Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 16 of 344
Found at i:5796689 original size:127 final size:126
Alignment explanation
Indices: 5796532--5796776 Score: 436
Period size: 127 Copynumber: 1.9 Consensus size: 126
5796522 GTTTTAGCCT
* *
5796532 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGTGAAACCCAGTACATTAGGGTACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACATTAGGGAACGATT
*
5796597 CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAATTTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAA-ATTTTGAGAGTGAACTGG
*
5796659 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGAACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACATTAGGGAACGATT
*
5796724 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAAATTTTGAGAG
5796777 AAGATCAATG
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
126 9 0.08
127 104 0.92
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACATTAGGGAACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCCTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:5796895 original size:13 final size:14
Alignment explanation
Indices: 5796874--5796924 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 14
5796864 CCAACCATAT
*
5796874 ATAAATAATAAATA
1 ATAATTAATAAATA
5796888 ATAA-TAAT-AATA
1 ATAATTAATAAATA
* *
5796900 GTAATTAATAGA-A
1 ATAATTAATAAATA
5796913 ATAATTAATAAA
1 ATAATTAATAAA
5796925 ACAACAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 7 0.23
13 19 0.61
14 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
ATAATTAATAAATA
Found at i:5797263 original size:16 final size:15
Alignment explanation
Indices: 5797235--5797265 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5797225 ATATTTACAT
5797235 AATAAATATATAATA
1 AATAAATATATAATA
5797250 AATAAATAATATAATA
1 AATAAAT-ATATAATA
5797266 CTATGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATATATAATA
Found at i:5797712 original size:18 final size:18
Alignment explanation
Indices: 5797689--5797761 Score: 78
Period size: 18 Copynumber: 4.0 Consensus size: 18
5797679 ATAACAAGTA
5797689 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
5797707 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
5797725 ATGGT-TTAGTAGGGT-GTGG
1 -GGGTGAT-GGA-GGTAGTGG
5797744 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
5797762 ATGGTTTAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.07
18 28 0.64
19 10 0.23
20 3 0.07
ACGTcount: A:0.16, C:0.00, G:0.58, T:0.26
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:5797740 original size:29 final size:29
Alignment explanation
Indices: 5797707--5797806 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 29
5797697 GAGGTAGTGG
5797707 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
5797736 GGGTGTGGGGGTGATGGAGGTAGTGGATGGTTTAGTA
1 --------GGGTGATGGAGGTAGTGGATGGTTTAGTA
* *
5797773 GGGTGATGGAGTTAGTGG-TCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
5797802 GGGTG
1 GGGTG
5797807 TTTAATTTGG
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
28 1 0.02
29 30 0.50
37 29 0.48
ACGTcount: A:0.16, C:0.01, G:0.52, T:0.31
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:5797753 original size:37 final size:37
Alignment explanation
Indices: 5797703--5797777 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
5797693 GATGGAGGTA
5797703 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
5797740 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
5797777 G
1 G
5797778 ATGGAGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.55, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:5798664 original size:177 final size:177
Alignment explanation
Indices: 5798478--5798826 Score: 635
Period size: 177 Copynumber: 2.0 Consensus size: 177
5798468 AGCCTGCTCC
* *
5798478 ACTCCTGCTCAGTGAAAATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAAATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
*
5798543 GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCTTGC
66 GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
*
5798608 TCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAATCTACTCT
131 TCCACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTACTCT
*
5798655 ACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAAATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
*
5798720 GATTCACCAAAATTTGATTTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
66 GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
*
5798785 TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCT
131 TCCACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCT
5798827 GCTCCATTGT
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
177 165 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (177 bp):
ACTCCTGCTCAGTGAAAATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
TCCACTCCTGCTCAGTAAAGATAAGGCTGGTGGCTGAAATCTACTCT
Found at i:5798665 original size:44 final size:44
Alignment explanation
Indices: 5798611--5798697 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
5798601 AGCTTGCTCC
* *
5798611 ACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAATCTACTCT
1 ACTCCTGCTCAGTAAAGATAAGGCTAGTGGCTGAAATCTACTCT
*
5798655 ACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTACTC
1 ACTCCTGCTCAGTAAAGATAAGGCTAGTGGCTGAAATCTACTC
5798698 CATTGCCGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
ACTCCTGCTCAGTAAAGATAAGGCTAGTGGCTGAAATCTACTCT
Found at i:5798673 original size:310 final size:310
Alignment explanation
Indices: 5798345--5798959 Score: 1063
Period size: 310 Copynumber: 2.0 Consensus size: 310
5798335 AGCCTGCTCC
* * *
5798345 ACTCTTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGACTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
5798410 GATTCACCAAAATTTGATCTGCTCCGCT-TCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTG
66 GATTCACCAAAATTTGATCTGCTCCGCTCT-TGCTCAGCGAAGATAAGATCTAGTATTTAGCCTG
*
5798474 CTCCACTCCTGCTCAGTGAAAATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAG
130 CTCCACTCCTGCTCAGTGAAAATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAG
*
5798539 ATAAGATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGC-GAAGATAAGATCTAGTATTTAG
195 ATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCA-CAGAAGATAAGATCTAGTATTTAG
* * *
5798603 CTTGCTCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAATCTACTCT
259 CCTGCTCCACTCCTGCTCAGTAAAGATAAGGCTGATGGCTGAAATCTACTCT
*
5798655 ACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGACTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
*
5798720 GATTCACCAAAATTTGATTTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
66 GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
* *
5798785 TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCAATACATGGAGA
131 TCCACTCCTGCTCAGTGAAAATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGA
* *
5798850 TAAGATTCACTAAAATTTGATCTGTTCCGCTCCTGCTCACAGAAGATAAGATCTAGTATTTAGCC
196 TAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCACAGAAGATAAGATCTAGTATTTAGCC
*
5798915 TGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGGCTGAAATCT
261 TGCTCCACTCCTGCTCAGTAAAGATAAGGCTGATGGCTGAAATCT
5798960 GCTCCATTGC
Statistics
Matches: 288, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
309 1 0.00
310 286 0.99
311 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (310 bp):
ACTCCTGCTCAGTGAAGATAAGACTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
GATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
TCCACTCCTGCTCAGTGAAAATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATACATGGAGA
TAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCACAGAAGATAAGATCTAGTATTTAGCC
TGCTCCACTCCTGCTCAGTAAAGATAAGGCTGATGGCTGAAATCTACTCT
Found at i:5798676 original size:133 final size:133
Alignment explanation
Indices: 5798035--5798649 Score: 1014
Period size: 133 Copynumber: 4.6 Consensus size: 133
5798025 ATCTGTTTTA
** * *
5798035 CTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAA
1 CTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAA
* ** * * *
5798100 GGCTGATGATTGGAATCTGCTCCATTCCCGATACATGGAGATAAGATTCATCAAAATTTGATCTG
64 GGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTG
**
5798165 CTTTG
129 CTCCG
*
5798170 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
5798235 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
5798300 CCG
131 CCG
* * *
5798303 GTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGA
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
5798368 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
5798433 CCG
131 CCG
* *
5798436 CTTCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
5798501 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
5798566 CCG
131 CCG
* * *
5798569 CTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCTTGCTCCACTCCTGCTCAGTAAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
*
5798634 TTGGTGGCTGAAATCT
66 CTGGTGGCTGAAATCT
5798650 ACTCTACTCC
Statistics
Matches: 452, Mismatches: 28, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
133 426 0.94
135 26 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (133 bp):
CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
CCG
Found at i:5798756 original size:443 final size:443
Alignment explanation
Indices: 5798205--5799034 Score: 1464
Period size: 443 Copynumber: 1.9 Consensus size: 443
5798195 AGTATTTAGC
* *
5798205 CTACTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
1 CTACTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATG
*
5798270 GAGATAAGATTCACCAAAATTTGATCTGCTCCGGTCCTGCTCAGCGAAGATAAGATCTAGTATTT
66 GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTT
* *
5798335 AGCCTGCTCCACTCTTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCGATAC
131 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCAATAC
*
5798400 ATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTTCTGCTCAGC-GAAGATAAGATCTAGT
196 ATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCA-CAGAAGATAAGATCTAGT
*
5798464 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCG
260 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTGAAATCTGCTCCATTGCCG
*
5798529 ATACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCTTGCTCAGCGAAGATAAGATCT
325 ATACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCT
5798594 AGTATTTAGCTTGCTCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAAT
390 AGTATTTAGCTTGCTCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAAT
*
5798648 CTACTCTACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATG
1 CTACTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATG
* *
5798713 GAGATAAGATTCACCAAAATTTGATTTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTT
66 GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTT
* *
5798778 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCAATAC
131 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCAATAC
* *
5798843 ATGGAGATAAGATTCACTAAAATTTGATCTGTTCCGCTCCTGCTCACAGAAGATAAGATCTAGTA
196 ATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCACAGAAGATAAGATCTAGTA
*
5798908 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGA
261 TTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGA
* ** *
5798973 TATATGGAGATAAGATTCGTCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGAAGATAAGAT
326 TACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGAT
5799035 TTGTCGAAAT
Statistics
Matches: 366, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
442 1 0.00
443 365 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (443 bp):
CTACTCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATG
GAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTT
AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGGCTGAAATCTGCTCCATTGCCAATAC
ATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCACAGAAGATAAGATCTAGTA
TTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGA
TACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTA
GTATTTAGCTTGCTCCACTCCTGCTCAGTAAAGATAAGGTTGGTGGCTGAAAT
Found at i:5798802 original size:133 final size:132
