Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 59 of 185
Found at i:17006993 original size:82 final size:81
Alignment explanation
Indices: 17006822--17007002 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
17006812 GATTAAATTG
* *
17006822 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17006887 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
17006903 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17006967 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17006985 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17007003 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17027131 original size:50 final size:51
Alignment explanation
Indices: 17026999--17027141 Score: 157
Period size: 51 Copynumber: 2.8 Consensus size: 51
17026989 CAAAACACCA
* * *
17026999 TTTGTGGACAAGCCATCACTGATTTGCAGATAAATTTCCACTAATAACACT
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTAATAACACT
* * *
17027050 TTTGTGGACAAGCCACCACTGAATTT-AAGATACACTGCCACTAATATA-A-T
1 TTTGTGGACAAGCCACCACTG-ATTTGCAGATAAACTACCACTAATA-ACACT
* * * *
17027100 TTTGTGAACATGCCACCAGTGATTTGCAGATATACTACCACT
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACT
17027142 GCTTCCACCT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
49 4 0.05
50 32 0.41
51 37 0.47
52 5 0.06
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (51 bp):
TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTAATAACACT
Found at i:17044957 original size:28 final size:27
Alignment explanation
Indices: 17044900--17045051 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
17044890 TAAATTGTGC
*
17044900 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
17044927 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
17044955 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
17044982 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
17045010 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
17045037 AGCAATGAGTGTGCG
1 AGCACTAAGTGTGCG
17045052 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:17044964 original size:55 final size:55
Alignment explanation
Indices: 17044900--17045051 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
17044890 TAAATTGTGC
*
17044900 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
17044955 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
17045010 AGCACTAAGTGTGCGAGTTGATTATATAGCAATGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
17045052 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:17052979 original size:28 final size:27
Alignment explanation
Indices: 17052922--17053073 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
17052912 TAAATTGTGC
*
17052922 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
17052949 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
17052977 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
17053004 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
17053032 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
17053059 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17053074 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:17052986 original size:55 final size:55
Alignment explanation
Indices: 17052922--17053073 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
17052912 TAAATTGTGC
*
17052922 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
17052977 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
17053032 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
17053074 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:17059228 original size:44 final size:43
Alignment explanation
Indices: 17059175--17059296 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
17059165 CTAAGGTAAA
* *
17059175 TCCAACAACCCATGTTTATCTTCTCCTCTTTTTTAAATTATTTT
1 TCCAACAACCCAAGATTATCTTCTCCTC-TTTTTAAATTATTTT
** * * *
17059219 TTGAACAACCCAAAATTATCTTCTCCTCTTTCTAAATTCTTTT
1 TCCAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTT
17059262 TCCAACAACCCAAGATTATCTTCTCCTCCTTTTTA
1 TCCAACAACCCAAGATTATCTTCTCCT-CTTTTTA
17059297 GCTAGATTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 37 0.56
44 29 0.44
ACGTcount: A:0.25, C:0.28, G:0.02, T:0.44
Consensus pattern (43 bp):
TCCAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTT
Found at i:17061865 original size:41 final size:42
Alignment explanation
Indices: 17061768--17061904 Score: 197
Period size: 42 Copynumber: 3.3 Consensus size: 42
17061758 ATGTGATTAT
* *
17061768 GTGTAAGACCATGTCTGAGACATTGGCATCGTTATG-TGATTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAT-ATTC
**
17061810 GTGTAAGAAAATGTCTGGGACATTGGCAT-GATATGATATTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGATATTC
* *
17061851 GTGTAAGACCATGTCTAGGACATTGGCATCGATATGAGATTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGATATTC
17061893 GTGTAAGACCAT
1 GTGTAAGACCAT
17061905 AGCTGGCTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
41 35 0.41
42 50 0.59
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATGATATTC
Found at i:17070256 original size:31 final size:30
Alignment explanation
Indices: 17070218--17070310 Score: 132
Period size: 30 Copynumber: 3.0 Consensus size: 30
17070208 GGGTAAATCC
* *
17070218 AACAACCCATGCTTATCTTCTTCTCTTTTTT
1 AACAACCCAAGATTATCTTCTTCT-TTTTTT
*
17070249 AACAACCCAAGATTATCTTCTTCTTTTTTC
1 AACAACCCAAGATTATCTTCTTCTTTTTTT
*
17070279 AACAACCCAAGATTATCTTCTCCTGTTTTTT
1 AACAACCCAAGATTATCTTCTTCT-TTTTTT
17070310 A
1 A
17070311 GGCAGATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 28 0.50
31 28 0.50
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (30 bp):
AACAACCCAAGATTATCTTCTTCTTTTTTT
Found at i:17085072 original size:40 final size:40
Alignment explanation
Indices: 17085014--17085174 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
17085004 AATTATTCAA
* * *
17085014 TGATTGCACTTATGTGCCCCTGTTTGTTCTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
* *
17085054 TGATTGTACTTACATGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
* * * ** *
17085094 TAATTGCATTTACGTTCCCCTATTTGTACTTCAATACCCT
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
* * *
17085134 TGATTCCTCTTACGTGCCCCTACTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
17085174 T
1 T
17085175 TGCTGCACTT
Statistics
Matches: 99, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.16, C:0.31, G:0.14, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:17085095 original size:20 final size:19
Alignment explanation
Indices: 17085030--17085174 Score: 69
Period size: 20 Copynumber: 7.3 Consensus size: 19
17085020 CACTTATGTG
* *
17085030 CCCCTGTTTGTTCTTCGGTA
1 CCCCTATTTGTACTTC-GTA
* *
17085050 CCCCTGA-TTGTACTTACATG
1 CCCCT-ATTTGTACTT-CGTA
17085070 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTC-GTA
* * * *
17085090 CCCCTAATTGCATTTACGTT
1 CCCCTATTTGTACTT-CGTA
*
17085110 CCCCTATTTGTACTTCAATA
1 CCCCTATTTGTACTTC-GTA
* ** *
17085130 CCCTTGATTCCT-CTTACGTG
1 CCCCT-ATTTGTACTT-CGTA
*
17085150 CCCCTACTTGTACTTCGGTA
1 CCCCTATTTGTACTTC-GTA
17085170 CCCCT
1 CCCCT
17085175 TGCTGCACTT
Statistics
Matches: 90, Mismatches: 25, Indels: 20
0.67 0.19 0.15
Matches are distributed among these distances:
19 7 0.08
20 76 0.84
21 7 0.08
ACGTcount: A:0.15, C:0.33, G:0.13, T:0.39
Consensus pattern (19 bp):
CCCCTATTTGTACTTCGTA
Found at i:17085191 original size:40 final size:40
Alignment explanation
Indices: 17085017--17085192 Score: 144
Period size: 40 Copynumber: 4.4 Consensus size: 40
17085007 TATTCAATGA
* *
17085017 TTGCACTTAT-GTGCCCCTGTTTGTTCTTCGGTACCCC-TG
1 TTGCACTT-TCGTGCCCCTATTTGTACTTCGGTACCCCTTG
* * * **
17085056 ATTGTACTTACATGCCCCTATTTGTACTTCGGTACCCCTAA
1 -TTGCACTTTCGTGCCCCTATTTGTACTTCGGTACCCCTTG
* **
17085097 TTGCA-TTTACGTTCCCCTATTTGTACTTCAATA-CCCTTG
1 TTGCACTTT-CGTGCCCCTATTTGTACTTCGGTACCCCTTG
* * * *
17085136 ATTCCTCTTACGTGCCCCTACTTGTACTTCGGTACCCCTTG
1 -TTGCACTTTCGTGCCCCTATTTGTACTTCGGTACCCCTTG
* *
17085177 CTGCACTTTTGTGCCC
1 TTGCACTTTCGTGCCC
17085193 GTGGTTATAC
Statistics
Matches: 103, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
39 6 0.06
40 89 0.86
41 8 0.08
ACGTcount: A:0.14, C:0.32, G:0.15, T:0.39
Consensus pattern (40 bp):
TTGCACTTTCGTGCCCCTATTTGTACTTCGGTACCCCTTG
Found at i:17088488 original size:38 final size:37
Alignment explanation
Indices: 17088436--17088526 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 37
17088426 GATTTGACTA
* *
17088436 CATGTTAAACATGCCCTACAGGATATTATTCGATTTG
1 CATGTTAAACATGCCCCACAGGATATTATTCGATTCG
*
17088473 CATGTTAAAACATGCCCCACATGATATTATTCGATTCG
1 CATGTT-AAACATGCCCCACAGGATATTATTCGATTCG
*
17088511 CATGTTCAACATGCCC
1 CATGTTAAACATGCCC
17088527 AATGTGACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 15 0.31
38 34 0.69
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (37 bp):
CATGTTAAACATGCCCCACAGGATATTATTCGATTCG
Found at i:17089460 original size:39 final size:39
Alignment explanation
Indices: 17089242--17089457 Score: 362
Period size: 39 Copynumber: 5.5 Consensus size: 39
17089232 AATTTGTATT
* * *
17089242 TGAGTATTGTGATATATACTTGAATGTTCTGTGCTTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
17089281 TGAGTATTGTGATATACGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
17089320 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
17089359 TGAGTA-TGTTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTG-TGATATATGCTTGAATGTTATGTGATTATA
*
17089398 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
17089437 TGAGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
17089458 AAAAGTGAAT
Statistics
Matches: 168, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
38 2 0.01
39 164 0.98
40 2 0.01
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:17091587 original size:3 final size:3
Alignment explanation
Indices: 17091579--17091612 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
17091569 ATTAATTTAA
* *
17091579 TAT TAT TAT TAC TAT TAT TAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17091613 TTTCTCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:17091596 original size:12 final size:12
Alignment explanation
Indices: 17091579--17091612 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
17091569 ATTAATTTAA
17091579 TATTATTATTAC
1 TATTATTATTAC
17091591 TATTATTATTAC
1 TATTATTATTAC
17091603 TATTATTATT
1 TATTATTATT
17091613 TTTCTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:17092733 original size:3 final size:3
Alignment explanation
Indices: 17092725--17092758 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
17092715 ATTAATTTAA
* *
17092725 TAT TAT TAT TAC TAT TAT TAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17092759 TTTCTCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:17092742 original size:12 final size:12
Alignment explanation
Indices: 17092725--17092758 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
17092715 ATTAATTTAA
17092725 TATTATTATTAC
1 TATTATTATTAC
17092737 TATTATTATTAC
1 TATTATTATTAC
17092749 TATTATTATT
1 TATTATTATT
17092759 TTTCTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:17100509 original size:16 final size:16
Alignment explanation
Indices: 17100488--17100539 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
17100478 GTGATGTTGA
