment explanation
Indices: 13274521--13274952 Score: 828
Period size: 216 Copynumber: 2.0 Consensus size: 216
13274511 AAAAAATATA
13274521 AGAAGTAAATGTTAATAAACGAGAACATAATTTAGCTTTTTATTTTTTTAAAGATATAACAACTT
1 AGAAGTAAATGTTAATAAACGAGAACATAATTTAGCTTTTTATTTTTTTAAAGATATAACAACTT
13274586 TATGAAATTTATACTAACCTTGAATGGTGTGGTCATAAAATCATATAAAACTATCTCCGCATAAA
66 TATGAAATTTATACTAACCTTGAATGGTGTGGTCATAAAATCATATAAAACTATCTCCGCATAAA
*
13274651 ACAAAGGACGTAATATCCATATTCAGTATATCCAGGTTAACGAGGTACCTGAAAATTAAATTGAG
131 ACAAAGGACGTAATATCCATATTCAGAATATCCAGGTTAACGAGGTACCTGAAAATTAAATTGAG
13274716 TAGGTTTAGGAAATATTTATC
196 TAGGTTTAGGAAATATTTATC
13274737 AGAAGTAAATGTTAATAAACGAGAACATAATTTAGCTTTTTATTTTTTTAAAGATATAACAACTT
1 AGAAGTAAATGTTAATAAACGAGAACATAATTTAGCTTTTTATTTTTTTAAAGATATAACAACTT
*
13274802 TATGAAATTTATACTAACCTTGAATGGTGTGGTCATAAAATTATATAAAACTATCTCCGCATAAA
66 TATGAAATTTATACTAACCTTGAATGGTGTGGTCATAAAATCATATAAAACTATCTCCGCATAAA
* *
13274867 ACAAAGGATGTAATATCCATATTCAGAATATCCGGGTTAACGAGGTACCTGAAAATTAAATTGAG
131 ACAAAGGACGTAATATCCATATTCAGAATATCCAGGTTAACGAGGTACCTGAAAATTAAATTGAG
13274932 TAGGTTTAGGAAATATTTATC
196 TAGGTTTAGGAAATATTTATC
13274953 TACACAAACT
Statistics
Matches: 212, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
216 212 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (216 bp):
AGAAGTAAATGTTAATAAACGAGAACATAATTTAGCTTTTTATTTTTTTAAAGATATAACAACTT
TATGAAATTTATACTAACCTTGAATGGTGTGGTCATAAAATCATATAAAACTATCTCCGCATAAA
ACAAAGGACGTAATATCCATATTCAGAATATCCAGGTTAACGAGGTACCTGAAAATTAAATTGAG
TAGGTTTAGGAAATATTTATC
Found at i:13277547 original size:25 final size:25
Alignment explanation
Indices: 13277516--13277590 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
13277506 CAGCAATGCG
*
13277516 TTCAGAAACACCATACAACAAACCA
1 TTCAGAAACACCATTCAACAAACCA
* * **
13277541 TTTAGAAACACTATTCAGGAAACCA
1 TTCAGAAACACCATTCAACAAACCA
*
13277566 TTCAAAAACACCATTCAACAAACCA
1 TTCAGAAACACCATTCAACAAACCA
13277591 ATATCAAACA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.17
Consensus pattern (25 bp):
TTCAGAAACACCATTCAACAAACCA
Found at i:13277580 original size:13 final size:13
Alignment explanation
Indices: 13277516--13277588 Score: 51
Period size: 13 Copynumber: 5.7 Consensus size: 13
13277506 CAGCAATGCG
*
13277516 TTCAGAAACACCA
1 TTCAAAAACACCA
* *
13277529 TACAACAA-ACCA
1 TTCAAAAACACCA
* * *
13277541 TTTAGAAACACTA
1 TTCAAAAACACCA
**
13277554 TTCAGGAA-ACCA
1 TTCAAAAACACCA
13277566 TTCAAAAACACCA
1 TTCAAAAACACCA
13277579 TTCAACAAAC
1 TTCAA-AAAC
13277589 CAATATCAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
12 17 0.39
13 23 0.52
14 4 0.09
ACGTcount: A:0.49, C:0.27, G:0.05, T:0.18
Consensus pattern (13 bp):
TTCAAAAACACCA
Found at i:13278560 original size:367 final size:365
Alignment explanation
Indices: 13277868--13279767 Score: 2352
Period size: 367 Copynumber: 5.2 Consensus size: 365
13277858 AAATTATAAG
* * ** *
13277868 TGAAGGCATTTTTCTGGCAAAAACACCTTCAGTAATCCTCTTAAAATTTTACTAGGAGATTATTG
1 TGAAGGTATTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTA-GAGATTATTG
** * * *
13277933 AAGGTGTTTTTTACTGAAAGATGCTTTTAATAATCCCAAAAAAATTTTAAAAGAAAATTATTGAA
65 AAGGCATTTTTTAGTGAAAGATGCCTTTAATAATCCCAAAAAATTTTTAAAAGAAAATTATTGAA
* * * *
13277998 GGCATTTAGCCT-AAAAAATGCCTTCAATAATTTTGTACAAAAATTATTGAAGGTGTATGATGAA
130 GGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGATGTA
* * * *
13278062 AAAAAAACCTTCAATAAATTCTTCTTAAAAATTTA-AGTGAACTACTGAAGGCATTTTTAGTAGA
195 AAAAATACCTTCAATAAATTCTTATTAAAAA-TTAGAGTGAATTATTGAAGGCATTTTTAGTAGA
* * * * * * * *
13278126 AAATTGCCTTCATTGATATT-CTCTTAATAGAAATGGAAGGAATTATTAAAAACATATTATCCAA
259 AAACTGCCTTCACTGATATTCCT-TTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCAA
* *
13278190 AAAATACCTTCAATAAATT-TCTTGAAAAAATTAGAGCAAATTAC
323 AAAATACCTTTAATAAATTCT-TTCAAAAAATTAGAG-AAATTAC
* * *
13278234 TGAAGGTGTTTTTCTAGCAAAAATACCTTCAATAATCCTCTTAAAATTTTACTAGTGGATTATTG
1 TGAAGGTATTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTAG-AGATTATTG
* * *
13278299 AAGGCATTTTTTAGT-AAATGATGCCTTTAATAATCCTAAACAATTTTTAAAAGGAAATTATTGA
65 AAGGCATTTTTTAGTGAAA-GATGCCTTTAATAATCCCAAAAAATTTTTAAAAGAAAATTATTGA
* * *
13278363 AGGCGTTTATCCTAAAAAAATGCCTTCAATAATTCTATACAAAAATTATTAAAGATGTATGATGT
129 AGGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGATGT
* *
13278428 AAAAAATACCTTCAATAAATTCTTCTTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAA
194 AAAAAATACCTTCAATAAATTCTTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGA
* * *
13278493 AAAATGCCTTCATTGATATTCCTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATACAAA
259 AAACTGCCTTCACTGATATTCCTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCAAA
13278558 AAATACCTTTAATAAATTCTTTCAAAAAATTAGAGAGAATTAC
324 AAATACCTTTAATAAATTCTTTCAAAAAATTAGAGA-AATTAC
* * *
13278601 TGAAGGCATTTTTCTGGTAAAAATGCCTTCAATAATCC-CTTAAAATTTTACTAAGAGATTATTG
1 TGAAGGTATTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACT-AGAGATTATTG
* * * * *
13278665 AAAGCATTTTTTTATTGAAAGACGCCTTTAATAATCCCAAAAAATTGTTAAAAGAAAATTATTAA
65 AAGGCA-TTTTTTAGTGAAAGATGCCTTTAATAATCCCAAAAAATTTTTAAAAGAAAATTATTGA
** * * *
13278730 AGGTGTTTATCCTCAAAAAATGCCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATGATGC
129 AGGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGATGT
* * *
13278795 AACAAAT-CCTTCAATAAATT-TCTATTAAAAATTAGAGTAAATTATTGAAGGTATTTTTAGTAG
194 AAAAAATACCTTCAATAAATTCT-TATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAG
* * * * *
13278858 AAAACTACCTTCACTAATATTCATCTGATAAAAATGGAGGGAATTATTGAAAGCGTATTATGCAA
258 AAAACTGCCTTCACTGATATTCCTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCAA
* *
13278923 AAAATACCTTTAATAAATTCTTTCAAAAAGTTAGAAGGAATTAC
323 AAAATACCTTTAATAAATTCTTTCAAAAAATTAG-AGAAATTAC
* *
13278967 TGAAGGTGTTTGTT-TAGCAAAAATGCCTTCAATAATCCAT-TTAAAATATTACTAGTAGATTAT
1 TGAAGGTATTT-TTCTAGCAAAAATGCCTTCAATAATCC-TCTTAAAATTTTACTAG-AGATTAT
* * * *
13279030 TAAAGGCATTTTTTAGTAAAAGCTGCCTTTAATAATCCCAAATAATTTTTAAAATGAAAATT-TT
63 TGAAGGCATTTTTTAGTGAAAGATGCCTTTAATAATCCCAAAAAATTTTTAAAA-GAAAATTATT
* * **
13279094 GAAGGCACTTATCCTAAAAAAAT-CCTTCAATAATTCTGTACAAAAATTATTGAAGGCATATGAT
127 GAAGGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGAT
* * * *
13279158 GTAAAAAAT-CCTTCAATAAATT-TCTGTTAAAAATTGGAGTAAATTACTGAAGGCATTTTTAGT
192 GTAAAAAATACCTTCAATAAATTCT-TATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGT
* * * * * *
13279221 AGAAAACTACCTTTACTGATATTCCCTTAATAAAAATAGAGAA--AATTATTGAAGGTGTATTAT
256 AGAAAACTGCCTTCACTGATATTCCTTTGATAAAAAT-G-GAAGGAATTATTGAAAGCGTATTAT
* *
13279284 GCAAAAAATGCCTTTAATAAATTCTTTCAAAAAGTTAGAGGAAATTAC
319 GCAAAAAATACCTTTAATAAATTCTTTCAAAAAATTAGA-GAAATTAC
* * * * *
13279332 TTAATGTATTTTT-TAGGCCAAAATGCCTTTAATAATCCCCTTAAAATTTTACTACGAGATTATT
1 TGAAGGTATTTTTCTA-GCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTA-GAGATTATT