Alignment explanation
Indices: 5798655--5799034 Score: 618
Period size: 133 Copynumber: 2.9 Consensus size: 132
5798645 AATCTACTCT
*
5798655 ACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGGCT-GTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
* *
5798720 GATTCACCAAAATTTGATTTGCTCCGCTCTTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
65 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGC
5798785 TCC
130 TCC
* *
5798788 ACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCAATACATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGGCT-GTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
* *
5798853 GATTCACTAAAATTTGATCTGTTCCGCTCCTGCTCA-CAGAAGATAAGATCTAGTATTTAGCCTG
65 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGC-GAAGATAAGATCTAGTATTTAGCCTG
5798917 CTCC
129 CTCC
*
5798921 ACTCCTGCTCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTGCCGATATATGGAGATAA
1 ACTCCTGCTCAGTGAAGATAAGGCTG-TGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAA
** *
5798986 GATTCGTCAAAATTTGATCTGCTCTGCTCCTGCTCAGCGAAGATAAGAT
65 GATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGAT
5799035 TTGTCGAAAT
Statistics
Matches: 228, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
132 2 0.01
133 225 0.99
134 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (132 bp):
ACTCCTGCTCAGTGAAGATAAGGCTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAG
ATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCT
CC
Found at i:5800412 original size:16 final size:16
Alignment explanation
Indices: 5800382--5800442 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
5800372 CTCTCATTTG
5800382 CTTTTCTTTTC-TTTCT
1 CTTTT-TTTTCTTTTCT
5800398 CTTTTTTTAT-TTTTCT
1 CTTTTTTT-TCTTTTCT
5800414 CTTCTTTTTTCTTTTC-
1 CTT-TTTTTTCTTTTCT
*
5800430 CTTTTTTCTCTTT
1 CTTTTTTTTCTTT
5800443 CCTTTTTCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 12 0.30
16 18 0.45
17 10 0.25
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTTTTTCTTTTCT
Found at i:5800423 original size:13 final size:12
Alignment explanation
Indices: 5800402--5800461 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
5800392 CTTTCTCTTT
5800402 TTTTATTTTTCTC
1 TTTT-TTTTTCTC
*
5800415 TTCTTTTTTCT-
1 TTTTTTTTTCTC
5800426 TTTCCTTTTTTCTC
1 TTT--TTTTTTCTC
*
5800440 TTTCCTTTTTCTC
1 TTT-TTTTTTCTC
5800453 TTTTTTTTT
1 TTTTTTTTT
5800462 GAAAGTGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 2 0.05
12 12 0.30
13 23 0.57
14 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:5800428 original size:25 final size:24
Alignment explanation
Indices: 5800383--5800461 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
5800373 TCTCATTTGC
* *
5800383 TTTTCTTTTCTTTCTCTT-TTTTTAT
1 TTTTCTCTTCTTT-T-TTCTTTTTTT
*
5800408 TTTTCTCTTCTTTTTTCTTTTCCTT
1 TTTTCTCTTCTTTTTTCTTTT-TTT
* *
5800433 TTTTCTCTTTCCTTTTTCTCTTTTT
1 TTTTCTC-TTCTTTTTTCTTTTTTT
5800458 TTTT
1 TTTT
5800462 GAAAGTGAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.04
24 5 0.11
25 26 0.58
26 12 0.27
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTCTCTTCTTTTTTCTTTTTTT
Found at i:5800460 original size:26 final size:26
Alignment explanation
Indices: 5800393--5800461 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
5800383 TTTTCTTTTC
*
5800393 TTTCTCTTTTTTTATTTTTCTCTTCTT
1 TTTCTCTTTTTTT-TTTCTCTCTTCTT
5800420 TTT-TCTTTTCCTTTTTTCTCT-TTCCTT
1 TTTCTCTTTT--TTTTTTCTCTCTT-CTT
5800447 TTTCTCTTTTTTTTT
1 TTTCTCTTTTTTTTT
5800462 GAAAGTGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
26 13 0.35
27 15 0.41
28 9 0.24
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTCTCTTTTTTTTTTCTCTCTTCTT
Found at i:5803219 original size:19 final size:20
Alignment explanation
Indices: 5803195--5803241 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
5803185 TTTTTTGAAT
* *
5803195 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGGGATG
5803214 TAATGCAAATGCATGGGATG
1 TAATGCAAATGCATGGGATG
5803234 -AATGCAAA
1 TAATGCAAA
5803242 AGAAGACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGGGATG
Found at i:5808803 original size:23 final size:23
Alignment explanation
Indices: 5808758--5808804 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
5808748 CCATCCAAAC
*
5808758 TAAATCATAATATATATTTTTTA
1 TAAATCATAATAAATATTTTTTA
5808781 TAAATCATAATAAAT-TTTATTTA
1 TAAATCATAATAAATATTT-TTTA
5808804 T
1 T
5808805 TTATTTACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATCATAATAAATATTTTTTA
Found at i:5813134 original size:22 final size:22
Alignment explanation
Indices: 5813109--5813152 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5813099 TAGTCTTATA
5813109 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
5813131 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
5813153 TATTCAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:5816385 original size:7 final size:7
Alignment explanation
Indices: 5816373--5816406 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
5816363 AATGAGATAT
5816373 TTTATTA
1 TTTATTA
5816380 TTTATTA
1 TTTATTA
5816387 TTTATTA
1 TTTATTA
5816394 -TTATTAA
1 TTTATT-A
5816401 TTTATT
1 TTTATT
5816407 TAATATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 5 0.20
7 15 0.60
8 5 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:5818142 original size:40 final size:40
Alignment explanation
Indices: 5818050--5818187 Score: 150
Period size: 40 Copynumber: 3.5 Consensus size: 40
5818040 CTCGAGAATA
* * ** *
5818050 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* * *
5818090 CAGAGTGGATAGGATTTGTTCCTAATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* * * *
5818130 TAAAGTGAATAGGATTTATTCTTAATTCACTACGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
* *
5818170 TAAGGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
5818188 ACCTAAAAAA
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAACT
Found at i:5818246 original size:79 final size:78
Alignment explanation
Indices: 5818154--5818390 Score: 303
Period size: 79 Copynumber: 3.0 Consensus size: 78
5818144 TTTATTCTTA
* * * *
5818154 ATTCACTACGGTAACTTAAGGCGGATAGGATTTGACCTAAAAAAGGTAATCCTGATTCGCTACGG
1 ATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCT-AAAAAGGTAATCCTGATTCGCTACAG
5818219 TTACATGATATATG
65 TTACATGATATATG
* * *
5818233 ATTCATTATGGTAACCTATGGTGGATAGGATTTGACCTGAAAAGGGTAATCCTGATTCGCTACAG
1 ATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCT-AAAAAGGTAATCCTGATTCGCTACAG
* * *
5818298 TTATACGATACATG
65 TTACATGATATATG
* * * * * *
5818312 ATTCCTTATGATAACTTAAGGTGGGTAGGATTTCACCTAAAAAGGTAATCTTGATTCACTACAGT
1 ATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTAAAAAGGTAATCCTGATTCGCTACAGT
*
5818377 TACATGAGATATG
66 TACATGATATATG
5818390 A
1 A
5818391 CTCGAGAGAG
Statistics
Matches: 134, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
78 34 0.25
79 100 0.75
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (78 bp):
ATTCATTATGGTAACTTAAGGTGGATAGGATTTGACCTAAAAAGGTAATCCTGATTCGCTACAGT
TACATGATATATG
Found at i:5821288 original size:19 final size:19
Alignment explanation
Indices: 5821264--5821302 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5821254 TCATTTTTCA
*
5821264 TTTTTATTTCTTAGTTTAT
1 TTTTTAATTCTTAGTTTAT
*
5821283 TTTTTAATTCTTATTTTAT
1 TTTTTAATTCTTAGTTTAT
5821302 T
1 T
5821303 ATCTGTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTTAATTCTTAGTTTAT
Found at i:5823258 original size:47 final size:47
Alignment explanation
Indices: 5823125--5823265 Score: 169
Period size: 51 Copynumber: 2.9 Consensus size: 47
5823115 TTTTAGAAAA
*
5823125 ATAAAACTCACAGAAAATAATCAAAAAATAAAGTAACGAATAAGTTAAT
1 ATAAAACTCACA-AAAA-AATCAAAAAATAAAGTAATGAATAAGTTAAT
*
5823174 ATAAATTTATTC-CAAAAAAAATCAAAAAAATAAAGTAATGAATGAA-TTAAT
1 ATAAA---ACTCAC-AAAAAAATC-AAAAAATAAAGTAATGAAT-AAGTTAAT
*
5823225 ATAAAACTCACAAAAAATTCAAAAAATAAAGTAATGAATAA
1 ATAAAACTCACAAAAAAATCAAAAAATAAAGTAATGAATAA
5823266 CATGTTAAGC
Statistics
Matches: 81, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
46 2 0.02
47 19 0.23
48 11 0.14
49 6 0.07
50 4 0.05
51 33 0.41
52 6 0.07
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.23
Consensus pattern (47 bp):
ATAAAACTCACAAAAAAATCAAAAAATAAAGTAATGAATAAGTTAAT
Found at i:5827691 original size:16 final size:16
Alignment explanation
Indices: 5827624--5827683 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 16
5827614 GAAATAGAAT
5827624 AAAGAAAGAAAAAGGGG
1 AAAGAAAGAAAAA-GGG
*
5827641 AATA-AACAGAACAAGGAAAG
1 AA-AGAA-AGAAAAAGG---G
5827661 AAAGAAAGAAAAAGGG
1 AAAGAAAGAAAAAGGG
5827677 AAAGAAA
1 AAAGAAA
5827684 AAGAAAGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
16 8 0.23
17 6 0.17
18 7 0.20
19 9 0.26
20 5 0.14
ACGTcount: A:0.68, C:0.03, G:0.27, T:0.02
Consensus pattern (16 bp):
AAAGAAAGAAAAAGGG
Found at i:5829762 original size:27 final size:26
Alignment explanation
Indices: 5829724--5829811 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
5829714 TAAGTTGTAG
5829724 AATTACCGAAATACCTCTGTAGGGTAA
1 AATTACCGAAATACC-CTGTAGGGTAA
* *
5829751 AATTACCGAAATACCCCTGTATGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAA
* *
5829778 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCC-TGTAGGGTAA
5829805 AATTACC
1 AATTACC
5829812 ATTTTGCCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.06
27 48 0.91
28 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (26 bp):
AATTACCGAAATACCCTGTAGGGTAA
Found at i:5829883 original size:16 final size:16
Alignment explanation
Indices: 5829859--5829896 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
5829849 TCGTGCGTAA
*
5829859 ATGAATAACTTGTGTG
1 ATGATTAACTTGTGTG
5829875 ATGATTAACTTGTGTG
1 ATGATTAACTTGTGTG
5829891 ATGATT
1 ATGATT
5829897 GGGTTAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (16 bp):
ATGATTAACTTGTGTG
Found at i:5834980 original size:47 final size:47
Alignment explanation
Indices: 5834911--5835009 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 47
5834901 TATTATTTCA
*
5834911 CATATCAAATTATTTTACACTTTATTTTATTAGTTTACCACAAATTT
1 CATATCAAATTATTTTACACTTTATTTTATTAGTTTACCAAAAATTT
*
5834958 CATATCAAATTATTTT-CTACTTTATTTTATTAGTTTACTAAAAATTT
1 CATATCAAATTATTTTAC-ACTTTATTTTATTAGTTTACCAAAAATTT
5835005 CATAT
1 CATAT
5835010 AATTTATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.02
47 48 0.98
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (47 bp):
CATATCAAATTATTTTACACTTTATTTTATTAGTTTACCAAAAATTT
Found at i:5835456 original size:5 final size:5
Alignment explanation
Indices: 5835436--5835479 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
5835426 TAGTAATATA
*
5835436 TTATT TT-TT TGT-TT TTATT TTACT TTATT TTATT TTATT TTATT
1 TTATT TTATT T-TATT TTATT TTATT TTATT TTATT TTATT TTATT
5835480 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:5836063 original size:14 final size:13
Alignment explanation
Indices: 5836046--5836148 Score: 50
Period size: 15 Copynumber: 7.2 Consensus size: 13
5836036 TATTCTAATA
5836046 CTATTATTATTTAT
1 CTATTATTATTT-T
5836060 CTATT-TATATTTCT
1 CTATTAT-TATTT-T
5836074 ACTATTATTATATTT
1 -CTATTATTAT-TTT
5836089 CTATGTATTATATTT
1 CTAT-TATTAT-TTT
*
5836104 TTATT-TCTATTTATAT
1 CTATTAT-TA-TT-T-T
*
5836120 ACTAATATTATTTT
1 -CTATTATTATTTT
5836134 C-ATTATTATGTTT
1 CTATTATTAT-TTT
5836147 CT
1 CT
5836149 TATATATGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
12 7 0.10
13 7 0.10
14 20 0.28
15 25 0.35
16 6 0.08
17 5 0.07
18 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (13 bp):
CTATTATTATTTT
Found at i:5836067 original size:29 final size:28
Alignment explanation
Indices: 5836035--5836097 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
5836025 ATTTATTTTG
5836035 TTATTCTAATACTATTATTAT-TTATCTAT
1 TTATT-TAATACTATTATTATATT-TCTAT
**
5836064 TTATATTTCTACTATTATTATATTTCTAT
1 TTAT-TTAATACTATTATTATATTTCTAT
*
5836093 GTATT
1 TTATT
5836098 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 25 0.86
30 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTTAATACTATTATTATATTTCTAT
Found at i:5836097 original size:15 final size:17
Alignment explanation