17100488 TGAGTTTACTCATTTG
1 TGAGTTTACTCATTTG
*
17100504 TGAG-TT--T--GTTG
1 TGAGTTTACTCATTTG
17100515 ATGAGTTTACTCATTTG
1 -TGAGTTTACTCATTTG
17100532 TGAGTTTA
1 TGAGTTTA
17100540 ATGGTGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
11 3 0.11
12 4 0.14
13 3 0.11
15 3 0.11
16 12 0.43
17 3 0.11
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.50
Consensus pattern (16 bp):
TGAGTTTACTCATTTG
Found at i:17100515 original size:28 final size:28
Alignment explanation
Indices: 17100482--17100538 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
17100472 TTATATGTGA
17100482 TGTTGATGAGTTTACTCATTTGTGAGTT
1 TGTTGATGAGTTTACTCATTTGTGAGTT
17100510 TGTTGATGAGTTTACTCATTTGTGAGTT
1 TGTTGATGAGTTTACTCATTTGTGAGTT
17100538 T
1 T
17100539 AATGGTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.51
Consensus pattern (28 bp):
TGTTGATGAGTTTACTCATTTGTGAGTT
Found at i:17108334 original size:30 final size:31
Alignment explanation
Indices: 17108294--17108368 Score: 120
Period size: 30 Copynumber: 2.5 Consensus size: 31
17108284 GGCTATCGAT
17108294 TATG-AAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAAGGGATGGTGACGACCATCGAAC
*
17108324 TAT-AAAAAGGGATGGTGACGACGATCGAAC
1 TATGAAAAAGGGATGGTGACGACCATCGAAC
17108354 TATGAAAAA-GGATGG
1 TATGAAAAAGGGATGG
17108369 CTTCGGCTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 37 0.88
31 5 0.12
ACGTcount: A:0.40, C:0.12, G:0.31, T:0.17
Consensus pattern (31 bp):
TATGAAAAAGGGATGGTGACGACCATCGAAC
Found at i:17108387 original size:30 final size:30
Alignment explanation
Indices: 17108353--17108606 Score: 175
Period size: 30 Copynumber: 8.5 Consensus size: 30
17108343 GACGATCGAA
* *
17108353 CTATGAAAAAGGATGGCTTCGGCTATCAAT
1 CTATGAAAAGGGATGGCTTCAGCTATCAAT
17108383 CTATGAAAAGGGATGGCTTCAGCTATCAAT
1 CTATGAAAAGGGATGGCTTCAGCTATCAAT
*
17108413 CTATGAAAAGGGATGGCGTC-GACTATCAAT
1 CTATGAAAAGGGATGGCTTCAG-CTATCAAT
* *
17108443 CTAT-AAAAGGGGATAGCTTTAGCTATCAAAT
1 CTATGAAAA-GGGATGGCTTCAGCTATC-AAT
* * * *
17108474 -TATGAAAAGGG-TGG-TGACAACCATTGAA-
1 CTATGAAAAGGGATGGCT-TCAGCTA-TCAAT
* * *
17108502 CTATGAAAAGGGATGG-TGGCGGCCATCAAAT
1 CTATGAAAAGGGATGGCT-TCAGCTATC-AAT
** * * *
17108533 -TATGAAAAGGGATAACTTCGGCTGTCAAA
1 CTATGAAAAGGGATGGCTTCAGCTATCAAT
** **
17108562 CTATGAAAAGGGATAACTTCAATTATCGAAT
1 CTATGAAAAGGGATGGCTTCAGCTATC-AAT
*
17108593 -TACGAAAAGGGATG
1 CTATGAAAAGGGATG
17108607 TGTCAACCAT
Statistics
Matches: 181, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
28 1 0.01
29 26 0.14
30 143 0.79
31 11 0.06
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (30 bp):
CTATGAAAAGGGATGGCTTCAGCTATCAAT
Found at i:17108456 original size:60 final size:59
Alignment explanation
Indices: 17108292--17108606 Score: 194
Period size: 60 Copynumber: 5.3 Consensus size: 59
17108282 TTGGCTATCG
* * * * * *
17108292 ATTATGAAAAGGGATGGTGACGACCATCGAA-CTATAAAAAGGGATGG--TGACGACGATCGA
1 ATTATGAAAAGGGATGGCGTCGACTATC-AATCTAT-AAAAGGGATGGCTTCA-G-CTATCAA
* * * *
17108352 ACTATGAAAAAGGATGGCTTCGGCTATCAATCTATGAAAAGGGATGGCTTCAGCTATC-A
1 ATTATGAAAAGGGATGGCGTCGACTATCAATCTAT-AAAAGGGATGGCTTCAGCTATCAA
* *
17108411 ATCTATGAAAAGGGATGGCGTCGACTATCAATCTATAAAAGGGGATAGCTTTAGCTATCAA
1 AT-TATGAAAAGGGATGGCGTCGACTATCAATCTATAAAA-GGGATGGCTTCAGCTATCAA
* * * * * * * *
17108472 ATTATGAAAAGGG-TGGTGACAACCATTGAA-CTATGAAAAGGGATGG-TGGCGGCCATCAA
1 ATTATGAAAAGGGATGGCGTCGACTA-TCAATCTAT-AAAAGGGATGGCT-TCAGCTATCAA
** * * * * ** ** *
17108531 ATTATGAAAAGGGATAACTTCGGCTGTCAAACTATGAAAAGGGATAACTTCAATTATCGA
1 ATTATGAAAAGGGATGGCGTCGACTATCAATCTAT-AAAAGGGATGGCTTCAGCTATCAA
*
17108591 ATTACGAAAAGGGATG
1 ATTATGAAAAGGGATG
17108607 TGTCAACCAT
Statistics
Matches: 197, Mismatches: 46, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
58 1 0.01
59 49 0.25
60 140 0.71
61 5 0.03
62 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (59 bp):
ATTATGAAAAGGGATGGCGTCGACTATCAATCTATAAAAGGGATGGCTTCAGCTATCAA
Found at i:17108575 original size:119 final size:119
Alignment explanation
Indices: 17108383--17108616 Score: 260
Period size: 119 Copynumber: 2.0 Consensus size: 119
17108373 GGCTATCAAT
* * ** *
17108383 CTATGAAAAGGGATGGCTTCAGCTATCAATCTATGAAAAGGGATGGCGTCGACTATCAATCTATA
1 CTATGAAAAGGGATGGCTGCAGCCATCAATCTATGAAAAGGGATAACGTCGACTATCAAACTATA
* * * *
17108448 AAAGGGGATAGCTTTAGCTATCAAATTATGAAAAGGG-TGGTGACAACCATTGAA
66 AAAGGGGATAACTTCAACTATCAAATTACGAAAAGGGAT-GTGACAACCATTGAA
* * * *
17108502 CTATGAAAAGGGATGG-TGGCGGCCATCAAAT-TATGAAAAGGGATAACTTCGGCTGTCAAACTA
1 CTATGAAAAGGGATGGCT-GCAGCCATC-AATCTATGAAAAGGGATAACGTCGACTATCAAACTA
* * *
17108565 TGAAAA-GGGATAACTTCAATTATCGAATTACGAAAAGGGATGTGTCAACCAT
64 T-AAAAGGGGATAACTTCAACTATCAAATTACGAAAAGGGATGTGACAACCAT
17108617 CGTATTATTA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
118 1 0.01
119 86 0.91
120 8 0.08
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (119 bp):
CTATGAAAAGGGATGGCTGCAGCCATCAATCTATGAAAAGGGATAACGTCGACTATCAAACTATA
AAAGGGGATAACTTCAACTATCAAATTACGAAAAGGGATGTGACAACCATTGAA
Found at i:17108602 original size:179 final size:179
Alignment explanation
Indices: 17108276--17108606 Score: 450
Period size: 179 Copynumber: 1.8 Consensus size: 179
17108266 ATGAAATGGA
* * *
17108276 ATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAACTATAAAAAGGGATGGTG
1 ATAGCTTTAGCTATCAATTATGAAAAGGGATGGTGACAACCATCGAACTATAAAAAGGGATGGTG
* * ** * ** *
17108341 ACGACGATCGAACTATGAAAAAGGATGGCTTCGGCTATCAATCTATGAAAAGGGATGGCTTCAGC
66 ACGACCATCAAACTATGAAAAAGGATAACTTCGGCTATCAAACTATGAAAAGGGATAACTTCAAC
*
17108406 TATCAATCTATGAAAAGGGATGGCGTCGACTATCAATCTATAAAAGGGG
131 TATCAATCTACGAAAAGGGATGGCGTCGACTATCAATCTATAAAAGGGG
* *
17108455 ATAGCTTTAGCTATCAAATTATGAAAAGGG-TGGTGACAACCATTGAACTATGAAAAGGGATGGT
1 ATAGCTTTAGCTATC-AATTATGAAAAGGGATGGTGACAACCATCGAACTATAAAAAGGGATGGT
* * * * *
17108519 GGCGGCCATCAAATTATGAAAAGGGATAACTTCGGCTGTCAAACTATGAAAAGGGATAACTTCAA
65 GACGACCATCAAACTATGAAAAAGGATAACTTCGGCTATCAAACTATGAAAAGGGATAACTTCAA
*
17108584 TTATCGAAT-TACGAAAAGGGATG
130 CTATC-AATCTACGAAAAGGGATG
17108607 TGTCAACCAT
Statistics
Matches: 130, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
179 114 0.88
180 16 0.12
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (179 bp):
ATAGCTTTAGCTATCAATTATGAAAAGGGATGGTGACAACCATCGAACTATAAAAAGGGATGGTG
ACGACCATCAAACTATGAAAAAGGATAACTTCGGCTATCAAACTATGAAAAGGGATAACTTCAAC
TATCAATCTACGAAAAGGGATGGCGTCGACTATCAATCTATAAAAGGGG
Found at i:17108916 original size:17 final size:17
Alignment explanation
Indices: 17108894--17108943 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 17
17108884 CGACTAGGTG
17108894 ACATGGTCATGTGTGAC
1 ACATGGTCATGTGTGAC
*
17108911 ACATGGTTA-G-GTGAC
1 ACATGGTCATGTGTGAC
*
17108926 ACA--GTCTTGTGTGAC
1 ACATGGTCATGTGTGAC
17108941 ACA
1 ACA
17108944 CGGCCAGGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.07
14 1 0.04
15 16 0.57
16 1 0.04
17 8 0.29
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (17 bp):
ACATGGTCATGTGTGAC
Found at i:17108953 original size:30 final size:30
Alignment explanation
Indices: 17108889--17108959 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
17108879 ACAGACGACT
** * **
17108889 AGGTGACATGGTCATGTGTGACACATGGTT
1 AGGTGACACAGTCATGTGTGACACACGGCC
*
17108919 AGGTGACACAGTCTTGTGTGACACACGGCC
1 AGGTGACACAGTCATGTGTGACACACGGCC
*
17108949 AGGTGGCACAG
1 AGGTGACACAG
17108960 CTGCATGTCC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (30 bp):
AGGTGACACAGTCATGTGTGACACACGGCC
Found at i:17116888 original size:22 final size:22
Alignment explanation
Indices: 17116862--17116906 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
17116852 ATTATATGTA
17116862 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
17116884 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
17116906 T
1 T
17116907 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:17122522 original size:14 final size:14
Alignment explanation
Indices: 17122503--17122532 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17122493 TTATACATAC
17122503 CTAAACAAAACACT
1 CTAAACAAAACACT
17122517 CTAAACAAAACACT
1 CTAAACAAAACACT
17122531 CT
1 CT
17122533 CCAAACACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (14 bp):
CTAAACAAAACACT
Found at i:17131840 original size:30 final size:30
Alignment explanation
Indices: 17131806--17131862 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
17131796 TTTACGAGCA
* *
17131806 TAGGGGCAAAATCATAATTTTGTGAAACTT
1 TAGGGGCAAAAACATAATTTTGGGAAACTT
17131836 TAGGGGCAAAAACATAATTTTGGGAAA
1 TAGGGGCAAAAACATAATTTTGGGAAA
17131863 GTATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAACATAATTTTGGGAAACTT
Found at i:17131979 original size:10 final size:10
Alignment explanation
Indices: 17131964--17131995 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
17131954 CGATAGAAAG
17131964 AAAAGTGATA
1 AAAAGTGATA
17131974 AAAAGTGATA
1 AAAAGTGATA
17131984 AAAAGTGA-A
1 AAAAGTGATA
17131993 AAA
1 AAA
17131996 TTCTCGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.16
Consensus pattern (10 bp):
AAAAGTGATA
Found at i:17132227 original size:96 final size:97
Alignment explanation
Indices: 17132105--17132284 Score: 265
Period size: 96 Copynumber: 1.9 Consensus size: 97
17132095 AAAGTGATGG
* * * *
17132105 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAG-ATGATAATGGTCACATGTGTAGT
17132168 ACTATGTGCAGGCTACTATGCGGGTAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGGGTAGTTTCGA
** *
17132201 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATTAGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATGATAATGGTCACATGTGTAGTA
*
17132266 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
17132285 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
95 4 0.05
96 37 0.50
97 33 0.45
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (97 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGGGTAGTTTCGA
Found at i:17132344 original size:45 final size:45
Alignment explanation
Indices: 17132293--17132378 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
17132283 TGTGAACCGA
* *
17132293 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
17132338 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
17132379 TCGAGTATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
Found at i:17137406 original size:30 final size:30
Alignment explanation
Indices: 17137372--17137428 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17137362 TTTACGAGCA
17137372 TAGGGG-AAAAATCGTAATTTTGTGAAACTT
1 TAGGGGCAAAAAT-GTAATTTTGTGAAACTT
*
17137402 TAGGGGCAAAAATGTAATTTTTTGAAA
1 TAGGGGCAAAAATGTAATTTTGTGAAA
17137429 GTATGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTTTGTGAAACTT
Found at i:17137728 original size:51 final size:51
Alignment explanation
Indices: 17137658--17137767 Score: 123
Period size: 51 Copynumber: 2.2 Consensus size: 51
17137648 TGAAAGTGAT
* * * *
17137658 GGCTACTATGCGTACCGGATAGT-TTCGATCACCTGTGTAGTACTATATGTA
1 GGCTACTACGCGTACCGGATAGTAAT-GATCACATGTGTAGTACTATATATA
* * * * *
17137709 GGCTACTACGTGTATCGGATGGTAATGGTCATATGTGTAGTACTATATATA
1 GGCTACTACGCGTACCGGATAGTAATGATCACATGTGTAGTACTATATATA
17137760 GGCTACTA
1 GGCTACTA
17137768 TGTGAACCGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 48 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (51 bp):
