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 62 of 129
Found at i:11946704 original size:3 final size:3
Alignment explanation
Indices: 11946696--11946740 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
11946686 ACACTTACCC
11946696 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11946741 CATCATCATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11946745 original size:3 final size:3
Alignment explanation
Indices: 11946739--11946767 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11946729 AATAATAATA
11946739 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
11946768 AAATATCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:11947433 original size:10 final size:9
Alignment explanation
Indices: 11947411--11947480 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
11947401 TATATGTTAA
11947411 ATTAAAAAT
1 ATTAAAAAT
11947420 ATTAAAAAT
1 ATTAAAAAT
11947429 GATTAAAAAT
1 -ATTAAAAAT
* * * *
11947439 AGTCATATT
1 ATTAAAAAT
11947448 ATTAAAATAT
1 ATTAAAA-AT
**
11947458 ATT-ATTAT
1 ATTAAAAAT
11947466 ATTAAACAAT
1 ATTAAA-AAT
11947476 ATTAA
1 ATTAA
11947481 TTATAAAAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
8 5 0.11
9 20 0.44
10 20 0.44
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:11947468 original size:18 final size:19
Alignment explanation
Indices: 11947447--11947485 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
11947437 ATAGTCATAT
11947447 TATTAAA-ATATATT-ATTA
1 TATTAAACA-ATATTAATTA
11947465 TATTAAACAATATTAATTA
1 TATTAAACAATATTAATTA
11947484 TA
1 TA
11947486 AAAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTAAACAATATTAATTA
Found at i:11947494 original size:18 final size:17
Alignment explanation
Indices: 11947444--11947494 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
11947434 AAAATAGTCA
*
11947444 TATTATTAAAAT-ATAT
1 TATTATAAAAATAATAT
* *
11947460 TATTATATTAAACAATAT
1 TATTATA-AAAATAATAT
11947478 TAATTATAAAAATAATA
1 T-ATTATAAAAATAATA
11947495 AAAATTGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 6 0.22
17 3 0.11
18 12 0.44
19 6 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTATAAAAATAATAT
Found at i:11947601 original size:15 final size:15
Alignment explanation
Indices: 11947583--11947621 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
11947573 AAATTTATGT
*
11947583 TTAAAATATACCAAA
1 TTAAAATATACAAAA
**
11947598 TTAAAATATTTAAAA
1 TTAAAATATACAAAA
11947613 TTAAAATAT
1 TTAAAATAT
11947622 TAGAAAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAAAATATACAAAA
Found at i:11950628 original size:2 final size:2
Alignment explanation
Indices: 11950621--11950662 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
11950611 TAAGCTATGT
* *
11950621 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA -A TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11950662 T
1 T
11950663 TTTATTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11958463 original size:6 final size:6
Alignment explanation
Indices: 11958452--11958477 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11958442 GCATGCACAC
11958452 ATGTAT ATGTAT ATGTAT ATGTAT AT
1 ATGTAT ATGTAT ATGTAT ATGTAT AT
11958478 ATACATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:11960718 original size:16 final size:16
Alignment explanation
Indices: 11960697--11960747 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
11960687 GGGTATTTAG
11960697 TAATTTAATATGTAAT
1 TAATTTAATATGTAAT
11960713 TAATTTTATATTATGATAA-
1 TAA-TTTA-A-TATG-TAAT
11960732 -AATTTAATATGTAAT
1 TAATTTAATATGTAAT
11960747 T
1 T
11960748 TAATAGAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
14 3 0.10
15 4 0.14
16 4 0.14
17 8 0.28
18 3 0.10
19 4 0.14
20 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TAATTTAATATGTAAT
Found at i:11963276 original size:62 final size:62
Alignment explanation
Indices: 11963170--11963295 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
11963160 ATTGTAATGT
*
11963170 TTCTTTGCAAAACGCTAATTCCCTGTATTCCGGTATTATATATACTTCGTATGGTCGCTTAA
1 TTCTTTGCAAAACGCTAATTCCCTGTATTCCGGTATTATATATACTTCGTATGGCCGCTTAA
* * *
11963232 TTCTTTGCAAAACGCTAATTTCCTGTATTCCGGTGTTATGTATACTTCGTATGGCCGCTTAA
1 TTCTTTGCAAAACGCTAATTCCCTGTATTCCGGTATTATATATACTTCGTATGGCCGCTTAA
11963294 TT
1 TT
11963296 TTGCTTCTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (62 bp):
TTCTTTGCAAAACGCTAATTCCCTGTATTCCGGTATTATATATACTTCGTATGGCCGCTTAA
Found at i:11967879 original size:17 final size:16
Alignment explanation
Indices: 11967857--11967900 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
11967847 AGTTGAGTTT
*
11967857 TTTATTTTTTATTGTAA
1 TTTATTTTTT-TTATAA
*
11967874 TTTATTTTCTTTTATAC
1 TTTATTTT-TTTTATAA
11967891 TTTATTTTTT
1 TTTATTTTTT
11967901 CAAACTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTATTTTTTTTATAA
Found at i:11971687 original size:24 final size:21
Alignment explanation
Indices: 11971640--11971687 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
11971630 TTGACCCTAG
*
11971640 AGAGAGAGGAAGAGAAAAAAA
1 AGAGAGAAGAAGAGAAAAAAA
11971661 AGAGAGAAGAGAGAGAAGGAAAAA
1 AGAGAGAAGA-AGAGAA--AAAAA
11971685 AGA
1 AGA
11971688 AATCTAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 6 0.26
24 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (21 bp):
AGAGAGAAGAAGAGAAAAAAA
Found at i:11974256 original size:16 final size:16
Alignment explanation
Indices: 11974235--11974267 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11974225 AACAGTTTAC
*
11974235 ATATCTTGTAGGATAT
1 ATATCTTATAGGATAT
11974251 ATATCTTATAGGATAT
1 ATATCTTATAGGATAT
11974267 A
1 A
11974268 CATACCTTAG
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:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (16 bp):
ATATCTTATAGGATAT
Found at i:11976775 original size:20 final size:19
Alignment explanation
Indices: 11976749--11976846 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 19
11976739 GATATCAAAA
11976749 AAAAAAAAGAAAAAAAATGAG
1 AAAAAAAAGAAAAAAAAT--G
*
11976770 AAAAAAAAGAAAAATGAATG
1 AAAAAAAAGAAAAA-AAATG
*
11976790 AAAAAGAAATAAAAAAAATG
1 AAAAA-AAAGAAAAAAAATG
* *
11976810 AAAAATAAAAAATAAAAAAAG
1 AAAAA-AAAGAA-AAAAAATG
11976831 AGAAAAAAATGAAAAA
1 A-AAAAAAA-GAAAAA
11976847 TGAAAAAGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
20 20 0.31
21 36 0.55
22 9 0.14
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAATG
Found at i:11976793 original size:32 final size:32
Alignment explanation
Indices: 11976754--11976851 Score: 121
Period size: 32 Copynumber: 3.1 Consensus size: 32
11976744 CAAAAAAAAA
*
11976754 AAAGAAAAAAAATGAGAAAAAAAAGAAAAATG
1 AAAGAAAAAAAATGAGAAAAAAATGAAAAATG
*
11976786 AATGAAAAAGAAAT-A-AAAAAAATGAAAAAT-
1 AAAGAAAAA-AAATGAGAAAAAAATGAAAAATG
* *
11976816 AAAAAATAAAAAAAGAGAAAAAAATGAAAAATG
1 AAAGAA-AAAAAATGAGAAAAAAATGAAAAATG
11976849 AAA
1 AAA
11976852 AAGTTCAATG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 7 0.12
31 18 0.32
32 24 0.43
33 7 0.12
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (32 bp):
AAAGAAAAAAAATGAGAAAAAAATGAAAAATG
Found at i:11976811 original size:24 final size:23
Alignment explanation
Indices: 11976770--11976837 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
11976760 AAAAAATGAG
* ** *
11976770 AAAAAA-AAGAAAAATGAATGAA
1 AAAAAATAAAAAAAATGAAAAAT
11976792 AAAGAAATAAAAAAAATGAAAAAT
1 AAA-AAATAAAAAAAATGAAAAAT
11976816 AAAAAATAAAAAAAGA-GAAAAA
1 AAAAAATAAAAAAA-ATGAAAAA
11976838 AATGAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 3 0.08
23 20 0.51
24 16 0.41
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.09
Consensus pattern (23 bp):
AAAAAATAAAAAAAATGAAAAAT
Found at i:11976853 original size:32 final size:31
Alignment explanation
Indices: 11976753--11976853 Score: 114
Period size: 31 Copynumber: 3.2 Consensus size: 31
11976743 TCAAAAAAAA
*
11976753 AAAAGAAAAAAAATGAGAAAAAAAAGAAAAATG
1 AAAA-AAAAAAAA-GAGAAAAAAATGAAAAATG
* * * *
11976786 AATGAAAAAGAAATA-AAAAAAATGAAAAATA
1 AA-AAAAAAAAAAGAGAAAAAAATGAAAAATG
11976817 AAAAATAAAAAAAGAGAAAAAAATGAAAAATG
1 AAAAA-AAAAAAAGAGAAAAAAATGAAAAATG
11976849 AAAAA
1 AAAAA
11976854 GTTCAATGAG
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
30 2 0.04
31 23 0.41
32 21 0.38
33 9 0.16
34 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (31 bp):
AAAAAAAAAAAAGAGAAAAAAATGAAAAATG
Found at i:11978036 original size:44 final size:42
Alignment explanation
Indices: 11977960--11978043 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 42
11977950 ACTTTGAACT
* * *
11977960 TTTTGGATGTGAATCCTAGATTTGTCGAATGTGAACCTTTAA
1 TTTTAGATGTGAAACCTAGATTTATCGAATGTGAACCTTTAA
* *
11978002 TTTTAGATGTGAAACTCTAAGATTTATCGGATGTGAATCTTT
1 TTTTAGATGTGAAAC-CT-AGATTTATCGAATGTGAACCTTT
11978044 GAACTCGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 13 0.37
43 2 0.06
44 20 0.57
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (42 bp):
TTTTAGATGTGAAACCTAGATTTATCGAATGTGAACCTTTAA
Found at i:11978174 original size:108 final size:109
Alignment explanation
Indices: 11977951--11978161 Score: 261
Period size: 108 Copynumber: 2.0 Consensus size: 109
11977941 CTTCAAAAAA
* * * *
11977951 CTTTGAACTTTTTGGATGTGAATCCTAGATTTGTCGAATGTGAACCTTTAATTTTAGATGTGAAA
1 CTTTGAACTTCTTGGATGCGAATCCTAAATTTGTCGAATGTGAACCTTTAATCTTAGATGTGAAA
* * * *
11978016 CTCTAAGATTTATCGGATGTGAATCTTTGAACTCGAATAAGAAG
66 CTCTAAGATTTATCGAATATGAATCTTTGAACTCAAAAAAGAAG
**
11978060 CTTTGAAC-TCTTGGATGCGAATCTCTAAATTT-TTTAATGTGAACCTTTGAA-CTTAGATGTGA
1 CTTTGAACTTCTTGGATGCGAATC-CTAAATTTGTCGAATGTGAACCTTT-AATCTTAGATGTGA
*
11978122 AACTCTAAGA-TTATTGAATATGAAAT-TTTGAACTCAAAAA
64 AACTCTAAGATTTATCGAATATG-AATCTTTGAACTCAAAAA
11978162 TAGGAGTTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
107 21 0.24
108 50 0.57
109 17 0.19
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (109 bp):
CTTTGAACTTCTTGGATGCGAATCCTAAATTTGTCGAATGTGAACCTTTAATCTTAGATGTGAAA
CTCTAAGATTTATCGAATATGAATCTTTGAACTCAAAAAAGAAG
Found at i:11978201 original size:108 final size:108
Alignment explanation
Indices: 11977987--11978207 Score: 240
Period size: 108 Copynumber: 2.1 Consensus size: 108
11977977 AGATTTGTCG
* * * *
11977987 AATGTGAACCTTTAATTTTAGATGTGAAACTCTAAGATTTATCGGATGTGAATCTTTGAACTCGA
1 AATGTGAACCTTTAATCTTAGATGTGAAACTCTAAGATTTATCGAATATGAATCTTTGAACTCAA
* * *
11978052 ATAAGAAGCTTTGAACTCTTGGATGCGAATCTCTAAATTTTTT
66 AAAAGAAGCTTTGAAATCTTGGATGCAAATCTCTAAATTTTTT
*
11978095 AATGTGAACCTTTGAA-CTTAGATGTGAAACTCTAAGA-TTATTGAATATGAAAT-TTTGAACTC
1 AATGTGAACCTTT-AATCTTAGATGTGAAACTCTAAGATTTATCGAATATG-AATCTTTGAACTC
* * * *
11978157 AAAAATAGGAGTTTTGAAAAT-TTGGGATG-AAATC-CTGAAGTTTTT
64 AAAAA-AGAAGCTTTG-AAATCTT-GGATGCAAATCTCTAAATTTTTT