Indices: 5836064--5836103 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
5836054 ATTTATCTAT
*
5836064 TTATATTTCTACTATTA
1 TTATATTTCTACTAGTA
5836081 TTATATTTCTA-T-GTA
1 TTATATTTCTACTAGTA
5836096 TTATATTT
1 TTATATTT
5836104 TTATTTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
17 11 0.50
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATTTCTACTAGTA
Found at i:5836102 original size:23 final size:22
Alignment explanation
Indices: 5835995--5836142 Score: 67
Period size: 23 Copynumber: 6.7 Consensus size: 22
5835985 TTTAATATAT
* **
5835995 TATTGCTATTATTATTATGCTTA
1 TATTTCTATTATTA-TATTATTA
* * * *
5836018 TATTTATATTTATTTTGTTATTC
1 TATTTCTA-TTATTATATTATTA
* * *
5836041 TAATACTATTATTAT-TTA-TC
1 TATTTCTATTATTATATTATTA
*
5836061 TATTTATATT-TCTACTATTATTA
1 TATTTCTATTAT-TA-TATTATTA
5836084 TATTTCTATGTATTATATT-TT-
1 TATTTCTAT-TATTATATTATTA
*
5836105 TATTTCTATTTATATACTAATATTA
1 TATTTCTA-TTAT-TA-TATTATTA
5836130 T-TTTC-ATTATTAT
1 TATTTCTATTATTAT
5836143 GTTTCTTATA
Statistics
Matches: 96, Mismatches: 17, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.01
20 12 0.12
21 17 0.18
22 18 0.19
23 32 0.33
24 14 0.15
25 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.61
Consensus pattern (22 bp):
TATTTCTATTATTATATTATTA
Found at i:5843210 original size:44 final size:46
Alignment explanation
Indices: 5843162--5843258 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 46
5843152 AGGCACCTGC
** * *
5843162 CTTATCTCT-CTGAGGTAGCAA-GAGAGCAGGTTGAAGA-TACAAGT
1 CTTATCTCTCCTGAGGTAGCAAGGA-AGCAGACTGAAAATTACAAAT
*
5843206 CTTATAT-TCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAAT
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAAT
5843251 CTTATCTC
1 CTTATCTC
5843259 CATGTATCGA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.02
44 28 0.65
45 14 0.33
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (46 bp):
CTTATCTCTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAAT
Found at i:5843362 original size:178 final size:177
Alignment explanation
Indices: 5843052--5844327 Score: 1633
Period size: 178 Copynumber: 7.2 Consensus size: 177
5843042 GCAGTAGGGT
* * * * ** *
5843052 AGCAGGCTAAAAATTATAGATTTTATCTTTATGTATCGGCTATAGAGTAGATCAGAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATCA-AAATGGCGAG
** * * * *
5843117 TCTTATCTCCATGTAT-CGACTATCTAGTAGATTTTAGGCACCTGCCTTATCTCTCTGAGGTAGC
65 TCTTATCTCCATGTATCCG-CTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGC
*
5843181 AAGAGAGCAGGTTGAAGATACAAGTCTTATATTCCTGAGGTAGCAAGGA
129 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* * * *
5843230 AGCAGACTGAAAATTACAAATCTTATCTCCATGTATCGACTATGGAGTAGATCGAAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATC-AAAATGGCGAG
* * * * * *
5843295 TCTTATCTCCATGTATCCGCTATAGAGTACATTTTAGCCACCAACCTTATCTCTCTGAGGAAGCA
65 TCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * * *
5843360 AGAGAACAGGTTGAA-TTCACAAGTCTTATCTTCTTGAGGTGGCAAGGA
130 AGAGAGCAGGTTGAAGAT-ACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* ** *
5843408 AGCAGACTGAAAATTACAGACCTTATCTCTGTGTATCGGCTATAGAGCAGATCAGAAATGACGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATCA-AAATGGCGAG
* * * * * *
5843473 TTTTATCTCCATGTATCGGCTATGGAGCATATGTTAGCCACCAGCCTTATCTCTTTGAGGTAGCA
65 TCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* *
5843538 AAAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
130 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* * * * *
5843586 AGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAACATATAAAAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGAT-CAAAATGGCGAG
* * * *
5843651 TCTTGTCTCCATGTAT-CGTCTATGGAGTAGATTTTAGCCATCGGCCTTATCTCTCTAAGGTAGC
65 TCTTATCTCCATGTATCCG-CTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGC
* *
5843715 AAGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGA
129 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* * * *
5843764 AGCAGATTGAAAATTACAGATCTTGTCTCCATGTATCGGCTATGGAGCATATCAGAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATCA-AAATGGCGAG
* * *
5843829 TCTTGTCTCCAGGTAT-CGACTATGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTAAGGTAGC
65 TCTTATCTCCATGTATCCG-CTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGC
*
5843893 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAAGA
129 AAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
** * *
5843942 AGCAGACTGAAAATTACAGATCTTATCTCCACATATCGGCTATAGAGCAAATAAAAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGAT-CAAAATGGCGAG
* * * * * * *
5844007 TCTTGTCTCTATGTATCGGCCATGGAGCAGATTTTAGCCATCGGCCTTATCTCTCTAAGGTAGTA
65 TCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * *
5844072 AGAGAGCAGGTTGATGATACAAGTCTTATCTTCTTGAGGTAGCAAAGA
130 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
* ** * *
5844120 AGCAAACTGAAAATTACAGATCTTATCTCCACATATCGACTATAGAGCAGATAAAAAATGGCGAG
1 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGAT-CAAAATGGCGAG
* * * * *
5844185 TCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAACCACCGGCTTTATCTCTCTAAGGTAGCA
65 TCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * *
5844250 AGAGAGCAAGTCGAAGATACAAGTCTTATCTTCCTGAGGTAACAAGGA
130 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
**
5844298 AGCAGACTGAAAATTTTAGATCTTATCTCC
1 AGCAGACTGAAAATTACAGATCTTATCTCC
5844328 CTGAGCAGTA
Statistics
Matches: 975, Mismatches: 113, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
177 4 0.00
178 964 0.99
179 7 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (177 bp):
AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATCAAAATGGCGAGT
CTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAA
GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGA
Found at i:5844367 original size:44 final size:44
Alignment explanation
Indices: 5844317--5844733 Score: 213
Period size: 44 Copynumber: 9.5 Consensus size: 44
5844307 AAAATTTTAG
*
5844317 ATCTTATCTCCCTGAGCAGTAGGGTAACAGGCTGAAGATTACAT
1 ATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* * * *
5844361 ATCTTATCTCCCTAAGCAGTAGTGG-AGC-GGATTGAAAATGGT-GA-
1 ATCTTATCTCCCTAAGCAGTAG-GGTAACAGG-CTGAAGAT--TACAT
** * * *
5844405 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAG
1 ATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* * * **
5844449 ATCTTATCTCCCTAAGCAGTAGTGG-AGC-GGATCAA-A-GGCAGT
1 ATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCTGAAGATTACA-T
* *
5844491 GAGCCTTAAC-CCCTTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
1 -A-TCTTATCTCCC-TAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* * * * *
5844537 ATCTTATCTTCCTAAGCAGTA-GTTGAGC-GGATCGAAGA-CA-ATT
1 ATCTTATCTCCCTAAGCAGTAGGGT-AACAGGCT-GAAGATTACA-T
* * * * *
5844580 AGCCTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGATTACAG
1 A-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
* * *
5844625 ATCTTATCTCCCTAAGCAGTAGTGG-AGC-GGATCGAAG---GCAGT
1 ATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCT-GAAGATTACA-T
* * * * * * *
5844667 GAGCCTTAACCCCCTAAGCAGTAGGTTAGCAGGCTGGAGATTACAG
1 -A-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
5844713 ATCTTATCTCCCTAAGCAGTA
1 ATCTTATCTCCCTAAGCAGTA
5844734 ATGGAGCAGA
Statistics
Matches: 271, Mismatches: 66, Indels: 72
0.66 0.16 0.18
Matches are distributed among these distances:
41 4 0.01
42 3 0.01
43 29 0.11
44 199 0.73
45 28 0.10
46 4 0.01
47 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAT
Found at i:5844891 original size:88 final size:88
Alignment explanation
Indices: 5844326--5844887 Score: 813
Period size: 88 Copynumber: 6.4 Consensus size: 88
5844316 GATCTTATCT
* *
5844326 CCCTGAGCAGTAGGGTAACAGGCTGAAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
* * **
5844391 ATTGAAAATGGTGAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
5844414 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
* *
5844479 ATCAAAGGCAGTGAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
* * * *
5844502 CCTTAAGCAGTAGGGTAACAGGCTGAAGATTACATATCTTATCTTCCTAAGCAGTAGTTGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
* *
5844567 ATCGAAGACAATTAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
*
5844590 CCCTAAACAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
*
5844655 ATCGAAGGCAGTGAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
* * * * *
5844678 CCCTAAGCAGTAGGTTAGCAGGCTGGAGATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
5844743 ATCGAAGAC-GATGAGCCTTAACC
66 ATCGAAGACAG-TGAGCCTTAACC
* * * * * *
5844766 CCCTAAGTAGTAGGGAAATAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAATAGTGGAGCGG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
* * *
5844831 ATTGAAGACGGTGAGCCTTATCC
66 ATCGAAGACAGTGAGCCTTAACC
*
5844854 CCCTAAGCAGTAAGG-AAGCAGGCTGAAGATTACA
1 CCCTAAGCAGTAGGGTAA-CAGGCTGAAGATTACA
5844888 AATCATAAGC
Statistics
Matches: 423, Mismatches: 48, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
87 3 0.01
88 419 0.99
89 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (88 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGG
ATCGAAGACAGTGAGCCTTAACC
Found at i:5847068 original size:28 final size:28
Alignment explanation
Indices: 5846998--5847068 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
5846988 AGTAAAATAA
* *
5846998 ATTTAATAATGATATATACACAATATGGT
1 ATTTAAAAAT-ATATATACACAATATAGT
* *
5847027 A-TTAAGAATATATATATACAATATAGT
1 ATTTAAAAATATATATACACAATATAGT
5847054 ATTTAAAAATATATA
1 ATTTAAAAATATATA
5847069 CATAAGATGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 17 0.46
28 19 0.51
29 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (28 bp):
ATTTAAAAATATATATACACAATATAGT
Found at i:5847084 original size:24 final size:23
Alignment explanation
Indices: 5847057--5847117 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
5847047 ATATAGTATT
5847057 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
* *
5847081 TAAAAATTTGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
5847105 TAAGAAATATATA
1 TAA-AAATATATA
5847118 TAATTAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
24 19 0.63
25 9 0.30
26 2 0.07
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.31
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:5847244 original size:16 final size:17
Alignment explanation
Indices: 5847213--5847247 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5847203 AACTACTTTG
5847213 TACACTACACAAATATA
1 TACACTACACAAATATA
*
5847230 TACAC-ACACATATATA
1 TACACTACACAAATATA
5847246 TA
1 TA
5847248 TAAATAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (17 bp):
TACACTACACAAATATA
Found at i:5847271 original size:21 final size:22
Alignment explanation
Indices: 5847243--5847360 Score: 111
Period size: 23 Copynumber: 5.5 Consensus size: 22
5847233 ACACACATAT
* *
5847243 ATATATAAATAATAGTATTAGAA
1 ATATAT-AATAATAATATTAAAA
*
5847266 ATATA-AAT-ATAATATTAGAA
1 ATATATAATAATAATATTAAAA
* * *
5847286 ATATACATATAATAGTATAAAAA
1 ATATATA-ATAATAATATTAAAA
*
5847309 ATATATAACTAATAATATTAAAT
1 ATATATAA-TAATAATATTAAAA
5847332 ATATATAATAAT-ATA-TAAAA
1 ATATATAATAATAATATTAAAA
5847352 A-ATATAATA
1 ATATATAATA
5847361 TTGAAAACAT
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
19 8 0.10
20 21 0.26
21 7 0.09
22 7 0.09
23 39 0.48
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (22 bp):
ATATATAATAATAATATTAAAA
Found at i:5847283 original size:20 final size:20
Alignment explanation
Indices: 5847245--5847299 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
5847235 ACACATATAT
*
5847245 ATATAAATAATAGTATTAGAA
1 ATATAAAT-ATAATATTAGAA
5847266 ATATAAATATAATATTAGAA
1 ATATAAATATAATATTAGAA
*
5847286 ATATACATATAATA
1 ATATAAATATAATA
5847300 GTATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 24 0.75
21 8 0.25
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
ATATAAATATAATATTAGAA
Found at i:5847311 original size:43 final size:44
Alignment explanation
Indices: 5847241--5847358 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 44
5847231 ACACACACAT
* * *
5847241 ATATATATAAATAATAGTATTAGAAATATAAA-T-ATAATATTAGAA
1 ATATACAT-AATAATAGTATAAAAAATATAAACTAATAATATT--AA