GGCTACTACGCGTACCGGATAGTAATGATCACATGTGTAGTACTATATATA
Found at i:17137829 original size:45 final size:45
Alignment explanation
Indices: 17137778--17137863 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
17137768 TGTGAACCGA
* * *
17137778 ACATCATTGATTAGTAAGGTTGTTGCTATGTGCTGATTCCATCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCATCGG
* *
17137823 ACATCATTGATTAATAAGGTGGTTGTTATTTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
17137864 CCGAGTATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCATCGG
Found at i:17140228 original size:27 final size:27
Alignment explanation
Indices: 17140198--17140375 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
17140188 ATATTGAGTC
* * * *
17140198 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
17140225 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17140252 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17140280 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17140307 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17140334 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17140361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17140376 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17140337 original size:82 final size:81
Alignment explanation
Indices: 17140219--17140374 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
17140209 TGCTATATAA
*
17140219 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17140284 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17140301 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17140365 CACTTAGTGC
65 CACTTAGTGC
17140375 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17148398 original size:27 final size:27
Alignment explanation
Indices: 17148368--17148545 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17148358 ATATTGAGTC
* * * *
17148368 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17148395 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17148422 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17148450 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17148477 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17148504 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17148531 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17148546 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17148507 original size:82 final size:81
Alignment explanation
Indices: 17148389--17148544 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17148379 TGCTATATAA
* *
17148389 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17148454 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17148471 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17148535 CACTTAGTGC
65 CACTTAGTGC
17148545 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17149072 original size:46 final size:46
Alignment explanation
Indices: 17149000--17149096 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
17148990 CTGAACACTG
17149000 AAAAATCATCCATAAAAACTTCCAAAATATTTTCTACCTTGTCAAT
1 AAAAATCATCCATAAAAACTTCCAAAATATTTTCTACCTTGTCAAT
* * * *
17149046 AAAAATCATCCATAAAAACTTTCAAAATCTTTTCTACCTTTTCCAT
1 AAAAATCATCCATAAAAACTTCCAAAATATTTTCTACCTTGTCAAT
17149092 AAAAA
1 AAAAA
17149097 CTATTTTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.33
Consensus pattern (46 bp):
AAAAATCATCCATAAAAACTTCCAAAATATTTTCTACCTTGTCAAT
Found at i:17154736 original size:20 final size:20
Alignment explanation
Indices: 17154680--17154737 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
17154670 TTATTGAATG
*
17154680 ATTGCACTTATGTCCCCTGT
1 ATTGCACTTTTGTCCCCTGT
* *
17154700 -TTGTACTTTGGTACCCCT-T
1 ATTGCACTTTTGT-CCCCTGT
17154719 ATTGCACTTTTGTGCCCCT
1 ATTGCACTTTTGT-CCCCT
17154738 ATTTATACTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.12, C:0.29, G:0.16, T:0.43
Consensus pattern (20 bp):
ATTGCACTTTTGTCCCCTGT
Found at i:17158356 original size:37 final size:37
Alignment explanation
Indices: 17158300--17158392 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
17158290 TGAGGTTTGA
* * *
17158300 TTGCATATTAAACATGCCCTGCAGGATA-TATCCAAT
1 TTGCATGTTAAACATGCCCTACACGATATTATCCAAT
**
17158336 TTGCATGTTAAAACATGCCCTACACGATATTATCTGAT
1 TTGCATGTT-AAACATGCCCTACACGATATTATCCAAT
* *
17158374 TCGCATGTTCAACATGCCC
1 TTGCATGTTAAACATGCCC
17158393 AATGTGACAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 8 0.17
37 26 0.54
38 14 0.29
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (37 bp):
TTGCATGTTAAACATGCCCTACACGATATTATCCAAT
Found at i:17159116 original size:39 final size:39
Alignment explanation
Indices: 17159062--17159277 Score: 405
Period size: 39 Copynumber: 5.5 Consensus size: 39
17159052 AATTTGTATT
17159062 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
17159101 TGAGTATTGTGATATACGATTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
17159140 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
17159179 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
17159218 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
17159257 TGAGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
17159278 AAAAGTGAAT
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 172 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:17163792 original size:51 final size:51
Alignment explanation
Indices: 17163730--17163906 Score: 207
Period size: 51 Copynumber: 3.5 Consensus size: 51
17163720 CGTTTGTAGT
*
17163730 CACATAGTACTACACACGTGACCATTAATATCCGATACACGTAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTAATATCCGGTACACGTAGTAGCCTA
* * * * * * *
17163781 CACATAGTACTAGACACATGATCGA--AGCTATCCGGTACGCATAGTAGCCTG
1 CACATAGTACTACACACGTGA-CCATTA-ATATCCGGTACACGTAGTAGCCTA
* * * *
17163832 CACATAGTACTACACATGCGACCTTTCAT-TCCGGTACACGTAGTAGCCTA
1 CACATAGTACTACACACGTGACCATTAATATCCGGTACACGTAGTAGCCTA
17163882 CACATAGTACTACACACGTGACCAT
1 CACATAGTACTACACACGTGACCAT
17163907 CACTTTCACT
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
50 42 0.42
51 56 0.56
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (51 bp):
CACATAGTACTACACACGTGACCATTAATATCCGGTACACGTAGTAGCCTA
Found at i:17166297 original size:50 final size:50
Alignment explanation
Indices: 17166195--17166436 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
17166185 GGGAATGAGA
*
17166195 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCA-C--TGAG---ATGAGAGG
*
17166251 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGAGATGAGAGG
* * * **
17166301 TTCCATGTAAGACCATGTCTGGGACATGG-AGTTGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATATCTGGGACATGGCA-TTGGCACTGAGATGAGAGG
** * * * * * * * **
17166351 TGTCATGTAAGACCATATCTGGGATATGACATTGGAAGT-ACAAGAAACA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGAGATGAGAGG
* * *
17166400 TCCCACGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
17166437 TGTTATTATC
Statistics
Matches: 156, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
49 35 0.22
50 80 0.51
51 1 0.01
53 3 0.02
55 1 0.01
56 36 0.23
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCACTGAGATGAGAGG
Found at i:17166384 original size:100 final size:104
Alignment explanation
Indices: 17166197--17166437 Score: 262
Period size: 99 Copynumber: 2.3 Consensus size: 104
17166187 GAATGAGATC
**
17166197 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAG
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-T-AGATTATGAGAACTCCCATGTAAG
*
17166262 ACCATATCTGGGACATGGCATTGGCACCGAGATGAGAGGTT
64 ACCATATCTGGGACATGACATTGGCACCGAGATGAGAGGTT
**
17166303 CCATGTAAGACCATGTCTGGGACATGG-AGTTGGCA-C-T-GA-TATGAGAACTGTCATGTAAGA
1 CCATGTAAGACCATGTCTGGGACATGGCA-TTGGCATCATAGATTATGAGAACTCCCATGTAAGA
* * * * * ** *
17166363 CCATATCTGGGATATGACATTGG-A-AGTACAAGAAACATC
65 CCATATCTGGGACATGACATTGGCACCG-AGATGAGAGGTT
* *
17166402 CCACGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
17166438 GTTATTATCA
Statistics
Matches: 116, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
98 1 0.01
99 39 0.34
100 38 0.33
101 2 0.02
103 1 0.01
105 2 0.02
106 33 0.28
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (104 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATAGATTATGAGAACTCCCATGTAAGAC
CATATCTGGGACATGACATTGGCACCGAGATGAGAGGTT
Found at i:17168543 original size:39 final size:39
Alignment explanation
Indices: 17168326--17168540 Score: 349
Period size: 39 Copynumber: 5.5 Consensus size: 39
17168316 ACATGTATTC
*
17168326 GAGTATTGTGATATATGCTTGAATGTTATTTGATTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
*
17168365 GAGTATTGTGATGTATGCTTGAATGTTATGTGATTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
* * *
17168404 GAGTATTATGATATATGTTTGAATGTTATGTGACTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
*
17168443 GAGTATTGTGATGTATGCTTGAATGTTATGTGATTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
* *
17168482 GAATATTGTGATATATGCTTAAATGTTATGTGATTATAT
1 GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
*
17168521 GTGTATTGTGATATATGCTT
1 GAGTATTGTGATATATGCTT
17168541 AAAAGTGAAT
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 161 1.00
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (39 bp):
GAGTATTGTGATATATGCTTGAATGTTATGTGATTATAT
Found at i:17170459 original size:6 final size:6
Alignment explanation
Indices: 17170448--17170480 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
17170438 AGGTTTCCAA
*
17170448 AAATGG AAATGG AAATGG AAATGA AAAT-G AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
17170481 TAGGAACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:17173396 original size:127 final size:127
Alignment explanation
Indices: 17173163--17173575 Score: 477
Period size: 127 Copynumber: 3.2 Consensus size: 127
17173153 GATGTGATCT
* * * * * * *
17173163 GCTCTACTGCAACTTTAGAGAGATAGGATTGATTTCTTCTGTCTGCTCCACTACAACTTAGGGAG
1 GCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTCCGTCTGCTCCACTACAACTTAAGAAG
* * *
17173228 ATAAGACTGGATGTGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTATGGTTTTAATTC
66 ATAAAACTGGATGTGATCTGCTCCACTACTACTTAGAGAGATAAGATCTATGGTTTTAATCC
* * **
17173290 GCTCCACTGCAACTTCAGGGAAATAGGATTGATTTTTTCCGTCTGCTGCACTACTGCTTAAGAAG
1 GCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTCCGTCTGCTCCACTACAACTTAAGAAG
*
17173355 ATAAAACTGGATGTGATCTGCTCCACTACTACTTACG-GAGATAAGATCTGTGGTTTTAATCC
66 ATAAAACTGGATGTGATCTGCTCCACTACTACTTA-GAGAGATAAGATCTATGGTTTTAATCC
* * * * * *
17173417 TCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTTCATCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTCCGTCTGCTCCACTACAACTT-AAGAA
** * ** * * * * ***
17173482 GATAAAGTTGGATGCGATCCACTCTACTGCAACTTCAGAGAGGTAAGATCTATTACTTTAATCC
65 GATAAAACTGGATGTGATCTGCTCCACTACTACTT-AGAGAGATAAGATCTATGGTTTTAATCC
* *
17173546 GCTCCACTACAACTTTAGGGAGATAGGATT
1 GCTCCACTGCAACTTCAGGGAGATAGGATT
17173576 ATCGGCTTCA
Statistics
Matches: 241, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
127 161 0.67
128 32 0.13
129 48 0.20
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (127 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTGATTTTTTCCGTCTGCTCCACTACAACTTAAGAAG
ATAAAACTGGATGTGATCTGCTCCACTACTACTTAGAGAGATAAGATCTATGGTTTTAATCC
Found at i:17173441 original size:44 final size:44