11978202 AA-GTGA
1 AATGTGA
11978208 GAAATTTTTA
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
106 4 0.04
107 32 0.33
108 50 0.52
109 10 0.10
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (108 bp):
AATGTGAACCTTTAATCTTAGATGTGAAACTCTAAGATTTATCGAATATGAATCTTTGAACTCAA
AAAAGAAGCTTTGAAATCTTGGATGCAAATCTCTAAATTTTTT
Found at i:11978766 original size:43 final size:43
Alignment explanation
Indices: 11978635--11979059 Score: 334
Period size: 44 Copynumber: 9.8 Consensus size: 43
11978625 TGTTAAGGAG
* * * * ** *
11978635 ATTTATTTTTCAAAAGTAGTTGAGCCTCTATTTAAAATAGCATT
1 ATTTA-TTTTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTT
* * * * * *
11978679 ATTTATTTTTCAAA-TTGTTAAGCCTCTGA-TTAGAAGACCATT
1 ATTTATTTTCCAAAGTTGTTGAGCTTCT-ATTTAGAGGAGCTTT
* *
11978721 ATTTATTTTCCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTT
1 ATTTATTTTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTT
* * * * *
11978764 ATTTATGTTTCTAAAGATGTTAAGTTTCTAATTAGAGGAGCTTT
1 ATTTAT-TTTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTT
* ** * *
11978808 ATTTATTTTTCAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTC
1 ATTTATTTTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTT
* * * *
11978851 ATTTATTTTTCAAAGTTGTTGAGCCTCTTTTTAGAGGAGCCTT
1 ATTTATTTTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTT
* * * **
11978894 ATTTATTTTCCAAAAGTTGTTAAGCTTTTGTTTAGAAAAGCTTTT
1 ATTTATTTTCC-AAAGTTGTTGAGCTTCTATTTAGAGGAGC-TTT
* * * * *
11978939 GTTTATTTTTCAAAGTCGTTGAGCTTCTGTTTAGAGGAACTTT
1 ATTTATTTTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTT
* ** * * *
11978982 GTTTATTTTTCCAAAGTCATTGAGCTTCTATTTAAAGAAGCTGT
1 ATTTA-TTTTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTT
**
11979026 ATTTATTTTTCCAAAAGTTGTACA-CTTCTATTTA
1 ATTTA-TTTTCC-AAAGTTGTTGAGCTTCTATTTA
11979060 AGGGAGTTTT
Statistics
Matches: 312, Mismatches: 61, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
42 35 0.11
43 120 0.38
44 139 0.45
45 18 0.06
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.45
Consensus pattern (43 bp):
ATTTATTTTCCAAAGTTGTTGAGCTTCTATTTAGAGGAGCTTT
Found at i:11978822 original size:87 final size:86
Alignment explanation
Indices: 11978635--11979046 Score: 369
Period size: 87 Copynumber: 4.7 Consensus size: 86
11978625 TGTTAAGGAG
* * * *
11978635 ATTTATTTTTCAAAAGTAGTTGAGCCTCTATTTA-AAATAGCATTATTTATTTTTCAAA-TTGTT
1 ATTTATTTTTC-AAAGTCGTTGAGCTTCTATTTAGAGA-AGCTTTATTTATTTTTCAAAGTTGTT
* * *
11978698 AAGCCTCTGATTAGAAGACCATT
64 AAGCCTCTGATTAGAGGAGCTTT
* * * * *
11978721 ATTTATTTTCCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTATTTATGTTTCTAAAGATGTTA
1 ATTTATTTTTCAAAGTCGTTGAGCTTCTATTTAGAGAAGCTTTATTTATTTTTC-AAAGTTGTTA
** *
11978786 AGTTTCTAATTAGAGGAGCTTT
65 AGCCTCTGATTAGAGGAGCTTT
* ** * * * *
11978808 ATTTATTTTTCAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTCATTTATTTTTCAAAGTTGTTGA
1 ATTTATTTTTCAAAGTCGTTGAGCTTCTATTTAGAGAAGCTTTATTTATTTTTCAAAGTTGTTAA
** *
11978873 GCCTCTTTTTAGAGGAGCCTT
66 GCCTCTGATTAGAGGAGCTTT
* * * * * * * *
11978894 ATTTATTTTCCAAAAGTTGTTAAGCTTTTGTTTAGAAAAGCTTTTGTTTATTTTTCAAAGTCGTT
1 ATTTATTTTTC-AAAGTCGTTGAGCTTCTATTTAGAGAAGC-TTTATTTATTTTTCAAAGTTGTT
* * * *
11978959 GAGCTTCTGTTTAGAGGAACTTT
64 AAGCCTCTGATTAGAGGAGCTTT
* * * *
11978982 GTTTATTTTTCCAAAGTCATTGAGCTTCTATTTAAAGAAGCTGTATTTATTTTTCCAAAAGTTGT
1 ATTTATTTTT-CAAAGTCGTTGAGCTTCTATTTAGAGAAGCTTTATTTATTTTT-C-AAAGTTGT
11979047 ACACTTCTAT
Statistics
Matches: 264, Mismatches: 54, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
85 36 0.14
86 49 0.19
87 102 0.39
88 69 0.26
89 8 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.45
Consensus pattern (86 bp):
ATTTATTTTTCAAAGTCGTTGAGCTTCTATTTAGAGAAGCTTTATTTATTTTTCAAAGTTGTTAA
GCCTCTGATTAGAGGAGCTTT
Found at i:11979301 original size:12 final size:13
Alignment explanation
Indices: 11979286--11979320 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
11979276 CTATTTTCAC
11979286 TTTTATTTTA-TA
1 TTTTATTTTATTA
11979298 TTTTATTTTATTA
1 TTTTATTTTATTA
11979311 TTATTATTTT
1 TT-TTATTTT
11979321 TTTAGTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 4 0.19
14 7 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:11979301 original size:19 final size:19
Alignment explanation
Indices: 11979286--11979320 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
11979276 CTATTTTCAC
11979286 TTTTATT-TTA-TATTTTA
1 TTTTATTATTATTATTTTA
11979303 TTTTATTATTATTATTTT
1 TTTTATTATTATTATTTT
11979321 TTTAGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTATTATTATTATTTTA
Found at i:11983410 original size:17 final size:17
Alignment explanation
Indices: 11983388--11983423 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11983378 AACTAATATG
11983388 AAACAACAAAATAAGCA
1 AAACAACAAAATAAGCA
*
11983405 AAACAATAAAATAAGCA
1 AAACAACAAAATAAGCA
11983422 AA
1 AA
11983424 CAAAAATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.72, C:0.14, G:0.06, T:0.08
Consensus pattern (17 bp):
AAACAACAAAATAAGCA
Found at i:11985619 original size:20 final size:20
Alignment explanation
Indices: 11985596--11985642 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11985586 GGTCAAATCA
**
11985596 GGTCAAACTTA-GTCAATTTT
1 GGTCAAA-TTATGTCAAACTT
11985616 GGTCAAATTATGTCAAACTT
1 GGTCAAATTATGTCAAACTT
11985636 GGTCAAA
1 GGTCAAA
11985643 ATGATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
GGTCAAATTATGTCAAACTT
Found at i:11997273 original size:129 final size:129
Alignment explanation
Indices: 11997043--11997293 Score: 475
Period size: 129 Copynumber: 1.9 Consensus size: 129
11997033 AGCCCAAAAC
* *
11997043 GCATAACTTTATAATAGTATATTCCTTTTGACGTTCAGAATGCAGTGAACTTTTCATCCTTTAGA
1 GCATAACCTTATAATAGTATATTCCCTTTGACGTTCAGAATGCAGTGAACTTTTCATCCTTTAGA
11997108 GCCATGCTAATTTGATTATAGCAGATGACCCATCCATAAAAGATAAAGCTTCATGGTAGTAGTT
66 GCCATGCTAATTTGATTATAGCAGATGACCCATCCATAAAAGATAAAGCTTCATGGTAGTAGTT
*
11997172 GCATAACCTTATAATAGTATATTCCCTTTGACGTTCAGAATGTAGTGAACTTTTCATCCTTTAGA
1 GCATAACCTTATAATAGTATATTCCCTTTGACGTTCAGAATGCAGTGAACTTTTCATCCTTTAGA
11997237 GCCATGCTAATTTGATTATAGCAGATGACCCATCCATAAAAGATAAAGCTTCATGGT
66 GCCATGCTAATTTGATTATAGCAGATGACCCATCCATAAAAGATAAAGCTTCATGGT
11997294 GGTTGTTGTA
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (129 bp):
GCATAACCTTATAATAGTATATTCCCTTTGACGTTCAGAATGCAGTGAACTTTTCATCCTTTAGA
GCCATGCTAATTTGATTATAGCAGATGACCCATCCATAAAAGATAAAGCTTCATGGTAGTAGTT
Found at i:12001866 original size:12 final size:12
Alignment explanation
Indices: 12001848--12001892 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
12001838 GTGATATATT
12001848 TAATTAATCATA
1 TAATTAATCATA
* *
12001860 AAATTAATTATA
1 TAATTAATCATA
*
12001872 TAATTAATTATA
1 TAATTAATCATA
12001884 TAATTAATC
1 TAATTAATC
12001893 CACATTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTAATCATA
Found at i:12002131 original size:20 final size:20
Alignment explanation
Indices: 12002102--12002143 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
12002092 AAAGCAAGCT
12002102 TCTAAAAATAGAGTAGATCA
1 TCTAAAAATAGAGTAGATCA
*
12002122 TCTAATAATAGAGTAGATCA
1 TCTAAAAATAGAGTAGATCA
12002142 TC
1 TC
12002144 AAGTATCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (20 bp):
TCTAAAAATAGAGTAGATCA
Found at i:12004032 original size:62 final size:63
Alignment explanation
Indices: 12003912--12004071 Score: 152
Period size: 62 Copynumber: 2.6 Consensus size: 63
12003902 TAATTAATCC
** * *
12003912 CATAAAAAATGGATAGGGGATTATTGAAGGCATTTTTGACAGACAATGCCTCAAATAA-TCCCCT
1 CATAAAAAAT-G-TAGGAAATTATTGAAGGCGTTTTTGACAGACAATGCCTCAAATAATTCCACT
* ***
12003976 CATAAAAAATGTAGGCAATTATTGAAGGCGTTTTCTG-CAAGA-AATGCCTTTCATAATTCCACT
1 CATAAAAAATGTAGGAAATTATTGAAGGCGTTTT-TGAC-AGACAATGCCTCAAATAATTCCACT
*
12004039 -A-AAAAATTGTA-GAAGATTATTGAAGGCGTTTTT
1 CATAAAAAATGTAGGAA-ATTATTGAAGGCGTTTTT
12004072 AGTCAAAAAC
Statistics
Matches: 83, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
60 3 0.04
61 26 0.31
62 33 0.40
63 11 0.13
64 10 0.12
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (63 bp):
CATAAAAAATGTAGGAAATTATTGAAGGCGTTTTTGACAGACAATGCCTCAAATAATTCCACT
Found at i:12004419 original size:62 final size:62
Alignment explanation
Indices: 12004287--12004430 Score: 186
Period size: 62 Copynumber: 2.3 Consensus size: 62
12004277 TTTTGGAAGA
* * **
12004287 AAAATGCCTTCAATAATCCATAGAAAAAATTTGGAACGAATTCTTGAAGGCATTTTTGGTTG
1 AAAACGCCTTCAATAATCCATAGAAAAAAGTTGGAACGAATTCTTGAAGGCATTTTTGCCTG
* *
12004349 AAAGCGCCTTCAATAATCCATATAAAAAAGTTGGAAC-AGATTCTTGAAGGCATTTTTAGCCT-
1 AAAACGCCTTCAATAATCCATAGAAAAAAGTTGGAACGA-ATTCTTGAAGGCATTTTT-GCCTG
12004411 AAAACGCCTAT-AATAATCCA
1 AAAACGCCT-TCAATAATCCA
12004431 CACAATAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
61 1 0.01
62 68 0.94
63 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (62 bp):
AAAACGCCTTCAATAATCCATAGAAAAAAGTTGGAACGAATTCTTGAAGGCATTTTTGCCTG
Found at i:12007773 original size:25 final size:25
Alignment explanation
Indices: 12007761--12007812 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
12007751 CAACAATGTG
*
12007761 TTCAGAAACACCATTCAGCAAACTA
1 TTCAGAAACACCATTCAACAAACTA
12007786 TTCAGAAACACCATTCAACAAACTA
1 TTCAGAAACACCATTCAACAAACTA
12007811 TT
1 TT
12007813 TAACAAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.27, G:0.06, T:0.23
Consensus pattern (25 bp):
TTCAGAAACACCATTCAACAAACTA
Found at i:12007790 original size:12 final size:12
Alignment explanation
Indices: 12007770--12007859 Score: 72
Period size: 12 Copynumber: 7.1 Consensus size: 12
12007760 GTTCAGAAAC
12007770 ACCATTCAGCAA
1 ACCATTCAGCAA
* *
12007782 ACTATTCAGAAA
1 ACCATTCAGCAA
*
12007794 CACCATTCAACAA
1 -ACCATTCAGCAA
* * *
12007807 ACTATTTAACAA
1 ACCATTCAGCAA
12007819 ACCATTCAGCAA
1 ACCATTCAGCAA
*
12007831 ACCAATATCATACAA
1 ACC-AT-TCA-GCAA
12007846 TACCATTCAGCAA
1 -ACCATTCAGCAA
12007859 A
1 A
12007860 ACAATATCAT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
12 33 0.54
13 14 0.23
14 6 0.10
15 5 0.08
16 3 0.05
ACGTcount: A:0.47, C:0.28, G:0.04, T:0.21
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:12007854 original size:28 final size:28
Alignment explanation
Indices: 12007815--12007882 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
12007805 AAACTATTTA
*
12007815 ACAA-ACCATTCAGCAAACCAATATCAT
1 ACAATACCATTCAGCAAAACAATATCAT
12007842 ACAATACCATTCAGCAAAACAATATCAT
1 ACAATACCATTCAGCAAAACAATATCAT
*
12007870 ACAATACTATTCA
1 ACAATACCATTCA
12007883 TTAAACCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 4 0.11
28 34 0.89
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.22
Consensus pattern (28 bp):
ACAATACCATTCAGCAAAACAATATCAT