5847286 ATATACAT-ATAATAGTATAAAAAATATATAACTAATAATATTAA
1 ATATACATAATAATAGTATAAAAAATATA-AACTAATAATATTAA
*
5847330 ATATATATAATAATA-TATAAAAAATATAA
1 ATATACATAATAATAGTATAAAAAATATAA
5847359 TATTGAAAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 19 0.29
44 24 0.37
45 14 0.22
46 8 0.12
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (44 bp):
ATATACATAATAATAGTATAAAAAATATAAACTAATAATATTAA
Found at i:5847582 original size:21 final size:20
Alignment explanation
Indices: 5847562--5847601 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
5847552 ATGTAAATAT
5847562 ATATACATACA-T-ATA-TA
1 ATATACATACACTAATATTA
5847579 ATATACATACACTAATATTA
1 ATATACATACACTAATATTA
5847599 ATA
1 ATA
5847602 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.55
18 1 0.05
19 3 0.15
20 5 0.25
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATACATACACTAATATTA
Found at i:5847605 original size:3 final size:3
Alignment explanation
Indices: 5847591--5847754 Score: 92
Period size: 3 Copynumber: 54.7 Consensus size: 3
5847581 ATACATACAC
* *
5847591 TAA TAT TAA TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA
* * * * *
5847637 TAA TAA TACA TTA GAA -AA TAA TTAA T-A TAT TAA TAA AAA TAA TAG
1 TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * *
5847682 TAA TGAA -AA TAA TAC TAA CAG TAA TAA TAA -AGA TAA TAA TAGA -AA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA
* *
5847727 TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5847755 TGTAAAAAAA
Statistics
Matches: 122, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
2 13 0.11
3 96 0.79
4 12 0.10
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5849813 original size:75 final size:72
Alignment explanation
Indices: 5849619--5850081 Score: 468
Period size: 75 Copynumber: 6.3 Consensus size: 72
5849609 TGAAACTTAA
* * *
5849619 TTTGAAAAGCAGAATTTGAAAATACCTCGACATGTGAT-CTGAGGCTCCACTCACCTCTCGCAAT
1 TTTGAAAA-CAGAAATTGAAAATACCTC-A-ACGTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
5849683 ATGAGTTGATT
62 ATGAGTTGATT
* * * * *
5849694 TTCGAAAACGGAGA-TCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAACAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
5849758 AGTTGATTAT
65 AGTTGA-T-T
* * * * *
5849768 TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
5849833 AGTTGAATTT
65 AGTTG-A-TT
* * * * *
5849843 TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATG
1 TTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
5849908 AGTTGAAT
65 AGTTGATT
* * * **
5849916 TTTG-AAACAGAAA-TAAAAATTATCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAACAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
5849979 AGTTGATTT
65 AGTTGA-TT
* * * * * *
5849988 TTTGACAAACA-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAATTCACCTATAGCAATAT
1 TTTGA-AAACAGA-AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
5850052 GAATTGATT
64 GAGTTGATT
*
5850061 TTTGAAAACATAAATTGAAAA
1 TTTGAAAACAGAAATTGAAAA
5850082 ACAGAAATCG
Statistics
Matches: 336, Mismatches: 38, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
70 5 0.01
71 48 0.14
72 58 0.17
73 21 0.06
74 66 0.20
75 130 0.39
76 8 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:5850053 original size:145 final size:143
Alignment explanation
Indices: 5849660--5850082 Score: 438
Period size: 145 Copynumber: 2.9 Consensus size: 143
5849650 ATGTGATCTG
* * * * *
5849660 AGGCTCCACTCACCTCTCGCAATATGAGTTGA-TTTTCGAAAACGGAGA-TCAAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC-AAAATTGAAAA-TACCTCAG
* * *
5849723 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGATAGAAATTGAA
64 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--ATTTTG-AA-ACAGAAATTAAA
***
5849788 AATACCTCAACGTGTCTTG
125 AATACCTCAACGTGTCCCA
* * * *
5849807 AGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTTTGAAAGATAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAA-ACA-AAATTGAAAATACCTCA
* * * * *
5849872 ACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTGAAACAGAAA-TAAAAAT
63 GCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTGAAACAGAAATTAAAAA-
* *
5849936 TATCTCAGCGTGTCCCA
127 TACCTCAACGTGTCCCA
5849953 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAATAATTGAAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAA-AATTGAAAATACCTCAG
* * * * * * *
5850018 CGTGCCCCGAGGCTCAATTCACCTATAGCAATATGAATTGATTTTTGAAAACATAAATTGAAAAA
64 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTG-AAACAGAAATT-AAAAA
5850083 CAGAAATCGA
Statistics
Matches: 228, Mismatches: 37, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
144 1 0.00
145 69 0.30
146 56 0.25
147 30 0.13
148 12 0.05
149 8 0.04
150 47 0.21
151 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (143 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAATTGAAAATACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAATTTTGAAACAGAAATTAAAAATACC
TCAACGTGTCCCA
Found at i:5850158 original size:231 final size:229
Alignment explanation
Indices: 5849542--5850164 Score: 678
Period size: 231 Copynumber: 2.7 Consensus size: 229
5849532 TATTAAAAAT
* * * * *
5849542 AGAAATTGAAAATAGCTCAGCGTGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGGTT
1 AGAAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATT
* * * *
5849607 TTTGAAACTTAATTTGAAAAGCAGAATTTGAAAATACCTC-GACATGTGATCTGAGGCTCCACTC
64 TTTGAAAC-TAA-TTGAAAAACAGAAATTGAAAATACCTCAG-CATGT--CCTGAGGCTCAACTC
* * * * **
5849671 ACCTCTCGCAATATGAGTTG-ATTTTCGAAAACGGAGATCAAAATTACCTCAGCGTGTCCTGAGG
124 ACCTCTCGCAGTATGAGTTGAATTTT-G-AAACAGAAATAAAAATTACCTCAGCGTGTCCCAAGG
*
5849735 CTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGAT
187 CTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGAC
* * ** * * *
5849778 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA-ATT
1 AGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTT
* * * * * * *
5849842 T-----T--TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTT
66 TGAAACTAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
*
5849900 GCAGTATGAGTTGAATTTTGAAACAGAAATAAAAATTATCTCAGCGTGTCCCAAGGCTCAACTCA
131 GCAGTATGAGTTGAATTTTGAAACAGAAATAAAAATTACCTCAGCGTGTCCCAAGGCTCAACTCA
5849965 CCTCTCGCAATATGAGTTGATT-TTTTGACAA-AC
196 CCTCTCGCAATATGAGTTGATTATTTTGA-AAGAC
* * * * *
5849998 A-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAATTCACCTATAGCAATATGAATTGATTT
1 AGA-AATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTT
* *
5850062 TTGAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAGCATGTCCTGAGGCTCAACTGACC
65 TTG-AAAC-T-AATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
*
5850127 CCTCGCAGTATGAGTTGAATTTTGAAACAGAAATAAAA
127 TCTCGCAGTATGAGTTGAATTTTGAAACAGAAATAAAA
5850165 CATCAGAATA
Statistics
Matches: 321, Mismatches: 51, Indels: 35
0.79 0.13 0.09
Matches are distributed among these distances:
219 1 0.00
220 56 0.17
221 66 0.21
222 30 0.09
223 5 0.02
224 27 0.08
227 1 0.00
228 1 0.00
231 80 0.25
233 3 0.01
234 32 0.10
236 19 0.06
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (229 bp):
AGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTT
TGAAACTAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
GCAGTATGAGTTGAATTTTGAAACAGAAATAAAAATTACCTCAGCGTGTCCCAAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTATTTTGAAAGAC
Found at i:5858101 original size:29 final size:28
Alignment explanation
Indices: 5858059--5858131 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
5858049 TTTCTATTTC
*
5858059 TATTTATTTTTTTATTCTAATACTATTA-T
1 TATTTA-TTATTTATT-TAATACTATTATT
**
5858088 TATTTATCTATTTATATTTCTACTATTATT
1 TATTTAT-TATTTAT-TTAATACTATTATT
5858118 TATTT-TTATTTATT
1 TATTTATTATTTATT
5858132 ATATTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 1 0.03
28 8 0.21
29 22 0.58
30 7 0.18
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTTATTATTTATTTAATACTATTATT
Found at i:5858130 original size:14 final size:15
Alignment explanation
Indices: 5858090--5858152 Score: 58
Period size: 17 Copynumber: 4.0 Consensus size: 15
5858080 ACTATTATTA
*
5858090 TTTATCTATTTATAT
1 TTTATTTATTTATAT
5858105 TTCTACTATTATTTAT-T
1 TT-TA-T-TTATTTATAT
5858122 TTTATTTA-TTATAT
1 TTTATTTATTTATAT
5858136 TTTATTTCTATTTATAT
1 TTTA-TT-TATTTATAT
5858153 ACTAATATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 4 0.10
14 8 0.20
15 5 0.12
16 6 0.15
17 10 0.25
18 7 0.17
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATTTATTTATAT
Found at i:5864637 original size:18 final size:18
Alignment explanation
Indices: 5864616--5864650 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5864606 TTTTGCAAAT
*
5864616 GATTTAATTTATTTTTAC
1 GATTTAATTTATCTTTAC
5864634 GATTTAATTTATCTTTA
1 GATTTAATTTATCTTTA
5864651 AAATCCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (18 bp):
GATTTAATTTATCTTTAC
Found at i:5866981 original size:8 final size:8
Alignment explanation
Indices: 5866968--5866997 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
5866958 GGTGGTATCT
5866968 TTATTTTG
1 TTATTTTG
5866976 TTATTTTG
1 TTATTTTG
5866984 TTATTTT-
1 TTATTTTG
5866991 TTATTTT
1 TTATTTT
5866998 AAATATGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (8 bp):
TTATTTTG
Found at i:5866987 original size:16 final size:15
Alignment explanation
Indices: 5866968--5866997 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
5866958 GGTGGTATCT
5866968 TTATTTTGTTATTTTG
1 TTATTTT-TTATTTTG
5866984 TTATTTTTTATTTT
1 TTATTTTTTATTTT
5866998 AAATATGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (15 bp):
TTATTTTTTATTTTG
Found at i:5873559 original size:47 final size:48
Alignment explanation
Indices: 5873461--5873562 Score: 181
Period size: 48 Copynumber: 2.2 Consensus size: 48
5873451 TACCCCCTAA
*
5873461 TTTTAT-CCCAATTTTCAATTCAATCCTTAACCTTTTTAGTTTCATTT
1 TTTTATACCCAATTTGCAATTCAATCCTTAACCTTTTTAGTTTCATTT
5873508 TTTTATACCCAATTTGCAATTCAATCCTTAACCTTTTTAGTTTCA-TT
1 TTTTATACCCAATTTGCAATTCAATCCTTAACCTTTTTAGTTTCATTT
5873555 TTTTATAC
1 TTTTATAC
5873563 TTTTTTTTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
47 16 0.30
48 37 0.70
ACGTcount: A:0.25, C:0.21, G:0.03, T:0.52
Consensus pattern (48 bp):
TTTTATACCCAATTTGCAATTCAATCCTTAACCTTTTTAGTTTCATTT
Found at i:5882540 original size:26 final size:26
Alignment explanation
Indices: 5882504--5882613 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
5882494 CATGAAATTC
*
5882504 TTATCATGAAACATTTACCTAACCCG
1 TTATCATGAAACATTTACCTAACCCA
5882530 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
5882556 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
5882582 TTATCACGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5882608 TTATCA
1 TTATCA
5882614 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5886797 original size:36 final size:35
Alignment explanation
Indices: 5886728--5887246 Score: 415
Period size: 37 Copynumber: 14.2 Consensus size: 35
5886718 AAAAATGGAA
* *
5886728 TACTGATTCTACTG-AAGTGCTCAACAAGTAATATC
1 TACTGATCCTACTGAAAGTGCTCAA-AAGCAATATC
* * **
5886763 TACTGATACTATTGAAAAAGCTCAATAAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAA-AAGCAATATC
* * * **
5886799 TATTGATCCTACTGAACGAGCTCAAACGAGCAATGCC
1 TACTGATCCTACTGAAAGTGCTCAAA--AGCAATATC
* *
5886836 TATTGATTCTACTGAAAGTGCTCAAACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAAA--AGCAATATC
* *
5886873 TACTGATACTACTGAAAGTGCTCAACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAA-AAGCAATATC
* *
5886909 TACTGATCCTATTGAATA-TGCTCAAACGAGCAATGTC
1 TACTGATCCTACTGAA-AGTGCTCAAA--AGCAATATC
* * *
5886946 TACTTATTCTACTGAATGTGCTCAAAAGAACAATATC
1 TACTGATCCTACTGAAAGTGCTCAAAAG--CAATATC
* *
5886983 TACTGATTCTATTGAAAGTGCTCAACGAA-CAATATC
1 TACTGATCCTACTGAAAGTGCTCAA--AAGCAATATC
* *
5887019 TACTGGTCCTACTGAAAGTGCTCAACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAA-AAGCAATATC
*
5887055 TACTGATCCTACT-AAATGTGCTCAAACGAGCAATGTC
1 TACTGATCCTACTGAAA-GTGCTCAAA--AGCAATATC
*
5887092 TACTGATCCTACTG-AAGTG-TACAAAAGAGTAATATC
1 TACTGATCCTACTGAAAGTGCT-C-AAA-AGCAATATC
* *
5887128 TACTAATTCTACT-AGAAGTGCTCAACAAGCAATATC
1 TACTGATCCTACTGA-AAGTGCTCAA-AAGCAATATC
* *
5887164 TACTCG-TCCTACTGAATGTGCTCAAACAAGCAATGTC