Alignment explanation
Indices: 17173391--17173570 Score: 127
Period size: 44 Copynumber: 4.2 Consensus size: 44
17173381 TACTACTTAC
17173391 GGAGATAAGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAG
1 GGAGATAAGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAG
* ** *
17173435 GGAGATAGGAT-TGATTTTTTTCAT-CTGCTCCACTGCAACTTCAG
1 GGAGATAAGATCTG-TGGTTTTAATCCT-CTCCACTGCAACTTCAG
* * *** * *
17173479 GGAGATAA-A-GT-TGGATGCGATCCACTCTACTGCAACTTCAG
1 GGAGATAAGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAG
* * * *** * * *
17173520 AGAGGTAAGATCTATTACTTTAATCCGCTCCACTACAACTTTAG
1 GGAGATAAGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAG
17173564 GGAGATA
1 GGAGATA
17173571 GGATTATCGG
Statistics
Matches: 101, Mismatches: 28, Indels: 14
0.71 0.20 0.10
Matches are distributed among these distances:
41 26 0.26
42 2 0.02
43 7 0.07
44 66 0.65
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
GGAGATAAGATCTGTGGTTTTAATCCTCTCCACTGCAACTTCAG
Found at i:17173518 original size:85 final size:85
Alignment explanation
Indices: 17173413--17173570 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 85
17173403 TGTGGTTTTA
* * * ** * * *
17173413 ATCCTCTCCACTGCAACTTCAGGGAGATAGGAT-TGATTTTTTTCATCTGCTCCACTGCAACTTC
1 ATCCACTCCACTGCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTACAACTTC
17173477 AGGGAGATAAAGTTGGATGCG
65 AGGGAGATAAAGTTGGATGCG
* * *
17173498 ATCCACTCTACTGCAACTTCAGAGAGGTAAGATCTATTACTTTAATCCGCTCCACTACAACTTTA
1 ATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCA
17173563 GGGAGATA
66 GGGAGATA
17173571 GGATTATCGG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
85 60 0.98
86 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (85 bp):
ATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCA
GGGAGATAAAGTTGGATGCG
Found at i:17173776 original size:131 final size:131
Alignment explanation
Indices: 17173604--17174218 Score: 763
Period size: 131 Copynumber: 4.7 Consensus size: 131
17173594 TCTTACACTT
* * * * * * * * **
17173604 GAAGATAAGATTCGCCATCTTCGATCTGCTTCGCTATTGCTTAGGGAGACAAGATCTGTAAT-TT
1 GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
* * * ** *
17173668 CCAACCTATTCCACTGCTGGTCAGGGACATAAGAATTGTGGCTTAAATATGTTTCCCTACTCCTG
66 -CAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTGTTTCCCTACTCCTG
17173733 GA
130 GA
*
17173735 GAAGATAAGATTTGTTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
1 GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
** *
17173800 CAACCTGCTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATTTGTTTCCCTACTCCTGG
66 CAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTGTTTCCCTACTCCTGG
*
17173865 G
131 A
* * * *
17173866 GAAGATAAGATTTGCCGTTTTTGATCTGTTCCACTACTGCTTAGGGAGATAGGATCTACAATCTT
1 GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
** * * * *
17173931 CAACCTGCTCCGCTGCTGCTCAGGGAGACAAGGCTTGCGGGTTAAATCTGTTTCCCTACTCCT-A
66 CAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTGTTTCCCTACTCCTGG
17173995 A
131 A
* *
17173996 GGAAGATAAGATTTGACGTCTTTGATCTGCTGCACTACTGCTTAGGGAGATAAGATCTACAATCT
1 -GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* * *
17174061 TCAACCTGCTT-CGCTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTATTTCCCTACTCCT
65 TCAACCT-ATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTGTTTCCCTACTCCT
*
17174125 GGG
129 GGA
* * *
17174128 GAAGATAAGATTTGTCGTCTTCGATC--CATCCACTATTTCTTAGGGAGATAAGATCTACAATCT
1 GAAGATAAGATTTGTCGTCTTTGATCTGC-TCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* * *
17174191 CCAAACTTATTCCACTGCTGGTCAGGGA
65 TC-AACCTATTCCACTGCTGCTCAGGGA
17174219 CATAGGACTT
Statistics
Matches: 424, Mismatches: 53, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
129 1 0.00
130 35 0.08
131 385 0.91
132 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (131 bp):
GAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT
CAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTGTTTCCCTACTCCTGG
A
Found at i:17173785 original size:44 final size:44
Alignment explanation
Indices: 17173737--17174051 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
17173727 CTCCTGGAGA
** *
17173737 AGATAAGATTTGTTGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * ** * * * *
17173781 AGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* ** * * * * * * *
17173825 AGACAAGGCTTG-TGGCTTAAATTTGTTTCC-CTACT-CCTGGGG
1 AGATAAGATTTGCCGTCTTTAATCTG-CTCCACTACTGCTTAGGG
* * *
17173867 AAGATAAGATTTGCCGTTTTTGATCTGTTCCACTACTGCTTAGGG
1 -AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * * ** * * * * *
17173912 AGATAGGATCTACAATCTTCAACCTGCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* ** ** * * * * *
17173956 AGACAAGGCTTG-CGGGTTAAATCTGTTTCC-CTACTCCTAAGGA
1 AGATAAGATTTGCCGTCTTTAATCTG-CTCCACTACTGCTTAGGG
* * *
17173999 AGATAAGATTTGACGTCTTTGATCTGCTGCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
17174043 AGATAAGAT
1 AGATAAGAT
17174052 CTACAATCTT
Statistics
Matches: 184, Mismatches: 79, Indels: 16
0.66 0.28 0.06
Matches are distributed among these distances:
42 4 0.02
43 51 0.28
44 124 0.67
45 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:17174069 original size:262 final size:263
Alignment explanation
Indices: 17173604--17174220 Score: 841
Period size: 262 Copynumber: 2.4 Consensus size: 263
17173594 TCTTACACTT
* * * * **
17173604 GAAGATAAGATTCGCCATCTTCGATCTGCTT-CGCTATTGCTTAGGGAGACAAGATCTGTAAT-T
1 GAAGATAAGATTTGCCGTCTTCGATCTG-TTCCACTATTGCTTAGGGAGATAAGATCTACAATCT
* * * *
17173667 TCCAACCTATTCCACTGCTGGTCAGGGACATAAGAATTGTGGCTTAAATATGTTTCCCTACTCCT
65 TCCAACCTACTCCACTGCTGCTCAGGGACACAAGAATTGCGGCTTAAATATGTTTCCCTACTCCT
* **
17173732 GGAGAAGATAAGATTTGTTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
130 AGAGAAGATAAGATTTGACGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* *
17173797 CTTCAACCTGCTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATTTGTTTCCCTACTCC
195 CTTCAACCTGCTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTATTTCCCTACTCC
17173862 TGGG
260 TGGG
* * * *
17173866 GAAGATAAGATTTGCCGTTTTTGATCTGTTCCACTACTGCTTAGGGAGATAGGATCTACAATCTT
1 GAAGATAAGATTTGCCGTCTTCGATCTGTTCCACTATTGCTTAGGGAGATAAGATCTACAATCTT
* * * ** * *
17173931 -CAACCTGCTCCGCTGCTGCTCAGGGAGACAAGGCTTGCGGGTTAAATCTGTTTCCCTACTCCTA
66 CCAACCTACTCCACTGCTGCTCAGGGACACAAGAATTGCGGCTTAAATATGTTTCCCTACTCCTA
*
17173995 -AGGAAGATAAGATTTGACGTCTTTGATCTGCTGCACTACTGCTTAGGGAGATAAGATCTACAAT
131 GA-GAAGATAAGATTTGACGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* *
17174059 CTTCAACCTGCTTCGCTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTATTTCCCTACTCC
195 CTTCAACCTGCTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTATTTCCCTACTCC
17174124 TGGG
260 TGGG
* ** *
17174128 GAAGATAAGATTTGTCGTCTTCGATC-CATCCACTATTTCTTAGGGAGATAAGATCTACAATC-T
1 GAAGATAAGATTTGCCGTCTTCGATCTGTTCCACTATTGCTTAGGGAGATAAGATCTACAATCTT
* * *
17174191 CCAAACTTATTCCACTGCTGGTCAGGGACA
66 CC-AACCTACTCCACTGCTGCTCAGGGACA
17174221 TAGGACTTGT
Statistics
Matches: 307, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
260 1 0.00
261 35 0.11
262 269 0.88
263 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (263 bp):
GAAGATAAGATTTGCCGTCTTCGATCTGTTCCACTATTGCTTAGGGAGATAAGATCTACAATCTT
CCAACCTACTCCACTGCTGCTCAGGGACACAAGAATTGCGGCTTAAATATGTTTCCCTACTCCTA
GAGAAGATAAGATTTGACGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
TTCAACCTGCTCCACTGCTGCTCAGGGAGACAAGGCTTGTGGCTTAAATCTATTTCCCTACTCCT
GGG
Found at i:17175489 original size:15 final size:15
Alignment explanation
Indices: 17175456--17175492 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
17175446 GCCTCTCCAT
*
17175456 TTTTTTACTTTTTCA
1 TTTTTCACTTTTTCA
17175471 -TTTTCACTTTTTCA
1 TTTTTCACTTTTTCA
17175485 TTTTTCAC
1 TTTTTCAC
17175493 CCTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTCACTTTTTCA
Found at i:17182742 original size:26 final size:25
Alignment explanation
Indices: 17182713--17182839 Score: 132
Period size: 26 Copynumber: 5.0 Consensus size: 25
17182703 GGCTCTACAC
17182713 TCAAAATTTTACCATGGGTAAAATTG
1 TCAAAATTTTACCA-GGGTAAAATTG
*
17182739 TCAAAATTTTATCGAGGGTAAAATTG
1 TCAAAATTTTA-CCAGGGTAAAATTG
* ** *
17182765 TTAAAATTTTTTC-GAGGTAAAATGG
1 TCAAAATTTTACCAG-GGTAAAATTG
*
17182790 TCAAAATTTTACCAAAGGTAAAATTG
1 TCAAAATTTTACC-AGGGTAAAATTG
* *
17182816 TCAAATTTTTA-CTGGGTAAAATTG
1 TCAAAATTTTACCAGGGTAAAATTG
17182840 GGGTGAGAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
24 11 0.13
25 20 0.24
26 50 0.60
27 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.36
Consensus pattern (25 bp):
TCAAAATTTTACCAGGGTAAAATTG
Found at i:17182793 original size:51 final size:50
Alignment explanation
Indices: 17182729--17182825 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 50
17182719 TTTTACCATG
* * * *
17182729 GGTAAAATTGTCAAAATTTTATCGAGGGTAAAATTGTTAAAATTTTTTCGA
1 GGTAAAATGGTCAAAATTTTACCAAAGGTAAAATTG-TAAAATTTTTTCGA
*
17182780 GGTAAAATGGTCAAAATTTTACCAAAGGTAAAATTGTCAAATTTTT
1 GGTAAAATGGTCAAAATTTTACCAAAGGTAAAATTGTAAAATTTTT
17182826 ACTGGGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 9 0.22
51 32 0.78
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.37
Consensus pattern (50 bp):
GGTAAAATGGTCAAAATTTTACCAAAGGTAAAATTGTAAAATTTTTTCGA
Found at i:17193357 original size:50 final size:50
Alignment explanation
Indices: 17193288--17193478 Score: 195
Period size: 50 Copynumber: 3.8 Consensus size: 50
17193278 TTTCTTGTAC
* * **
17193288 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAAATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATTGG
* ** **
17193338 TGTCC-ATGCCATGTTCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATTGG
* * * ** **
17193388 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACGTCTTATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATTGG
* * *
17193438 TGCCAACGCCATTTCCCAGACATGGTCTTACATGTGACCTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC
17193479 ATTCCCTTAA
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 2 0.02
50 115 0.97
51 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATTGG
Found at i:17193461 original size:100 final size:100
Alignment explanation
Indices: 17193288--17193468 Score: 233
Period size: 100 Copynumber: 1.8 Consensus size: 100
17193278 TTTCTTGTAC
* * ** *
17193288 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAAATTGGTGTCCATGCCATGTT
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCAAATCAGTGTCCACGCCATGTT
17193353 CCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 CCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
* * **
17193388 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACG-TCTTATCTCAGTG-CCAACGCCAT-
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCAAATCAGTGTCC-ACGCCATG
17193450 TTCCCAGACATGGTCTTAC
64 TT-CCAGACATGGTCTTAC
17193469 ATGTGACCTC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
99 4 0.06
100 64 0.93
101 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (100 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCAAATCAGTGTCCACGCCATGTT
CCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
Found at i:17207671 original size:20 final size:20
Alignment explanation
Indices: 17207646--17207683 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17207636 GTTTTTCTAG