Found at i:12009406 original size:126 final size:126
Alignment explanation
Indices: 12009181--12009411 Score: 286
Period size: 126 Copynumber: 1.8 Consensus size: 126
12009171 ATTAAAGTAC
* * * * *
12009181 AAAATTATTAAAGGTGTATATGCAAAAAACGCCTTCAATAAATTTCTTTTAAAAACTAGAGTGAA
1 AAAATTATTAAAGGTATATATGCAAAAAACGCCTTCAATAAATTTCCTTCAAAAACTAAAATGAA
* *** * * *
12009246 TTATTAAACGTTTTTTTTTTAGAAAACCACCTTCACTAATATTTTCCTAATAAAAATGAAG
66 TTAATAAACGGCATTTTTCTAGAAAAACACCTTCAATAATATTTTCCTAATAAAAATGAAG
* *
12009307 AAAATTATTGAAGGTATATTATGCAAAAAACGCCTTCAATAAA-TTCCTTCAAAAATTAAAATGA
1 AAAATTATTAAAGGTATA-TATGCAAAAAACGCCTTCAATAAATTTCCTTCAAAAACTAAAATGA
* *
12009371 ATTAATGAA-GGCATTTTTCTGGCAAAAACACCTTCAATAAT
65 ATTAATAAACGGCATTTTTCTAG-AAAAACACCTTCAATAAT
12009412 CGCTTTAAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
125 8 0.09
126 55 0.63
127 24 0.28
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (126 bp):
AAAATTATTAAAGGTATATATGCAAAAAACGCCTTCAATAAATTTCCTTCAAAAACTAAAATGAA
TTAATAAACGGCATTTTTCTAGAAAAACACCTTCAATAATATTTTCCTAATAAAAATGAAG
Found at i:12009717 original size:749 final size:749
Alignment explanation
Indices: 12008430--12009869 Score: 1809
Period size: 749 Copynumber: 1.9 Consensus size: 749
12008420 ATTCTATACA
* * * * *
12008430 AAAATTATTGAAGGGGTATGATGCAAAAAATGTCTTCAATAAATTCTTTTAAAAATTGGAGTGAA
1 AAAATTATTAAAGGGGTATGATGCAAAAAACGCCTTCAATAAATTCTTTTAAAAACTAGAGTGAA
* * *** * * *
12008495 TATTGAAGGTATTTTTAGTAGAAAATTGCTTTCACCGACATTCCCCTAATAAAAATGGAGGAAAA
66 TATTAAACGTATTTTTAGTAGAAAACCACCTTCACCAACATTCCCCTAATAAAAATGGAAGAAAA
* * * * * *
12008560 TTATTGAAGGCGTATTATGAAGAAATGCCTTCAATAAATTTCTTTAAAAAATTAGAAAGGATTAG
131 TTATTGAAGGCATATTATGAAAAAACGCCTTCAATAAATTTCCTTAAAAAATTAGAAAGAATTAA
* * *
12008625 TGAAGGCATTTTTTTGGTAAAAACACCTTCAATAATCCTCTTAAAATATTACTAGGAGATTATTA
196 TGAAGGCATTTTTCTGGCAAAAACACCTTCAATAATCCTCTTAAAATATTACTAAGAGATTATTA
* * * * *
12008690 AAGATATTTTTTTTACTAAAAGATGCCTTTATTAATCCTATAAAATTTTTAAAAGAAAATTATTA
261 AAGACA-TATTTTTACTAAAAGACGCCTTTAATAATCCTAAAAAATTTTTAAAAGAAAATTATTA
* **
12008755 AAAGCGTTGTTTCTCAAAAAATGAATTCAATAATTCTGTACAAAAATTATTGAAGGTTTATGATG
325 AAAGCGTTGTTTCTCAAAAAATGAATTCAATAATTCTGTACAAAAATTATTCAAGGCATATGATG
* * * * * *
12008820 TAAAAAATGCCATTAATAAATTTCTCTTAAAAATTAGAGTGAATTATTGAAGGTATTTTTAGTAG
390 AAAAAAATGCCATTAATAAATTCCTCTTAAAAATTAGAGTGAATTATTGAAAGCACTTTTAGCAG
* *
12008885 AAAATCACCTTTACTGATATTCCCCTGATAAAAATGAAGAGAATTATTAAAGGTGTATTATGCAA
455 AAAATCACCTTCACTGATATTCCCCTGATAAAAATGAAGAGAATTATTAAAGGTGTATTATACAA
*
12008950 AAAACGCTTTCAATAAA-TTCTTTCAAAAAATTAGAGGGAATTAGTGAAGATAGTTTTT-TGAAA
520 AAAACGCTTTCAATAAATTTC-TTCAAAAAATTAGAGGGAATTAGTGAAGACA-TTTTTCTGAAA
* *
12009013 AAAACACCTTCAATAATCACCTTAAAATTTGACCA-GAAGATTATTGAAGGTATTTTTTACTAAA
583 AAAACACATTCAATAATCACCTTAAAATTTGACCATG-AGATTATTGAAGGCATTTTTTACTAAA
*** *
12009077 AGACGTTTTTAATAA-TCTCAAAAAATTTTTAAAATAGAAATTATTGAAGATGTTTTTTCTCAAA
647 AGACACCTTTAATAATTCT-AAAAAAGTTTTAAAA-AGAAATTATTGAAGATGTTTTTTCTCAAA
12009141 AAATGCCTTTAATAATTCTATACAAAAATTATTAAAGTAC
710 AAATGCCTTTAATAATTCTATACAAAAATTATTAAAGTAC
*
12009181 AAAATTATTAAAGGTGTAT-ATGCAAAAAACGCCTTCAATAAATTTCTTTTAAAAACTAGAGTGA
1 AAAATTATTAAAGGGGTATGATGCAAAAAACGCCTTCAATAAA-TTCTTTTAAAAACTAGAGTGA
* ** * * **
12009245 ATTATTAAACGTTTTTTTTTTAGAAAACCACCTTCACTAATATTTTCCTAATAAAAAT-GAAGAA
65 A-TATTAAACGTATTTTTAGTAGAAAACCACCTTCACCAACATTCCCCTAATAAAAATGGAAGAA
* *
12009309 AATTATTGAAGGTATATTATGCAAAAAACGCCTTCAATAAA-TTCCTTCAAAAATTA-AAATGAA
129 AATTATTGAAGGCATATTATG-AAAAAACGCCTTCAATAAATTTCCTTAAAAAATTAGAAA-GAA
*
12009372 TTAATGAAGGCATTTTTCTGGCAAAAACACCTTCAATAATCGCT-TTAAAATTTTACTAAGAGAT
192 TTAATGAAGGCATTTTTCTGGCAAAAACACCTTCAATAATC-CTCTTAAAATATTACTAAGAGAT
* * *
12009436 TATTGAAGGCA-ATTTTTACTAAAAGACGCCTTTAATAAT-CTCAAAAAATTTTTAAAAAGGAAA
256 TATTAAAGACATATTTTTACTAAAAGACGCCTTTAATAATCCT-AAAAAATTTTT-AAAAGAAAA
* * * * * ** * * * *
12009499 TTATTGAAGGTGTT-TTTAGT-AAAAAGTGCCTTTAATGATTTTGTTCAAAAATTATTCAAGGCA
319 TTATTAAAAGCGTTGTTT-CTCAAAAAATGAATTCAATAATTCTGTACAAAAATTATTCAAGGCA
*
12009562 TATGATGCAAAAAAATGCC-TTCAATAAATTCCTCTTAAAAATTGGAGTGAATTATTGAAAGCAC
383 TATGATG-AAAAAAATGCCATT-AATAAATTCCTCTTAAAAATTAGAGTGAATTATTGAAAGCAC
* * ** * *
12009626 TTTTAGCAGAAAA-CTGCCTTCATTGATATT-CTTTGATAAAAATGGAGGGAATTATTAAAGGTG
446 TTTTAGCAGAAAATC-ACCTTCACTGATATTCCCCTGATAAAAATGAAGAGAATTATTAAAGGTG
*
12009689 TATTATACAAAAAATAC-CTTT-AATAAATTTCTTCAAAAAATTAGAGGGAATTAGTGAAGGCAT
510 TATTATAC-AAAAA-ACGCTTTCAATAAATTTCTTCAAAAAATTAGAGGGAATTAGTGAAGACAT
** * * * * *
12009752 TTTTCTGGCAAAAACACATTCAATAATCCCCTTTAAATTTTACTATGAGATTGTTGAAGGCATTT
573 TTTTCTGAAAAAAACACATTCAATAATCACCTTAAAATTTGACCATGAGATTATTGAAGGCATTT
*
12009817 TTTACTAAAAGACACCTTTAATAATTCTAAAAAAGTTTTAAAAAGAATTTATT
638 TTTACTAAAAGACACCTTTAATAATTCTAAAAAAGTTTTAAAAAGAAATTATT
12009870 CAGTGATAAA
Statistics
Matches: 586, Mismatches: 86, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
748 16 0.03
749 236 0.40
750 131 0.22
751 142 0.24
752 61 0.10
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (749 bp):
AAAATTATTAAAGGGGTATGATGCAAAAAACGCCTTCAATAAATTCTTTTAAAAACTAGAGTGAA
TATTAAACGTATTTTTAGTAGAAAACCACCTTCACCAACATTCCCCTAATAAAAATGGAAGAAAA
TTATTGAAGGCATATTATGAAAAAACGCCTTCAATAAATTTCCTTAAAAAATTAGAAAGAATTAA
TGAAGGCATTTTTCTGGCAAAAACACCTTCAATAATCCTCTTAAAATATTACTAAGAGATTATTA
AAGACATATTTTTACTAAAAGACGCCTTTAATAATCCTAAAAAATTTTTAAAAGAAAATTATTAA
AAGCGTTGTTTCTCAAAAAATGAATTCAATAATTCTGTACAAAAATTATTCAAGGCATATGATGA
AAAAAATGCCATTAATAAATTCCTCTTAAAAATTAGAGTGAATTATTGAAAGCACTTTTAGCAGA
AAATCACCTTCACTGATATTCCCCTGATAAAAATGAAGAGAATTATTAAAGGTGTATTATACAAA
AAACGCTTTCAATAAATTTCTTCAAAAAATTAGAGGGAATTAGTGAAGACATTTTTCTGAAAAAA
ACACATTCAATAATCACCTTAAAATTTGACCATGAGATTATTGAAGGCATTTTTTACTAAAAGAC
ACCTTTAATAATTCTAAAAAAGTTTTAAAAAGAAATTATTGAAGATGTTTTTTCTCAAAAAATGC
CTTTAATAATTCTATACAAAAATTATTAAAGTAC
Found at i:12011929 original size:118 final size:118
Alignment explanation
Indices: 12011721--12011967 Score: 467
Period size: 118 Copynumber: 2.1 Consensus size: 118
12011711 ATTTCCTTGC
* *
12011721 CAAAAAGCTTACGTGTGAAATGATTCAATTGAGTCATGATGGAAAAGAACATATCAATGTGCTTA
1 CAAAAAGATAACGTGTGAAATGATTCAATTGAGTCATGATGGAAAAGAACATATCAATGTGCTTA
*
12011786 TGCACATGATTTATCGTCTAACTCCAACTTTGCCTATTGGTTGTCCAAACTTT
66 TACACATGATTTATCGTCTAACTCCAACTTTGCCTATTGGTTGTCCAAACTTT
12011839 CAAAAAGATAACGTGTGAAATGATTCAATTGAGTCATGATGGAAAAGAACATATCAATGTGCTTA
1 CAAAAAGATAACGTGTGAAATGATTCAATTGAGTCATGATGGAAAAGAACATATCAATGTGCTTA
12011904 TACACATGATTTATCGTCTAACTCCAACTTTGCCTATTGGTTGTCCAAACTTT
66 TACACATGATTTATCGTCTAACTCCAACTTTGCCTATTGGTTGTCCAAACTTT
12011957 CAAAAAGATAA
1 CAAAAAGATAA
12011968 TTGTAGGCAA
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 126 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (118 bp):
CAAAAAGATAACGTGTGAAATGATTCAATTGAGTCATGATGGAAAAGAACATATCAATGTGCTTA
TACACATGATTTATCGTCTAACTCCAACTTTGCCTATTGGTTGTCCAAACTTT
Found at i:12014015 original size:8 final size:8
Alignment explanation
Indices: 12014004--12014060 Score: 55
Period size: 8 Copynumber: 7.0 Consensus size: 8
12013994 TAATTCTAAA
12014004 ATTTTTAT
1 ATTTTTAT
12014012 ATTTTTATGTT
1 ATTTTTA---T
*
12014023 TTTTTTAT
1 ATTTTTAT
12014031 ATTTTTAT
1 ATTTTTAT
*
12014039 ATTTATAT
1 ATTTTTAT
12014047 -TTTTTAT
1 ATTTTTAT
12014054 -TTTTTAT
1 ATTTTTAT
12014061 TATATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
7 13 0.31
8 22 0.52
11 7 0.17
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (8 bp):
ATTTTTAT
Found at i:12014029 original size:11 final size:11
Alignment explanation
Indices: 12014013--12014070 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
12014003 AATTTTTATA
*
12014013 TTTTTATGTTT
1 TTTTTATATTT
12014024 TTTTTATATTT
1 TTTTTATATTT
*
12014035 TTATATT-TATAT
1 TT-T-TTATATTT
12014047 TTTTTAT-TTT
1 TTTTTATATTT
*
12014057 TTATTATATTT
1 TTTTTATATTT
12014068 TTT
1 TTT
12014071 GTTGGAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
10 10 0.26
11 19 0.50
12 7 0.18
13 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTATATTT
Found at i:12014029 original size:19 final size:20
Alignment explanation
Indices: 12014004--12014069 Score: 82
Period size: 19 Copynumber: 3.3 Consensus size: 20
12013994 TAATTCTAAA
*
12014004 ATTTTTATATTTTTATGTTT
1 ATTTTTATATTTTTATATTT
12014024 -TTTTTATATTTTTATATTT
1 ATTTTTATATTTTTATATTT
*
12014043 ATATTTTTTATTTTT-TATTAT
1 AT-TTTTATATTTTTATATT-T
12014064 ATTTTT
1 ATTTTT
12014070 TGTTGGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 18 0.44
20 9 0.22
21 14 0.34
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (20 bp):
ATTTTTATATTTTTATATTT
Found at i:12014044 original size:33 final size:33
Alignment explanation
Indices: 12014007--12014069 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
12013997 TTCTAAAATT
*
12014007 TTTATA-TTTTTATGTTTTTTTTATATTTTTATA
1 TTTATATTTTTTAT-TTTTTATTATATTTTTATA
12014040 TTTATATTTTTTATTTTTTATTATATTTTT
1 TTTATATTTTTTATTTTTTATTATATTTTT
12014070 TGTTGGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.78
Consensus pattern (33 bp):
TTTATATTTTTTATTTTTTATTATATTTTTATA
Found at i:12014070 original size:19 final size:19
Alignment explanation
Indices: 12014005--12014070 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 19
12013995 AATTCTAAAA
*
12014005 TTTTTATATTTTTATGT-TTT
1 TTTTTAT-TTTTTAT-TATAT
12014025 TTTTATATTTTTATATTTATAT
1 TTTT-TATTTTT-TA-TTATAT
12014047 TTTTTATTTTTTATTATAT
1 TTTTTATTTTTTATTATAT
12014066 TTTTT
1 TTTTT
12014071 GTTGGAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
19 11 0.27
20 10 0.24
21 13 0.32
22 7 0.17
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTATTATAT
Found at i:12014680 original size:20 final size:20
Alignment explanation
Indices: 12014651--12014689 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12014641 ATTGAATATT
12014651 CTATCAAAAACTAGGAAAAG
1 CTATCAAAAACTAGGAAAAG
* *
12014671 CTATCGAAAACTGGGAAAA
1 CTATCAAAAACTAGGAAAA
12014690 CATGCCTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.15
Consensus pattern (20 bp):
CTATCAAAAACTAGGAAAAG
Found at i:12015485 original size:42 final size:41
Alignment explanation
Indices: 12015330--12015598 Score: 319
Period size: 41 Copynumber: 6.5 Consensus size: 41
12015320 CAGAGGTTTA
*
12015330 ACAACTTTGAAAAAT-AATATGCTCCTCTAAACAGAGGCACC
1 ACAACTTTGAAAAATAAAT-TGCTCCTCTAAACAAAGGCACC
*
12015371 ACAACTTTGAAAAATAAATTGCTCCTCTAAACAAAAGCACC
1 ACAACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACC
* *
12015412 ACAACTTTTG-AAAATAAATTGCTCTTGTAAACAAAGGCACC
1 ACAAC-TTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACC
*
12015453 ACAACTTTGAAAAAATAAATTGCTTCTCTAAACAAAGGCACC
1 ACAACTTTG-AAAAATAAATTGCTCCTCTAAACAAAGGCACC
* * * * * * *