* * * * *
13279396 GAAGGAATTTTTTTTATTGAAAGATGCCTTTAATAATCACAAAAAA-TTTTAAAAGTAAATTATG
64 GAAGGCA--TTTTTTAGTGAAAGATGCCTTTAATAATCCCAAAAAATTTTTAAAAGAAAATTATT
* * **
13279460 GAAAGCATTTAT-CTACAAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGGCATATG
127 GAAGGCATTTATCCT--AAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATG
* * *
13279524 ATGTAAAAAATACTTTTAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAG
190 ATGTAAAAAATACCTTCAATAAATTCTTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAG
* *
13279589 TAGAAAACTGTCTTCACGGATATTCGC-TTGATAAAAATGGAAGGAATTATTG-AAGACGTATTA
255 TAGAAAACTGCCTTCACTGATATTC-CTTTGATAAAAATGGAAGGAATTATTGAAAG-CGTATTA
* * *
13279652 TGTAAAAAACA-CTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTAT
318 TGCAAAAAATACCTTT-AATAAATTCTTTCAAAAAATTAGAG-AAATTAC
* *
13279701 TAAAGGCATTTTTTCTAGCAAAAATGCCTTCAATAATCC-CTTAAAATTTTACTAGTAGATTATT
1 TGAAGGTA-TTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTAG-AGATTATT
13279765 GAA
64 GAA
13279768 TGTATTTTAT
Statistics
Matches: 1342, Mismatches: 152, Indels: 77
0.85 0.10 0.05
Matches are distributed among these distances:
364 5 0.00
365 254 0.19
366 411 0.31
367 423 0.32
368 63 0.05
369 158 0.12
370 26 0.02
371 2 0.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (365 bp):
TGAAGGTATTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTAGAGATTATTGA
AGGCATTTTTTAGTGAAAGATGCCTTTAATAATCCCAAAAAATTTTTAAAAGAAAATTATTGAAG
GCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGATGTAA
AAAATACCTTCAATAAATTCTTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAA
ACTGCCTTCACTGATATTCCTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCAAAAA
ATACCTTTAATAAATTCTTTCAAAAAATTAGAGAAATTAC
Found at i:13278942 original size:366 final size:366
Alignment explanation
Indices: 13277868--13279767 Score: 2314
Period size: 366 Copynumber: 5.2 Consensus size: 366
13277858 AAATTATAAG
* ** * *
13277868 TGAAGGCATTTTTCTGGCAAAAACACCTTCAGTAATCCTCTTAAAATTTTACTAGGAGATTATTG
1 TGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTAGTAGATTATTG
* * *
13277933 -AAG-GTGTTTTTTACTGAAAGATGCTTTTAATAATCCCAAAAAAATTTTAAAAGAAAATTATTG
66 AAAGCAT-TTTTTTAGTGAAAGATGCCTTTAATAATCCC-AAAAAATTTTAAAAGAAAATTATTG
* * *
13277996 AAGGCATTTAGCCT-AAAAAATGCCTTCAATAATTTTGTACAAAAATTATTGAAGGTGTATGATG
129 AAGGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGATG
* * * * *
13278060 AAAAAAAAACCTTCAATAAA-TTCTTCTTAAAAATTTA-AGTGAACTACTGAAGGCATTTTTAGT
194 -TAAAAAATCCTTCAATAAATTTC-TATTAAAAA-TTAGAGTGAATTATTGAAGGCATTTTTAGT
* * * * * * * *
13278123 AGAAAATTGCCTTCATTGATATTCTCTTAATAGAAATGGAAGGAATTATTAAAAACATATTATCC
256 AGAAAACTGCCTTCACTGATATTCTCTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGC
* *
13278188 AAAAAATACCTTCAATAAATT-TCTTGAAAAAATTAGAGCA-AATTAC
321 AAAAAATACCTTTAATAAATTCT-TTCAAAAAATTAGAG-AGAATTAC
** * *
13278234 TGAAGGTGTTTTTCTAGCAAAAATACCTTCAATAATCCTCTTAAAATTTTACTAGTGGATTATTG
1 TGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTAGTAGATTATTG
* * * *
13278299 AAGGCA-TTTTTTAGT-AAATGATGCCTTTAATAATCCTAAACAATTTTTAAAAGGAAATTATTG
66 AAAGCATTTTTTTAGTGAAA-GATGCCTTTAATAATCCCAAA-AAATTTTAAAAGAAAATTATTG
* * *
13278362 AAGGCGTTTATCCTAAAAAAATGCCTTCAATAATTCTATACAAAAATTATTAAAGATGTATGATG
129 AAGGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGATG
*
13278427 TAAAAAATACCTTCAATAAA-TTCTTCTTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTA
194 TAAAAAAT-CCTTCAATAAATTTC-TATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTA
* * * *
13278491 AAAAAATGCCTTCATTGATATTC-CTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATAC
257 GAAAACTGCCTTCACTGATATTCTC-TTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGC
13278555 AAAAAATACCTTTAATAAATTCTTTCAAAAAATTAGAGAGAATTAC
321 AAAAAATACCTTTAATAAATTCTTTCAAAAAATTAGAGAGAATTAC
* *
13278601 TGAAGGCATTTTTCTGGTAAAAATGCCTTCAATAATCC-CTTAAAATTTTACTAAG-AGATTATT
1 TGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACT-AGTAGATTATT
* * *
13278664 GAAAGCATTTTTTTATTGAAAGACGCCTTTAATAATCCCAAAAAATTGTTAAAAGAAAATTATTA
65 GAAAGCATTTTTTTAGTGAAAGATGCCTTTAATAATCCCAAAAAATT-TTAAAAGAAAATTATTG
** * *
13278729 AAGGTGTTTATCCTCAAAAAATGCCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATGATG
129 AAGGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGATG
* * * *
13278794 CAACAAATCCTTCAATAAATTTCTATTAAAAATTAGAGTAAATTATTGAAGGTATTTTTAGTAGA
194 TAAAAAATCCTTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGA
* * *
13278859 AAACTACCTTCACTAATATTCATC-TGATAAAAATGGAGGGAATTATTGAAAGCGTATTATGCAA
259 AAACTGCCTTCACTGATATTC-TCTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCAA
*
13278923 AAAATACCTTTAATAAATTCTTTCAAAAAGTTAGA-AGGAATTAC
323 AAAATACCTTTAATAAATTCTTTCAAAAAATTAGAGA-GAATTAC
** *
13278967 TGAAGGTGTTTGTT-TAGCAAAAATGCCTTCAATAATCCAT-TTAAAATATTACTAGTAGATTAT
1 TGAAGGCATTT-TTCTAGCAAAAATGCCTTCAATAATCC-TCTTAAAATTTTACTAGTAGATTAT
* * *
13279030 T-AAAGGCA-TTTTTTAGTAAAAGCTGCCTTTAATAATCCCAAATAATTTTTAAAATGAAAATT-
64 TGAAA-GCATTTTTTTAGTGAAAGATGCCTTTAATAATCCCAAA-AAATTTTAAAA-GAAAATTA
* * **
13279092 TTGAAGGCACTTATCCTAAAAAAAT-CCTTCAATAATTCTGTACAAAAATTATTGAAGGCATATG
126 TTGAAGGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATG
* * * *
13279156 ATGTAAAAAATCCTTCAATAAATTTCTGTTAAAAATTGGAGTAAATTACTGAAGGCATTTTTAGT
191 ATGTAAAAAATCCTTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGT
* * * * * *
13279221 AGAAAACTACCTTTACTGATATTCCCTTAATAAAAATAGAGAA--AATTATTGAAGGTGTATTAT
256 AGAAAACTGCCTTCACTGATATTCTCTTGATAAAAAT-G-GAAGGAATTATTGAAAGCGTATTAT
* *
13279284 GCAAAAAATGCCTTTAATAAATTCTTTCAAAAAGTTAGAG-GAAATTAC
319 GCAAAAAATACCTTTAATAAATTCTTTCAAAAAATTAGAGAG-AATTAC
* * * * * *
13279332 TTAATGTATTTTT-TAGGCCAAAATGCCTTTAATAATCCCCTTAAAATTTTACTACG-AGATTAT
1 TGAAGGCATTTTTCTA-GCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTA-GTAGATTAT
* * * * * *
13279395 TGAAGGAATTTTTTTTATTGAAAGATGCCTTTAATAATCACAAAAAATTTTAAAAGTAAATTATG
64 TGAAAGCA-TTTTTTTAGTGAAAGATGCCTTTAATAATCCCAAAAAATTTTAAAAGAAAATTATT
* * **
13279460 GAAAGCATTTAT-CTACAAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGGCATATG
128 GAAGGCATTTATCCT--AAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATG
* * *
13279524 ATGTAAAAAATACTTTTAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAG
191 ATGTAAAAAAT-CCTTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAG
* * *
13279589 TAGAAAACTGTCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTG-AAGACGTATTAT
255 TAGAAAACTGCCTTCACTGATATTCTCTTGATAAAAATGGAAGGAATTATTGAAAG-CGTATTAT
* * *
13279653 GTAAAAAACA-CTTTCAATAAATTCTTTCAAAAAATTAGAGCA-AATTAT
319 GCAAAAAATACCTTT-AATAAATTCTTTCAAAAAATTAGAG-AGAATTAC
*
13279701 TAAAGGCATTTTTTCTAGCAAAAATGCCTTCAATAATCC-CTTAAAATTTTACTAGTAGATTATT
1 TGAAGGCA-TTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTAGTAGATTATT
13279765 GAA
65 GAA