17207646 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
17207666 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
17207684 TAAAAGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:17227611 original size:33 final size:33
Alignment explanation
Indices: 17227574--17227640 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
17227564 TACTCAAATG
17227574 TCATGATCTTTAATTTCCTCTTTACTTACTCTC
1 TCATGATCTTTAATTTCCTCTTTACTTACTCTC
17227607 TCATGATCTTTAATTTCCTCTTTACTTACTCTC
1 TCATGATCTTTAATTTCCTCTTTACTTACTCTC
17227640 T
1 T
17227641 TACTCGTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.27, G:0.03, T:0.52
Consensus pattern (33 bp):
TCATGATCTTTAATTTCCTCTTTACTTACTCTC
Found at i:17227998 original size:50 final size:50
Alignment explanation
Indices: 17227933--17228162 Score: 219
Period size: 50 Copynumber: 4.5 Consensus size: 50
17227923 CAATGTCATA
* ** * *
17227933 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCTTATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACGCCATG
* *** *
17227983 TTCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTG-TCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCT-AACGCCATG
* * *
17228033 TCCCAGACATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACGCCATG
* * * * *
17228083 TCCCAAACATGGTCTTACGTGGGACCTCTCATAATCTTAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-ATC-----GGTGCTAACGCCATG
*
17228139 TCCCAGGCATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
17228163 TCTTATTCCC
Statistics
Matches: 148, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 111 0.75
51 2 0.01
56 34 0.23
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCTAACGCCATG
Found at i:17228063 original size:100 final size:100
Alignment explanation
Indices: 17227933--17228114 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 100
17227923 CAATGTCATA
* * ** ** * * *
17227933 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCTTATGCCATGTTCCAGACATGGTCT
1 TCCCAGACATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAACATGGTCT
*
17227998 TATGGGGGACCTCTCATCTCGGTGTCAACGCCATG
66 TACGGGGGACCTCTCATCTCGGTGTCAACGCCATG
*
17228033 TCCCAGACATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCT
1 TCCCAGACATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAACATGGTCT
*
17228098 TACGTGGGACCTCTCAT
66 TACGGGGGACCTCTCAT
17228115 AATCTTAATG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 70 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28
Consensus pattern (100 bp):
TCCCAGACATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAACATGGTCT
TACGGGGGACCTCTCATCTCGGTGTCAACGCCATG
Found at i:17236356 original size:42 final size:42
Alignment explanation
Indices: 17236292--17236376 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
17236282 CCCCGATCTA
17236292 ATTTCAGATTCCTTTTTTCTTGATCTATATGTATTCAAAATT
1 ATTTCAGATTCCTTTTTTCTTGATCTATATGTATTCAAAATT
*
17236334 ATTTTAGATTCCTTTTTTCTTGATCTATATGTATTCAAAATT
1 ATTTCAGATTCCTTTTTTCTTGATCTATATGTATTCAAAATT
17236376 A
1 A
17236377 ACTCATTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (42 bp):
ATTTCAGATTCCTTTTTTCTTGATCTATATGTATTCAAAATT
Found at i:17258535 original size:17 final size:17
Alignment explanation
Indices: 17258509--17258543 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17258499 ACTAACATGA
*
17258509 AAATGTAATGACAATAT
1 AAATGCAATGACAATAT
17258526 AAATGCAATGACAATAT
1 AAATGCAATGACAATAT
17258543 A
1 A
17258544 TGTTTCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (17 bp):
AAATGCAATGACAATAT
Found at i:17261319 original size:20 final size:20
Alignment explanation
Indices: 17261278--17261320 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
17261268 ACCCTTGCAG
* *
17261278 TTTGAAAAATTTTAACTTTT
1 TTTGAAAAATTTCAACTATT
17261298 TTTGAAAAATTTCATA-TATT
1 TTTGAAAAATTTCA-ACTATT
17261318 TTT
1 TTT
17261321 TATTTAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTGAAAAATTTCAACTATT
Found at i:17263287 original size:208 final size:208
Alignment explanation
Indices: 17262925--17263582 Score: 938
Period size: 208 Copynumber: 3.2 Consensus size: 208
17262915 AACGACGTCT
* *
17262925 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCCTCAAAGAAATCGCCGCTGAAGTCAATCATT
1 TTTTCTTGTTCAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGCTGAAGTCAATCATT
** *
17262990 AGCGGCGCTTTAGAGGAAGCGCTACAAAAAGTTTTAAGCATACGCCGTCATTTTCTGTTGTGCTT
66 AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCATCATTTTCTGTTGTGCTT
* * * * *
17263055 AGGGACATTAGTGACGCGTCGCGAAAAACGCCGCAAAAGTCAAGGATTATCGGTAATAGTTTTAG
131 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAATTCAAGCATTATTGGTAATAGTTTTAG
17263120 GCAAATGACAACG
196 GCAAATGACAACG
* * * *
17263133 TTTTCTTGTTCAGTTTTAGACACAATAATGGCACTTCAAAGAAATTGCCGCTGAAGTCAATCACT
1 TTTTCTTGTTCAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGCTGAAGTCAATCATT
** * * *
17263198 ATTGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACACCATCGTTCTCTGTTGTGCTT
66 AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCATCATTTTCTGTTGTGCTT
* **
17263263 AGGGACATTAGTGGTGCTTCGCGAAAAACGCCATAAAATTCAAGCATTATTGGTAATAGTTTTAG
131 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAATTCAAGCATTATTGGTAATAGTTTTAG
* **
17263328 ACAAACAACAACG
196 GCAAATGACAACG
* * ** *
17263341 TTTTCTTGTTGAGTTTTAGACACAATAGTGGCGCTTCGAAGAAATCGTTGCCGAAGTCAATCATT
1 TTTTCTTGTTCAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGCTGAAGTCAATCATT
** * *
17263406 AGCCCCGCTTTAGAGGAAGCACCGCAAAAAGTTTTAAGCATACGCCATCATTTTCTATTGTGCTT
66 AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCATCATTTTCTGTTGTGCTT
* *
17263471 AGGGAAATTAGTGGCGCTTCGCGAAAAACGCCGCAAAATTCAAGCATTATTGATAATAGTTTTAG
131 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAATTCAAGCATTATTGGTAATAGTTTTAG
* *
17263536 GCAAATGACAGCA
196 GCAAATGACAACG
* * * *
17263549 TTTTCTTTTTCAGATTTAGAGACATTAGTGGCGC
1 TTTTCTTGTTCAGTTTTAGACACAATAGTGGCGC
17263583 ATTGCCAAAA
Statistics
Matches: 392, Mismatches: 58, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
208 392 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (208 bp):
TTTTCTTGTTCAGTTTTAGACACAATAGTGGCGCTTCAAAGAAATCGCCGCTGAAGTCAATCATT
AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATACGCCATCATTTTCTGTTGTGCTT
AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAATTCAAGCATTATTGGTAATAGTTTTAG
GCAAATGACAACG
Found at i:17263956 original size:14 final size:14
Alignment explanation
Indices: 17263939--17263969 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17263929 GATTTAGGCC
17263939 TTATGGTTTATTGT
1 TTATGGTTTATTGT
*
17263953 TTATTGTTTATTGT
1 TTATGGTTTATTGT
17263967 TTA
1 TTA
17263970 AGGGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (14 bp):
TTATGGTTTATTGT
Found at i:17264395 original size:22 final size:22
Alignment explanation
Indices: 17264370--17264415 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
17264360 TGGGGTTCGT
*
17264370 GGGTTTAAGGTTTAAGGGT-TAA
1 GGGTTTAAGATTT-AGGGTCTAA
17264392 GGGTTTAAGATTTAGGGTCTAA
1 GGGTTTAAGATTTAGGGTCTAA
17264414 GG
1 GG
17264416 AATAAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.26, C:0.02, G:0.37, T:0.35
Consensus pattern (22 bp):
GGGTTTAAGATTTAGGGTCTAA
Found at i:17267105 original size:18 final size:18
Alignment explanation
Indices: 17267077--17267117 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
17267067 TTAAAGTTCA
17267077 AATTT-CATAACTTA-AGT
1 AATTTACATAACTTACA-T
17267094 AATTTACATAACTTACAT
1 AATTTACATAACTTACAT
17267112 AATTTA
1 AATTTA
17267118 AATTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 16 0.73
19 1 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.41
Consensus pattern (18 bp):
AATTTACATAACTTACAT
Found at i:17267171 original size:19 final size:19
Alignment explanation
Indices: 17267147--17267203 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
17267137 ACATAACTTA
*
17267147 TTAATATTTATATATAGTT
1 TTAATATTTATATATATTT
17267166 TTAATA--TA-A-ATATTT
1 TTAATATTTATATATATTT
*
17267181 TTAAAATTTATATATATTT
1 TTAATATTTATATATATTT
17267200 TTAA
1 TTAA
17267204 AAATTGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 10 0.31
16 1 0.03
17 4 0.12
18 1 0.03
19 16 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAATATTTATATATATTT
Found at i:17267329 original size:9 final size:9
Alignment explanation
Indices: 17267286--17267700 Score: 111
Period size: 9 Copynumber: 47.0 Consensus size: 9
17267276 AAATTTATAA
*
17267286 TACATAATAA
1 TACATAA-AT
**
17267296 TACATAACC
1 TACATAAAT
17267305 TACATAAAT
1 TACATAAAT
* *
17267314 TAAATAAGT
1 TACATAAAT
17267323 TACAT-AA-
1 TACATAAAT
* *
17267330 TACACAAAA
1 TACATAAAT
* *
17267339 AACAAAAACT
1 TACATAAA-T
*
17267349 TACATAACT
1 TACATAAAT
17267358 TACATAATAT
1 TACATAA-AT
17267368 CCTACATAATAACT
1 --TACAT-A-AA-T
*
17267382 TACATAATAA
1 TACATAA-AT
**
17267392 TACATAACC
1 TACATAAAT
17267401 TACATAAAT
1 TACATAAAT
* *
17267410 TAAATAAGT
1 TACATAAAT
*
17267419 TATAT-AA-
1 TACATAAAT
*
17267426 TACACAAA-
1 TACATAAAT
* *
17267434 CACAAAAACT
1 TACATAAA-T
*
17267444 TACATAACT
1 TACATAAAT
17267453 TACAT-AA-
1 TACATAAAT
*
17267460 TACATAACT
1 TACATAAAT
**
17267469 TACATAACC
1 TACATAAAT
*
17267478 TAC-TTAA-
1 TACATAAAT
*
17267485 TACATAACT
1 TACATAAAT
*
17267494 TACATAACT
1 TACATAAAT
17267503 TACAT-AA-
1 TACATAAAT
*
17267510 TACATAACT
1 TACATAAAT
*
17267519 TACATAACT
1 TACATAAAT
*
17267528 TATATAAGACAACT
1 TACAT---A-AA-T
*
17267542 TACATAACT
1 TACATAAAT
*
17267551 TAC-TTAA-
1 TACATAAAT
*
17267558 TACATAACT
1 TACATAAAT
17267567 TACAT-AA-
1 TACATAAAT
*
17267574 TACATAACT
1 TACATAAAT
**
17267583 TACATAACC
1 TACATAAAT
17267592 TACAT-AA-
1 TACATAAAT
* *
17267599 GACATAACT
1 TACATAAAT
*
17267608 TACATAAGT
1 TACATAAAT
*
17267617 TTCAT-AA-
1 TACATAAAT
* *
17267624 TACACAACT
1 TACATAAAT
*
17267633 TACATAACT
1 TACATAAAT
17267642 TACAT-AA-
1 TACATAAAT
*
17267649 TACATAACT
1 TACATAAAT
*
17267658 TACATAATT
1 TACATAAAT
*
17267667 TAC-TTAA-
1 TACATAAAT
*
17267674 TACATAACT
1 TACATAAAT
*
17267683 TACATAACT
1 TACATAAAT
17267692 TACATAAAT
1 TACATAAAT
17267701 ATATGATGTG
Statistics
Matches: 298, Mismatches: 71, Indels: 73
0.67 0.16 0.17
Matches are distributed among these distances:
7 43 0.14
8 36 0.12
9 168 0.56
10 27 0.09
11 3 0.01
12 11 0.04
13 3 0.01
14 7 0.02
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (9 bp):
TACATAAAT
Found at i:17267330 original size:34 final size:34
Alignment explanation
Indices: 17267292--17267698 Score: 156
Period size: 34 Copynumber: 12.1 Consensus size: 34
17267282 ATAATACATA
*
17267292 ATAATACATAACCTACATAAATTAAATAAGTTAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* *** * *
17267326 ATAATACACAAAAAACAAAAACTTACATAACTTAC
1 ATAATACATAACCTACATAAA-TTAAATAACTTAC
* * *
17267361 ATAAT--AT--CCTACAT-AA-TAACTTACATA-
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* *
17267388 ATAATACATAACCTACATAAATTAAATAAGTTAT
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* * * *
17267422 ATAATACACAAAC-ACAAAAACTTACATAACTTAC
1 ATAATACATAACCTACATAAA-TTAAATAACTTAC
*
17267456 ATAATACATAACTTACATAACCTACTTAATACATAACTTAC
1 ATAATACATAACCTACATAA---A-TT-A-A-ATAACTTAC
* * *
17267497 ATAACTTACATAA--TACATAACTTACATAACTTAT