12015495 ATAACTTTAAAAAAATAAATTGCTGCTTTAAATAGAGGCACT
1 ACAACTTT-GAAAAATAAATTGCTCCTCTAAACAAAGGCACC
* * *
12015537 ATAACTTTGAAAAATAAACTGCTACC-CTAAACCAAGGCACC
1 ACAACTTTGAAAAATAAATTGCT-CCTCTAAACAAAGGCACC
*
12015578 ATAACTTTGAAAAAATAAATT
1 ACAACTTTG-AAAAATAAATT
12015599 AAAGGCTCCT
Statistics
Matches: 197, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
40 4 0.02
41 105 0.53
42 88 0.45
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (41 bp):
ACAACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACC
Found at i:12015591 original size:83 final size:80
Alignment explanation
Indices: 12015332--12015598 Score: 322
Period size: 83 Copynumber: 3.2 Consensus size: 80
12015322 GAGGTTTAAC
*
12015332 AACTTTGAAAAAT-AATATGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATTGCTCC
1 AACTTTGAAAAATAAAT-TGCT-CTTTAAACAGAGGCACCACAACTTTGAAAAATAAATTGCTCC
* *
12015396 TCTAAACAAAAGCACCAC
64 -CTAAACAAAGGCACCAT
*
12015414 AACTTTTG-AAAATAAATTGCTCTTGTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGCTT
1 AAC-TTTGAAAAATAAATTGCTCTT-TAAACAGAGGCACCACAACTTTG-AAAAATAAATTGC-T
*
12015478 CTCTAAACAAAGGCACCAT
62 CCCTAAACAAAGGCACCAT
* * * * *
12015497 AACTTTAAAAAAATAAATTGCTGCTTTAAATAGAGGCACTATAACTTTGAAAAATAAACTGCTAC
1 AACTTT-GAAAAATAAATTGCT-CTTTAAACAGAGGCACCACAACTTTGAAAAATAAATTGCT-C
*
12015562 CCTAAACCAAGGCACCAT
63 CCTAAACAAAGGCACCAT
12015580 AACTTTGAAAAAATAAATT
1 AACTTTG-AAAAATAAATT
12015599 AAAGGCTCCT
Statistics
Matches: 161, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
81 2 0.01
82 38 0.24
83 84 0.52
84 34 0.21
85 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (80 bp):
AACTTTGAAAAATAAATTGCTCTTTAAACAGAGGCACCACAACTTTGAAAAATAAATTGCTCCCT
AAACAAAGGCACCAT
Found at i:12015713 original size:17 final size:17
Alignment explanation
Indices: 12015691--12015724 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12015681 AAATCATTCA
12015691 TAATATAGAGAAATATC
1 TAATATAGAGAAATATC
*
12015708 TAATATTGAGAAATATC
1 TAATATAGAGAAATATC
12015725 CTCTTTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (17 bp):
TAATATAGAGAAATATC
Found at i:12015882 original size:33 final size:33
Alignment explanation
Indices: 12015840--12015909 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
12015830 GAAATATCCC
* * * *
12015840 TGCACTAGACTTTTTCAAATGCAGTGTATGCTA
1 TGCACTAGACATTTACAAATGCAATGCATGCTA
*
12015873 TGCACTAGACATTTAGAAATGCAATGCATGCTA
1 TGCACTAGACATTTACAAATGCAATGCATGCTA
12015906 TGCA
1 TGCA
12015910 AATGCTAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (33 bp):
TGCACTAGACATTTACAAATGCAATGCATGCTA
Found at i:12016607 original size:9 final size:9
Alignment explanation
Indices: 12016593--12016638 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
12016583 GTCCTCTTTT
12016593 TTTTTTTCA
1 TTTTTTTCA
*
12016602 TTTTTTCTCTTT
1 TTTTTT-TC--A
12016614 TTTTTTTCA
1 TTTTTTTCA
12016623 TTTTTTTCA
1 TTTTTTTCA
12016632 TTTTTTT
1 TTTTTTT
12016639 TCAAGCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 22 0.69
10 2 0.06
11 2 0.06
12 6 0.19
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:12016607 original size:10 final size:10
Alignment explanation
Indices: 12016592--12016641 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
12016582 AGTCCTCTTT
12016592 TTTTTTTTCA
1 TTTTTTTTCA
* *
12016602 TTTTTTCTCTT
1 TTTTTTTTC-A
12016613 TTTTTTTTCA
1 TTTTTTTTCA
12016623 -TTTTTTTCA
1 TTTTTTTTCA
12016632 TTTTTTTTCA
1 TTTTTTTTCA
12016642 AGCATAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 9 0.26
10 17 0.50
11 8 0.24
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:12016611 original size:22 final size:21
Alignment explanation
Indices: 12016590--12016639 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
12016580 TAAGTCCTCT
12016590 TTTTTTTTTTCATTTTTTCTC
1 TTTTTTTTTTCATTTTTTCTC
12016611 TTTTTTTTTTCATTTTTT-TC
1 TTTTTTTTTTCATTTTTTCTC
*
12016631 ATTTTTTTT
1 TTTTTTTTT
12016640 CAAGCATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTTCATTTTTTCTC
Found at i:12025972 original size:45 final size:45
Alignment explanation
Indices: 12025921--12026024 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
12025911 AGAATGATGC
* *
12025921 AAATGATAATGTTAAAACATGATCATGAAAATAATGCATAGAATG
1 AAATGATAATGTTAAAACATGAGCATGAAAATAATGCATAGAAAG
* * * *
12025966 AAATGATATTGTCAAAACATGAGGATGAAAATGATGCATAGAAAG
1 AAATGATAATGTTAAAACATGAGCATGAAAATAATGCATAGAAAG
*
12026011 ATATGATAATGTTA
1 AAATGATAATGTTA
12026025 TGATACAGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27
Consensus pattern (45 bp):
AAATGATAATGTTAAAACATGAGCATGAAAATAATGCATAGAAAG
Found at i:12027615 original size:16 final size:16
Alignment explanation
Indices: 12027596--12027626 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12027586 ATTTTTATGT
12027596 TTTTTTTTATATTTTG
1 TTTTTTTTATATTTTG
12027612 TTTTTTTTATATTTT
1 TTTTTTTTATATTTT
12027627 TTGTTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTTTTATATTTTG
Found at i:12027616 original size:18 final size:18
Alignment explanation
Indices: 12027579--12027631 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
12027569 AATTCCAAAA
*
12027579 TTTTTATATTTTTATGTTTT
1 TTTTTATA-TTTTGT-TTTT
12027599 TTTTTATATTTTGTTTTT
1 TTTTTATATTTTGTTTTT
* *
12027617 TTTATATTTTTTGTT
1 TTTTTATATTTTGTT
12027632 AGAAAATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 17 0.57
19 5 0.17
20 8 0.27
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (18 bp):
TTTTTATATTTTGTTTTT
Found at i:12027746 original size:25 final size:25
Alignment explanation
Indices: 12027718--12027774 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
12027708 TTCTCACCTA
12027718 GAAATTT-TATAAAAATTTACCATTT
1 GAAATTTCTAT-AAAATTTACCATTT
* *
12027743 GAAATTTCTATAAATTTTATCATTT
1 GAAATTTCTATAAAATTTACCATTT
12027768 GATAATT
1 GA-AATT
12027775 AATATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (25 bp):
GAAATTTCTATAAAATTTACCATTT
Found at i:12027867 original size:18 final size:18
Alignment explanation
Indices: 12027844--12027883 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12027834 CAAAAATACT
*
12027844 AAAAAAA-ACATAAAAAAG
1 AAAAAAATAC-TAAAAAAC
12027862 AAAAAAATACTAAAAAAC
1 AAAAAAATACTAAAAAAC
12027880 AAAA
1 AAAA
12027884 CGGCTCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.82, C:0.07, G:0.03, T:0.07
Consensus pattern (18 bp):
AAAAAAATACTAAAAAAC
Found at i:12031597 original size:236 final size:237
Alignment explanation
Indices: 12031146--12031902 Score: 865
Period size: 236 Copynumber: 3.2 Consensus size: 237
12031136 TTTATGGTGT
* ** * * ** * *
12031146 ATTTATTGAAGGTGTTTTTTGTATAATACGCCTTCAATAATTTTTGTAGAGAATTATTAAAGGCA
1 ATTTATTAAAGGCATTTTTTGCATTATACGCCTTCAATAATTTTTGTCCAGAATTATTGATGGCA
* * * * **
12031211 TTTCT-TGATGCAAAACA-CCTTCAATAATTTTCTTGTATAAATTATTTGAGATTATTAAAAACG
66 TTT-TATGA-G-AAAAAAGCCTTCAATAATTTTCTTTTATAAATTGTTTGGGATTATTAAAGGCG
* * * * **
12031274 TCTTCTAGTCGAAAATGCCTTCAATATTTGACTACTAAAATTTTTATATAGTTATTAAAGGCATT
128 TCTTCTAGTAGAAAA-GCCTTCAATATTTCACTACTAAAATTTTTAAACAGTTATTAAAGGTGTT
* * * * *
12031339 TATTCCAAAAAAATGACTTCACTAATTCATTTTAATTTTTAAAGGA
192 TATTCCAGAAAAATGCCTTCACTAATTCATTCTAATATTTGAAGGA
* * * * **
12031385 AATTATTAAAGGCGTATTTTGCATTATACGCCTTTAATAATTTTTGTCCAGAATTATTGATGGTG
1 ATTTATTAAAGGCATTTTTTGCATTATACGCCTTCAATAATTTTTGTCCAGAATTATTGATGGCA
* * * *
12031450 TTTTATGAGAAAAATGCCTTCAATAATTTTCTTTTATAAATTGTTTGGGATTATTAAGGGTGTTT
66 TTTTATGAGAAAAAAGCCTTCAATAATTTTCTTTTATAAATTGTTTGGGATTATTAAAGGCGTCT
* * * *
12031515 TCTAGTAGAAAA-CCTTCAATATTCCACTAGC-AAAATTTTTAGACAGCTATTAAAGGTGTTTAC
131 TCTAGTAGAAAAGCCTTCAATATTTCACTA-CTAAAATTTTTAAACAGTTATTAAAGGTGTTTAT
12031578 TCCAGAAAAATGCCTTCACTAATTCATTCTAATATTTGAAGGA
195 TCCAGAAAAATGCCTTCACTAATTCATTCTAATATTTGAAGGA
* * * * *
12031621 ATTTATTAAAGGCATTTTTTACATTATATGCCTTCGATAATTTTTGTCCATAATTATTGATAGCA
1 ATTTATTAAAGGCATTTTTTGCATTATACGCCTTCAATAATTTTTGTCCAGAATTATTGATGGCA
* * * *
12031686 TTTTATAAGAAAAAAGTCTTCAATAATTTTTTTTTATAAATTGTTTAGGATTATTAAAGGCGTCT
66 TTTTATGAGAAAAAAGCCTTCAATAATTTTCTTTTATAAATTGTTTGGGATTATTAAAGGCGTCT
* * * *
12031751 TCTAATAGAAAACGCCTTCAATATTTCACTACTAAAATTTTGAAACGGTTATTGAAGGTGTTTAT
131 TCTAGTAGAAAA-GCCTTCAATATTTCACTACTAAAATTTTTAAACAGTTATTAAAGGTGTTTAT
* * * * ** **
12031816 TTCAGGAAAATACCTTCACTAACTCGGTCTAATATTTGAACTA
195 TCCAGAAAAATGCCTTCACTAATTCATTCTAATATTTGAAGGA
* *
12031859 ATTTATTGAAGGCATTTTTTGCATTATACGCCTTTAATAATTTT
1 ATTTATTAAAGGCATTTTTTGCATTATACGCCTTCAATAATTTT
12031903 GTGAACTTTA
Statistics
Matches: 435, Mismatches: 77, Indels: 13
0.83 0.15 0.02
Matches are distributed among these distances:
236 201 0.46
237 6 0.01
238 170 0.39
239 58 0.13
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (237 bp):
ATTTATTAAAGGCATTTTTTGCATTATACGCCTTCAATAATTTTTGTCCAGAATTATTGATGGCA
TTTTATGAGAAAAAAGCCTTCAATAATTTTCTTTTATAAATTGTTTGGGATTATTAAAGGCGTCT
TCTAGTAGAAAAGCCTTCAATATTTCACTACTAAAATTTTTAAACAGTTATTAAAGGTGTTTATT
CCAGAAAAATGCCTTCACTAATTCATTCTAATATTTGAAGGA
Found at i:12032038 original size:174 final size:174
Alignment explanation
Indices: 12031736--12032074 Score: 407
Period size: 174 Copynumber: 1.9 Consensus size: 174
12031726 TTGTTTAGGA
*
12031736 TTATTAAAGGCGTCTTCTAATAGAAAACGCCTTCAATATTTCACTACTAAAATTTTGAAACGGTT
1 TTATTAAAGGCGTCTTCTAATAGAAAACGCCTTCAATATTTCACTACTAAAATTTTGAAACGGCT
** * * * **
12031801 ATTGAAGGTGTTTATTTCAGGAAAATACCTTCACTAACTCGGTCTAATATTTGAACTAATTTATT
66 ATTGAAGGCATTTATTCCAGAAAAATACCTTCACTAACTCAGTCTAATATTTGAAAGAATTTATT
* * *
12031866 GAAGGCATTTT-TTGCATTATACGCCTTTAATAATTTTGTGAACT
131 AAAGGCATTTTCTT-CATAATACGCCTTCAATAATTTTGTGAACT
* * * * *
12031910 TTATTAAAGGTGTCTTTTAGTAGAAAATG-CTCTCAATATTAT-ACTACTAAAATTTT-AAATTG
1 TTATTAAAGGCGTCTTCTAATAGAAAACGCCT-TCAATATT-TCACTACTAAAATTTTGAAA-CG
* * * * * *
12031972 GCTATTGAAGGCATTTATTCCATAAAAATGCCTTCATTAATTCATTCTAATTTTTGAAAGAATTT
63 GCTATTGAAGGCATTTATTCCAGAAAAATACCTTCACTAACTCAGTCTAATATTTGAAAGAATTT
*
12032037 ATTAAAGGCGTTTTCTTCATAATACGCCTTCAATAATT
128 ATTAAAGGCATTTTCTTCATAATACGCCTTCAATAATT
12032075 CACTCCAATT
Statistics
Matches: 138, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
173 5 0.04
174 130 0.94
175 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (174 bp):
TTATTAAAGGCGTCTTCTAATAGAAAACGCCTTCAATATTTCACTACTAAAATTTTGAAACGGCT
ATTGAAGGCATTTATTCCAGAAAAATACCTTCACTAACTCAGTCTAATATTTGAAAGAATTTATT
AAAGGCATTTTCTTCATAATACGCCTTCAATAATTTTGTGAACT
Found at i:12033221 original size:37 final size:37
Alignment explanation
Indices: 12033180--12033272 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
12033170 TTTGCTTAAG
* * *
12033180 TTTGCTTAATGGTGTTTCTGAGCATATTGCTGATTAC
1 TTTGCTAAATGGTGTTTCTGAACACATTGCTGATTAC
* * * *