13279768 TGTATTTTAT
Statistics
Matches: 1341, Mismatches: 143, Indels: 97
0.85 0.09 0.06
Matches are distributed among these distances:
364 6 0.00
365 253 0.19
366 418 0.31
367 416 0.31
368 61 0.05
369 160 0.12
370 25 0.02
371 2 0.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (366 bp):
TGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCTCTTAAAATTTTACTAGTAGATTATTG
AAAGCATTTTTTTAGTGAAAGATGCCTTTAATAATCCCAAAAAATTTTAAAAGAAAATTATTGAA
GGCATTTATCCTAAAAAAATGCCTTCAATAATTCTGTACAAAAATTATTAAAGGTGTATGATGTA
AAAAATCCTTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAA
ACTGCCTTCACTGATATTCTCTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCAAAAA
ATACCTTTAATAAATTCTTTCAAAAAATTAGAGAGAATTAC
Found at i:13279410 original size:733 final size:731
Alignment explanation
Indices: 13277868--13279764 Score: 2533
Period size: 733 Copynumber: 2.6 Consensus size: 731
13277858 AAATTATAAG
** * * *
13277868 TGAAGGCATTTTTCTGGCAAAAACACCTTCAGTAATCCTCTTAAAATTTTACTAGGAGATTATTG
1 TGAAGGCATTTTTCTGGCAAAAATGCCTTCAATAATCCCCTTAAAATTTTACTAAGAGATTATTG
* * * *
13277933 AAGG-TGTTTTTTACTGAAAGATGCTTTTAATAATCCCAAAAAAATTTTAAAAGAAAATTATTGA
66 AAGGATTTTTTTTATTGAAAGATGCCTTTAATAATCCC-AAAAAATTTTAAAAGAAAATTATTAA
* *
13277997 AGGCATTTAGCCT-AAAAAATGCCTTCAATAATTTTGTACAAAAATTATTGAAGGTGTATGATGA
130 AGGCATTTATCCTCAAAAAATGCCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATGATG-
* * * *
13278061 AAAAAAAACCTTCAATAAA-TTCTTCTTAAAAATTTA-AGTGAACTACTGAAGGCATTTTTAGTA
194 AAAAAAATCCTTCAATAAATTTC-TATTAAAAA-TTAGAGTGAATTATTGAAGGCATTTTTAGTA
* * * * * * * *
13278124 GAAAATTGCCTTCATTGATATTCTCTTAATAGAAATGGAAGGAATTATTAAAAACATATTATCCA
257 GAAAACTGCCTTCACTGATATTCTCTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCA
* *
13278189 AAAAATACCTTCAATAAATT-TCTTGAAAAAATTAGAGCAAATTACTGAAGGTGTTTTTCTAGCA
322 AAAAATACCTTTAATAAATTCT-TTCAAAAAATTAGAGCAAATTACTGAAGGTGTTTTTCTAGCA
* * * *
13278253 AAAATACCTTCAATAATCCTCTTAAAATTTTACTAGTGGATTATTGAAGGCATTTTTTAGTAAAT
386 AAAATGCCTTCAATAATCCT-TTAAAATTTTACTAGTAGATTATTAAAGGCATTTTTTAGTAAAA
* * **
13278318 GATGCCTTTAATAATCCTAAACAATTTTTAAAAGGAAATTATTGAAGGCGTTTATCCTAAAAAAA
450 GATGCCTTTAATAATCCCAAACAATTTTTAAAAGAAAATTATTGAAGGCACTTATCCTAAAAAAA
**
13278383 TGCCTTCAATAATTCTATACAAAAATTATTAAAGATGTATGATGTAAAAAATACCTTCAATAAAT
515 TGCCTTCAATAATTCTATACAAAAATTATTAAAGACATATGATGTAAAAAATACCTTCAATAAAT
* * * *
13278448 TCTTCTTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAATGCCTTCATTGATATT
580 TCTTCTTAAAAATTAGAGTAAATTACTGAAGGCATTTTTAGTAAAAAAATACCTTCACTGATATT
* *
13278513 CCTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATACAAAAAATACCTTTAATAAATTCT
645 CCCTTAATAAAAATGGAA-GAATTATTGAAAGCGTATTATACAAAAAATACCTTTAATAAATTCT
13278578 TTCAAAAAATTAGAGAGAATTAC
709 TTCAAAAAATTAGAGAGAATTAC
*
13278601 TGAAGGCATTTTTCTGGTAAAAATGCCTTCAATAAT-CCCTTAAAATTTTACTAAGAGATTATTG
1 TGAAGGCATTTTTCTGGCAAAAATGCCTTCAATAATCCCCTTAAAATTTTACTAAGAGATTATTG
* *
13278665 AAAGCA-TTTTTTTATTGAAAGACGCCTTTAATAATCCCAAAAAATTGTTAAAAGAAAATTATTA
66 -AAGGATTTTTTTTATTGAAAGATGCCTTTAATAATCCCAAAAAATT-TTAAAAGAAAATTATTA
**
13278729 AAGGTGTTTATCCTCAAAAAATGCCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATGATG
129 AAGGCATTTATCCTCAAAAAATGCCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATGATG
* * * *
13278794 CAACAAATCCTTCAATAAATTTCTATTAAAAATTAGAGTAAATTATTGAAGGTATTTTTAGTAGA
194 AAAAAAATCCTTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGA
* * *
13278859 AAACTACCTTCACTAATATTCATC-TGATAAAAATGGAGGGAATTATTGAAAGCGTATTATGCAA
259 AAACTGCCTTCACTGATATTC-TCTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCAA
* *
13278923 AAAATACCTTTAATAAATTCTTTCAAAAAGTTAGAAG-GAATTACTGAAGGTGTTTGTT-TAGCA
323 AAAATACCTTTAATAAATTCTTTCAAAAAATTAG-AGCAAATTACTGAAGGTGTTT-TTCTAGCA
*
13278986 AAAATGCCTTCAATAATCCATTTAAAATATTACTAGTAGATTATTAAAGGCATTTTTTAGTAAAA
386 AAAATGCCTTCAATAATCC-TTTAAAATTTTACTAGTAGATTATTAAAGGCATTTTTTAGTAAAA
* *
13279051 GCTGCCTTTAATAATCCCAAATAATTTTTAAAATGAAAATT-TTGAAGGCACTTATCCTAAAAAA
450 GATGCCTTTAATAATCCCAAACAATTTTTAAAA-GAAAATTATTGAAGGCACTTATCCTAAAAAA
* * *
13279115 AT-CCTTCAATAATTCTGTACAAAAATTATTGAAGGCATATGATGTAAAAAAT-CCTTCAATAAA
514 ATGCCTTCAATAATTCTATACAAAAATTATTAAAGACATATGATGTAAAAAATACCTTCAATAAA
* * * * *
13279178 TT-TCTGTTAAAAATTGGAGTAAATTACTGAAGGCATTTTTAGTAGAAAACTACCTTTACTGATA
579 TTCT-TCTTAAAAATTAGAGTAAATTACTGAAGGCATTTTTAGTAAAAAAATACCTTCACTGATA
* * * *
13279242 TTCCCTTAATAAAAATAGAGAA-AATTATTGAAGGTGTATTATGCAAAAAATGCCTTTAATAAAT
643 TTCCCTTAATAAAAAT-G-GAAGAATTATTGAAAGCGTATTATACAAAAAATACCTTTAATAAAT
*
13279306 TCTTTCAAAAAGTTAGAG-GAAATTAC
706 TCTTTCAAAAAATTAGAGAG-AATTAC
* * * * * *
13279332 TTAATGTATTTTT-TAGGCCAAAATGCCTTTAATAATCCCCTTAAAATTTTACTACGAGATTATT
1 TGAAGGCATTTTTCT-GGCAAAAATGCCTTCAATAATCCCCTTAAAATTTTACTAAGAGATTATT
* * *
13279396 GAAGGAATTTTTTTTATTGAAAGATGCCTTTAATAATCACAAAAAATTTTAAAAGTAAATTATGG
65 GAAGG-ATTTTTTTTATTGAAAGATGCCTTTAATAATCCCAAAAAATTTTAAAAGAAAATTAT-T
* **
13279461 AAA-GCATTTAT-CTACAAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGGCATATG
128 AAAGGCATTTATCCT-C-AAAAAATGCCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATG
* * * *
13279524 ATGTAAAAAATACTTTTAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAG
191 ATGAAAAAAAT-CCTTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAG
* * *
13279589 TAGAAAACTGTCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTG-AAGACGTATTAT
255 TAGAAAACTGCCTTCACTGATATTCTCTTGATAAAAATGGAAGGAATTATTGAAAG-CGTATTAT
* * * *
13279653 GTAAAAAACA-CTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCAT-TTTTTC
319 GCAAAAAATACCTTT-AATAAATTCTTTCAAAAAATTAGAGCAAATTACTGAAGG--TGTTTTTC
*
13279716 TAGCAAAAATGCCTTCAATAATCCCTTAAAATTTTACTAGTAGATTATT
381 TAGCAAAAATGCCTTCAATAATCCTTTAAAATTTTACTAGTAGATTATT
13279765 GAATGTATTT
Statistics
Matches: 1024, Mismatches: 109, Indels: 61
0.86 0.09 0.05
Matches are distributed among these distances:
730 3 0.00
731 172 0.17
732 132 0.13
733 458 0.45
734 231 0.23
735 27 0.03
736 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (731 bp):
TGAAGGCATTTTTCTGGCAAAAATGCCTTCAATAATCCCCTTAAAATTTTACTAAGAGATTATTG
AAGGATTTTTTTTATTGAAAGATGCCTTTAATAATCCCAAAAAATTTTAAAAGAAAATTATTAAA
GGCATTTATCCTCAAAAAATGCCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATGATGAA
AAAAATCCTTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAA
ACTGCCTTCACTGATATTCTCTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATGCAAAAA
ATACCTTTAATAAATTCTTTCAAAAAATTAGAGCAAATTACTGAAGGTGTTTTTCTAGCAAAAAT
GCCTTCAATAATCCTTTAAAATTTTACTAGTAGATTATTAAAGGCATTTTTTAGTAAAAGATGCC
TTTAATAATCCCAAACAATTTTTAAAAGAAAATTATTGAAGGCACTTATCCTAAAAAAATGCCTT
CAATAATTCTATACAAAAATTATTAAAGACATATGATGTAAAAAATACCTTCAATAAATTCTTCT
TAAAAATTAGAGTAAATTACTGAAGGCATTTTTAGTAAAAAAATACCTTCACTGATATTCCCTTA
ATAAAAATGGAAGAATTATTGAAAGCGTATTATACAAAAAATACCTTTAATAAATTCTTTCAAAA