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
* * * **
17267531 ATAAGAC--AACTTACATAACTTACTTAA--TAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* * *
17267561 ATAACTTACATAA--TACATAACTTACATAACCTAC
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
* * * **
17267595 ATAAGACATAACTTACATAAGTTTCATAA--TAC
1 ATAATACATAACCTACATAAATTAAATAACTTAC
* * *
17267627 ACAACTTACATAACTTACAT-AA-TACATAACTTAC
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
* * *
17267661 ATAATTTACTTAA--TACATAACTTACATAACTTAC
1 ATAA--TACATAACCTACATAAATTAAATAACTTAC
17267695 ATAA
1 ATAA
17267699 ATATATGATG
Statistics
Matches: 289, Mismatches: 50, Indels: 68
0.71 0.12 0.17
Matches are distributed among these distances:
27 5 0.02
28 7 0.02
29 2 0.01
30 10 0.03
31 10 0.03
32 59 0.20
33 16 0.06
34 124 0.43
35 21 0.07
36 1 0.00
37 2 0.01
38 4 0.01
39 1 0.00
41 20 0.07
43 7 0.02
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (34 bp):
ATAATACATAACCTACATAAATTAAATAACTTAC
Found at i:17267375 original size:12 final size:12
Alignment explanation
Indices: 17267352--17267391 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
17267342 AAAAACTTAC
*
17267352 ATAACTTACATA
1 ATAACCTACATA
*
17267364 ATATCCTACATA
1 ATAACCTACATA
*
17267376 ATAACTTACATA
1 ATAACCTACATA
17267388 ATAA
1 ATAA
17267392 TACATAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACCTACATA
Found at i:17267397 original size:96 final size:95
Alignment explanation
Indices: 17267286--17267461 Score: 325
Period size: 96 Copynumber: 1.8 Consensus size: 95
17267276 AAATTTATAA
17267286 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAAACAAAAACTTA
1 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACAC-AAAAACAAAAACTTA
17267351 CATAACTTACATAATATCCTACATAATAACT
65 CATAACTTACATAATATCCTACATAATAACT
* *
17267382 TACATAATAATACATAACCTACATAAATTAAATAAGTTATATAATACACAAACACAAAAACTTAC
1 TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
17267447 ATAACTTACATAATA
66 ATAACTTACATAATA
17267462 CATAACTTAC
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
95 30 0.38
96 48 0.62
ACGTcount: A:0.55, C:0.17, G:0.01, T:0.27
Consensus pattern (95 bp):
TACATAATAATACATAACCTACATAAATTAAATAAGTTACATAATACACAAAAACAAAAACTTAC
ATAACTTACATAATATCCTACATAATAACT
Found at i:17267465 original size:16 final size:17
Alignment explanation
Indices: 17267444--17267698 Score: 227
Period size: 16 Copynumber: 15.4 Consensus size: 17
17267434 CACAAAAACT
17267444 TACATAACTTACATAA-
1 TACATAACTTACATAAC
17267460 TACATAACTTACATAACC
1 TACATAACTTACATAA-C
*
17267478 TACTTAA--TACATAAC
1 TACATAACTTACATAAC
17267493 TTACATAACTTACATAA-
1 -TACATAACTTACATAAC
17267510 TACATAACTTACATAAC
1 TACATAACTTACATAAC
* *
17267527 TTATATAA--GAC--AAC
1 -TACATAACTTACATAAC
*
17267541 TTACATAACTTACTTAA-
1 -TACATAACTTACATAAC
17267558 TACATAACTTACATAA-
1 TACATAACTTACATAAC
17267574 TACATAACTTACATAACC
1 TACATAACTTACATAA-C
*
17267592 TACATAA--GACATAAC
1 TACATAACTTACATAAC
* *
17267607 TTACATAAGTTTCATAA-
1 -TACATAACTTACATAAC
*
17267624 TACACAACTTACATAAC
1 TACATAACTTACATAAC
17267641 TTACATAA--TACATAAC
1 -TACATAACTTACATAAC
* *
17267657 TTACATAATTTACTTAA-
1 -TACATAACTTACATAAC
17267674 TACATAACTTACATAAC
1 TACATAACTTACATAAC
17267691 TTACATAA
1 -TACATAA
17267699 ATATATGATG
Statistics
Matches: 200, Mismatches: 17, Indels: 42
0.77 0.07 0.16
Matches are distributed among these distances:
14 10 0.05
15 2 0.01
16 136 0.68
18 52 0.26
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (17 bp):
TACATAACTTACATAAC
Found at i:17267468 original size:25 final size:24
Alignment explanation
Indices: 17267440--17267698 Score: 235
Period size: 25 Copynumber: 10.5 Consensus size: 24
17267430 CAAACACAAA
17267440 AACTTACATAACTTACATAA-TACAT
1 AACTTACATAA--TACATAACTACAT
*
17267465 AACTTACATAACCTACTTAA-TACAT
1 AACTTACATAA--TACATAACTACAT
17267490 AACTTACATAACTTACATAA-TACAT
1 AACTTACATAA--TACATAACTACAT
* *
17267515 AACTTACATAACTTATATAA-GAC--
1 AACTTACATAA--TACATAACTACAT
*
17267538 AACTTACATAACTTACTTAA-TACAT
1 AACTTACATAA--TACATAACTACAT
17267563 AACTTACATAATACATAACTTACAT
1 AACTTACATAATACATAAC-TACAT
* *
17267588 AACCTACATAAGACATAACTTACAT
1 AACTTACATAATACATAAC-TACAT
* * *
17267613 AAGTTTCATAATACACAACTTACAT
1 AACTTACATAATACATAAC-TACAT
17267638 AACTTACATAATACATAACTTACAT
1 AACTTACATAATACATAAC-TACAT
* *
17267663 AATTTACTTAATACATAACTTACAT
1 AACTTACATAATACATAAC-TACAT
17267688 AACTTACATAA
1 AACTTACATAA
17267699 ATATATGATG
Statistics
Matches: 206, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
23 26 0.13
25 180 0.87
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (24 bp):
AACTTACATAATACATAACTACAT
Found at i:17267503 original size:50 final size:50
Alignment explanation
Indices: 17267440--17267698 Score: 335
Period size: 50 Copynumber: 5.4 Consensus size: 50
17267430 CAAACACAAA
*
17267440 AACTTACATAACTTACATAATACATAACTTACATAACCTACTTAATACAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
*
17267490 AACTTACATAACTTACATAATACATAACTTACATAACTTA-TATAAGAC--
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACT-TAATACAT
*
17267538 AACTTACATAACTTAC----T---TAA--TACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
* * * * * *
17267579 AACTTACATAACCTACATAAGACATAACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
*
17267629 AACTTACATAACTTACATAATACATAACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
17267679 AACTTACATAACTTACATAA
1 AACTTACATAACTTACATAA
17267699 ATATATGATG
Statistics
Matches: 181, Mismatches: 15, Indels: 26
0.82 0.07 0.12
Matches are distributed among these distances:
39 16 0.09
41 18 0.10
44 1 0.01
48 19 0.10
49 1 0.01
50 126 0.70
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (50 bp):
AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
Found at i:17273831 original size:43 final size:43
Alignment explanation
Indices: 17273613--17273815 Score: 270
Period size: 43 Copynumber: 4.8 Consensus size: 43
17273603 ACCAAACAAA
* * *
17273613 TAGCGGCGTTTGTGTAAAAA-CGCTGCTAAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCT-AAAGAACATGATCTT
* * * *
17273656 TAGTGGCGTTTGCGGAAGAAGCACCGCT-AA-AACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
*
17273697 TAGCAGG-ATTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
1 TAGC-GGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
* *
17273740 TAGCGGCGTTTGTGGAAAAAACGCCGCTAAGGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
17273783 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGA
17273816 CCCTGACTTT
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
41 30 0.22
42 8 0.06
43 95 0.69
44 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
Found at i:17279643 original size:40 final size:40
Alignment explanation
Indices: 17279461--17279683 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
17279451 TCCTCGTTCA
* * * * *
17279461 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
17279500 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
17279540 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
17279580 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
17279620 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
17279660 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17279684 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:17279692 original size:41 final size:41
Alignment explanation
Indices: 17279615--17279692 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17279605 TTAGTATCTC
* * *
17279615 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17279656 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17279693 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17281762 original size:20 final size:21
Alignment explanation
Indices: 17281734--17281772 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
17281724 AAATAGTAGT
*
17281734 TTAGATGTGGAA-TAAAATGG
1 TTAGATGTGCAAGTAAAATGG
*
17281754 TTAGGTGTGCAAGTAAAAT
1 TTAGATGTGCAAGTAAAAT
17281773 TGATTTGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (21 bp):
TTAGATGTGCAAGTAAAATGG
Found at i:17285523 original size:39 final size:39
Alignment explanation
Indices: 17285475--17285552 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
17285465 TATTAAATTT
17285475 TGGTTTAGGTTCGTTTAAGGAATTATTAAAGAAAATTGG
1 TGGTTTAGGTTCGTTTAAGGAATTATTAAAGAAAATTGG
17285514 TGGTTTAGGTTCGTTTAAGGAATTATTAAAGAAAATTGG
1 TGGTTTAGGTTCGTTTAAGGAATTATTAAAGAAAATTGG
17285553 AAGATTCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (39 bp):
TGGTTTAGGTTCGTTTAAGGAATTATTAAAGAAAATTGG
Found at i:17299973 original size:38 final size:38
Alignment explanation
Indices: 17299922--17300003 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
17299912 TTGGGGGATA
17299922 GTTTAGTGGTAAATTGATTGAATTTATACTGAATTTTG
1 GTTTAGTGGTAAATTGATTGAATTTATACTGAATTTTG
17299960 GTTTAGTGGTAAATTGATTGAATTTATACTGAATTTTG
1 GTTTAGTGGTAAATTGATTGAATTTATACTGAATTTTG
17299998 GTTTAG
1 GTTTAG
17300004 ATTCGCTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (38 bp):
GTTTAGTGGTAAATTGATTGAATTTATACTGAATTTTG
Found at i:17299985 original size:21 final size:21
Alignment explanation
Indices: 17299923--17299985 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 21
17299913 TGGGGGATAG
17299923 TTTAGTGGTAAATTGATTGAA
1 TTTAGTGGTAAATTGATTGAA
** * *
17299944 TTTA-TACTGAATT--TTG-G
1 TTTAGTGGTAAATTGATTGAA
17299961 TTTAGTGGTAAATTGATTGAA
1 TTTAGTGGTAAATTGATTGAA
17299982 TTTA
1 TTTA
17299986 TACTGAATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
17 4 0.13
18 9 0.30
20 9 0.30
21 8 0.27
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.48
Consensus pattern (21 bp):
TTTAGTGGTAAATTGATTGAA
Found at i:17316653 original size:42 final size:42
Alignment explanation
Indices: 17316585--17316847 Score: 373
Period size: 42 Copynumber: 6.3 Consensus size: 42
17316575 AAGGAAAGCA
*
17316585 TTCATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
17316627 TTCATTGCATTTAGAGGCTCACGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
17316669 TTCATTACATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
** *
17316711 TTCATTGCATTTAGATACCCAGGTGTGGGGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * **
17316753 TTCATTGCATCTAGAGGCCCAGGTATGGAGGTCTGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
17316795 TTCCTTGCATTTAAAGGCCCAGGTTTAGAGATCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
17316837 TTCATTGCATT
1 TTCATTGCATT
17316848 CTATATGAAG
Statistics
Matches: 193, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 193 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:17317752 original size:50 final size:49
Alignment explanation
Indices: 17317698--17317917 Score: 128
Period size: 50 Copynumber: 4.4 Consensus size: 49
17317688 AAAAGAAGAA
* *
17317698 AAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTTAGCCATTTTAAAGG
1 AAAGTTTAAATTTTTAAAATAAAAATATG-TTTTTTAGCCATTTAAAAGG
* * * * * * **
17317748 AAAGTTAAAATTTTTAAAACAAAATTTTGAATTTTTTTTCAACTATTTCAAAATA
1 AAAGTTTAAATTTTTAAAATAAAA--AT--ATGTTTTTT-AGCCATTT-AAAAGG
** * * * *
17317803 AAAGTTTTGATCTTTAAGA-AAAATTATGTTTATT-----TTTAAAAGAG
1 AAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTAGCCATTTAAAAG-G
* * *
17317847 AAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTAGTCATTTTAATGG
1 AAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTAGCCATTTAAAAGG
17317896 AAAAAGTTTAAATTTTTTAAAA
1 --AAAGTTTAAA-TTTTTAAAA
17317918 CAAAGTTTTG
Statistics
Matches: 127, Mismatches: 27, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
43 4 0.03
44 18 0.14
45 13 0.10
49 1 0.01
50 34 0.27
51 10 0.08
52 12 0.09
53 6 0.05
54 12 0.09
55 17 0.13
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (49 bp):
AAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTAGCCATTTAAAAGG
Found at i:17317878 original size:149 final size:147
Alignment explanation
Indices: 17317693--17317974 Score: 424
Period size: 149 Copynumber: 1.9 Consensus size: 147
17317683 AAAAAAAAAG
*
17317693 AAGAAAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTTAGCCATTTTAAAGG-AAAG-TTAA
1 AAGAAAAAGTTTAAATTTTTAAAATAAAAATATG-TTTTTTAGCCATTTTAAAGGAAAAGTTTAA
*
17317756 AATTTTTAAAACAAAATTTTGAATTTTTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTAAG
65 AATTTTTAAAACAAAATTTTG-A-TCTTTTTCAACTATTTCAAAAT-AAAGTTTTGATCTTTAAG
17317821 AAAAATTATGTTTATTTTTAA
127 AAAAATTATGTTTATTTTTAA
* * *
17317842 AAGAGAAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTAGTCATTTTAATGGAAAAAGTTTAA
1 AAGAAAAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTAGCCATTTTAAAGG-AAAAGTTTAA
* * * *
17317907 ATTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAA
65 AATTTTTAAAACAAAATTTTGATCTTTTTCAACTATTTCAAAATAAAGTTTTGATCTTTAAGAAA
17317972 AAT
130 AAT
17317975 AGTGATTTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
148 41 0.34
149 52 0.43
150 5 0.04
151 23 0.19
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (147 bp):
AAGAAAAAGTTTAAATTTTTAAAATAAAAATATGTTTTTTAGCCATTTTAAAGGAAAAGTTTAAA
ATTTTTAAAACAAAATTTTGATCTTTTTCAACTATTTCAAAATAAAGTTTTGATCTTTAAGAAAA
ATTATGTTTATTTTTAA
Found at i:17321772 original size:14 final size:13
Alignment explanation
Indices: 17321749--17321778 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
17321739 TAGCTACAAA
17321749 TTCTTTTTCTTTT
1 TTCTTTTTCTTTT
17321762 TTCTGTTTTCTTTT
1 TTCT-TTTTCTTTT
17321776 TTC
1 TTC
17321779 GCCAAGAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (13 bp):
TTCTTTTTCTTTT
Found at i:17329310 original size:23 final size:23
Alignment explanation
Indices: 17329253--17329312 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
17329243 AAAACATGTC
*
17329253 AATAATAA-TTTAAAATAATAGT
1 AATAATAAGTTTAAAATAATAAT
* * *
17329275 -ATATTACGTTTTAAAATTATAAT
1 AATAATAAG-TTTAAAATAATAAT
17329298 AATAATAAGTTTAAA
1 AATAATAAGTTTAAA
17329313 GGTAATGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 5 0.17
23 18 0.62
24 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (23 bp):
AATAATAAGTTTAAAATAATAAT
Found at i:17329363 original size:3 final size:3
Alignment explanation
Indices: 17329357--17329381 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17329347 ATAAAGAAGA
17329357 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
17329382 GGATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17329425 original size:5 final size:6
Alignment explanation
Indices: 17329406--17329462 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
17329396 ATTGGAATTC
* * *
17329406 AAATAA AAATAA AAATAA AACACTAC AAATAG AAATAA AAAGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAATAA AAATAA
*
17329456 AGATAA A
1 AAATAA A
17329463 CTAAGTTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 37 0.86
7 2 0.05
8 4 0.09
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:17330912 original size:50 final size:50
Alignment explanation
Indices: 17330837--17331517 Score: 451
Period size: 50 Copynumber: 13.6 Consensus size: 50
17330827 CACCGCTTGA
* * * * *
17330837 GAAGTAAGATTCGCTGTGGTAGCTTTAATCTTTTTAACTGCAATGTCGGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGG
* * * ** *
17330887 GAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCCCAGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAAT-G-TCAGG
* * * * ** *
17330938 G-AGTAAGATTCGCTGTTTTAGCTTTAATCTTTTTAACAACAATGTCGGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGG
* * * ** * *
17330987 GAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTG-AACCGCCAGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAA-TGTCAGG
* * * *
17331037 GAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCAGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGG
* * * ** * * * *
17331087 GAGGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGTACCT-CCTGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCA-ATGTCAGG
** * * * *
17331137 GAAGTAAGATTTGCTGTTCTAGCTTTAATCTTTTTAACTGCAATGTCGGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGG
** ** * * ** * **
17331187 GAAACAAGATTCGTCGTTGTGGCATTAATCTGTTCCACTGTACCG-CTAGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-AGG
* * *
17331237 GAAGTAAGATTCGCTGCTGTAGG-TTTAATCTTTTTAACTGCAATGTCAGG
1 GAAGTAAGATTCACCGTTGT-GGCTTTAATCTTTTTAACTGCAATGTCAGG
* * * ** ** *
17331287 GAGGCAAGATT-ACCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGG
* * * * * *
17331336 GAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGCCTGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGG
* * ** **
17331386 GAGGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGC-ATCGCTTGGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAAT-G-TCAGG
** *** * *
17331437 GGGGTAAGATTCACTACTGTAGCTTTAATCCTTTTAACTGCAATGTCAGG
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGG
* *
17331487 GAGGCAAGATTCACCGTTGTGGCTTTAATCT
1 GAAGTAAGATTCACCGTTGTGGCTTTAATCT
17331518 GTTCCACTGC
Statistics
Matches: 461, Mismatches: 154, Indels: 32
0.71 0.24 0.05
Matches are distributed among these distances:
48 2 0.00
49 47 0.10
50 363 0.79
51 47 0.10
52 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (50 bp):
GAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCAGG
Found at i:17330990 original size:100 final size:101
Alignment explanation
Indices: 17330817--17331533 Score: 991
Period size: 100 Copynumber: 7.2 Consensus size: 101
17330807 CAAGATTTGT
** *
17330817 TGTTCCACTGCACCG-CTTGAGAAGTAAGATTCGCTG-TGGTAGCTTTAATCTTTTTAACTGCAA
1 TGTTCCACTGCACCGCCCAGGGAAGTAAGATTCGCTGCT-GTAGCTTTAATCTTTTTAACTGCAA
* * *
17330880 TGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATC
65 TGTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
* * * **
17330917 TGTTCCACTGCATCGCCCAGGG-AGTAAGATTCGCTGTTTTAGCTTTAATCTTTTTAACAACAAT
1 TGTTCCACTGCACCGCCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
* * *
17330981 GTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATC
66 GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
*
17331017 TGTTCCACTGAACCG-CCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
1 TGTTCCACTGCACCGCCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
17331081 GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
66 GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
* * * * * *
17331117 TGTTCCACTGTACC-TCCTGGGAAGTAAGATTTGCTGTTCTAGCTTTAATCTTTTTAACTGCAAT
1 TGTTCCACTGCACCGCCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
* ** ** *
17331181 GTCGGGGAAACAAGATTCGTCGTTGTGGCATTAATC
66 GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
* * *
17331217 TGTTCCACTGTACCG-CTAGGGAAGTAAGATTCGCTGCTGTAGGTTTAATCTTTTTAACTGCAAT
1 TGTTCCACTGCACCGCCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
17331281 GTCAGGGAGGCAAGATT-ACCGTTGTGGCTTTAATC
66 GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
17331316 TGTTCCACTGCACCG-CCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
1 TGTTCCACTGCACCGCCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
* * *
17331380 GCCTGGGAGGTAAGATTCACCGTTGTGGCTTTAATC
66 GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
* *** ** * * *
17331416 TGTTCCACTGCATCGCTTGGGGGGGTAAGATTCACTACTGTAGCTTTAATCCTTTTAACTGCAAT
1 TGTTCCACTGCACCGCCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
17331481 GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
66 GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
17331517 TGTTCCACTGCACCGCC
1 TGTTCCACTGCACCGCC
17331534 TGGGAAAATA
Statistics
Matches: 551, Mismatches: 59, Indels: 13
0.88 0.09 0.02
Matches are distributed among these distances:
99 96 0.17
100 362 0.66
101 93 0.17
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (101 bp):
TGTTCCACTGCACCGCCCAGGGAAGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAAT
GTCAGGGAGGCAAGATTCACCGTTGTGGCTTTAATC
Found at i:17331857 original size:142 final size:142
Alignment explanation
Indices: 17331601--17331880 Score: 470
Period size: 142 Copynumber: 2.0 Consensus size: 142
17331591 GACCTGTTAT
17331601 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTATAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTATAATCTC
* **
17331666 AGGGAAATAAGATTACTGGCTTCAATCTGCTCTGCTATAATCTCAGGGAGATAAGATTTCTGGCT
66 AGGGAAATAAGATTACTAGCTTCAATCTGCTCCACTATAATCTCAGGGAGATAAGATTTCTGGCT
17331731 TCAATCTGATGC
131 TCAATCTGATGC
* * * *
17331743 GATCTACTCTATTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACTATAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTATAATCTC
* * *
17331808 AGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCT
66 AGGGAAATAAGATTACTAGCTTCAATCTGCTCCACTATAATCTCAGGGAGATAAGATTTCTGGCT
17331873 TCAATCTG
131 TCAATCTG
17331881 CTCCACTGTG
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 128 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (142 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCGCTCCACTATAATCTC
AGGGAAATAAGATTACTAGCTTCAATCTGCTCCACTATAATCTCAGGGAGATAAGATTTCTGGCT
TCAATCTGATGC
Found at i:17331888 original size:44 final size:44
Alignment explanation
Indices: 17331792--17331889 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
17331782 ATTTTAATTC
* *
17331792 GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
* *
17331836 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
17331880 GCTCCACTGT
1 GCTCCACTGT
17331890 GGCTTAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
Found at i:17333218 original size:7 final size:7
Alignment explanation
Indices: 17333197--17333254 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
17333187 CCTCAACCTC
17333197 TTCATTT
1 TTCATTT
17333204 TT-ACTTT
1 TTCA-TTT
17333211 TTCATTT
1 TTCATTT
17333218 TT-ATTT
1 TTCATTT
17333224 TTCCATTT
1 TT-CATTT
*
17333232 TCTCTTTT
1 T-TCATTT
*
17333240 TTGATTT
1 TTCATTT
17333247 TTC-TTT
1 TTCATTT
17333253 TT
1 TT
17333255 TTCTTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
6 12 0.29
7 18 0.43
8 11 0.26
9 1 0.02
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.74
Consensus pattern (7 bp):
TTCATTT
Found at i:17333255 original size:14 final size:14
Alignment explanation
Indices: 17333197--17333255 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
17333187 CCTCAACCTC
17333197 TTCATTTTTAC-TTT
1 TTCATTTTT-CTTTT
*
17333211 TTCATTTTTATTTT
1 TTCATTTTTCTTTT
*
17333225 TCCATTTTCTCTTTT
1 TTCATTTT-TCTTTT
*
17333240 TTGATTTTTCTTTT
1 TTCATTTTTCTTTT
17333254 TT
1 TT
17333256 TCTTTTTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 27 0.71
15 11 0.29
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.75
Consensus pattern (14 bp):