1 TACT-GATCCTACTGAAAGTGCTC-AA-AAGCAATATC
* *
5887201 TACTGATTCTACTGAATAGTTGCTCAAACAAGTAATATC
1 TACTGATCCTACTGAA-AG-TGCTC-AA-AAGCAATATC
*
5887240 CACTGAT
1 TACTGAT
5887247 TACACTGAAT
Statistics
Matches: 400, Mismatches: 55, Indels: 54
0.79 0.11 0.11
Matches are distributed among these distances:
35 20 0.05
36 174 0.44
37 179 0.45
38 2 0.00
39 25 0.06
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (35 bp):
TACTGATCCTACTGAAAGTGCTCAAAAGCAATATC
Found at i:5886839 original size:37 final size:37
Alignment explanation
Indices: 5886728--5887285 Score: 534
Period size: 36 Copynumber: 15.2 Consensus size: 37
5886718 AAAAATGGAA
* * *
5886728 TACTGATTCTACTG-AAGTGCTC-AACAAGTAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * **
5886763 TACTGATACTATTGAAAAAGCTCAATA--AGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAA-ACGAGCAATATC
* * * **
5886799 TATTGATCCTACTGAACGAGCTCAAACGAGCAATGCC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* *
5886836 TATTGATTCTACTGAAAGTGCTCAAACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
*
5886873 TACTGATACTACTGAAAGTGCTC-AACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* *
5886909 TACTGATCCTATTGAATA-TGCTCAAACGAGCAATGTC
1 TACTGATCCTACTGAA-AGTGCTCAAACGAGCAATATC
* * * * *
5886946 TACTTATTCTACTGAATGTGCTCAAAAGAACAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * *
5886983 TACTGATTCTATTGAAAGTGCTC-AACGAACAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
*
5887019 TACTGGTCCTACTGAAAGTGCTC-AACGAGCAATATC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
*
5887055 TACTGATCCTACT-AAATGTGCTCAAACGAGCAATGTC
1 TACTGATCCTACTGAAA-GTGCTCAAACGAGCAATATC
* *
5887092 TACTGATCCTACTG-AAGTG-TACAAAAGAGTAATATC
1 TACTGATCCTACTGAAAGTGCT-CAAACGAGCAATATC
* * *
5887128 TACTAATTCTACT-AGAAGTGCTC-AACAAGCAATATC
1 TACTGATCCTACTGA-AAGTGCTCAAACGAGCAATATC
* * *
5887164 TACTCG-TCCTACTGAATGTGCTCAAACAAGCAATGTC
1 TACT-GATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * *
5887201 TACTGATTCTACTGAATAGTTGCTCAAACAAGTAATATC
1 TACTGATCCTACTGAA-AG-TGCTCAAACGAGCAATATC
* * *
5887240 CACTGATTAC-ACTGAATACGTGCTCAAACGAGCATTATC
1 TACTGA-TCCTACTGAA-A-GTGCTCAAACGAGCAATATC
*
5887279 CACTGAT
1 TACTGAT
5887286 TATACTCAAT
Statistics
Matches: 440, Mismatches: 60, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
35 17 0.04
36 182 0.41
37 182 0.41
38 4 0.01
39 52 0.12
40 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (37 bp):
TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
Found at i:5886860 original size:73 final size:73
Alignment explanation
Indices: 5886728--5887291 Score: 526
Period size: 73 Copynumber: 7.7 Consensus size: 73
5886718 AAAAATGGAA
* * * * * **
5886728 TACTGATTCTACTG-AAGTGCTC-AACAAGTAATATCTACTGATACTATTGAAAAAGCTCAATA-
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAA-AC
5886790 AGCAATATC
65 AGCAATATC
* * * ** *
5886799 TATTGATCCTACTGAACGAGCTCAAACGAGCAATGCCTATTGATTCTACTGAAAGTGCTCAAACG
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAAC-
5886864 AGCAATATC
65 AGCAATATC
* * *
5886873 TACTGATACTACTGAAAGTGCTC-AACGAGCAATATCTACTGATCCTATTGAATA-TGCTCAAAC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-AGTGCTCAAAC
*
5886936 GAGCAATGTC
65 -AGCAATATC
* * * * * *
5886946 TACTTATTCTACTGAATGTGCTCAAAAGAACAATATCTACTGATTCTATTGAAAGTGCTC-AACG
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAAC-
*
5887010 AACAATATC
65 AGCAATATC
* *
5887019 TACTGGTCCTACTGAAAGTGCTC-AACGAGCAATATCTACTGATCCTACT-AAATGTGCTCAAAC
1 TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAA-GTGCTCAAAC
*
5887082 GAGCAATGTC
65 -AGCAATATC
* * *
5887092 TACTGATCCTACTG-AAGTG-TACAAAAGAGTAATATCTACTAATTCTACT-AGAAGTGCTC-AA
1 TACTGATCCTACTGAAAGTGCT-CAAACGAGCAATATCTACTGATTCTACTGA-AAGTGCTCAAA
5887153 CAAGCAATATC
64 C-AGCAATATC
* * *
5887164 TACTCG-TCCTACTGAATGTGCTCAAACAAGCAATGTCTACTGATTCTACTGAATAGTTGCTCAA
1 TACT-GATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-AG-TGCTCAA
*
5887228 ACAAGTAATATC
63 AC-AGCAATATC
* * * * *
5887240 CACTGATTAC-ACTGAATACGTGCTCAAACGAGCATTATCCACTGATTATACT
1 TACTGA-TCCTACTGAA-A-GTGCTCAAACGAGCAATATCTACTGATTCTACT
5887292 CAATAAGATT
Statistics
Matches: 407, Mismatches: 63, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
71 16 0.04
72 64 0.16
73 204 0.50
74 66 0.16
75 6 0.01
76 21 0.05
77 2 0.00
78 28 0.07
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (73 bp):
TACTGATCCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACA
GCAATATC
Found at i:5887126 original size:109 final size:110
Alignment explanation
Indices: 5886728--5887285 Score: 535
Period size: 110 Copynumber: 5.1 Consensus size: 110
5886718 AAAAATGGAA
* * * * * * ** **
5886728 TACTGATTCTACTGAA-GTGCTC-AACAAGTAATATCTACTGATACTATTGAAAAAGCTCAATAA
1 TACTGATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAACGA
* * * **
5886791 GCAATATCTATTGATCCTACTGAACGAGCTCAAACGAGCAATGCC
66 GCAATATCTACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * *
5886836 TATTGATTCTACTGAAA-GTGCTCAAACGAGCAATATCTACTGATACTACTGAAAGTGCTCAACG
1 TACTGATCCTACT-AAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAACG
* *
5886900 AGCAATATCTACTGATCCTATTGAATA-TGCTCAAACGAGCAATGTC
65 AGCAATATCTACTGATCCTACTGAA-AGTGCTCAAACGAGCAATATC
* * * * * *
5886946 TACTTATTCTACTGAATGTGCTCAAAAGAACAATATCTACTGATTCTATTGAAAGTGCTCAACGA
1 TACTGATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAACGA
* *
5887011 ACAATATCTACTGGTCCTACTGAAAGTGCTC-AACGAGCAATATC
66 GCAATATCTACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
* * *
5887055 TACTGATCCTACTAAATGTGCTCAAACGAGCAATGTCTACTGATCCTACTG-AAGTG-TACAAAA
1 TACTGATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCT-C-AAC
* * * *
5887118 GAGTAATATCTACTAATTCTACT-AGAAGTGCTC-AACAAGCAATATC
64 GAGCAATATCTACTGATCCTACTGA-AAGTGCTCAAACGAGCAATATC
* * *
5887164 TACTCG-TCCTACTGAATGTGCTCAAACAAGCAATGTCTACTGATTCTACTGAATAGTTGCTCAA
1 TACT-GATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-AG-TGCTC-A
* * * * *
5887228 ACAAGTAATATCCACTGATTAC-ACTGAATACGTGCTCAAACGAGCATTATC
62 ACGAGCAATATCTACTGA-TCCTACTGAA-A-GTGCTCAAACGAGCAATATC
*
5887279 CACTGAT
1 TACTGAT
5887286 TATACTCAAT
Statistics
Matches: 380, Mismatches: 51, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
107 1 0.00
108 19 0.05
109 152 0.40
110 156 0.41
111 2 0.01
112 23 0.06
113 5 0.01
114 7 0.02
115 15 0.04
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (110 bp):
TACTGATCCTACTAAATGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAACGA
GCAATATCTACTGATCCTACTGAAAGTGCTCAAACGAGCAATATC
Found at i:5894863 original size:20 final size:20
Alignment explanation
Indices: 5894838--5894887 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
5894828 AACACTCAAG
5894838 AAATTTTTCTCAAAATTTCA
1 AAATTTTTCTCAAAATTTCA
5894858 AAATTTTTCTCAAAATTTCA
1 AAATTTTTCTCAAAATTTCA
5894878 AAATTTTTCT
1 AAATTTTTCT
5894888 TAAGAGCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATTTTTCTCAAAATTTCA
Found at i:5897686 original size:31 final size:31
Alignment explanation
Indices: 5897632--5897706 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
5897622 ATGTTGATGA
*
5897632 TATTTTAA-ATTAATTAATTAGATAAATATTAT
1 TATTTTAATATT--TTAATGAGATAAATATTAT
**
5897664 T-TTATTAATATTTTAATGAGATATTTATTAT
1 TATT-TTAATATTTTAATGAGATAAATATTAT
5897695 TATTTTAATATT
1 TATTTTAATATT
5897707 ATTTATTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 27 0.73
32 7 0.19
33 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (31 bp):
TATTTTAATATTTTAATGAGATAAATATTAT
Found at i:5899433 original size:33 final size:32
Alignment explanation
Indices: 5899396--5899499 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 32
5899386 TACCTAAAAG
5899396 GTACAACTAGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTAGAAAAGGAAATGTACACT-TGTGT
* *
5899429 GTACAACTTA-AAAAGGAAAAGTACACTTTGTAT
1 GTACAAC-TAGAAAAGGAAATGTACAC-TTGTGT
*
5899462 GTAC-ACTTGAAAAGGAAATGTATGC-CTTGTGT
1 GTACAACTAGAAAAGGAAATGTA--CACTTGTGT
5899494 GTACAA
1 GTACAA
5899500 TGTGAAAAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
31 1 0.02
32 23 0.38
33 32 0.53
34 4 0.07
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (32 bp):
GTACAACTAGAAAAGGAAATGTACACTTGTGT
Found at i:5899538 original size:31 final size:31
Alignment explanation
Indices: 5899501--5899640 Score: 192
Period size: 31 Copynumber: 4.5 Consensus size: 31
5899491 TGTGTACAAT
*
5899501 GTGAAAAGTGATAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATTA
* *
5899532 GTGAAAAGTGGTAGCTTCAGCTACCTGATTA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATTA
* * *
5899563 GTGAAAAATGATAGCTTCGGCTACTTGATGA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATTA
*
5899594 GTGAAAAAT-AGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGA-TAGCTTCGGCTACCTGATTA
*
5899625 GTGAAAAGTGGTAGCT
1 GTGAAAAGTGATAGCT
5899641 CCAGGTAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
30 1 0.01
31 94 0.99
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGATAGCTTCGGCTACCTGATTA
Found at i:5899576 original size:62 final size:62
Alignment explanation
Indices: 5899501--5899640 Score: 217
Period size: 62 Copynumber: 2.3 Consensus size: 62
5899491 TGTGTACAAT
* *
5899501 GTGAAAAGTGATAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTTCAGCTACCTGATTA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATCAGTGAAAAATAGTAGCTTCAGCTACCTGATTA
* * * *
5899563 GTGAAAAATGATAGCTTCGGCTACTTGATGAGTGAAAAATAGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGATAGCTTCGGCTACCTGATCAGTGAAAAATAGTAGCTTCAGCTACCTGATTA
*
5899625 GTGAAAAGTGGTAGCT
1 GTGAAAAGTGATAGCT
5899641 CCAGGTAGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (62 bp):
GTGAAAAGTGATAGCTTCGGCTACCTGATCAGTGAAAAATAGTAGCTTCAGCTACCTGATTA
Found at i:5899779 original size:27 final size:27
Alignment explanation
Indices: 5899748--5899812 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
5899738 TAGTTGAACT
*
5899748 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
5899775 ATGGCAAAGTGATATAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
5899802 ATAGCAAAGTG
1 ATGGCAAAGTG
5899813 TTCAGTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:5899905 original size:34 final size:34
Alignment explanation
Indices: 5899867--5899940 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
5899857 CATGGCAAAG
*
5899867 TGTGAAACGTAGGTATGGTATTTCTATACCGAGC
1 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
* * *
5899901 TGTGAAACGTAGGTATGGTGTTTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
5899935 TGTGAA
1 TGTGAA
5899941 TCGTGGCACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (34 bp):
TGTGAAACGTAGGTATGGTATTTCCATACCGAGC
Found at i:5906352 original size:14 final size:14
Alignment explanation
Indices: 5906321--5906361 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
5906311 AAAAAGGGAA
*
5906321 AATA-TAATAATAAT
1 AATAGTAATAAT-AC
5906335 AATAGTAATAATAC
1 AATAGTAATAATAC
5906349 AATAGTAATAATA
1 AATAGTAATAATA
5906362 ATAAAGAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (14 bp):
AATAGTAATAATAC
Found at i:5906447 original size:3 final size:3
Alignment explanation
Indices: 5906324--5906428 Score: 56
Period size: 3 Copynumber: 35.0 Consensus size: 3
5906314 AAGGGAAAAT
* * *
5906324 ATA ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA A-A GAGGT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A--TA
* * * * * *
5906372 ATT ATA AT- ATA ATA ATG ATG ATA ATA GTG ATA TTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
5906419 GAAA ATA ATA
1 -ATA ATA ATA
5906429 CATTAAATTA
Statistics
Matches: 77, Mismatches: 17, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
2 5 0.06
3 69 0.90
4 3 0.04
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5906702 original size:3 final size:3
Alignment explanation
Indices: 5906694--5906890 Score: 50
Period size: 3 Copynumber: 65.3 Consensus size: 3
5906684 AGCAAAAAGG
* * * * *
5906694 TAA TAA TAA TAA -AA AAGA TAA TAG TAA TAA AAA TAA AAA TAA TAG
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * *
5906739 TAA TGAA -AA TGG TAA TAA TAA TAAA TAG TAG TAT TAA TACCT TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA--A TAA TAA