AATTAGAGAGAATTAC
Found at i:13279944 original size:65 final size:63
Alignment explanation
Indices: 13279873--13280167 Score: 185
Period size: 62 Copynumber: 4.6 Consensus size: 63
13279863 AAATTGGATT
* *
13279873 GAATTATTGAAGGCATTTTTAGTAAAAAATTACCTTCACTGATATT-TGCTTGATAAAAATGGAA
1 GAATTATTGAAGGCATTTTTAGTAAAAAA-TGCCTTCAATGATATTCT--TTGATAAAAATGGAA
13279937 G
63 G
* * * * * * * * * * *
13279938 GAATTATTGAAGAC-GTATTATGTAGAAAACGCTTTCAAT-AAATTCTTTCAGAAAATTAG-AG
1 GAATTATTGAAGGCATTTTTA-GTAAAAAATGCCTTCAATGATATTCTTTGATAAAAATGGAAG
*
13279999 TGAATTATTGAAGGCATTTTTAGTAAAAAAAATGCCTTCATTGATATTCCTTTGATAAAAATGGA
1 -GAATTATTGAAGGCATTTTTAGT--AAAAAATGCCTTCAATGATATT-CTTTGATAAAAATGGA
13280064 AG
62 AG
* * * * * * * *
13280066 GAATTATTGAAAGCGTATTATA-CAAAAAATGCCTTTAAT-AAATTCTTTCA-AAAAAT-TAGAG
1 GAATTATTGAAGGCAT-TTTTAGTAAAAAATGCCTTCAATGATATTCTTTGATAAAAATGGA-AG
** *
13280127 AGAATTGCTGAAGGCATTTTTCTGGT-AAAAATGCCTTCAAT
1 -GAATTATTGAAGGCA-TTTT-TAGTAAAAAATGCCTTCAAT
13280168 AATCCCTTAA
Statistics
Matches: 173, Mismatches: 42, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
60 1 0.01
61 10 0.06
62 42 0.24
63 28 0.16
64 37 0.21
65 24 0.14
66 25 0.14
67 6 0.03
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (63 bp):
GAATTATTGAAGGCATTTTTAGTAAAAAATGCCTTCAATGATATTCTTTGATAAAAATGGAAG
Found at i:13279955 original size:306 final size:306
Alignment explanation
Indices: 13279467--13280038 Score: 867
Period size: 306 Copynumber: 1.9 Consensus size: 306
13279457 ATGGAAAGCA
* * *
13279467 TTTATCTACAAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGGCATATGATGTAAAA
1 TTTATCTACAAAAAAATACCTTCAATAATTATGTACAAAAATTATTAAAGGCATATAATGCAAAA
* * *
13279532 AATACTTTTAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAAAC
66 AATACATTCAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAC
**
13279597 TGTCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAAAAAAC
131 TACCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAAAAAAC
* **
13279662 ACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTTTCTAGCAAAAATG
196 ACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTTACTAAAAAAAATG
13279727 CCTTCAATAATCCCTTAAAATTTTACTAGTAGATTATTGAATGTAT
261 CCTTCAATAATCCCTTAAAATTTTACTAGTAGATTATTGAATGTAT
* **
13279773 TTTATCCT-CAAAAAAATACCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATAATGCAAA
1 TTTAT-CTACAAAAAAATACCTTCAATAATTATGTACAAAAATTATTAAAGGCATATAATGCAAA
* * * * *
13279837 AAATGCATTCAATAAATTTCTCTTAAAAATTGGATTGAATTATTGAAGGCATTTTTAGTAAAAAA
65 AAATACATTCAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAA
* * * *
13279902 TTACCTTCACTGATATTTGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAGAAAA
130 CTACCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAAAAAA
* * ** * *
13279967 CGCTTTCAATAAATTCTTTCAGAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAAAT
195 CACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTTACTAAAAAAAAT
13280032 GCCTTCA
260 GCCTTCA
13280039 TTGATATTCC
Statistics
Matches: 236, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
306 234 0.99
307 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (306 bp):
TTTATCTACAAAAAAATACCTTCAATAATTATGTACAAAAATTATTAAAGGCATATAATGCAAAA
AATACATTCAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAC
TACCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAAAAAAC
ACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTTACTAAAAAAAATG
CCTTCAATAATCCCTTAAAATTTTACTAGTAGATTATTGAATGTAT
Found at i:13280083 original size:128 final size:127
Alignment explanation
Indices: 13279844--13280147 Score: 393
Period size: 128 Copynumber: 2.4 Consensus size: 127
13279834 AAAAAATGCA
* * *
13279844 TTCAATAAATTTCTCTT-AAAAATTGGATTGAATTATTGAAGGCATTTTTAGTAAAAAATTACCT
1 TTCAATAAA-TTCT-TTCAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAATACCT
* ** *
13279908 TCACTGATATTTGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAGAAAACG-CT
64 TCACTGATATTTCCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATACAAAAAACGCCT
*
13279971 TTCAATAAATTCTTTCAGAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAAATGCCT
1 TTCAATAAATTCTTTCA-AAAATTAGAGTGAATTATTGAAGGCATTTTTAGT-AAAAAAATACCT
* *
13280036 TCATTGATA-TTCCTTTGATAAAAATGGAAGGAATTATTGAA-AGCGTATTATACAAAAAATGCC
64 TCACTGATATTTCC-TTGATAAAAATGGAAGGAATTATTGAAGA-CGTATTATACAAAAAACGCC
13280099 T
127 T
* **
13280100 TT-AATAAATTCTTTCAAAAAATTAGAGAGAATTGCTGAAGGCATTTTT
1 TTCAATAAATTCTTTC-AAAAATTAGAGTGAATTATTGAAGGCATTTTT
13280148 CTGGTAAAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
125 2 0.01
126 5 0.03
127 45 0.29
128 100 0.64
129 5 0.03
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (127 bp):
TTCAATAAATTCTTTCAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAATACCTTC
ACTGATATTTCCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATACAAAAAACGCCT
Found at i:13280095 original size:306 final size:304
Alignment explanation
Indices: 13279454--13280106 Score: 812
Period size: 306 Copynumber: 2.1 Consensus size: 304
13279444 TTAAAAGTAA
*
13279454 ATTATGGAAAGCAT-TTATCTACAAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGG
1 ATTATTGAAAGCATATTATC-ACAAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGG
* * * *
13279518 CATATGATGTAAAAAATACTTTTAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCAT
65 CATATAATGCAAAAAATACATTCAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCAT
* **
13279583 TTTTAGTAGAAAACTGTCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGT
130 TTTTAGTAAAAAACTACCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGT
13279648 ATTATGTAAAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTT
195 ATTATGTAAAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTT
* ** * ** *
13279713 TTCTAGCAAAAATGCCTTCAATAATCCCTTAAAATTTTACTAGTAG
260 TACTAAAAAAAATGCCTTCAATAATCCCTTAAAAATGGAC-AGGAG
* * * * * *
13279759 ATTATTGAATGTATTTTATCCTCAAAAAAATACCTTCAATAATTTTGTACAAAAATTATTAAAGG
1 ATTATTGAAAGCATATTAT-CACAAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGG
** * * * * *
13279824 TGTATAATGCAAAAAATGCATTCAATAAATTTCTCTTAAAAATTGGATTGAATTATTGAAGGCAT
65 CATATAATGCAAAAAATACATTCAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCAT
* * *
13279889 TTTTAGTAAAAAATTACCTTCACTGATATTTGCTTGATAAAAATGGAAGGAATTATTGAAGACGT
130 TTTTAGTAAAAAACTACCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGT
* * * ** *
13279954 ATTATGTAGAAAACGCTTTCAATAAATTCTTTCAGAAAATTAGAGTGAATTATTGAAGGCATTTT
195 ATTATGTAAAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTT
* * *
13280019 TAGTAAAAAAAATGCCTTCATTGATATTCCTTTGATAAAAATGGA-AGGA-
260 TACTAAAAAAAATGCCTTCA---ATAATCC-CT--TAAAAATGGACAGGAG
* *
13280068 ATTATTGAAAGCGTATTAT-AC-AAAAAATGCCTTTAATAA
1 ATTATTGAAAGCATATTATCACAAAAAAATGCCTTCAATAA
13280107 ATTCTTTCAA
Statistics