12033217 TTTGCTGAATGGTGTTTCTGAACACATTGTTTATTAG
1 TTTGCTAAATGGTGTTTCTGAACACATTGCTGATTAC
*
12033254 TTTGCTAAATAGTGTTTCT
1 TTTGCTAAATGGTGTTTCT
12033273 ATACGTAGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.47
Consensus pattern (37 bp):
TTTGCTAAATGGTGTTTCTGAACACATTGCTGATTAC
Found at i:12036460 original size:35 final size:35
Alignment explanation
Indices: 12036410--12036486 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
12036400 ATATATAAAC
*
12036410 CAAATATTTTCTGGGCATAAACTTACAACTAACTT
1 CAAATATTTTCTGGGCATAAACCTACAACTAACTT
* * *
12036445 CAAATGTTTTTTGGGCATAAACCTACAACTGACTT
1 CAAATATTTTCTGGGCATAAACCTACAACTAACTT
*
12036480 CACATAT
1 CAAATAT
12036487 ATAATTAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (35 bp):
CAAATATTTTCTGGGCATAAACCTACAACTAACTT
Found at i:12036812 original size:126 final size:127
Alignment explanation
Indices: 12036586--12036858 Score: 304
Period size: 126 Copynumber: 2.2 Consensus size: 127
12036576 AGGCGTTTTT
* * * * *
12036586 TACCAAAATCACTTTTAATAATCCCACCTAAAAATTTATTATCTAGATTATTGAAGGCGTTTTGG
1 TACCAAAAACACCTTCAATAATCCCACCTAAAAATTTATTATCTAGATTATTGAAGGCGCTTTCG
* ** ** *
12036651 GCCAAAAACGCATTTAAGAATCCGTTGTAACTTTTTTGTATGGATTATTAAAGGTATTTT-T
66 GCCAAAAACGCATTTAAGAATCCATTCCAACTTTTTCCTATGGATTATTAAAGGTATTTTCC
* *
12036712 TA-CAAAAACTACCTTCAATAATCCCACCTAAAAATTTATTGAT-TGGATTATTGAAGGTGCTTT
1 TACCAAAAAC-ACCTTCAATAATCCCACCTAAAAATTTATT-ATCTAGATTATTGAAGGCGCTTT
* * * * *
12036775 CGGCCAAAAATGC-TTTCAATAATTCATTCCATA-TTTTTCCTATGGATTATTAAGGGTGTTTTC
64 CGGCCAAAAACGCATTT-AAGAATCCATTCCA-ACTTTTTCCTATGGATTATTAAAGGTATTTTC
12036838 C
127 C
*
12036839 TACCAAAAACGCCTTCAATA
1 TACCAAAAACACCTTCAATA
12036859 TTTCCTTTCC
Statistics
Matches: 122, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
125 9 0.07
126 92 0.75
127 14 0.11
128 7 0.06
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (127 bp):
TACCAAAAACACCTTCAATAATCCCACCTAAAAATTTATTATCTAGATTATTGAAGGCGCTTTCG
GCCAAAAACGCATTTAAGAATCCATTCCAACTTTTTCCTATGGATTATTAAAGGTATTTTCC
Found at i:12037220 original size:63 final size:63
Alignment explanation
Indices: 12037093--12037223 Score: 151
Period size: 63 Copynumber: 2.1 Consensus size: 63
12037083 TTTCATACAT
* *
12037093 TTATTAAAGGCGTTTCTTACGAAAAATACCTTCAATAATCGCATACATTTTCTTGTAAGAGGA
1 TTATTAAAGGCGTTTCTTACCAAAAATACCTTCAATAATCCCATACATTTTCTTGTAAGAGGA
* * * * *
12037156 TTATTTAAGGCGTTGTC-TACCAAAAATGCCTTCATTAATCCCTTATCAATTTT-TT-TAAGTGG
1 TTATTAAAGGCGTT-TCTTACCAAAAATACCTTCAATAATCCCATA-C-ATTTTCTTGTAAGAGG
12037218 A
63 A
12037219 TTATT
1 TTATT
12037224 CAAGCTATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
63 48 0.83
64 5 0.09
65 5 0.09
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (63 bp):
TTATTAAAGGCGTTTCTTACCAAAAATACCTTCAATAATCCCATACATTTTCTTGTAAGAGGA
Found at i:12039963 original size:4 final size:4
Alignment explanation
Indices: 12039954--12040017 Score: 53
Period size: 4 Copynumber: 15.8 Consensus size: 4
12039944 GAAATGTATA
*
12039954 TAAT TAAT TAAA TAAT TAAT T-AT TATAT CATAAT TAAT TAAT T-A- TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TA-AT --TAAT TAAT TAAT TAAT TAAT
*
12040002 ATAAT TAAA TAAT TAA
1 -TAAT TAAT TAAT TAA
12040018 ACTCATTCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
2 1 0.02
3 5 0.10
4 33 0.67
5 6 0.12
6 2 0.04
7 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (4 bp):
TAAT
Found at i:12039997 original size:19 final size:18
Alignment explanation
Indices: 12039954--12040016 Score: 78
Period size: 19 Copynumber: 3.6 Consensus size: 18
12039944 GAAATGTATA
12039954 TAATTAATTA-A-ATAAT
1 TAATTAATTATATATAAT
12039970 TAATT-ATTATATCATAAT
1 TAATTAATTATAT-ATAAT
12039988 TAATTAATTATAATATAAT
1 TAATTAATTAT-ATATAAT
*
12040007 TAAATAATTA
1 TAATTAATTA
12040017 AACTCATTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
15 4 0.10
16 6 0.15
18 10 0.24
19 19 0.46
20 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTAATTATATATAAT
Found at i:12040666 original size:32 final size:34
Alignment explanation
Indices: 12040556--12040666 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 34
12040546 TCCTGAAAAA
* * * *
12040556 TAACGACA-TTTTTAAGCACAAACGTCGTTAAATT
1 TAACGACATTTTTTGA-TACAAACGACATTAAATT
* *
12040590 TAACGACGTTTTTTGATACAAACGTCATTAAATT
1 TAACGACATTTTTTGATACAAACGACATTAAATT
* *
12040624 TAGCTG-CATTTTTTTATACAAAC-AC-TTAAATT
1 TAAC-GACATTTTTTGATACAAACGACATTAAATT
12040656 TAACGACATTT
1 TAACGACATTT
12040667 GTACTTAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
31 1 0.02
32 15 0.23
33 1 0.02
34 41 0.63
35 7 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (34 bp):
TAACGACATTTTTTGATACAAACGACATTAAATT
Found at i:12043874 original size:65 final size:65
Alignment explanation
Indices: 12043752--12043890 Score: 156
Period size: 66 Copynumber: 2.1 Consensus size: 65
12043742 CAAAAACACC
* **
12043752 TTCAATAATCCCCTTCAATTTTTTTAGAGGAGCTTATTGAAGGCATTTTCTACAAAAAAAAATGC
1 TTCAATAATCCCCTTCAATTTTTTTAAAGGA-CTTATTGAAGGCATTTTAGACAAAAAAAAATGC
12043817 A
65 A
* * * **
12043818 TTCAGTAATCCCTTTCAATTTTTTATAAAGGA-TTATTGAAGGTATTTTAG-GTAAAAAAAATGC
1 TTCAATAATCCCCTTCAATTTTTT-TAAAGGACTTATTGAAGGCATTTTAGACAAAAAAAAATGC
*
12043881 C
65 A
*
12043882 TTAAATAAT
1 TTCAATAAT
12043891 TTGCTCATAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
64 18 0.30
65 15 0.25
66 22 0.36
67 6 0.10
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (65 bp):
TTCAATAATCCCCTTCAATTTTTTTAAAGGACTTATTGAAGGCATTTTAGACAAAAAAAAATGCA
Found at i:12044008 original size:61 final size:62
Alignment explanation
Indices: 12043873--12044012 Score: 144
Period size: 61 Copynumber: 2.3 Consensus size: 62
12043863 TTTAGGTAAA
* * *
12043873 AAAAATGCCTTAAATAATTTGCTCATAAAAAATAGAGGCAATTATTAAAGACGTTTTCTACT
1 AAAAATGCCTTCAATAATTTGCACATAAAAAATAGAGACAATTATTAAAGACGTTTTCTACT
* * * * * *
12043935 AGAAACGTCTTCAATAATTT-CAC-TAAAAAATTGTAGACGATTATTAAAGGCGTTTT-TGA-T
1 AAAAATGCCTTCAATAATTTGCACATAAAAAATAG-AGACAATTATTAAAGACGTTTTCT-ACT
12043995 CAAAAATGCCTTCAATAA
1 -AAAAATGCCTTCAATAA
12044013 ATTTTCTTGT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
60 11 0.17
61 36 0.57
62 16 0.25
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (62 bp):
AAAAATGCCTTCAATAATTTGCACATAAAAAATAGAGACAATTATTAAAGACGTTTTCTACT
Found at i:12044948 original size:3 final size:3
Alignment explanation
Indices: 12044934--12045010 Score: 67
Period size: 3 Copynumber: 27.7 Consensus size: 3
12044924 ATTGATTTTC
* * * *
12044934 ATT ATT AAT ATT ATT TTT A-T GTT A-T ATT A-T ATT A-T ATT A-T AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
12044977 A-T ATT ATT ATT ATT ATT ATT ATT ATT AGT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12045011 AGTATAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
2 11 0.18
3 49 0.82
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:12044963 original size:5 final size:5
Alignment explanation
Indices: 12044936--12045031 Score: 74
Period size: 5 Copynumber: 18.8 Consensus size: 5
12044926 TGATTTTCAT
* * *
12044936 TATTAA TATTA TTTTTA TGTTA TATTA TATTA TATTA TAGTA TA-T- TATTA
1 TATT-A TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
*
12044986 TTATTA TTATTA TTATTA GTATTA TAGTA TA--A TATTA TATTA TATT
1 -TATTA -TATTA -TATTA -TATTA TATTA TATTA TATTA TATTA TATT
12045032 GTATACTACC
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
3 5 0.06
4 2 0.03
5 41 0.53
6 30 0.38
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:12044968 original size:15 final size:15
Alignment explanation
Indices: 12044936--12045031 Score: 74
Period size: 13 Copynumber: 6.3 Consensus size: 15
12044926 TGATTTTCAT
*
12044936 TATTAATATTATTTTTA
1 TATT-ATATTA-TATTA
*
12044953 TGTTATATTATATTA
1 TATTATATTATATTA
*
12044968 TATTATAGTATA-T-
1 TATTATATTATATTA
12044981 TATTATTATTATTATTA
1 TATTA-TATTA-TATTA
*
12044998 TTATTAGTATTATAGTA
1 -TATTA-TATTATATTA
12045015 TA--ATATTATATTA
1 TATTATATTATATTA
12045028 TATT
1 TATT
12045032 GTATACTACC
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
13 16 0.25
14 6 0.09
15 16 0.25
16 9 0.14
17 7 0.11
18 10 0.16
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
TATTATATTATATTA
Found at i:12044984 original size:18 final size:19
Alignment explanation
Indices: 12044963--12045029 Score: 79
Period size: 18 Copynumber: 3.7 Consensus size: 19
12044953 TGTTATATTA
12044963 TATTA-TATTATAGTATAT
1 TATTAGTATTATAGTATAT
*
12044981 TATTATTATTAT--TATTAT
1 TATTAGTATTATAGTA-TAT
*
12044999 TATTAGTATTATAGTATAA
1 TATTAGTATTATAGTATAT
12045018 TATTA-TATTATA
1 TATTAGTATTATA
12045030 TTGTATACTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.05
18 26 0.60
19 13 0.30
20 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TATTAGTATTATAGTATAT
Found at i:12044988 original size:42 final size:39
Alignment explanation
Indices: 12044958--12045028 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 39
12044948 TTTTATGTTA
*
12044958 TATTA-TATTA-TATTATAGTATATTA-T-TATTATTAT
1 TATTATTATTAGTATTATAGTATAATATTATATTATTAT
12044993 TATTATTATTAGTATTATAGTATAATATTATATTAT
1 TATTATTATTAGTATTATAGTATAATATTATATTAT
12045029 ATTGTATACT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 5 0.16
36 5 0.16
37 14 0.45
38 1 0.03
39 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (39 bp):
TATTATTATTAGTATTATAGTATAATATTATATTATTAT
Found at i:12044995 original size:12 final size:11
Alignment explanation
Indices: 12044934--12045028 Score: 77
Period size: 12 Copynumber: 8.2 Consensus size: 11
12044924 ATTGATTTTC
12044934 ATTATTAATATT
1 ATTATT-ATATT
* *
12044946 ATTTTTATGTT
1 ATTATTATATT
12044957 A-TATTATATT
1 ATTATTATATT
12044967 A-TATTATAGTAT
1 ATTATTATA-T-T
12044979 ATTATTATTATT
1 ATTATTA-TATT
12044991 ATTATTATTATT
1 ATTATTA-TATT
*
12045003 AGTATTATAGTAT
1 ATTATTATA-T-T
*
12045016 AATATTATATT
1 ATTATTATATT
12045027 AT
1 AT
12045029 ATTGTATACT
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
10 15 0.21
11 10 0.14
12 28 0.40
13 15 0.21
14 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (11 bp):
ATTATTATATT
Found at i:12045916 original size:17 final size:18
Alignment explanation
Indices: 12045894--12045935 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
12045884 CCATTTTCTT
*
12045894 TTTATTTTTTAATTTT-A
1 TTTATTTTATAATTTTAA
*
12045911 TTTATTTTATATTTTTAA
1 TTTATTTTATAATTTTAA
12045929 TTTATTT
1 TTTATTT
12045936 AATCTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTATAATTTTAA
Found at i:12046160 original size:19 final size:20
Alignment explanation
Indices: 12046136--12046180 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
12046126 TCAAAACAAA
*
12046136 AATAAAATAATA-AAAAAAT
1 AATAAAATAAGATAAAAAAT