** * *
5906787 TAA TAA T-A TGT TAA TAA TAG TAA -AT TAA TGAA TTAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA -TAA TAA TAA TAA
** * * * * *
5906831 CCA TAAA TAAA TAA AAA TAA -AG T-A TAA TTA TAA TAT TAA TAT TAA
1 TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
5906876 CAA -AA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
5906891 GACATATTAA
Statistics
Matches: 139, Mismatches: 39, Indels: 32
0.66 0.19 0.15
Matches are distributed among these distances:
2 13 0.09
3 106 0.76
4 17 0.12
5 3 0.02
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5906710 original size:18 final size:18
Alignment explanation
Indices: 5906687--5906763 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
5906677 ATTAAATAGC
*
5906687 AAAAAGGTAATAATAATA
1 AAAAAGATAATAATAATA
*
5906705 AAAAAGATAATAGTAATA
1 AAAAAGATAATAATAATA
* *
5906723 AAAATA-AAAATAATAGTA
1 AAAA-AGATAATAATAATA
*
5906741 ATGAAAATGGTAATAATAATA
1 A--AAAA-GATAATAATAATA
5906762 AA
1 AA
5906764 TAGTAGTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
18 30 0.65
19 3 0.07
20 3 0.07
21 10 0.22
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.23
Consensus pattern (18 bp):
AAAAAGATAATAATAATA
Found at i:5906758 original size:21 final size:21
Alignment explanation
Indices: 5906697--5906748 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5906687 AAAAAGGTAA
*
5906697 TAATAATAAA-AAAGATAATAG
1 TAATAA-AAATAAAAATAATAG
5906718 TAATAAAAATAAAAATAATAG
1 TAATAAAAATAAAAATAATAG
*
5906739 TAATGAAAAT
1 TAATAAAAAT
5906749 GGTAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (21 bp):
TAATAAAAATAAAAATAATAG
Found at i:5908049 original size:44 final size:46
Alignment explanation
Indices: 5907982--5908077 Score: 160
Period size: 44 Copynumber: 2.1 Consensus size: 46
5907972 TATTATTTCA
*
5907982 CATATCAAATTATTTTACACTTTATTTTATTAGTTTACCACAAATTT
1 CATATCAAATTATTCTA-ACTTTATTTTATTAGTTTACCACAAATTT
5908029 CATATCAAATT-TTCT-ACTTTATTTTATTAGTTTACCACAAATTT
1 CATATCAAATTATTCTAACTTTATTTTATTAGTTTACCACAAATTT
5908073 CATAT
1 CATAT
5908078 AATTTATATT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
44 34 0.71
46 3 0.06
47 11 0.23
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (46 bp):
CATATCAAATTATTCTAACTTTATTTTATTAGTTTACCACAAATTT
Found at i:5908650 original size:16 final size:16
Alignment explanation
Indices: 5908629--5908660 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5908619 GTCACAAGGG
5908629 CTTTTGGGTTATTTCA
1 CTTTTGGGTTATTTCA
5908645 CTTTTGGGTTATTTCA
1 CTTTTGGGTTATTTCA
5908661 AATTTCAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.56
Consensus pattern (16 bp):
CTTTTGGGTTATTTCA
Found at i:5910349 original size:34 final size:34
Alignment explanation
Indices: 5910306--5910376 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
5910296 TTTATGAAAG
5910306 AATTAATATTGGGTTGGATAAAACATAAATTCGT
1 AATTAATATTGGGTTGGATAAAACATAAATTCGT
5910340 AATTAATATTGGGTTGGATAAAACATAAATTCGT
1 AATTAATATTGGGTTGGATAAAACATAAATTCGT
5910374 AAT
1 AAT
5910377 GAAACGAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (34 bp):
AATTAATATTGGGTTGGATAAAACATAAATTCGT
Found at i:5910829 original size:3 final size:3
Alignment explanation
Indices: 5910823--5910874 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
5910813 TACTAATAGC
* * *
5910823 AAT AAT AAT AAT AAT AAT AAAT AAT AGA- AAT AGT AAC ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT
5910869 AAT AAT
1 AAT AAT
5910875 GAAATATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 35 0.88
4 4 0.10
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:5910873 original size:6 final size:6
Alignment explanation
Indices: 5910786--5910874 Score: 56
Period size: 6 Copynumber: 14.7 Consensus size: 6
5910776 ATGGTAACCG
* * * * * *
5910786 TAATAA AAATAA TAGTAA TAA-AA GTAGTAC TAATAG CAATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA -TAATAA TAATAA TAATAA TAATAA
* * *
5910834 TAATAA TAAATAA TAGA-AA TAGTAA CACTAA TAATAA TAAT
1 TAATAA T-AATAA TA-ATAA TAATAA TAATAA TAATAA TAAT
5910875 GAAATATAAA
Statistics
Matches: 62, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
5 2 0.03
6 52 0.84
7 8 0.13
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (6 bp):
TAATAA
Found at i:5910997 original size:23 final size:23
Alignment explanation
Indices: 5910970--5911024 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
5910960 AAAAAAGGGA
*
5910970 ATAATAATAGTA-TAGTAAGAAT-
1 ATAATAAT-GTATTAATAAGAATG
5910992 AGTAATAATGTATTAATAAGAATG
1 A-TAATAATGTATTAATAAGAATG
5911016 ATAATAATG
1 ATAATAATG
5911025 AAACGAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.14
23 24 0.83
24 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (23 bp):
ATAATAATGTATTAATAAGAATG
Found at i:5914099 original size:14 final size:14
Alignment explanation
Indices: 5914080--5914106 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5914070 GCTTGCCTAG
5914080 CATAGTTGGATCAC
1 CATAGTTGGATCAC
5914094 CATAGTTGGATCA
1 CATAGTTGGATCA
5914107 TAGAAGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (14 bp):
CATAGTTGGATCAC
Found at i:5914815 original size:10 final size:11
Alignment explanation
Indices: 5914802--5914850 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
5914792 GAGAAAGAGT
5914802 ATTAAAAA-TA
1 ATTAAAAATTA
5914812 ATTAAAAAATTA
1 ATT-AAAAATTA
5914824 ATTAAAACATTA
1 ATTAAAA-ATTA
*
5914836 A-TAAAAATTT
1 ATTAAAAATTA
5914846 ATTAA
1 ATTAA
5914851 TACATTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 7 0.21
11 17 0.50
12 10 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTAAAAATTA
Found at i:5914825 original size:12 final size:12
Alignment explanation
Indices: 5914805--5914842 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
5914795 AAAGAGTATT
5914805 AAAAA-TAATTA
1 AAAAATTAATTA
5914816 AAAAATTAATTA
1 AAAAATTAATTA
*
5914828 AAACATTAA-TA
1 AAAAATTAATTA
5914839 AAAA
1 AAAA
5914843 TTTATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATTAATTA
Found at i:5926709 original size:59 final size:56
Alignment explanation
Indices: 5926638--5926921 Score: 173
Period size: 59 Copynumber: 4.8 Consensus size: 56
5926628 TAGTATGATG
* *
5926638 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTT
1 ATAAATTATATATTTTAATTAA-ATATATTTAATAATAATTAT-TTAAATTATATTTT
* * * * * *
5926696 ATAGTATTATATATTATGATTTTAGAA-A-ATTCATATAAGAA-TATTTAATATTAAGAATTTT
1 ATA-AATTATATATT-TTA-ATTA-AATATATTTA-ATAATAATTATTTAA-ATT-A-TATTTT
* *
5926757 ATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 A-TAAATTATATATTTTAATT-AAATATATTTAATAATAATTATTT-AAATTATATTTT
* * * * * * * * * * * *
5926816 ATAGTATCATATATTATGATTTGAGTAAATTGAATATTGATTATTAAGAATT-T-TATT
1 ATA-AATTATATATT-TTAATTAAATATATTTAATAATAATTATTTA-AATTATATTTT
5926873 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATT-AAATATATTTAATAATAATTAT-TTAAA
5926922 ATATGATTAA
Statistics
Matches: 170, Mismatches: 37, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
55 4 0.02
56 27 0.16
57 8 0.05
58 11 0.06
59 62 0.36
60 23 0.14
61 30 0.18
62 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (56 bp):
ATAAATTATATATTTTAATTAAATATATTTAATAATAATTATTTAAATTATATTTT
Found at i:5926792 original size:120 final size:115
Alignment explanation
Indices: 5926638--5926921 Score: 385
Period size: 120 Copynumber: 2.4 Consensus size: 115
5926628 TAGTATGATG
* **
5926638 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
5926703 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAG-AAA---AT-T--GAATATTGAATATTAAGAATTTTATT
* *
5926759 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
5926822 TCATATATTATGATTTGAGTAAATTGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTGAATATTGAATATTAAGAATTTTATT
5926873 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
5926922 ATATGATTAA
Statistics
Matches: 147, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
113 22 0.15
114 1 0.01
115 44 0.30
116 4 0.03
119 4 0.03
120 72 0.49
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (115 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTGAATATTGAATATTAAGAATTTTATT
Found at i:5926900 original size:18 final size:19
Alignment explanation
Indices: 5926865--5926901 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5926855 ATTATTAAGA
5926865 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
5926884 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
5926902 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:5927131 original size:44 final size:45
Alignment explanation
Indices: 5927066--5927156 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
5927056 ACCTCTATTC
* * *
5927066 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
5927110 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
5927155 CA
1 CA
5927157 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:5927171 original size:17 final size:16
Alignment explanation
Indices: 5927137--5927189 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
5927127 GATTAGCTAT
5927137 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5927153 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
5927170 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5927186 TACA
1 TACA
5927190 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5930653 original size:31 final size:31
Alignment explanation
Indices: 5930615--5930673 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
5930605 TTAACAACCC
*
5930615 AATGACTTAAAT-AAAAACTTTTGAATAGCTA
1 AATGACTTAAATGAAAAA-TTTTCAATAGCTA
5930646 AATGACTTAAATGAAAAATTTTCAATAG
1 AATGACTTAAATGAAAAATTTTCAATAG
5930674 TTTAATAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (31 bp):
AATGACTTAAATGAAAAATTTTCAATAGCTA
Found at i:5933952 original size:21 final size:20
Alignment explanation
Indices: 5933919--5933957 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5933909 TTGTGCAGCA
5933919 AGTTTTGCTGATGCTGCTTG
1 AGTTTTGCTGATGCTGCTTG
* *
5933939 AGTTTCTGGTGATGGTGCT
1 AGTTT-TGCTGATGCTGCT
5933958 GATACCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.10, C:0.13, G:0.33, T:0.44
Consensus pattern (20 bp):
AGTTTTGCTGATGCTGCTTG
Found at i:5935528 original size:30 final size:30
Alignment explanation
Indices: 5935494--5935552 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
5935484 AGATATAAAA
* *
5935494 TAACACAAATACAATATTAATATACAAATT
1 TAACACAAACAAAATATTAATATACAAATT
* *
5935524 TAACACGAACAAAATGTTAATATACAAAT
1 TAACACAAACAAAATATTAATATACAAAT
5935553 CTAATTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
TAACACAAACAAAATATTAATATACAAATT
Found at i:5936208 original size:29 final size:30
Alignment explanation
Indices: 5936176--5936234 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
5936166 TATAGTTTAA
5936176 TGTGTAATTGTATACATGAA-TTTTGATTT
1 TGTGTAATTGTATACATGAAGTTTTGATTT
*
5936205 TGTGTAATTTTATACATGAAGTTTTGATTT
1 TGTGTAATTGTATACATGAAGTTTTGATTT
5936235 GATCAAATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (30 bp):
TGTGTAATTGTATACATGAAGTTTTGATTT
Found at i:5936983 original size:13 final size:13
Alignment explanation
Indices: 5936961--5936993 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
5936951 TATATTACAT
*
5936961 TATTTGAAATATA
1 TATTTTAAATATA
5936974 TATTTTAAATATA
1 TATTTTAAATATA
5936987 T-TTTTAA
1 TATTTTAA
5936994 GGGAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATTTTAAATATA
Found at i:5942149 original size:106 final size:106
Alignment explanation
Indices: 5941979--5942179 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
5941969 AAGCTTCAAG
*
5941979 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
5942044 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
5942085 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
5942150 TTTTCCAAATGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
5942180 GAAAAATTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:5944996 original size:44 final size:43
Alignment explanation
Indices: 5944892--5945686 Score: 764
Period size: 44 Copynumber: 18.1 Consensus size: 43
5944882 TGCCATCGTC