Matches: 294, Mismatches: 46, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
305 11 0.04
306 249 0.85
307 2 0.01
309 21 0.07
310 4 0.01
312 7 0.02
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (304 bp):
ATTATTGAAAGCATATTATCACAAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGGC
ATATAATGCAAAAAATACATTCAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATT
TTTAGTAAAAAACTACCTTCACGGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGTA
TTATGTAAAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTT
ACTAAAAAAAATGCCTTCAATAATCCCTTAAAAATGGACAGGAG
Found at i:13280669 original size:365 final size:363
Alignment explanation
Indices: 13279971--13281298 Score: 1601
Period size: 365 Copynumber: 3.6 Consensus size: 363
13279961 AGAAAACGCT
* * *
13279971 TTCAATAAA-TTCT-TTCAGAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAAATGC
1 TTCAATAAATTTCTATT-A-AAAATTAGAGTGAATTATTGAAGGCATTTTTAGT-AGAAAACTAC
* * * *
13280034 CTTCATTGATATTC-CTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATACAAAAAATGC
63 CTTCACTGATATTCTC-TTGATAAAAATGGAGGGAATTATTGAAAGCGTATTATGCAAAAAATAC
* * *
13280098 CTTTAATAAATTCTTTCAAAAAATTAGAGAGAATTGCTGAAGGCATTTTTCTGGTAAAAATGCCT
127 CTTTAATAAATTCTTTCAAAAAATTAGAGAGAATTACTGAAGGCATTTTTCTAGCAAAAATGCCT
*
13280163 TCAATAATCCCTTAAAATTTTACTAAGAGATTATTGAAA-GCATTTTTTATTGTAAGA-C-GCCT
192 TCAATAATCCCTTAAAATTTTACT-AGAGATTATT-AAAGGCATTTTTTA--GTAAAAGCTGCCT
* * * *
13280225 TTAATAATCCCAAAAAATTTTTAAAAGAAAATTATTAAAGGTGTTTATCCTCAAAAAATGCCTTC
253 TTAATAATTCCAAAAAATTTTTAAAAGAAAATTATTGAAGGCGTTTATCCTAAAAAAATGCCTTC
* **
13280290 AATAATTTTGTACAAAAATTATTAAAGGTGTATGATGCAACAAAACC
318 AATAATTATGTACAAAAATTATTAAAGGAATATGATGCAA-AAAACC
*
13280337 TTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGTATTTTTAGTAGAAAACTACCTT
1 TTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAAACTACCTT
*
13280402 CACTAATATTCATC-TGATAAAAATGGAGGGAATTATTGAAAGCGTATTATGCAAAAAATACCTT
66 CACTGATATTC-TCTTGATAAAAATGGAGGGAATTATTGAAAGCGTATTATGCAAAAAATACCTT
* **
13280466 TAATAAATTCTTTCAAAAAGTTAGA-AGGAATTACTGAAGGTGTTTGTT-TAGCAAAAATGCCTT
130 TAATAAATTCTTTCAAAAAATTAGAGA-GAATTACTGAAGGCATTT-TTCTAGCAAAAATGCCTT
* *
13280529 CAATAATCCATTTAAAATATTACTAGTAGATTATTAAAGGCATTTTTTAGTAAAAGCTGCCTTTA
193 CAATAATCC-CTTAAAATTTTACTAG-AGATTATTAAAGGCATTTTTTAGTAAAAGCTGCCTTTA
* *
13280594 ATAATTCCAAATAATTTTTAAAATGAAAATT-TTGAAGGCGCTTATCCTAAAAAAAT-CCTTCAA
256 ATAATTCCAAAAAATTTTTAAAA-GAAAATTATTGAAGGCGTTTATCCTAAAAAAATGCCTTCAA
* *
13280657 TAATTCTGTACAAAAATTATTGAAGGAATATGATGCAAAAAATCC
320 TAATTATGTACAAAAATTATTAAAGGAATATGATGCAAAAAA-CC
* * * *
13280702 TTCAATAAATTTCTGTTAAAAATTGGAGTAAATTACTGAAGGCATTTTTAGTAGAAAACTACCTT
1 TTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAAACTACCTT
* * * * ** * *
13280767 TACTGATATTCCCTTAATAAAAATAGAGAAAATTATTGAAGGTGTATTATGCAAAAAATACCTTT
66 CACTGATATTCTCTTGATAAAAATGGAGGGAATTATTGAAAGCGTATTATGCAAAAAATACCTTT
* * * * * * *
13280832 AATAAATTCTTTCAAACAGTTAGAG-GAAATTACTTAATGTATTTTT-TAGGCCAAAATGCCTTT
131 AATAAATTCTTTCAAAAAATTAGAGAG-AATTACTGAAGGCATTTTTCTA-GCAAAAATGCCTTC
* * * * *
13280895 AATAATCCCCTTAAAATTTTACTACGAGATTATTGAAGGAATTTTTTTTATTGAAAGATGCCTTT
194 AATAAT-CCCTTAAAATTTTACTA-GAGATTATTAAAGGCA--TTTTTTAGTAAAAGCTGCCTTT
** * * * * *
13280960 AATAA-TCACAAAAAAAATTTAAAAGTAAATTATGGAAAGCATTTATCTACAAAAAAAATGCCTT
255 AATAATTC-CAAAAAATTTTTAAAAGAAAATTATTGAAGGCGTTTATC--CTAAAAAAATGCCTT
* * *
13281024 CAATAATTATGTACAAAAATTATTAAAGGCATATGATGTAAAAAATACT
317 CAATAATTATGTACAAAAATTATTAAAGGAATATGATG-CAAAAA-ACC
* * **
13281073 TTTAATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAAACTGTCTT
1 TTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAAACTACCTT
* * * *
13281138 CACGGATATTCGCTTGATAAAAATGGAGGGAATTATTG-AAGACGTATTATGTAAAAAACA-CTT
66 CACTGATATTCTCTTGATAAAAATGGAGGGAATTATTGAAAG-CGTATTATGCAAAAAATACCTT
* *
13281201 TCAATAAATTCTTTCAAAAAATTAGAGCA-AATTATTAAAGGCATTTTTCTAGCAAAAATGCCTT
130 T-AATAAATTCTTTCAAAAAATTAGAG-AGAATTACTGAAGGCATTTTTCTAGCAAAAATGCCTT
13281265 CAATAATCCCTTAAAATTTTACTAGTAGATTATT
193 CAATAATCCCTTAAAATTTTACTAG-AGATTATT
13281299 GAATGTATTT
Statistics
Matches: 832, Mismatches: 96, Indels: 64
0.84 0.10 0.06
Matches are distributed among these distances:
364 16 0.02
365 371 0.45
366 134 0.16
367 61 0.07
368 2 0.00
369 10 0.01
370 70 0.08
371 165 0.20
372 3 0.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (363 bp):
TTCAATAAATTTCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAAACTACCTT
CACTGATATTCTCTTGATAAAAATGGAGGGAATTATTGAAAGCGTATTATGCAAAAAATACCTTT
AATAAATTCTTTCAAAAAATTAGAGAGAATTACTGAAGGCATTTTTCTAGCAAAAATGCCTTCAA
TAATCCCTTAAAATTTTACTAGAGATTATTAAAGGCATTTTTTAGTAAAAGCTGCCTTTAATAAT
TCCAAAAAATTTTTAAAAGAAAATTATTGAAGGCGTTTATCCTAAAAAAATGCCTTCAATAATTA
TGTACAAAAATTATTAAAGGAATATGATGCAAAAAACC
Found at i:13281352 original size:305 final size:305
Alignment explanation
Indices: 13281011--13281571 Score: 863
Period size: 305 Copynumber: 1.8 Consensus size: 305
13281001 TTTATCTACA
* * * *
13281011 AAAAAAATGCCTTCAATAATTATGTACAAAAATTATTAAAGGCATATGATGTAAAAAATACTTTT
1 AAAAAAATACCTTCAATAATTATGTACAAAAATTATTAAAGGCATATGATGCAAAAAATACATTC
* **
13281076 AATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAGAAAACTGTCTTCAC
66 AATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAACTACCTTCAC
*
13281141 GGATATTCGCTTGATAAAAATGGAGGGAATTATTGAAGACGTATTATGTAAAAAACACTTTCAAT
131 GGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAAAAAACACTTTCAAT
*
13281206 AAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTT-CTAGCAAAAATGCCTTCAATA
196 AAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTTACTA-AAAAAATGCCTTCAATA
13281270 ATCCCTTAAAATTTTACTAGTAGATTATTGAATGTATTTTATCCTC
260 ATCCCTTAAAATTTTACTAGTAGATTATTGAATGTATTTTATCCTC
* ** *
13281316 AAAAAAATACCTTCAATAATTTTGTACAAAAATTATTAAAGGTGTATGATGCAAAAAATGCATTC
1 AAAAAAATACCTTCAATAATTATGTACAAAAATTATTAAAGGCATATGATGCAAAAAATACATTC
* * * * *
13281381 AATAAATTTCTCTTAAAAATTGGATTGAATTATTGAAGGCATTTTTAGTAAAAAATTACCTTCAC
66 AATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAACTACCTTCAC
* * * *
13281446 TGATATTTGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAGAAAACGCTTTCAAT
131 GGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAAAAAACACTTTCAAT
* ** * *
13281511 AAATTCTTTCAGAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAATGCCTTCA
196 AAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTTACTAAAAAAATGCCTTCA
13281572 TTGATATTCC
Statistics
Matches: 228, Mismatches: 27, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
305 226 0.99
306 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (305 bp):
AAAAAAATACCTTCAATAATTATGTACAAAAATTATTAAAGGCATATGATGCAAAAAATACATTC
AATAAATTCCTATTAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAACTACCTTCAC
GGATATTCGCTTGATAAAAATGGAAGGAATTATTGAAGACGTATTATGTAAAAAACACTTTCAAT