*
12046155 AGT-AAATAAGATAAAAAAT
1 AATAAAATAAGATAAAAAAT
12046174 AATAAAA
1 AATAAAA
12046181 AAGTTTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.33
19 11 0.52
20 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (20 bp):
AATAAAATAAGATAAAAAAT
Found at i:12046161 original size:23 final size:22
Alignment explanation
Indices: 12046135--12046177 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
12046125 TTCAAAACAA
12046135 AAATAAAATAATAAAAAAATAGT
1 AAATAAAATAA-AAAAAAATAGT
* *
12046158 AAATAAGATAAAAAATAATA
1 AAATAAAATAAAAAAAAATA
12046178 AAAAAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (22 bp):
AAATAAAATAAAAAAAAATAGT
Found at i:12052584 original size:3 final size:3
Alignment explanation
Indices: 12052570--12052682 Score: 111
Period size: 3 Copynumber: 41.0 Consensus size: 3
12052560 ACCGATTTTC
* *
12052570 ATT ATT ACT ATT ATT TTT A-T ATT A-T ATT A-T ATT A-T ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
12052613 A-T AGT A-T ATT CTT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
12052657 ATT -TT CTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
12052683 TATTTTTTCT
Statistics
Matches: 94, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
2 20 0.21
3 74 0.79
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12052640 original size:37 final size:39
Alignment explanation
Indices: 12052589--12052686 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 39
12052579 ATTATTTTTA
12052589 TATTA-TATTA-TATTATATT-TTATTA-TAGTATATTCT
1 TATTATTATTATTATTATATTATTATTATTA-TATATTCT
*
12052625 T-TTATTATTATTATTATTATTATTATTATTATATTTTCT
1 TATTATTATTATTATTA-TATTATTATTATTATATATTCT
12052664 TATTATTATTATTATTAT-TTATT
1 TATTATTATTATTATTATATTATT
12052687 TTTTCTTCCT
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
35 3 0.05
36 6 0.11
37 5 0.09
38 9 0.16
39 15 0.27
40 17 0.31
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (39 bp):
TATTATTATTATTATTATATTATTATTATTATATATTCT
Found at i:12053468 original size:23 final size:22
Alignment explanation
Indices: 12053442--12053523 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 22
12053432 TAGGTTTTTC
12053442 ATTTTTATTTTTTGATTTTATTT
1 ATTTTTATTTTTT-ATTTTATTT
*
12053465 A-TTTTATATTTTTAATTTATTT
1 ATTTTTAT-TTTTTATTTTATTT
* *
12053487 AATTTTCATTTTTTATTTTTATTA
1 -ATTTTTATTTTTTA-TTTTATTT
12053511 ATTATTTATTTTT
1 ATT-TTTATTTTT
12053524 ACTAAATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
22 14 0.29
23 16 0.33
24 19 0.39
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (22 bp):
ATTTTTATTTTTTATTTTATTT
Found at i:12053477 original size:17 final size:17
Alignment explanation
Indices: 12053457--12053522 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
12053447 TATTTTTTGA
12053457 TTTTATTTATTTTATAT
1 TTTTATTTATTTTATAT
*
12053474 TTTTAATTTATTTAAT-T
1 TTTT-ATTTATTTTATAT
*
12053491 TTCATTTTTTATTTT-TAT
1 TT--TTATTTATTTTATAT
*
12053509 TAATTATTTATTTT
1 T-TTTATTTATTTT
12053523 TACTAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 18 0.46
18 19 0.49
19 2 0.05
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTATTTTATAT
Found at i:12053523 original size:17 final size:17
Alignment explanation
Indices: 12053459--12053534 Score: 57
Period size: 17 Copynumber: 4.4 Consensus size: 17
12053449 TTTTTTGATT
*
12053459 TTATTTATTTTATATT-T
1 TTATTTATTTT-TATTAA
*
12053476 TTAATTTATTTAATT-TTCA
1 TT-ATTTATTT--TTATTAA
*
12053495 TTTTTTATTTTTATTAA
1 TTATTTATTTTTATTAA
*
12053512 TTATTTATTTTTACTAA
1 TTATTTATTTTTATTAA
*
12053529 ATATTT
1 TTATTT
12053535 TCCAAAATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
16 2 0.04
17 25 0.52
18 17 0.35
19 3 0.06
20 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTTATTTTTATTAA
Found at i:12053524 original size:23 final size:21
Alignment explanation
Indices: 12053442--12053524 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 21
12053432 TAGGTTTTTC
*
12053442 ATTTTTATTTTTTGATTTTATTT
1 ATTTTTA-TTTTT-ATTTTATTA
*
12053465 ATTTTATATTTTTAATTTATTTA
1 ATTTT-TATTTTTATTTTA-TTA
*
12053488 ATTTTCATTTTTTATTTTTATTA
1 ATTTTTA-TTTTTA-TTTTATTA
12053511 ATTATTTATTTTTA
1 ATT-TTTATTTTTA
12053525 CTAAATATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
22 6 0.12
23 35 0.70
24 9 0.18
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (21 bp):
ATTTTTATTTTTATTTTATTA
Found at i:12053687 original size:9 final size:8
Alignment explanation
Indices: 12053662--12053708 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
12053652 TTTTCAAAAC
12053662 AAAAATAA
1 AAAAATAA
*
12053670 AATAATAA
1 AAAAATAA
12053678 AAAAAGTAA
1 AAAAA-TAA
12053687 AAAAGAT-A
1 AAAA-ATAA
12053695 AAAAATAA
1 AAAAATAA
12053703 TAAAAA
1 -AAAAA
12053709 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
7 2 0.06
8 17 0.52
9 13 0.39
10 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:12053689 original size:10 final size:9
Alignment explanation
Indices: 12053662--12053709 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
12053652 TTTTCAAAAC
12053662 AAAAAT-AA
1 AAAAATAAA
*
12053670 AATAATAAA
1 AAAAATAAA
*
12053679 AAAAGTAAA
1 AAAAATAAA
*
12053688 AAAGATAAA
1 AAAAATAAA
12053697 AAATAATAAA
1 AAA-AATAAA
12053707 AAA
1 AAA
12053710 TATTTTTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
8 5 0.16
9 19 0.59
10 8 0.25
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (9 bp):
AAAAATAAA
Found at i:12053710 original size:10 final size:10
Alignment explanation
Indices: 12053668--12053711 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
12053658 AAACAAAAAT
12053668 AAAATAATAA
1 AAAATAATAA
*
12053678 AAAA-AGTAA
1 AAAATAATAA
*
12053687 AAAA-GATAA
1 AAAATAATAA
12053696 AAAATAATAA
1 AAAATAATAA
12053706 AAAATA
1 AAAATA
12053712 TTTTTTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 15 0.52
10 14 0.48
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (10 bp):
AAAATAATAA
Found at i:12059383 original size:27 final size:27
Alignment explanation
Indices: 12059311--12059384 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 27
12059301 GATAATTTCT
* * *
12059311 TTTAATTACAAATCAAATAATTTTAAA
1 TTTAATTAAAAATCAAATTATTTAAAA
*
12059338 TTT-ATTCAAAATCAAAATTA-TTAAAA
1 TTTAATTAAAAATC-AAATTATTTAAAA
12059364 TTATAATTAAAAATCAAATTA
1 TT-TAATTAAAAATCAAATTA
12059385 AGTTAGAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 15 0.38
27 15 0.38
28 9 0.23
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (27 bp):
TTTAATTAAAAATCAAATTATTTAAAA
Found at i:12059452 original size:21 final size:21
Alignment explanation
Indices: 12059427--12059469 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12059417 TAAAATATGG
* *
12059427 ATTTTATTTTTTTAATAAATA
1 ATTTTAGTTGTTTAATAAATA
*
12059448 ATTTTAGTTGTTTACTAAATA
1 ATTTTAGTTGTTTAATAAATA
12059469 A
1 A
12059470 CCTTATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTAGTTGTTTAATAAATA
Found at i:12062655 original size:25 final size:24
Alignment explanation
Indices: 12062614--12062663 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
12062604 GGGTAACACT
* *
12062614 ATTTTATTTAGATTTTAATT-TTTA
1 ATTTTATTTAAAATTT-ATTATTTA
12062638 ATTTTACTTTAAAATTTATTATTTA
1 ATTTTA-TTTAAAATTTATTATTTA
12062663 A
1 A
12062664 ATAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTATTTAAAATTTATTATTTA
Found at i:12066234 original size:13 final size:14
Alignment explanation
Indices: 12066212--12066245 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
12066202 GCCCATTTGC
12066212 ATTT-TTTTTATTT
1 ATTTATTTTTATTT
12066225 -TTTATTTTTATTT
1 ATTTATTTTTATTT
12066238 ATTTATTT
1 ATTTATTT
12066246 ATTACTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
ATTTATTTTTATTT
Found at i:12066238 original size:17 final size:17
Alignment explanation
Indices: 12066212--12066248 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12066202 GCCCATTTGC
12066212 ATTTTTTTTATTT-TTT
1 ATTTTTTTTATTTATTT
12066228 ATTTTTATTTATTTATTT
1 ATTTTT-TTTATTTATTT
12066246 ATT
1 ATT
12066249 ACTACTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 7 0.37
18 6 0.32
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTTTTATTTATTT
Found at i:12066292 original size:8 final size:8
Alignment explanation
Indices: 12066281--12066369 Score: 57
Period size: 8 Copynumber: 11.5 Consensus size: 8
12066271 ATATAAATAT
12066281 TATTTATC
1 TATTTATC
*
12066289 TA-TTAAC
1 TATTTATC
12066296 ATATTTTAT-
1 -TA-TTTATC
12066305 TATTTATC
1 TATTTATC
*
12066313 TATTAATATA
1 TATT--TATC
12066323 TATTTAT-
1 TATTTATC
12066330 TA-TTAT-
1 TATTTATC
12066336 TATTTATC
1 TATTTATC
* *
12066344 TATTCATA
1 TATTTATC
12066352 TA-TTAT-
1 TATTTATC
12066358 TATTTATC
1 TATTTATC
12066366 TATT
1 TATT
12066370 AATATATATA
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
6 8 0.12
7 22 0.34
8 25 0.38
10 10 0.15
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTTATC
Found at i:12066321 original size:41 final size:44
Alignment explanation
Indices: 12066236--12066334 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 44
12066226 TTATTTTTAT
12066236 TTATTTATTTATT-ACTACTATTATTATTTATTAATATATAAATA
1 TTATTTA-TTATTAACTACTATTATTATTTATTAATATATAAATA
* * *
12066280 TTATTTATCTATTAAC-A-TATT-TTA-TTATTTATCTATTAATA
1 TTATTTAT-TATTAACTACTATTATTATTTATTAATATATAAATA
12066321 TATATTTATTATTA
1 T-TATTTATTATTA
12066335 TTATTTATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
41 20 0.41
42 10 0.20
43 5 0.10
44 12 0.24
45 2 0.04
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (44 bp):
TTATTTATTATTAACTACTATTATTATTTATTAATATATAAATA
Found at i:12066339 original size:31 final size:30
Alignment explanation
Indices: 12066297--12066362 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 30
12066287 TCTATTAACA
12066297 TATTTTATTATTTATCTATTAATATATATT
1 TATTTTATTATTTATCTATTAATATATATT
*
12066327 TATTATTATTATTTATCTATTCATATAT-TAT
1 TATT-TTATTATTTATCTATTAATATATAT-T
12066358 TATTT
1 TATTT
12066363 ATCTATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
TATTTTATTATTTATCTATTAATATATATT
Found at i:12066347 original size:14 final size:14
Alignment explanation
Indices: 12066301--12066370 Score: 58
Period size: 14 Copynumber: 5.2 Consensus size: 14
12066291 TTAACATATT
12066301 TTATTATTTATCTA
1 TTATTATTTATCTA
* * *
12066315 TTAATATATATTTA
1 TTATTATTTATCTA
12066329 TTATTA-TTA--T-
1 TTATTATTTATCTA
* *
12066339 TTATCTATTCATATA
1 TTAT-TATTTATCTA
12066354 TTATTATTTATCTA
1 TTATTATTTATCTA
12066368 TTA
1 TTA
12066371 ATATATATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
10 4 0.09
11 3 0.07
12 2 0.05
13 2 0.05
14 28 0.65
15 4 0.09
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATTATTTATCTA
Found at i:12066356 original size:22 final size:22
Alignment explanation
Indices: 12066330--12066386 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
12066320 ATATATTTAT
*
12066330 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTAATA
12066352 TATTATTATTTATCTATTAATA
1 TATTATTATTTATCTATTAATA
12066374 TATATATTTATTT
1 TAT-TA-TTATTT
12066387 TTCATCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 24 0.75
23 2 0.06
24 6 0.19
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATTATTTATCTATTAATA
Found at i:12067217 original size:21 final size:23
Alignment explanation
Indices: 12067166--12067219 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
12067156 GCCGCGTCTT
*
12067166 CGAGCCACTTTTTCTATCTTGAGC
1 CGAGCCA-TTTTTCTATATTGAGC
*
12067190 C-AACCATTTTTC-A-ATTGAGC
1 CGAGCCATTTTTCTATATTGAGC
12067210 CGAGCCATTT
1 CGAGCCATTT
12067220 CAAAGGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 6 0.23
23 4 0.15
24 1 0.04
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (23 bp):
CGAGCCATTTTTCTATATTGAGC
Found at i:12067318 original size:22 final size:22
Alignment explanation
Indices: 12067306--12067347 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12067296 TTTAGTATTT
12067306 CTTTTTTATTTATTTTATTTTA
1 CTTTTTTATTTATTTTATTTTA
*
12067328 CTTTTTTATTT-TATTATTTT
1 CTTTTTTATTTATTTTATTTT
12067348 TTTAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (22 bp):
CTTTTTTATTTATTTTATTTTA
Found at i:12067348 original size:22 final size:22
Alignment explanation
Indices: 12067306--12067349 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
12067296 TTTAGTATTT
*
12067306 CTTTTTTATTTATTTTATTTTA
1 CTTTTTTATTTATTATATTTTA
*
12067328 CTTTTTTATTTTATTATTTTTT
1 CTTTTTTA-TTTATTATATTTT
12067350 TAAAATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (22 bp):
CTTTTTTATTTATTATATTTTA
Found at i:12067350 original size:18 final size:17
Alignment explanation
Indices: 12067307--12067350 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
12067297 TTAGTATTTC
*
12067307 TTTTTTATTTATTTTAT
1 TTTTTTTTTTATTTTAT
*
12067324 TTTACTTTTTTATTTTAT
1 TTT-TTTTTTTATTTTAT
*
12067342 TATTTTTTT
1 TTTTTTTTT
12067351 AAAATGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTATTTTAT
Found at i:12067446 original size:58 final size:58
Alignment explanation
Indices: 12067378--12067558 Score: 308
Period size: 58 Copynumber: 3.1 Consensus size: 58
12067368 ATAAAATTCA
*
12067378 AAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
1 AAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * *
12067437 AAAAAATATTTTTGAGGAAAAGTTAAAAATATCAATTTTTCTTGAAGATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
*
12067495 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
12067553 AAAAAA
1 AAAAAA
12067559 AATCAATTTT
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
58 109 0.96
59 5 0.04
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:12067559 original size:17 final size:17
Alignment explanation
Indices: 12067539--12067596 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
12067529 ATTTTCCTTG
12067539 AAAATAAGTTTTCTAAAA
1 AAAATAAGTTTTCT-AAA
**
12067557 AAAATCAA-TTTTCCT-TG
1 AAAAT-AAGTTTT-CTAAA
12067574 AAAATAAGTTTTCTAAA
1 AAAATAAGTTTTCTAAA
12067591 AAAATA
1 AAAATA
12067597 TTTTTGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
16 4 0.12
17 15 0.47
18 9 0.28
19 4 0.12
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (17 bp):
AAAATAAGTTTTCTAAA
Found at i:12067565 original size:93 final size:94
Alignment explanation
Indices: 12067461--12067652 Score: 332
Period size: 94 Copynumber: 2.1 Consensus size: 94
12067451 AGGAAAAGTT
* * * *
12067461 AAAAATATCAATTTTTCTTGAAGATAAGTTTTCT-AAAAAATATTTTTGAGGAAAAGTTGAAAGT
1 AAAAAAATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGT
12067525 ATCAATTTTCCTTGAAAATAAGTTTTCTA
66 ATCAATTTTCCTTGAAAATAAGTTTTCTA
12067554 AAAAAAATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGT
1 AAAAAAATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGT
*
12067619 ATCAATTTTCCTTGAAGATAAGTTTTCTA
66 ATCAATTTTCCTTGAAAATAAGTTTTCTA
12067648 AAAAA
1 AAAAA
12067653 TATTTTTGAG
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 31 0.33
94 62 0.67
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (94 bp):
AAAAAAATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGT
ATCAATTTTCCTTGAAAATAAGTTTTCTA
Found at i:12067571 original size:35 final size:35
Alignment explanation
Indices: 12067525--12067594 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
12067515 AGTTGAAAGT
12067525 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAA
1 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAA
12067560 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAA
1 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAA
12067595 TATTTTTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (35 bp):
ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAA
Found at i:12067628 original size:59 final size:59
Alignment explanation
Indices: 12067560--12067803 Score: 384
Period size: 59 Copynumber: 4.2 Consensus size: 59
12067550 TCTAAAAAAA
*
12067560 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGT
1 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGT
* *
12067619 ATCAATTTTCCTTGAAGATAAGTTTTCT-AAAAAATATTTTTGAGAAAAAGTTGAAAGT
1 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGT
* * *
12067677 ATCAATTTTCCTTGAAAATATGTTTTCTAAAAATATATTTTTAAGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGT
* * *
12067736 ATCAATTTTCCTTGAAAGTAAGTTTTC-AGAAAAAATATTTTCAAGGAAAAGTTGAAAGT
1 ATCAATTTTCCTTGAAAATAAGTTTTCTA-AAAAAATATTTTTAAGAAAAAGTTGAAAGT
12067795 ATCAATTTT
1 ATCAATTTT
12067804 TCTTATACAA
Statistics
Matches: 173, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
58 57 0.33
59 116 0.67
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (59 bp):
ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGT
Found at i:12067638 original size:152 final size:151
Alignment explanation
Indices: 12067409--12067709 Score: 530
Period size: 152 Copynumber: 2.0 Consensus size: 151
12067399 AGTTGAAAGT
* *
12067409 ATCAATTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAGTTAAAAATATCAATT
1 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATT
* *
12067474 TTTCTTGAAGATAAGTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
66 TTCCTTGAAGATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
12067539 AAAATAAGTTTTCTAAAAAAA
131 AAAATAAGTTTTCTAAAAAAA
* *
12067560 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 ATCAATTTTCCTTGAAAATAAGTTTTCT-AAAAAATATTTTTGAGAAAAAGTTAAAAATATCAAT
12067625 TTTCCTTGAAGATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
65 TTTCCTTGAAGATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
*
12067690 GAAAATATGTTTTCTAAAAA
130 GAAAATAAGTTTTCTAAAAA
12067710 TATATTTTTA
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
151 27 0.19
152 115 0.81
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (151 bp):
ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATT
TTCCTTGAAGATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
AAAATAAGTTTTCTAAAAAAA
Found at i:12067692 original size:117 final size:118
Alignment explanation
Indices: 12067560--12067803 Score: 393
Period size: 117 Copynumber: 2.1 Consensus size: 118
12067550 TCTAAAAAAA
*
12067560 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAAT
1 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAAT
* **
12067625 TTTCCTTG-AAGATAAGTTTTC-TAAAAAATATTTTTGAGAAAAAGTTGAAAGT
66 TTTCCTTGAAAG-TAAGTTTTCAGAAAAAATATTTTCAAGAAAAAGTTGAAAGT
* * *
12067677 ATCAATTTTCCTTGAAAATATGTTTTCTAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAAT
1 ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAAT
*
12067742 TTTCCTTGAAAGTAAGTTTTCAGAAAAAATATTTTCAAGGAAAAGTTGAAAGT
66 TTTCCTTGAAAGTAAGTTTTCAGAAAAAATATTTTCAAGAAAAAGTTGAAAGT
12067795 ATCAATTTT
1 ATCAATTTT
12067804 TCTTATACAA
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
117 78 0.67
118 39 0.33
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (118 bp):
ATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAAT
TTTCCTTGAAAGTAAGTTTTCAGAAAAAATATTTTCAAGAAAAAGTTGAAAGT
Found at i:12067771 original size:210 final size:211
Alignment explanation
Indices: 12067377--12067771 Score: 668
Period size: 210 Copynumber: 1.9 Consensus size: 211
12067367 AATAAAATTC
*
12067377 AAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAA
1 AAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
* * *
12067442 ATATTTTTGAGGAAAAGTTAAAAATATCAATTTTTCTTGAAGATAAGTTTTCTAAAAAATATTTT
66 ATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTT
*
12067507 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAAATCAATTTTCCT
131 TAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAAATCAATTTTCCT
12067572 TGAAAATAAGTTTTCT
196 TGAAAATAAGTTTTCT
*
12067588 AAAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAGATAAGTTTTCTAAAAA
1 AAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
* * *
12067652 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATATGTTTTCTAAAAATATATTT
66 ATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA-ATATTT
* *
12067717 TTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAGTAAGTTTTC-AGAAAAAAT
130 TTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAAAT
12067772 ATTTTCAAGG
Statistics
Matches: 172, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
210 116 0.67
211 56 0.33
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (211 bp):
AAAAAATATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
ATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTT
TAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAAAATCAATTTTCCT
TGAAAATAAGTTTTCT
Found at i:12073519 original size:295 final size:296
Alignment explanation
Indices: 12072953--12073542 Score: 925
Period size: 295 Copynumber: 2.0 Consensus size: 296
12072943 AGCCAAAGTC
*
12072953 AGTCCTAGATAAACTCATTCCCAGGCTGATAACTTTTAAAGTTTCGATTCTATTCCCATATAAAG
1 AGTCCTAGATAAACTCATTCCCAGGCTGATAACTTTTAAAGTTTCGATTCCATTCCCATATAAAG
* * * **
12073018 ATAATGAAGTTATACCCTAAAATATAGCTGCAATACAGTAGTTTAGGGGCAAGAAGGGGATGTCT
66 ATAATAAAGTTATACCCTAAAATATAGCTGCAATACAGTAGTTTAGGGACAAAAAAAGGATGTCT
* * **
12073083 CTAAAGCTGACACCTTCAATATAACTAGTGTAAGAGGTATTACCCGAAGTGAAAGATGCTACACT
131 CTAAAGCTGACACCTCCAATATAACTAGTGTAAAAGACATTACCCGAAGTGAAAGATGCTACACT
* *
12073148 CTAGAAATATTAGAGAAAGCTAGAAGAGAAAAAGCCAAGGTAAGAGAAGGATGAAATAACCTTGA
196 CTAGAAATATTAGAGAAAGCTAGAAAAGAAAAAGCCAAGGTAAGAGAAAGATGAAATAACCTTGA
* *
12073213 AATAGAACCTAAGAAAGATCGCATGAAGTCGGTGTT