* * * *
5944892 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * *
5944937 GATCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * *
5944980 GA-CTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGATAA
1 GATC-TGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* * *
5945024 GATCTGCTTTCTGCGATCTACTTGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT-CCACCAATATAGGAAGACAA
* * * *
5945068 GATCTGC-ATCTTCGATCCACTTCCTACCGATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * *
5945111 GATCTGCTA-CATTCGATCTACTT-CACGTCAATACATGAAGATAA
1 GATCTGCTATC-TTCGATCTACTTCCAC--CAATATAGGAAGACAA
* * *
5945155 GATCTGCTTTCTGCGATCTACTTGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT-CCACCAATATAGGAAGACAA
* * *
5945199 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * *
5945242 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* *
5945286 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * *
5945331 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * *
5945374 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* *
5945418 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * *
5945463 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * *
5945506 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* *
5945550 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * *
5945595 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * *
5945638 GATCTGATATCTTCG-TCCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGAT-CTACTTC-CACCAATATAGGAAGACAA
5945682 GATCT
1 GATCT
5945687 ACTTTAATGA
Statistics
Matches: 611, Mismatches: 106, Indels: 67
0.78 0.14 0.09
Matches are distributed among these distances:
42 15 0.02
43 152 0.25
44 358 0.59
45 80 0.13
46 6 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GATCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAA
Found at i:5945378 original size:132 final size:132
Alignment explanation
Indices: 5944892--5945691 Score: 1412
Period size: 132 Copynumber: 6.1 Consensus size: 132
5944882 TGCCATCGTC
* * * *
5944892 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
5944957 TTCCTACCAATATAGGAAGACAGGA-CTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAGGATC-TGATATCTTCGATCTACTTCACGCCAATACATGAAGA
*
5945021 TAA
130 CAA
*
5945024 GATCTGCTTTCTGCGATCTACTT-GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
5945088 TTCCTACCGATATAGGAAGATAGGATCTGCTA-CATTCGATCTACTTCACGTCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAGGATCTGATATC-TTCGATCTACTTCACGCCAATACATGAAGA
*
5945152 TAA
130 CAA
*
5945155 GATCTGCTTTCTGCGATCTACTT-GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
5945219 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
5945284 AA
131 AA
5945286 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
5945351 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
5945416 AA
131 AA
5945418 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
5945483 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
5945548 AA
131 AA
5945550 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
5945615 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCG-TCCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGAT-CTACTTCACGCCAATACATGAAGA
5945679 CAA
130 CAA
*
5945682 GATCTACTTT
1 GATCTGCTTT
5945692 AATGACTTCA
Statistics
Matches: 649, Mismatches: 14, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
130 1 0.00
131 246 0.38
132 402 0.62
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:5957205 original size:106 final size:106
Alignment explanation
Indices: 5957020--5957220 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
5957010 GAAGCTTAAG
*
5957020 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
5957085 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
5957126 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
5957191 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
5957221 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:5972739 original size:106 final size:106
Alignment explanation
Indices: 5972569--5972769 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
5972559 AAGCTTCAAG
*
5972569 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
5972634 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
5972675 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
5972740 TTTTCCAAATGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
5972770 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:5985577 original size:33 final size:33
Alignment explanation
Indices: 5985531--5985604 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
5985521 AAATTTCAAT
*
5985531 AAATAA-AAAATATATAA-AATTATTAAATATT-A
1 AAATAATATAATATA-AATAATTATTAAA-ATTAA
* *
5985563 AAATAATATAATATAAATATTTTTTAAAATTAA
1 AAATAATATAATATAAATAATTATTAAAATTAA
5985596 AAATAATAT
1 AAATAATAT
5985605 GGGAAAACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 11 0.31
33 25 0.69
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (33 bp):
AAATAATATAATATAAATAATTATTAAAATTAA
Found at i:5986209 original size:15 final size:16
Alignment explanation
Indices: 5986191--5986223 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
5986181 AATATATTTT
5986191 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
5986206 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
5986223 T
1 T
5986224 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:5986296 original size:21 final size:22
Alignment explanation
Indices: 5986270--5986320 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
5986260 GTTTTAAGAA
*
5986270 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
5986291 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
5986313 GT-TTTTAA
1 TTGTTTTAA
5986321 AAATATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.71
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:5986345 original size:26 final size:24
Alignment explanation
Indices: 5986298--5986346 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
5986288 TATTTGTTTT
*
5986298 AATATTTATTTTTATGTTTTTAAA
1 AATATTTATTTTTATATTTTTAAA
5986322 AATATTTGATTTATTATATTTTTAA
1 AATATTT-ATTT-TTATATTTTTAA
5986347 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
AATATTTATTTTTATATTTTTAAA
Found at i:5989360 original size:44 final size:44
Alignment explanation
Indices: 5989297--5989384 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
5989287 CCTTCTTTGA
5989297 TGCTTCTGATACACTTGATTTGAGGTCATGTTGTTGTTATTGTC
1 TGCTTCTGATACACTTGATTTGAGGTCATGTTGTTGTTATTGTC
5989341 TGCTTCTGATACACTTGATTTGAGGTCATGTTGTTGTTATTGTC
1 TGCTTCTGATACACTTGATTTGAGGTCATGTTGTTGTTATTGTC
5989385 CCAGTCCCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.48
Consensus pattern (44 bp):
TGCTTCTGATACACTTGATTTGAGGTCATGTTGTTGTTATTGTC
Found at i:5990037 original size:39 final size:39
Alignment explanation
Indices: 5989983--5990062 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
5989973 AATGTCCTAG
5989983 CCTATATGTATCATATTCAAGTTGAATATGAAAAGGGAA
1 CCTATATGTATCATATTCAAGTTGAATATGAAAAGGGAA
5990022 CCTATATGTATCATATTCAAGTTGAATATGAAAAGGGAA
1 CCTATATGTATCATATTCAAGTTGAATATGAAAAGGGAA
5990061 CC
1 CC
5990063 ATAGAATTCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (39 bp):
CCTATATGTATCATATTCAAGTTGAATATGAAAAGGGAA
Found at i:5993570 original size:31 final size:31
Alignment explanation
Indices: 5993532--5993590 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
5993522 GTCAAATTTT
5993532 AAAAAGTA-AAAGAATTAAAATTAATCAATTC
1 AAAAAGTATAAA-AATTAAAATTAATCAATTC
5993563 AAAAAGTATAAAAATTAAAATTAATCAA
1 AAAAAGTATAAAAATTAAAATTAATCAA
5993591 AATAAAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (31 bp):
AAAAAGTATAAAAATTAAAATTAATCAATTC
Found at i:5994657 original size:22 final size:23
Alignment explanation
Indices: 5994632--5994674 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5994622 TATATTTTTT
**
5994632 AAATTTTTTATTATTT-TTTATA
1 AAATTTTAAATTATTTATTTATA
5994654 AAATTTTAAATTATTTATTTA
1 AAATTTTAAATTATTTATTTA
5994675 CTTATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
AAATTTTAAATTATTTATTTATA
Found at i:5997887 original size:82 final size:83
Alignment explanation
Indices: 5997776--5997952 Score: 232
Period size: 82 Copynumber: 2.1 Consensus size: 83
5997766 CATGGGGATG
* * * * ** *
5997776 AGATTTGTGGTTTTAGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTACTCCA
1 AGATCTGTGGTTCTAGTCCGCTCCACTACTACTTAGGGAGATAAGACTGGATACGATCCACTCCA
5997841 CTACTGCTTAGGG-GAATA
66 CTACTGCTTAGGGAG-ATA
* * *
5997859 AGATCTGTGGTTCT-GTCCGCTCCGCTACTACTTAGGGAGATAAGACTTGATACGATCCGCTCCA
1 AGATCTGTGGTTCTAGTCCGCTCCACTACTACTTAGGGAGATAAGACTGGATACGATCCACTCCA
*
5997923 CTATTGCTTAGGGAGATA
66 CTACTGCTTAGGGAGATA
5997941 AGATCTGTGGTT
1 AGATCTGTGGTT
5997953 TTCACTCTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
82 69 0.84
83 13 0.16
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (83 bp):
AGATCTGTGGTTCTAGTCCGCTCCACTACTACTTAGGGAGATAAGACTGGATACGATCCACTCCA
CTACTGCTTAGGGAGATA
Found at i:5997893 original size:42 final size:42
Alignment explanation
Indices: 5997795--5997952 Score: 168
Period size: 40 Copynumber: 3.9 Consensus size: 42
5997785 GTTTTAGTCT
* *
5997795 GCTCCACTACTGCTTAGGGAGATAAGA-CTG-GATGT-GATCT
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGT-TCGATCC
*
5997835 ACTCCACTACTGCTTAGGG-GAATAAGATCTGTGGTTCTG-TCC
1 GCTCCACTACTGCTTAGGGAG-ATAAGATCTGTGGTTC-GATCC
* * * *
5997877 GCTCCGCTACTACTTAGGGAGATAAGA-CT-TGATACGATCC
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCGATCC
*
5997917 GCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTT
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
5997953 TTCACTCTAT
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
39 2 0.02
40 55 0.57
41 8 0.08
42 29 0.30
43 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (42 bp):
GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCGATCC
Found at i:5998318 original size:132 final size:132
Alignment explanation
Indices: 5998120--5998672 Score: 926
Period size: 132 Copynumber: 4.2 Consensus size: 132
5998110 ACGGGGACAA
* * * *** * *
5998120 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCCTTCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
* * *
5998185 CTTCACCACCAGTGTGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
65 CTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
5998250 TAG
130 TAG
*
5998253 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
5998318 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
5998383 AG
131 AG
*
5998385 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
*
5998450 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
5998515 AG
131 AG
* *
5998517 GATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
* *
5998582 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTTCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
5998647 AG
131 AG
*
5998649 GATCAGCTATCTTCGATCTACTTC
1 GATCTGCTATCTTCGATCTACTTC
5998673 TTGCCCCGGG
Statistics
Matches: 403, Mismatches: 17, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
132 380 0.94
133 23 0.06
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
AG
Found at i:5998636 original size:88 final size:87
Alignment explanation
Indices: 5998115--5998672 Score: 502
Period size: 88 Copynumber: 6.3 Consensus size: 87
5998105 CAAATACGGG
* * *
5998115 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCCT-TCTTC
1 GACAAGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTG-CTATCTTC
* * *
5998179 GATCTA-CTTCACCACCAGTGTGGGAA
64 GATCTATTTTCACCA--A-TATAGGAA
* * * * *
5998205 GACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
* * *
5998269 TCTA-CTTCACGCCAATACATGAA
66 TCTATTTTCA--CCAATATAGGAA
* * *
5998292 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
1 GACAAGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCG
* * *
5998356 ATCCACTTCCTACCAATATAGGAA
65 ATCTATTTTC-ACCAATATAGGAA
* * * * * * * * *
5998380 GATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
** *
5998445 TCTACTTCGCCACCAATATGGGAA
66 TCTA-TT-TTCACCAATATAGGAA
* * * * * *