AAATTCTTTCAAAAAATTAGAGCAAATTATTAAAGGCATTTTTACTAAAAAAATGCCTTCAATAA
TCCCTTAAAATTTTACTAGTAGATTATTGAATGTATTTTATCCTC
Found at i:13281478 original size:65 final size:63
Alignment explanation
Indices: 13281407--13281609 Score: 189
Period size: 65 Copynumber: 3.2 Consensus size: 63
13281397 AAATTGGATT
* *
13281407 GAATTATTGAAGGCATTTTTAGTAAAAAATTACCTTCACTGATATT-TGCTTGATAAAAATGGAA
1 GAATTATTGAAGGCATTTTTAGTAAAAAA-TGCCTTCAATGATATTCT--TTGATAAAAATGGAA
13281471 G
63 G
* * * * * * * * * * *
13281472 GAATTATTGAAGAC-GTATTATGTAGAAAACGCTTTCAAT-AAATTCTTTCAGAAAATTAG-AG
1 GAATTATTGAAGGCATTTTTA-GTAAAAAATGCCTTCAATGATATTCTTTGATAAAAATGGAAG
*
13281533 TGAATTATTGAAGGCATTTTTAGTAAAAAAATGCCTTCATTGATATTCCTTTGATAAAAATGGAA
1 -GAATTATTGAAGGCATTTTTAGT-AAAAAATGCCTTCAATGATATT-CTTTGATAAAAATGGAA
13281598 G
63 G
13281599 GAATTATTGAA
1 GAATTATTGAA
13281610 AGCGTATTAT
Statistics
Matches: 105, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
61 2 0.02
62 24 0.23
63 20 0.19
64 15 0.14
65 42 0.40
66 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (63 bp):
GAATTATTGAAGGCATTTTTAGTAAAAAATGCCTTCAATGATATTCTTTGATAAAAATGGAAG
Found at i:13281577 original size:127 final size:127
Alignment explanation
Indices: 13281378--13281680 Score: 409
Period size: 127 Copynumber: 2.4 Consensus size: 127
13281368 AAAAAATGCA
* * *
13281378 TTCAATAAATTTCTCTT-AAAAATTGGATTGAATTATTGAAGGCATTTTTAGTAAAAAATTACCT
1 TTCAATAAA-TTCT-TTCAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAATACCT
* **
13281442 TCACTGATATTTGC-TTGATAAAAATGGAAGGAATTATTG-AAGACGTATTATGTAGAAAACG-C
64 TCACTGATA-TTCCTTTGATAAAAATGGAAGGAATTATTGAAAG-CGTATTATACAGAAAACGCC
13281504 T
127 T
*
13281505 TTCAATAAATTCTTTCAGAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAATGCCTT
1 TTCAATAAATTCTTTCA-AAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAATACCTT
* *
13281570 CATTGATATTCCTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATACAGAAAATGCCT
65 CACTGATATTCCTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATACAGAAAACGCCT
* * *
13281633 TT-AATAAATTCTTTCAAAAAATTAGAGAGAATTACTAAAGGCATTTTT
1 TTCAATAAATTCTTTC-AAAAATTAGAGTGAATTATTGAAGGCATTTTT
13281681 CTGGTAAAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
125 2 0.01
126 8 0.05
127 140 0.89
128 8 0.05
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (127 bp):
TTCAATAAATTCTTTCAAAAATTAGAGTGAATTATTGAAGGCATTTTTAGTAAAAAAATACCTTC
ACTGATATTCCTTTGATAAAAATGGAAGGAATTATTGAAAGCGTATTATACAGAAAACGCCT
Found at i:13282883 original size:305 final size:304
Alignment explanation
Indices: 13282506--13283449 Score: 1304
Period size: 305 Copynumber: 3.1 Consensus size: 304
13282496 TAATCACAAA
** * * * *
13282506 AAAATTTTAAAAGTAAATTATGGAAAGCA-TTTAT-CTACAAAAAAAATACCTTCAATAATTATG
1 AAAATTTTACTAGTAGATTATTGAAGGCATTTTATCCT-C-AAAAAAATACCTTCAATAATTTTG
* * * * * * *
13282569 TACAAAAATTATTAAAGGCATATGATGTAAAAAATACTTTTAATAAATTCCTATTAAAAATTAGA
64 TACAAAAATTATTAAAGGCGTATGATGCAAAAAATGCATTTAATAAATTTCTCTTAAAAATTGGA
* *
13282634 GTGAATTATTGAAGGCATTTTTAGTAGAAAACTGTCTTCACGGATATTCGCTTGATAAAAATGGA
129 GTGAATTATTGAAGGCATTTTTAGTAGAAAATTG-CTTCACTGATATTCGCTTGATAAAAATGGA
*
13282699 AGGAATTATTGAAGACGTATTATGTAAAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCA
193 AGGAATTATTGAAGACGTATTATGTAGAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCA
*
13282764 AATTATTAAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCCTT
258 AATTATTGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCCTT
* *
13282811 AAAATTTTACTAGTAGATTATTGAATGTATTTTATCCTCAAAAAAATACCTTCAATAATTTTGTA
1 AAAATTTTACTAGTAGATTATTGAAGGCATTTTATCCTCAAAAAAATACCTTCAATAATTTTGTA
* * *
13282876 CAAAAATTATTAAAGGTGTATGATGCAAAAAATGCATTTAATGAATTTCTCTTAAAAATTGGATT
66 CAAAAATTATTAAAGGCGTATGATGCAAAAAATGCATTTAATAAATTTCTCTTAAAAATTGGAGT
* * * * *
13282941 GAATTATTGAAGGCATTTTTAGTAAAAAATTACCTTCACTGATATTTGGTTGATAAAAGTGGAAG
131 GAATTATTGAAGGCATTTTTAGTAGAAAATT-GCTTCACTGATATTCGCTTGATAAAAATGGAAG
* * **
13283006 GAATTATTGAAGACGTATTATGTAGAAAACGCTTTCAATAAATTCTTTCAGAAAATTAGAGTGAA
195 GAATTATTGAAGACGTATTATGTAGAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAA
13283071 TTATTGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCCTTT
260 TTATTGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCC-TT
* *
13283117 AAAATTTTGCTAGTAGATTATTGAAGGCATTTTATCCTC-AAAAAATGCCTTCAATAATTTTGTA
1 AAAATTTTACTAGTAGATTATTGAAGGCATTTTATCCTCAAAAAAATACCTTCAATAATTTTGTA
* ** *
13283181 CAAAAATTATTAAGGGCGTATGATGCAAAAAATGCATTCGATAAATTTCTCTTACAAATTGGAGT
66 CAAAAATTATTAAAGGCGTATGATGCAAAAAATGCATTTAATAAATTTCTCTTAAAAATTGGAGT
* * * *
13283246 GAATTATTGAAGTCATTTTTGGTAGAAAATTGCTTTCACTAATATTC-CTTTGATAAAAATGGAT
131 GAATTATTGAAGGCATTTTTAGTAGAAAATTGC-TTCACTGATATTCGC-TTGATAAAAATGGAA
* ** ** **
13283310 GGAATTATTTAAGGTGTATTATGTAGAAAACACTTTCAATAAATTCCCTCAAAAAATTAGAGGTA
194 GGAATTATTGAAGACGTATTATGTAGAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCAA
* * *
13283375 ATTAGTGAAGGCATTTTTCTGGCAAAAATGCCTTCAATAATCTCTTT
259 ATTATTGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATC-CCTT
*
13283422 AAAATTTTACTA-TGAGATTATTAAAGGC
1 AAAATTTTACTAGT-AGATTATTGAAGGC
13283450 GCCTATAATA
Statistics
Matches: 567, Mismatches: 64, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
304 2 0.00
305 518 0.91
306 45 0.08
307 2 0.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (304 bp):
AAAATTTTACTAGTAGATTATTGAAGGCATTTTATCCTCAAAAAAATACCTTCAATAATTTTGTA
CAAAAATTATTAAAGGCGTATGATGCAAAAAATGCATTTAATAAATTTCTCTTAAAAATTGGAGT
GAATTATTGAAGGCATTTTTAGTAGAAAATTGCTTCACTGATATTCGCTTGATAAAAATGGAAGG
AATTATTGAAGACGTATTATGTAGAAAACACTTTCAATAAATTCTTTCAAAAAATTAGAGCAAAT
TATTGAAGGCATTTTTCTAGCAAAAATGCCTTCAATAATCCCTT
Found at i:13289477 original size:140 final size:140
Alignment explanation
Indices: 13289249--13289507 Score: 342
Period size: 140 Copynumber: 1.9 Consensus size: 140
13289239 ATTAATAGCG
* * * **
13289249 ATTGTTCTATTTTAATAGTTTTGATAGTTTCAATACATGATATTGAACTTATTGAAAGTATTAAA
1 ATTGTTCTATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTATCCAAAGTATTAAA
**
13289314 CTTAGTTGCCACGGTTGATATGTATGAAAAAGTTATTGTTTACATCTATTTAGGTAAAAATTCAA
66 CTTAGTTGCCACGGTTGATATGTATGAAAAAGTTATCATTTACATCTATTTAGGTAAAAATTCAA
13289379 ATTTGTTGTT
131 ATTTGTTGTT
* * * *
13289389 ATTGTTCTATTTTAACAGTTTGGATAGCTTT-AATACTTGATATTAAACTTGTCC-AATTGATTG
1 ATTGTTCTATTTTAACAGTTTGGATAG-TTTCAATACATGATATTAAACTTATCCAAAGT-ATTA
* * * **
13289452 AACTTGGTTTCTACGGTTGATATGTATGAAAAAGTTATCATTTATGTCTATTTAGG
64 AACTTAGTTGCCACGGTTGATATGTATGAAAAAGTTATCATTTACATCTATTTAGG
13289508 ACTATTTTTG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
139 3 0.03
140 95 0.94
141 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (140 bp):
ATTGTTCTATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTATCCAAAGTATTAAA
CTTAGTTGCCACGGTTGATATGTATGAAAAAGTTATCATTTACATCTATTTAGGTAAAAATTCAA
ATTTGTTGTT