261 AATAAAACCTAAGAAAGATCACATGAAGTCGGTGTT
*
12073249 AGTCCTAGATAAACTCATTCCCAGGCTGAT-A-TTTTAAAGTTTCGATTCCATTCCCATATAAGG
1 AGTCCTAGATAAACTCATTCCCAGGCTGATAACTTTTAAAGTTTCGATTCCATTCCCATATAAAG
* * * *
12073312 ATGATAAAGTTGTACCCTAAAAATATTA-CTGTAATACAGTAGTTTAGGGATAAAAAAAGGATGT
66 ATAATAAAGTTATACCCT-AAAATA-TAGCTGCAATACAGTAGTTTAGGGACAAAAAAAGGATGT
**
12073376 CTCTAAAGCTGATGCCTCCAATATAACTAGTGTAAAAGACATTACCCGAAGTGAAAGATGCTACA
129 CTCTAAAGCTGACACCTCCAATATAACTAGTGTAAAAGACATTACCCGAAGTGAAAGATGCTACA
* *
12073441 CTCTAGAAATATTAGAGAAGGCTAGAAAAGAGAAAGCCAAGGTAAGAGAAAGATGAAATAACCTT
194 CTCTAGAAATATTAGAGAAAGCTAGAAAAGAAAAAGCCAAGGTAAGAGAAAGATGAAATAACCTT
*
12073506 GAAATAAAACCTAAGAAAGATCACCTGAAGTCGGTGT
259 GAAATAAAACCTAAGAAAGATCACATGAAGTCGGTGT
12073543 CAGAAAAAGA
Statistics
Matches: 268, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
294 45 0.17
295 191 0.71
296 32 0.12
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (296 bp):
AGTCCTAGATAAACTCATTCCCAGGCTGATAACTTTTAAAGTTTCGATTCCATTCCCATATAAAG
ATAATAAAGTTATACCCTAAAATATAGCTGCAATACAGTAGTTTAGGGACAAAAAAAGGATGTCT
CTAAAGCTGACACCTCCAATATAACTAGTGTAAAAGACATTACCCGAAGTGAAAGATGCTACACT
CTAGAAATATTAGAGAAAGCTAGAAAAGAAAAAGCCAAGGTAAGAGAAAGATGAAATAACCTTGA
AATAAAACCTAAGAAAGATCACATGAAGTCGGTGTT
Found at i:12078391 original size:22 final size:22
Alignment explanation
Indices: 12078365--12078434 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
12078355 CTATGTTTGA
12078365 GAAAAATAAGAAAAAATGAAAT
1 GAAAAATAAGAAAAAATGAAAT
*
12078387 GAAAAAT-AGAAAAAA-AAAAT
1 GAAAAATAAGAAAAAATGAAAT
* *
12078407 GAAAAGAAAAGAAAAAGTG-AAT
1 GAAAA-ATAAGAAAAAATGAAAT
12078429 GAAAAA
1 GAAAAA
12078435 AGAAGACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 9 0.22
21 10 0.24
22 22 0.54
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (22 bp):
GAAAAATAAGAAAAAATGAAAT
Found at i:12078393 original size:12 final size:12
Alignment explanation
Indices: 12078364--12078416 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
12078354 ACTATGTTTG
*
12078364 AGAAAAAT-AAG
1 AGAAAAATGAAA
12078375 A-AAAAATGAAA
1 AGAAAAATGAAA
*
12078386 TGAAAAATAGAAA
1 AGAAAAAT-GAAA
*
12078399 AAAAAAATGAAA
1 AGAAAAATGAAA
12078411 AGAAAA
1 AGAAAA
12078417 GAAAAAGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 15 0.44
13 10 0.29
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.09
Consensus pattern (12 bp):
AGAAAAATGAAA
Found at i:12078416 original size:17 final size:18
Alignment explanation
Indices: 12078394--12078427 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12078384 AATGAAAAAT
12078394 AGAAAA-AAAAAATGAAA
1 AGAAAAGAAAAAATGAAA
*
12078411 AGAAAAGAAAAAGTGAA
1 AGAAAAGAAAAAATGAA
12078428 TGAAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (18 bp):
AGAAAAGAAAAAATGAAA
Found at i:12079469 original size:41 final size:41
Alignment explanation
Indices: 12079418--12079743 Score: 332
Period size: 41 Copynumber: 7.8 Consensus size: 41
12079408 GATTGTCAAT
* **
12079418 GAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTATTTTCCAAAGTCGTTGAGCCTCTAATTAGAG
* * ** *
12079459 AAGCCATTTATTTTTTAAAGTCATTGAGCCTCTAATTAGAG
1 GAGCAATTTATTTTCCAAAGTCGTTGAGCCTCTAATTAGAG
* *
12079500 GAGCAATTTGTTTTTCAAAGTCGTTGAGCCTCTAATTAGAG
1 GAGCAATTTATTTTCCAAAGTCGTTGAGCCTCTAATTAGAG
* * *
12079541 GAGCAATTTATTTTCCAAAAGTCGTTAAGCCTTTGATTAGAG
1 GAGCAATTTATTTTCC-AAAGTCGTTGAGCCTCTAATTAGAG
* * **
12079583 GAGCAATTTACTTTCCAAAAGTCATTGAGCCTCTGTTTAGAG
1 GAGCAATTTATTTTCC-AAAGTCGTTGAGCCTCTAATTAGAG
* * * *
12079625 GAGCCATTTACTTTCCAAAATCGTTGAGTCTCTAATTAGAG
1 GAGCAATTTATTTTCCAAAGTCGTTGAGCCTCTAATTAGAG
* * *
12079666 GAGCCATTTATTTTCCAAAGTTGTAAT-AG-CTCTTATTAGAG
1 GAGCAATTTATTTTCCAAAGTCGT--TGAGCCTCTAATTAGAG
**
12079707 GAGCTTTGTTTATGTTTCTCAAAGTCGTTGAGCCTCT
1 GAGC--AATTTAT-TTTC-CAAAGTCGTTGAGCCTCT
12079744 GCTTAGATGA
Statistics
Matches: 242, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
41 141 0.58
42 76 0.31
43 7 0.03
44 6 0.02
45 12 0.05
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (41 bp):
GAGCAATTTATTTTCCAAAGTCGTTGAGCCTCTAATTAGAG
Found at i:12079626 original size:125 final size:124
Alignment explanation
Indices: 12079418--12079684 Score: 356
Period size: 125 Copynumber: 2.2 Consensus size: 124
12079408 GATTGTCAAT
* * * * ***
12079418 GAGCAATTTATTTTTC-AAAGTCGTTGAGCCTCTGTTTAGAGAAGCCATTTATTTTTTAAAGTCA
1 GAGCAATTTATTTTCCAAAAGTCGTTAAGCCTCTGATTAGAGAAGCAATTTATTTCCAAAAGTCA
** * *
12079482 TTGAGCCTCTAATTAGAGGAGCAATTTGTTTTTCAAAGTCGTTGAGCCTCTAATTAGAG
66 TTGAGCCTCTAATTAGAGGAGCAATTTACTTTCCAAAATCGTTGAGCCTCTAATTAGAG
* *
12079541 GAGCAATTTATTTTCCAAAAGTCGTTAAGCCTTTGATTAGAGGAGCAATTTACTTTCCAAAAGTC
1 GAGCAATTTATTTTCCAAAAGTCGTTAAGCCTCTGATTAGAGAAGCAATTTA-TTTCCAAAAGTC
** * *
12079606 ATTGAGCCTCTGTTTAGAGGAGCCATTTACTTTCCAAAATCGTTGAGTCTCTAATTAGAG
65 ATTGAGCCTCTAATTAGAGGAGCAATTTACTTTCCAAAATCGTTGAGCCTCTAATTAGAG
*
12079666 GAGCCATTTATTTTCCAAA
1 GAGCAATTTATTTTCCAAA
12079685 GTTGTAATAG
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
123 15 0.12
124 30 0.24
125 79 0.64
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (124 bp):
GAGCAATTTATTTTCCAAAAGTCGTTAAGCCTCTGATTAGAGAAGCAATTTATTTCCAAAAGTCA
TTGAGCCTCTAATTAGAGGAGCAATTTACTTTCCAAAATCGTTGAGCCTCTAATTAGAG
Found at i:12079799 original size:20 final size:20
Alignment explanation
Indices: 12079774--12079811 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12079764 AAATTTTAAC
12079774 AAAAAAAAA-AAGAAAAAGCG
1 AAAAAAAAAGAA-AAAAAGCG
12079794 AAAAAAAAAGAAAAAAAG
1 AAAAAAAAAGAAAAAAAG
12079812 GTCGAGTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAGCG
Found at i:12079977 original size:13 final size:14
Alignment explanation
Indices: 12079959--12079988 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
12079949 CATTTGCATT
12079959 TTTTTATTT-TTTA
1 TTTTTATTTATTTA
12079972 TTTTTATTTATTTA
1 TTTTTATTTATTTA
12079986 TTT
1 TTT
12079989 ATTAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:12079983 original size:4 final size:4
Alignment explanation
Indices: 12079956--12080203 Score: 62
Period size: 4 Copynumber: 63.5 Consensus size: 4
12079946 GCCCATTTGC
* * * **
12079956 ATTT TTTT ATTT -TTT A-TT -TTT ATTT ATTT ATTT ATTA ATAT ATAA
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * ** ** *
12080001 ATATT ATTT ATCT ATTA ACAT ATTT -TATT ATTT ATCC ATTAAT ATAT
1 AT-TT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATT--T ATTT
* * *
12080048 ATTT A-TT A-TT ATTT ATCT ATTAAT ATAT ATTT A-TT A-TT ATTT ATCT
1 ATTT ATTT ATTT ATTT ATTT ATT--T ATTT ATTT ATTT ATTT ATTT ATTT
* * *
12080094 ATTAAT ATAT ATTT -TTT A-TT A-TT ATTT ATCT ATTAAT ATAT ATTT
1 ATT--T ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT--T ATTT ATTT
* * * *
12080139 -TTT A-TT A-TT ATTT ATCT ATTT ATAT A-TT A-TT ATTT ATCT ATTA
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* *
12080182 ATAT ATAT ATTTT ATTT -TTT AT
1 ATTT ATTT A-TTT ATTT ATTT AT
12080204 CTTTTTCTTG
Statistics
Matches: 177, Mismatches: 44, Indels: 46
0.66 0.16 0.17
Matches are distributed among these distances:
3 46 0.26
4 114 0.64
5 6 0.03
6 11 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (4 bp):
ATTT
Found at i:12080056 original size:28 final size:28
Alignment explanation
Indices: 12079970--12080205 Score: 255
Period size: 28 Copynumber: 8.7 Consensus size: 28
12079960 TTTTATTTTT
*
12079970 TATTT-TTATTTATTTATTTATTAATATA
1 TATTTATTA-TTATTTATCTATTAATATA
* *
12079998 TA---AATATTATTTATCTATT-A-ACA
1 TATTTATTATTATTTATCTATTAATATA
*
12080021 TA-TT-TTATTATTTATCCATTAATATA
1 TATTTATTATTATTTATCTATTAATATA
12080047 TATTTATTATTATTTATCTATTAATATA
1 TATTTATTATTATTTATCTATTAATATA
12080075 TATTTATTATTATTTATCTATTAATATA
1 TATTTATTATTATTTATCTATTAATATA
12080103 TATTTTTTATTATTATTTATCTATTAATATA
1 TA---TTTATTATTATTTATCTATTAATATA
* *
12080134 TATTTTTTATTA-TTATTTATCT-AT-T-
1 TATTTATTATTATTTATCTAT-TAATATA
*
12080159 TATATATTATTATTTATCTATTAATATA
1 TATTTATTATTATTTATCTATTAATATA
*
12080187 TATATT-TTATTTTTTATCT
1 TAT-TTATTATTATTTATCT
12080206 TTTTCTTGAT
Statistics
Matches: 178, Mismatches: 14, Indels: 32
0.79 0.06 0.14
Matches are distributed among these distances:
23 4 0.02
24 15 0.08
25 24 0.13
26 16 0.09
27 12 0.07
28 78 0.44
29 1 0.01
31 28 0.16
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
TATTTATTATTATTTATCTATTAATATA
Found at i:12080068 original size:14 final size:14
Alignment explanation
Indices: 12080025--12080205 Score: 129
Period size: 14 Copynumber: 12.9 Consensus size: 14
12080015 TTAACATATT
*
12080025 TTATTATTTATCCA
1 TTATTATTTATCTA
* * *
12080039 TTAATATATATTTA
1 TTATTATTTATCTA
12080053 TTATTATTTATCTA
1 TTATTATTTATCTA
* * *
12080067 TTAATATATATTTA
1 TTATTATTTATCTA
12080081 TTATTATTTATCTA
1 TTATTATTTATCTA
* *
12080095 TTAATATATATTTTTTA
1 TT-AT-TAT-TTATCTA
12080112 TTATTATTTATCTA
1 TTATTATTTATCTA
* *
12080126 TTAATATATAT-T-
1 TTATTATTTATCTA
12080138 TT-TTA-TTAT-TA
1 TTATTATTTATCTA
*
12080149 TTTATCTATTTATATA
1 -TTAT-TATTTATCTA
12080165 TTATTATTTATCTA
1 TTATTATTTATCTA
* * * *
12080179 TTAATATATATATT
1 TTATTATTTATCTA
*
12080193 TTATTTTTTATCT
1 TTATTATTTATCT
12080206 TTTTCTTGAT
Statistics
Matches: 128, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
10 4 0.03
11 2 0.02
12 4 0.03
13 2 0.02
14 89 0.70
15 13 0.10
16 7 0.05
17 7 0.05
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATTATTTATCTA
Found at i:12080595 original size:30 final size:31
Alignment explanation
Indices: 12080534--12080600 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
12080524 AATTTTCAGA
* *
12080534 TTTCGGTGAATTTTTCGACTAAATTTAAATT
1 TTTCGATGAATTTTTCGACTAAAGTTAAATT
* * *
12080565 TTTCGATGATTTTTTCGAC-ACAGTTGAATT
1 TTTCGATGAATTTTTCGACTAAAGTTAAATT
12080595 TTTCGA
1 TTTCGA
12080601 CCAGCTACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (31 bp):
TTTCGATGAATTTTTCGACTAAAGTTAAATT
Found at i:12081104 original size:5 final size:5
Alignment explanation
Indices: 12081094--12081133 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
12081084 TTAGTATTCC
*
12081094 TTATT TTATT TT-TT TTATT TTA-C TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
12081134 TTAAAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 7 0.23
5 24 0.77
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:12081111 original size:9 final size:9
Alignment explanation
Indices: 12081097--12081135 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
12081087 GTATTCCTTA
12081097 TTTTATTTT
1 TTTTATTTT
12081106 TTTTATTTT
1 TTTTATTTT
**
12081115 ACTTATTTT
1 TTTTATTTT
12081124 ATTTTATTTT
1 -TTTTATTTT
12081134 TT
1 TT
12081136 AAAATGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTATTTT
Done.