5998469 GACAAGATCTGC-ATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
* * *
5998533 TCTA-CTTCACGCCAATACATGAA
66 TCTATTTTCA--CCAATATAGGAA
* *
5998556 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
1 GACAAGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCG
*
5998620 ATCCATTTTCTACCAATATAGGAA
65 ATCTATTTTC-ACCAATATAGGAA
* * *
5998644 GATAGGATCAGCTATCTTCGATCTACTTC
1 GACAAGATCTGCTATCTTCGATCTACTTC
5998673 TTGCCCCGGG
Statistics
Matches: 374, Mismatches: 78, Indels: 34
0.77 0.16 0.07
Matches are distributed among these distances:
85 2 0.01
87 61 0.16
88 205 0.55
89 87 0.23
90 19 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (87 bp):
GACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
TCTATTTTCACCAATATAGGAA
Found at i:5998807 original size:46 final size:46
Alignment explanation
Indices: 5998756--5998949 Score: 148
Period size: 46 Copynumber: 4.3 Consensus size: 46
5998746 ACCTGCTTTG
5998756 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* ** * * ** * *
5998802 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCA
*** * * * * ** * *
5998847 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
5998890 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
5998936 CTGCCAAATACAGG
1 CTGCCAAATACAGG
5998950 GAGATAGAGT
Statistics
Matches: 105, Mismatches: 35, Indels: 16
0.67 0.22 0.10
Matches are distributed among these distances:
41 3 0.03
42 10 0.10
43 11 0.10
44 1 0.01
45 19 0.18
46 57 0.54
47 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:5998886 original size:134 final size:134
Alignment explanation
Indices: 5998680--5999017 Score: 577
Period size: 134 Copynumber: 2.5 Consensus size: 134
5998670 TTCTTGCCCC
** * * * *
5998680 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
5998745 AACCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
5998810 TACA
131 TACA
* *
5998814 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
5998879 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
5998944 TACA
131 TACA
5998948 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
5999013 GATCT
66 GATCT
5999018 TCAATCTATT
Statistics
Matches: 191, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 191 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (134 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:5998983 original size:45 final size:45
Alignment explanation
Indices: 5998921--5999078 Score: 124
Period size: 45 Copynumber: 3.4 Consensus size: 45
5998911 GATCTGCAAT
*
5998921 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
5998966 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
* *
5999016 CTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
5999061 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
5999079 TAGTCACATG
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 11 0.13
43 3 0.04
45 32 0.39
46 4 0.05
49 4 0.05
50 16 0.19
52 3 0.04
53 10 0.12
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:5999025 original size:95 final size:96
Alignment explanation
Indices: 5998919--5999114 Score: 349
Period size: 95 Copynumber: 2.0 Consensus size: 96
5998909 AAGATCTGCA
*
5998919 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
5998984 TAGT-CAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTACAGGGAGGTAAAATCTGCCATCTTCG
5999014 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
5999079 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT-ACAGGGAGGTAAAATCTGCCATCTTCG
5999111 ATCT
1 ATCT
5999115 GCTTCGCTGC
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 68 0.71
97 28 0.29
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (96 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTACAGGGAGGTAAAATCTGCCATCTTCG
Found at i:6003343 original size:19 final size:20
Alignment explanation
Indices: 6003319--6003362 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6003309 CGTGAAAGTC
* *
6003319 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
6003338 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
6003358 -AATGC
1 TAATGC
6003363 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:6007727 original size:82 final size:83
Alignment explanation
Indices: 6007616--6007792 Score: 232
Period size: 82 Copynumber: 2.1 Consensus size: 83
6007606 CATGGGGATG
* * * * ** *
6007616 AGATTTGTGGTTTTAGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGATCTACTCCA
1 AGATCTGTGGTTCTAGTCCGCTCCACTACTACTTAGGGAGATAAGACTGGATACGATCCACTCCA
6007681 CTACTGCTTAGGG-GAATA
66 CTACTGCTTAGGGAG-ATA
* * *
6007699 AGATCTGTGGTTCT-GTCCGCTCCGCTACTACTTAGGGAGATAAGACTTGATACGATCCGCTCCA
1 AGATCTGTGGTTCTAGTCCGCTCCACTACTACTTAGGGAGATAAGACTGGATACGATCCACTCCA
*
6007763 CTATTGCTTAGGGAGATA
66 CTACTGCTTAGGGAGATA
6007781 AGATCTGTGGTT
1 AGATCTGTGGTT
6007793 TTCACTCTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
82 69 0.84
83 13 0.16
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (83 bp):
AGATCTGTGGTTCTAGTCCGCTCCACTACTACTTAGGGAGATAAGACTGGATACGATCCACTCCA
CTACTGCTTAGGGAGATA
Found at i:6007733 original size:42 final size:42
Alignment explanation
Indices: 6007635--6007792 Score: 168
Period size: 40 Copynumber: 3.9 Consensus size: 42
6007625 GTTTTAGTCT
* *
6007635 GCTCCACTACTGCTTAGGGAGATAAGA-CTG-GATGT-GATCT
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGT-TCGATCC
*
6007675 ACTCCACTACTGCTTAGGG-GAATAAGATCTGTGGTTCTG-TCC
1 GCTCCACTACTGCTTAGGGAG-ATAAGATCTGTGGTTC-GATCC
* * * *
6007717 GCTCCGCTACTACTTAGGGAGATAAGA-CT-TGATACGATCC
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCGATCC
*
6007757 GCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTT
1 GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
6007793 TTCACTCTAT
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
39 2 0.02
40 55 0.57
41 8 0.08
42 29 0.30
43 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (42 bp):
GCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCGATCC
Found at i:6008158 original size:132 final size:132
Alignment explanation
Indices: 6007960--6008512 Score: 926
Period size: 132 Copynumber: 4.2 Consensus size: 132
6007950 ACGGGGACAA
* * * *** * *
6007960 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCCTTCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
* * *
6008025 CTTCACCACCAGTGTGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
65 CTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
6008090 TAG
130 TAG
*
6008093 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
6008158 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
6008223 AG
131 AG
*
6008225 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
*
6008290 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
6008355 AG
131 AG
* *
6008357 GATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
* *
6008422 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTTCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
6008487 AG
131 AG
*
6008489 GATCAGCTATCTTCGATCTACTTC
1 GATCTGCTATCTTCGATCTACTTC
6008513 TTGCCCCGGG
Statistics
Matches: 403, Mismatches: 17, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
132 380 0.94
133 23 0.06
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
AG
Found at i:6008476 original size:88 final size:87
Alignment explanation
Indices: 6007955--6008512 Score: 502
Period size: 88 Copynumber: 6.3 Consensus size: 87
6007945 CAAATACGGG
* * *
6007955 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCCT-TCTTC
1 GACAAGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTG-CTATCTTC
* * *
6008019 GATCTA-CTTCACCACCAGTGTGGGAA
64 GATCTATTTTCACCA--A-TATAGGAA
* * * * *
6008045 GACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
* * *
6008109 TCTA-CTTCACGCCAATACATGAA
66 TCTATTTTCA--CCAATATAGGAA
* * *
6008132 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
1 GACAAGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCG
* * *
6008196 ATCCACTTCCTACCAATATAGGAA
65 ATCTATTTTC-ACCAATATAGGAA
* * * * * * * * *
6008220 GATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
** *
6008285 TCTACTTCGCCACCAATATGGGAA
66 TCTA-TT-TTCACCAATATAGGAA
* * * * * *
6008309 GACAAGATCTGC-ATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
* * *
6008373 TCTA-CTTCACGCCAATACATGAA
66 TCTATTTTCA--CCAATATAGGAA
* *
6008396 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
1 GACAAGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCTATCTTCG
*
6008460 ATCCATTTTCTACCAATATAGGAA
65 ATCTATTTTC-ACCAATATAGGAA
* * *
6008484 GATAGGATCAGCTATCTTCGATCTACTTC
1 GACAAGATCTGCTATCTTCGATCTACTTC
6008513 TTGCCCCGGG
Statistics
Matches: 374, Mismatches: 78, Indels: 34
0.77 0.16 0.07
Matches are distributed among these distances:
85 2 0.01
87 61 0.16
88 205 0.55
89 87 0.23
90 19 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (87 bp):
GACAAGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCTATCTTCGA
TCTATTTTCACCAATATAGGAA
Found at i:6008647 original size:46 final size:46
Alignment explanation
Indices: 6008596--6008789 Score: 148
Period size: 46 Copynumber: 4.3 Consensus size: 46
6008586 ACCTGCTTTG
6008596 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* ** * * ** * *
6008642 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCA
*** * * * * ** * *
6008687 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
6008730 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
6008776 CTGCCAAATACAGG
1 CTGCCAAATACAGG
6008790 GAGATAGAGT
Statistics
Matches: 105, Mismatches: 35, Indels: 16
0.67 0.22 0.10
Matches are distributed among these distances:
41 3 0.03
42 10 0.10
43 11 0.10
44 1 0.01
45 19 0.18
46 57 0.54
47 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:6008726 original size:134 final size:134
Alignment explanation
Indices: 6008520--6008857 Score: 577
Period size: 134 Copynumber: 2.5 Consensus size: 134
6008510 TTCTTGCCCC
** * * * *
6008520 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
* * *
6008585 AACCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
6008650 TACA
131 TACA
* *
6008654 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
6008719 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
6008784 TACA
131 TACA
6008788 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
6008853 GATCT
66 GATCT
6008858 TCAATCTATT
Statistics
Matches: 191, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 191 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (134 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:6008823 original size:45 final size:45
Alignment explanation
Indices: 6008761--6009013 Score: 158
Period size: 45 Copynumber: 5.4 Consensus size: 45
6008751 GATCTGCAAT
*
6008761 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
6008806 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
*
6008856 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
6008901 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
*
6008951 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
6008996 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
6009014 TAGTCACATG
Statistics
Matches: 152, Mismatches: 34, Indels: 44
0.66 0.15 0.19
Matches are distributed among these distances:
42 22 0.14
43 6 0.04
45 48 0.32
46 8 0.05
49 8 0.05
50 32 0.21
52 6 0.04
53 22 0.14
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:6008865 original size:95 final size:95
Alignment explanation
Indices: 6008759--6009049 Score: 546
Period size: 95 Copynumber: 3.0 Consensus size: 95
6008749 AAGATCTGCA
6008759 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
6008824 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
6008854 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
6008919 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
6008949 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
6009014 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTCG
6009046 ATCT
1 ATCT
6009050 GCTTCGCTGC
Statistics
Matches: 192, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
95 164 0.85
97 28 0.15
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Done.