Found at i:13293319 original size:674 final size:675
Alignment explanation
Indices: 13290220--13293469 Score: 5736
Period size: 671 Copynumber: 4.8 Consensus size: 675
13290210 TCGATCATCT
* *
13290220 TATGAATTTTATGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACTAACTCAGGTATTTT
1 TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
* *
13290285 ATTTATTAAATATTTATATTTTTTAATATAAAAACGCTTATTATTAAGTGTTAAAACTTGTATAA
66 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAAGTGTTAAAACTTGTATGA
13290350 TATTATTCAGTAGGTTCTTGAGCACGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGCA
131 TATTATTCAGTAGGTTCTTGAGCACGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGCA
* *
13290415 GTTTTCCAAATTTATGCAGTTATTAATTTCATTA-ATTTTAATTTTTTTTGTTAATGTATTAAAA
196 GTTTTCCAAATCTATGCAGTTATAAATTTCA-TACATTTTAATTTTTTTTGTTAATGTATTAAAA
* * *
13290479 TAATTTGAATGCTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAACACGAATT
260 AAATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAACATGAATT
*
13290544 AAGTATTTATTAATTTCAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTA
325 AAGTATTTATTAATTTTAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTA
* *
13290609 ATGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAATAAATTTATTAATTTTACGGCAT
390 ATGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTACGGCAT
* * *
13290674 TTACGTTCAAGAATGCTGTTAAATTCTAAATTTAGTGGCATTTGTACCATAAAATGCCACTAAAA
455 TTACGTTCAAGAATGCCGCTAAATTCTAAATTTAGTGGCATTTGTACCATAAAACGCCACTAAAA
13290739 GTAGCGGTGTTCTTATAAAAAAAAATGCTGCTAAATTAGCGGCATTCCAATCATAAAAATGCCAC
520 GTAGCGGTGTTCTTAT--AAAAAAATGCTGCTAAATTAGCGGCATTCCAATCATAAAAATGCCAC
*
13290804 TTAATTAGAGCTTTTTTTTTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAA
583 TTAATTAGAGTTTTTTTTTTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAA
13290869 ATGCCCCTAATTAAGTAGCATCTTATCA
648 ATGCCCCTAATTAAGTAGCATCTTATCA
13290897 TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
1 TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
*
13290962 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAAGTGTTAAAACTTGTAAGA
66 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAAGTGTTAAAACTTGTATGA
*
13291027 TATTATTCAGTAGGTTCTTGAGCATGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGCA
131 TATTATTCAGTAGGTTCTTGAGCACGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGCA
*
13291092 GTTTTCCAAATCTATGTAGTTATAAATTTCATACATTTTAATTTTTTTTTGTTAATGTATTAAAA
196 GTTTTCCAAATCTATGCAGTTATAAATTTCATACATTTTAA-TTTTTTTTGTTAATGTATTAAAA
13291157 AAATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAACATGAATT
260 AAATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAACATGAATT
*
13291222 AAGTATTTATTAATTTTAGTTTCTGAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTA
325 AAGTATTTATTAATTTTAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTA
*
13291287 ATGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTACGGAAT
390 ATGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTACGGCAT
* * *
13291352 TTACGTTCAAGAATGCTGCTAAATTCTAAATTTAGTAGCATTTGTACCATAAAACGTCACTAAAA
455 TTACGTTCAAGAATGCCGCTAAATTCTAAATTTAGTGGCATTTGTACCATAAAACGCCACTAAAA
13291417 GTAGCGGTGTTCTTATAAAAAAATGCTGCTAAATTAGCGG--TT-CAATCATAAAAATGCCACTT
520 GTAGCGGTGTTCTTATAAAAAAATGCTGCTAAATTAGCGGCATTCCAATCATAAAAATGCCACTT
13291479 AATTAGAGCTTTTTTTTTTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAAA
585 AATTAGAG-TTTTTTTTTTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAAA
*
13291544 TGCCCTTAATTAAGTAGCATCTTATCA
649 TGCCCCTAATTAAGTAGCATCTTATCA
13291571 TATGAATTTTGTG---CAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
1 TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
*
13291633 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAAGTGTTAAAACTTATATGA
66 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAAGTGTTAAAACTTGTATGA
** * **
13291698 TATTATTCAGTAGGTTCTTGAGCACGCTAGTGATAAAGATAGAAAAATTCCTTCATTAAATGATA
131 TATTATTCAGTAGGTTCTTGAGCACGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGCA
*
13291763 GTTTTCCAAATCTATGCAGTTATCAATTTCATACATTTTAATTTTTTTTGTTAATGTATTAAAAA
196 GTTTTCCAAATCTATGCAGTTATAAATTTCATACATTTTAATTTTTTTTGTTAATGTATTAAAAA
* *
13291828 TATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAATATGAATTA
261 AATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAACATGAATTA
*
13291893 AGTATTTATTAATTTTAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACACTTCTTATTAA
326 AGTATTTATTAATTTTAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTAA
**
13291958 TGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTATAGCATT
391 TGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTACGGCATT
* *
13292023 TACGTTCAAGAATGCCGCTAAATTCTAAATTTAGTAGCATTTGTACCATAAAACGTCACTAAAAG
456 TACGTTCAAGAATGCCGCTAAATTCTAAATTTAGTGGCATTTGTACCATAAAACGCCACTAAAAG
*
13292088 TAGCGGTGTTCTTATAAAAAAATGCTGCTAAATTAACGGCATTCCAATCATAAAAATGCCACTTA
521 TAGCGGTGTTCTTATAAAAAAATGCTGCTAAATTAGCGGCATTCCAATCATAAAAATGCCACTTA
* *
13292153 ATTAGAG---CTTTTCTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAAATG
586 ATTAGAGTTTTTTTTTTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAAATG
13292215 CCCCTAATTAAGTAGCATCTTATCA
651 CCCCTAATTAAGTAGCATCTTATCA
*
13292240 TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGATGGTCCACCAACTCAGGTATTTT
1 TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
13292305 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAA-TGTTAAAACTTGTATGA
66 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAAGTGTTAAAACTTGTATGA
*
13292369 TATTATTCAGTAGGTTCTTGAGCACGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGTA
131 TATTATTCAGTAGGTTCTTGAGCACGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGCA
*
13292434 G-TTTCTCAAATCTATGCAGTTATCAATTTCATACATTTTAATTTTTTTTGTTAATGTATTAAAA
196 GTTTTC-CAAATCTATGCAGTTATAAATTTCATACATTTTAATTTTTTTTGTTAATGTATTAAAA
* *
13292498 ATATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCGTATTGAACATGAATT
260 AAATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAACATGAATT
*
13292563 AAGTATTTATTAATTTTAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACACTTCTTATTA
325 AAGTATTTATTAATTTTAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTA
* *
13292628 ATGAAAATAATAAATATTAACAAAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTACAGCAT
390 ATGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTACGGCAT
*
13292693 TTACGTTCAAGAATGCCGTTAAATTCTAAATTTAGTGGCATTTGTACCATAAAACGCCACTAAAA
455 TTACGTTCAAGAATGCCGCTAAATTCTAAATTTAGTGGCATTTGTACCATAAAACGCCACTAAAA
*
13292758 GTAGCGGTGCTT-TTATAAAAAAATGTTGCTAAATTAGCGGCATTCCAATCATAAAAATGCCACT
520 GTAGCGGTG-TTCTTATAAAAAAATGCTGCTAAATTAGCGGCATTCCAATCATAAAAATGCCACT
13292822 TAATT-GAGTTTTTTTTTTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAAA
584 TAATTAGAGTTTTTTTTTTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAAA
13292886 TGCCCCTAATTAAGTAGCATCTTATCA
649 TGCCCCTAATTAAGTAGCATCTTATCA
13292913 TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
1 TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
* *
13292978 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAGGTGTTAAAGCTTGTATGA
66 ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAAGTGTTAAAACTTGTATGA
* *
13293043 TATTATTCAGTAGGTTCTTGAGCATGCTAGTGACAAAGGTAGAAAAATTCCTTCATTAAATGGCA
131 TATTATTCAGTAGGTTCTTGAGCACGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGCA
*
13293108 GTTTTCCAAATATATGCAGTTATAAATTTCATACATTTTAATTTTTTTTGTTAATGTATTAAAAA
196 GTTTTCCAAATCTATGCAGTTATAAATTTCATACATTTTAATTTTTTTTGTTAATGTATTAAAAA
* *
13293173 AAATTGAATGTTATTATACTAATTATAAACTTTGTGCTTATTAGATGCATATTGAACATGAATTA
261 AATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAACATGAATTA
* * *
13293238 AGTATTTATTAATTTCAATTTCTGAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTAA
326 AGTATTTATTAATTTTAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTAA
*
13293303 TGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTATGGCATT
391 TGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTACGGCA-T
* *
13293368 TTATGTTCAAGAATGCCACTAAATTCTAAATTTAGTGGCATTTGTACCATAAAACGCCACTAAAA
455 TTACGTTCAAGAATGCCGCTAAATTCTAAATTTAGTGGCATTTGTACCATAAAACGCCACTAAAA
*
13293433 GTAACGGTGTTCTTATAAAAAAATGCTGCTAAATTAG
520 GTAGCGGTGTTCTTATAAAAAAATGCTGCTAAATTAG
13293470 AAAATAAAAC
Statistics
Matches: 2469, Mismatches: 86, Indels: 38
0.95 0.03 0.01
Matches are distributed among these distances:
669 90 0.04
670 321 0.13
671 663 0.27
672 99 0.04
673 244 0.10
674 416 0.17
675 99 0.04
676 26 0.01
677 224 0.09
678 287 0.12
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.42
Consensus pattern (675 bp):
TATGAATTTTGTGCAACAACAATTTTTAGGAACTAATCTCGGTGGTCCACCAACTCAGGTATTTT
ATTTATTAAATATTTATATTTTTTAATATAAAAAAGCTTATTATTAAGTGTTAAAACTTGTATGA
TATTATTCAGTAGGTTCTTGAGCACGCTAGTGACCAAGGTAGAAAAATTCCTTCATTAAATGGCA
GTTTTCCAAATCTATGCAGTTATAAATTTCATACATTTTAATTTTTTTTGTTAATGTATTAAAAA
AATTTGAATGTTATTATACTAATTATAAACTTTGTGTTTATTAGATGCATATTGAACATGAATTA
AGTATTTATTAATTTTAGTTTCTAAATTTAAGTTCATTTTTATTTCTTTTAACATTTCTTATTAA
TGAAAATAATAAATATTAACAGAAATTTTTTATAAAAAAAGTAAATTTCTTAATTTTACGGCATT
TACGTTCAAGAATGCCGCTAAATTCTAAATTTAGTGGCATTTGTACCATAAAACGCCACTAAAAG
TAGCGGTGTTCTTATAAAAAAATGCTGCTAAATTAGCGGCATTCCAATCATAAAAATGCCACTTA
ATTAGAGTTTTTTTTTTTTTTTATGTAAATGCTATTAATTTAGTGACATTTTCTAGATACAAATG
CCCCTAATTAAGTAGCATCTTATCA
Found at i:13309480 original size:3 final size:3
Alignment explanation
Indices: 13309472--13309501 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13309462 TATATTTACG
13309472 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13309502 TATTTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:13310461 original size:16 final size:16
Alignment explanation
Indices: 13310436--13310468 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13310426 ATTTTTTTAA
13310436 AAAAAGAATAATAAAT
1 AAAAAGAATAATAAAT
*
13310452 AAAAATAATAATAAAT
1 AAAAAGAATAATAAAT
13310468 A
1 A
13310469 TTTTTAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAAGAATAATAAAT
Found at i:13319042 original size:64 final size:64
Alignment explanation
Indices: 13318835--13319044 Score: 210
Period size: 65 Copynumber: 3.3 Consensus size: 64
13318825 CTTGGTTCAT
* * * * *
13318835 TCTAGATCATTTTATTTGTTTGACCCATAGTTCAATCCCAGTCACTCGTTTTGATCTTAACTTAG
1 TCTAGATCATTTTATTTTTTTGACACATAGTTCAAT-CCAGTTACTTGTTTTGATCTCAACTTAG
* * ** * * **
13318900 TCTAGATTATTTTATTTTTTTGACTCACGGTTCAATCCTAGTTACCTATTTTGATCTC-GGTTCA
1 TCTAGATCATTTTATTTTTTTGACACATAGTTCAATCC-AGTTACTTGTTTTGATCTCAACTT-A
*
13318964 A
64 G
* *
13318965 TCTAGATCA-TTTATTTTTTTGACACATAGCTCAATCTCAATTA-TTGTTTTGATCTCAACTTAG
1 TCTAGATCATTTTATTTTTTTGACACATAGTTCAATC-CAGTTACTTGTTTTGATCTCAACTTAG
*
13319028 TCCAGATCATTTTATTT
1 TCTAGATCATTTTATTT
13319045 CTTGTTTTGC
Statistics
Matches: 115, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
63 20 0.17
64 40 0.35
65 55 0.48
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (64 bp):
TCTAGATCATTTTATTTTTTTGACACATAGTTCAATCCAGTTACTTGTTTTGATCTCAACTTAG
Found at i:13319394 original size:9 final size:9
Alignment explanation
Indices: 13319366--13319457 Score: 58
Period size: 9 Copynumber: 10.2 Consensus size: 9
13319356 CATATTGTAT
*
13319366 TTACAATTA
1 TTACTATTA
* *
13319375 TTATTACTA
1 TTACTATTA
13319384 TTACTATTA
1 TTACTATTA
*
13319393 TTATTATTA
1 TTACTATTA
* *
13319402 CTACTACTA
1 TTACTATTA
* ** *
13319411 CTACTGCTG
1 TTACTATTA
*
13319420 CTACTATTA
1 TTACTATTA
*
13319429 TTATTATTA
1 TTACTATTA
*
13319438 TTATTATTA
1 TTACTATTA
*
13319447 TTATTATTA
1 TTACTATTA
13319456 TT
1 TT
13319458 TATTTCTAAT
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 67 1.00
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (9 bp):
TTACTATTA
Found at i:13319430 original size:3 final size:3
Alignment explanation
Indices: 13319424--13319457 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13319414 CTGCTGCTAC
13319424 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13319458 TATTTCTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13319553 original size:51 final size:52
Alignment explanation
Indices: 13319498--13319596 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 52
13319488 TGTTCATTCT
* *
13319498 TTTATTCATAAGTTGACTCATTGACAGAATT-AAAAAAAGAAAGGAATTTCC
1 TTTATTCATAAGTTGACTCATTGAAAAAATTGAAAAAAAGAAAGGAATTTCC
* * * **
13319549 TTTATTCATGATTTGATTCATTGAAAAAATTGAAAAAGGGAAAGGAAT
1 TTTATTCATAAGTTGACTCATTGAAAAAATTGAAAAAAAGAAAGGAAT
13319597 AAATCGATAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 26 0.65
52 14 0.35
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (52 bp):
TTTATTCATAAGTTGACTCATTGAAAAAATTGAAAAAAAGAAAGGAATTTCC
Found at i:13324519 original size:7 final size:7
Alignment explanation
Indices: 13324498--13324564 Score: 98
Period size: 7 Copynumber: 9.6 Consensus size: 7
13324488 CAATGGGAGG
13324498 TTGGAAA
1 TTGGAAA
**
13324505 TTATAAA
1 TTGGAAA
*
13324512 TTGAAAA
1 TTGGAAA
13324519 TTGGAAA
1 TTGGAAA
*
13324526 GTGGAAA
1 TTGGAAA
13324533 TTGGAAA
1 TTGGAAA
13324540 TTGGAAA
1 TTGGAAA
13324547 TTGGAAA
1 TTGGAAA
13324554 TTGGAAA
1 TTGGAAA
13324561 TTGG
1 TTGG
13324565 CATATGGTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (7 bp):
TTGGAAA
Found at i:13328492 original size:15 final size:16
Alignment explanation
Indices: 13328460--13328500 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
13328450 TTTCCTCTTA
*
13328460 ATATTATAATTATTTT
1 ATATTATAAATATTTT
13328476 ATATTATAAAT-TTTT
1 ATATTATAAATATTTT
*
13328491 ATATTTTAAA
1 ATATTATAAA
13328501 ATTAATGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTATAAATATTTT
Done.