TTCATTTTTCTTTT
Found at i:17334119 original size:46 final size:46
Alignment explanation
Indices: 17334070--17334159 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
17334060 TTTTCCTTTT
*
17334070 TTTTTC-TTCTC-TCTTTTTTCATTTTCATTTTGACTTTGATTTTGA
1 TTTTTCTTTCTCTTCTTTTTT-ATTTTCATCTTGACTTTGATTTTGA
* * * *
17334115 TTTTTCTTTTTCTTCTTTTTTATTTTGATCTTGATTTTGCTTTTG
1 TTTTTCTTTCTCTTCTTTTTTATTTTCATCTTGACTTTGATTTTG
17334160 CTTCTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 6 0.16
46 24 0.63
47 8 0.21
ACGTcount: A:0.09, C:0.13, G:0.08, T:0.70
Consensus pattern (46 bp):
TTTTTCTTTCTCTTCTTTTTTATTTTCATCTTGACTTTGATTTTGA
Found at i:17334142 original size:40 final size:39
Alignment explanation
Indices: 17334083--17334168 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
17334073 TTCTTCTCTC
17334083 TTTTTTCATTTTCATTTTGA-CTTTGATTTTGATTTTTCT
1 TTTTTTCATTTTCATTTTGATC-TTGATTTTGATTTTTCT
* * * *
17334122 TTTTCTTCTTTTTTATTTTGATCTTGATTTTGCTTTTGCT
1 TTTT-TTCATTTTCATTTTGATCTTGATTTTGATTTTTCT
17334162 TCTTTTT
1 T-TTTTT
17334169 TTTTGAGATC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.10
40 32 0.80
41 4 0.10
ACGTcount: A:0.09, C:0.12, G:0.08, T:0.71
Consensus pattern (39 bp):
TTTTTTCATTTTCATTTTGATCTTGATTTTGATTTTTCT
Found at i:17334149 original size:34 final size:34
Alignment explanation
Indices: 17334104--17334169 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
17334094 TCATTTTGAC
* * *
17334104 TTTGATTTTGATTTTTCTTTTTCTTCTTTTTTAT
1 TTTGATCTTGATTTTGCTTTTGCTTCTTTTTTAT
17334138 TTTGATCTTGATTTTGCTTTTGCTTCTTTTTT
1 TTTGATCTTGATTTTGCTTTTGCTTCTTTTTT
17334170 TTTGAGATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.08, C:0.11, G:0.09, T:0.73
Consensus pattern (34 bp):
TTTGATCTTGATTTTGCTTTTGCTTCTTTTTTAT
Found at i:17342615 original size:34 final size:32
Alignment explanation
Indices: 17342577--17342660 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 32
17342567 TTTTTCAATA
* *
17342577 CCAGTATCAGTACCAGTTTAGACCTTAGCCCATT
1 CCAGTA-CAGTAACAGTTAAGACCTTAGCCCA-T
*
17342611 CCAGTAACAGTAAGCA-TTAAGGCCTTAGCCCAT
1 CCAGT-ACAGTAA-CAGTTAAGACCTTAGCCCAT
17342644 CACAGTACAGTAACAGT
1 C-CAGTACAGTAACAGT
17342661 GACAGTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
32 2 0.05
33 10 0.23
34 28 0.65
35 3 0.07
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (32 bp):
CCAGTACAGTAACAGTTAAGACCTTAGCCCAT
Found at i:17343843 original size:15 final size:15
Alignment explanation
Indices: 17343823--17343855 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17343813 GAGGAGAGGA
17343823 AATTGAAAAGAAAAC
1 AATTGAAAAGAAAAC
*
17343838 AATTGAAAAGAACAC
1 AATTGAAAAGAAAAC
17343853 AAT
1 AAT
17343856 CAATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.09, G:0.12, T:0.15
Consensus pattern (15 bp):
AATTGAAAAGAAAAC
Found at i:17344262 original size:21 final size:20
Alignment explanation
Indices: 17344234--17344274 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
17344224 AAAAAACAAG
17344234 AATCATAAGAATCAAAATAA
1 AATCATAAGAATCAAAATAA
* *
17344254 AATCAATAATAATCTAAATAA
1 AATC-ATAAGAATCAAAATAA
17344275 TATGAGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (20 bp):
AATCATAAGAATCAAAATAA
Found at i:17348549 original size:43 final size:43
Alignment explanation
Indices: 17348488--17348574 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
17348478 GAATTGGGTT
*
17348488 TGTGAATCGAGAGAGAGTGGTCATGCCTTAATTTTTTAAATTA
1 TGTGAATCGAGAGAGAGTGATCATGCCTTAATTTTTTAAATTA
17348531 TGTGAATCGAGAGAGAGTGATCATGCCTTAATTTTTTAAATTA
1 TGTGAATCGAGAGAGAGTGATCATGCCTTAATTTTTTAAATTA
17348574 T
1 T
17348575 CTATGCATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (43 bp):
TGTGAATCGAGAGAGAGTGATCATGCCTTAATTTTTTAAATTA
Found at i:17364362 original size:32 final size:31
Alignment explanation
Indices: 17364317--17364401 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 31
17364307 TCTGGGCTGG
* *
17364317 AGCCCTATTCAGTAACAGTACAGTGTGGCCTT
1 AGCCCAATACAGTAACAGTACAGTG-GGCCTT
17364349 AGCCCAATACAGTAACAGT---GTGGGCCTT
1 AGCCCAATACAGTAACAGTACAGTGGGCCTT
* * * *
17364377 AGCCCATTATAGTATCAATACAGTG
1 AGCCCAATACAGTAACAGTACAGTG
17364402 CAATAATGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
28 21 0.48
29 3 0.07
31 3 0.07
32 17 0.39
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (31 bp):
AGCCCAATACAGTAACAGTACAGTGGGCCTT
Found at i:17364390 original size:28 final size:27
Alignment explanation
Indices: 17364331--17364382 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
17364321 CTATTCAGTA
17364331 ACAGT-ACAGTGTGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGCCTTAGCCCAAT
17364357 ACAGTAACAGTGTGGGCCTTAGCCCA
1 ACAGTAACAGTGT-GGCCTTAGCCCA
17364383 TTATAGTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
28 12 0.50
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (27 bp):
ACAGTAACAGTGTGGCCTTAGCCCAAT
Found at i:17364541 original size:26 final size:27
Alignment explanation
Indices: 17364506--17364571 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
17364496 AATATAGCAA
*
17364506 CAAAGTTGCCAGTAAT-AGTAATGCAG
1 CAAAGCTGCCAGTAATCAGTAATGCAG
*
17364532 CAAAGCTGCCAGT-ATCAGTATTGCAG
1 CAAAGCTGCCAGTAATCAGTAATGCAG
*
17364558 CAAAACTGCCAGTA
1 CAAAGCTGCCAGTA
17364572 CAGTATACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.06
26 33 0.94
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
CAAAGCTGCCAGTAATCAGTAATGCAG
Found at i:17367366 original size:26 final size:26
Alignment explanation
Indices: 17367337--17367406 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
17367327 CATTCTGACC
*
17367337 CACAGCTCGTGTGAGCAAGCCCATTT
1 CACAGCTCGTGTGAGCAAACCCATTT
*
17367363 CACAGCTCGTGTGAGCAAACTCATTT
1 CACAGCTCGTGTGAGCAAACCCATTT
*
17367389 CACAGCTTGTGTGAGCAA
1 CACAGCTCGTGTGAGCAA
17367407 CGATGTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAACCCATTT
Found at i:17368676 original size:15 final size:15
Alignment explanation
Indices: 17368656--17368684 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17368646 TAAGACACGG
17368656 GCATGTGTCTCAGCT
1 GCATGTGTCTCAGCT
17368671 GCATGTGTCTCAGC
1 GCATGTGTCTCAGC
17368685 CGTGTGAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.31
Consensus pattern (15 bp):
GCATGTGTCTCAGCT
Found at i:17372115 original size:31 final size:32
Alignment explanation
Indices: 17372080--17372141 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
17372070 CATAATTAAA
17372080 AAACACTTA-AA-ATAAATAAAACCCTAAACTT
1 AAACACTTATAATATAAA-AAAACCCTAAACTT
*
17372111 AAACACTTATAATCTAAAAAAACCCTAAACT
1 AAACACTTATAATATAAAAAAACCCTAAACT
17372142 CTAATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 9 0.32
32 15 0.54
33 4 0.14
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (32 bp):
AAACACTTATAATATAAAAAAACCCTAAACTT
Found at i:17372667 original size:46 final size:45
Alignment explanation
Indices: 17372611--17372735 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 45
17372601 CAGGTCTTAT
*
17372611 TATACCTGTATTCTCGAGTCTGCAACACATGCTGGAGCTCGAAACC
1 TATACTTGTATTCTCGAGTCTGCAACA-ATGCTGGAGCTCGAAACC
* ** * *
17372657 TATACTTGTATTCTTGAGTCCACAACAATTGTTGTAGCTCGAAACC
1 TATACTTGTATTCTCGAGTCTGCAACAA-TGCTGGAGCTCGAAACC
*
17372703 TATA-TCTATATTCTCGAGTCTGCAACATATGCT
1 TATACT-TGTATTCTCGAGTCTGCAACA-ATGCT
17372736 AGCACTCAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
45 2 0.03
46 62 0.95
47 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (45 bp):
TATACTTGTATTCTCGAGTCTGCAACAATGCTGGAGCTCGAAACC
Found at i:17372748 original size:46 final size:45
Alignment explanation
Indices: 17372619--17372749 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 45
17372609 ATTATACCTG
* *
17372619 TATTCTCGAGTCTGCAACACATGCTGGAGCTCGAAACCTATACTTG
1 TATTCTCGAGTCTGCAACA-ATGCTGCAGCTCGAAACCTATACTTA
* ** * *
17372665 TATTCTTGAGTCCACAACAATTGTTGTAGCTCGAAACCTATA-TCTA
1 TATTCTCGAGTCTGCAACAA-TGCTGCAGCTCGAAACCTATACT-TA
*
17372711 TATTCTCGAGTCTGCAACATATGCTAGCA-CTCAAAACCT
1 TATTCTCGAGTCTGCAACA-ATGCT-GCAGCTCGAAACCT
17372750 GGGGTAATAA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.03
46 64 0.93
47 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (45 bp):
TATTCTCGAGTCTGCAACAATGCTGCAGCTCGAAACCTATACTTA
Found at i:17376540 original size:32 final size:31
Alignment explanation
Indices: 17376459--17376551 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 31
17376449 GGGAAGGAGA
* *
17376459 AGAGGTTGTGTTTGGGATTTGAGAAAAGAATT
1 AGAGGTTGTGTTTGGGGTTTGA-AAAAAAATT
*
17376491 A-AGGTTGTGTTTAGGGTTTGAAAAAAAATT
1 AGAGGTTGTGTTTGGGGTTTGAAAAAAAATT
* * *
17376521 GAGAGATTGTATTTGGGGTTAGAAGAAAAAA
1 -AGAGGTTGTGTTTGGGGTTTGAA-AAAAAA
17376552 ATCATAAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
30 8 0.16
31 19 0.37
32 18 0.35
33 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.32
Consensus pattern (31 bp):
AGAGGTTGTGTTTGGGGTTTGAAAAAAAATT
Found at i:17377492 original size:12 final size:12
Alignment explanation
Indices: 17377475--17377499 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17377465 TTTTGTAATG
17377475 AAAATTTATTGT
1 AAAATTTATTGT
17377487 AAAATTTATTGT
1 AAAATTTATTGT
17377499 A
1 A
17377500 TCACATTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AAAATTTATTGT
Found at i:17379348 original size:33 final size:33
Alignment explanation
Indices: 17379306--17379386 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
17379296 TGCAGTATAG
* *
17379306 CACTCCTCCCGGCTCTTATCCACCGCATTACTC
1 CACTCCTCCCGGCTCGTATCCACCGCAATACTC
*
17379339 CACTCCTCCCGGCTCGTATCCACCGTAATACTC
1 CACTCCTCCCGGCTCGTATCCACCGCAATACTC
*
17379372 CACTCCTCCCAGCTC
1 CACTCCTCCCGGCTC
17379387 AAATTCATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.16, C:0.49, G:0.10, T:0.25
Consensus pattern (33 bp):
CACTCCTCCCGGCTCGTATCCACCGCAATACTC
Found at i:17379741 original size:26 final size:26
Alignment explanation
Indices: 17379704--17379755 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
17379694 ACATTACTAC
17379704 ATTAAAACGAGGAACAAACTTTGTAA
1 ATTAAAACGAGGAACAAACTTTGTAA
* *
17379730 ATTAAAATGAGGAACGAACTTTGTAA
1 ATTAAAACGAGGAACAAACTTTGTAA
17379756 TATAGATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (26 bp):
ATTAAAACGAGGAACAAACTTTGTAA
Found at i:17379801 original size:48 final size:48
Alignment explanation
Indices: 17379730--17379869 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
17379720 AACTTTGTAA
* *
17379730 ATTAAAATGAGGAACGAACTTTGTAATATAGATTAGATACATTACAAC
1 ATTAAAATGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
*
17379778 ATTAAAATGAGGAACAAACTTTGTAATATAAATTAGATACATTGCAAC
1 ATTAAAATGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
* * * * * *
17379826 ATTAAAACGATGAACATACTTTATTATATAAATTAGGTACATTA
1 ATTAAAATGAGGAACAAACTTTGTAATATAAATTAGATACATTA
17379870 GATTACATTA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (48 bp):
ATTAAAATGAGGAACAAACTTTGTAATATAAATTAGATACATTACAAC
Found at i:17383625 original size:10 final size:11
Alignment explanation
Indices: 17383601--17383627 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17383591 ACTTACTAAC
17383601 AAAATAACTTA
1 AAAATAACTTA
17383612 AAAATAACTTA
1 AAAATAACTTA
17383623 AAAAT
1 AAAAT
17383628 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATAACTTA
Done.