Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 58 of 218
Found at i:17837560 original size:24 final size:19
Alignment explanation
Indices: 17837504--17837576 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
17837494 AATCATATCT
17837504 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17837523 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
17837542 TCTAAGATTACATGTCATA
1 TCTAAGATTGCATATCATA
17837561 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
17837577 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17838201 original size:45 final size:44
Alignment explanation
Indices: 17838088--17838467 Score: 194
Period size: 45 Copynumber: 8.7 Consensus size: 44
17838078 TTCTAATCCA
* * * *
17838088 CTCCACTACAACTTTAGGGAGATGAGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
* * * * *
17838132 CCCCGCTGCAA-TTTCAGGGGGATAAGACTTGATTTCTTGAGTTTG
1 CTCCACTGCAACTTT-AGGGAGATAAGACTTG-TTTATTGAGTCTG
* *
17838177 CTCCACTGCAACTTTAGGGAGATAAGACTCGCTTTTTTGAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTG-TTTATTGAGTCTG
* ** * *
17838222 CTCCACTGCAACTTCAGGGAGATAAGACCCG-ATA-CGA-TCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
* * * * **
17838263 CT-CTCTGCAACTTCAGAGAGATAAGA-TATGTGATT-TT-AATCCA
1 CTCCACTGCAACTTTAGGGAGATAAGACT-TGT--TTATTGAGTCTG
* * * *
17838306 CTCCACTGCAACTTTAGGGAGATAGGA-TTATTGGT-TTTAATCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTT--TATTGAGTCTG
* * * ** * *
17838350 TTCCACTGCAACTTCAGAGAGATAAGA-TTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTT-G-TTTATTGAGTCTG
* * * * *
17838395 C-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-AGTTTG
1 CTC-CACTGCAACTTTAGGGA-GATAAGACTTGTTTA-TTGAGTCTG
*
17838439 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTTAGGGAGATAAGACT
17838468 AGATGCGATC
Statistics
Matches: 260, Mismatches: 54, Indels: 44
0.73 0.15 0.12
Matches are distributed among these distances:
40 23 0.09
41 7 0.03
42 3 0.01
43 14 0.05
44 103 0.40
45 105 0.40
46 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTGAGTCTG
Found at i:17838479 original size:217 final size:217
Alignment explanation
Indices: 17838220--17838610 Score: 629
Period size: 217 Copynumber: 1.8 Consensus size: 217
17838210 TTTTTGAGTC
*
17838220 TGCTCCACTGCAACTTCAGGGAGATAAGACCCGATACGATCTGCTCTCTGCAACTTCAGAGAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACCAGATACGATCTGCTCTCTGCAACTTCAGAGAGAT
* * * *
17838285 AAGATATGTGATTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTATTGGTTTTAATCTG
66 AAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTA
*
17838350 TTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAG
131 CTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAG
17838415 GATAAGGCTTGCTTACTTAGTT
196 GATAAGGCTTGCTTACTTAGTT
* * *
17838437 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGATAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACCAGATACGATCTGCTCTCTGCAACTTCAGAGAGAT
* ** *
17838502 AAGATCTGTGATTTTAATCTGCTCCACTACGACTTCAGGGAGATAGGATTATTGGCTTTAATCTA
66 AAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTA
* * * *
17838567 CTCTACTGTAACTTCAGGGAGATAAGATTCGCCATCTTTAGTCT
131 CTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCT
17838611 TTTAAATTGC
Statistics
Matches: 157, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
217 157 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (217 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACCAGATACGATCTGCTCTCTGCAACTTCAGAGAGAT
AAGATATGTGATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTA
CTCCACTGCAACTTCAGAGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAG
GATAAGGCTTGCTTACTTAGTT
Found at i:17838546 original size:44 final size:44
Alignment explanation
Indices: 17838088--17838594 Score: 235
Period size: 44 Copynumber: 11.6 Consensus size: 44
17838078 TTCTAATCCA
* * * * * *
17838088 CTCCACTACAACTTTAGGGAGATGAGATTTGT-TTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGAT-TTTAATCTG
* * * * * *
17838132 CCCCGCTGCAATTTCAGGGGGATAAGA-CT-TGATTTCTTGAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGA-TT-TT-AATCTG
* * *
17838177 CTCCACTGCAACTTTAGGGAGATAAGA-CTCGCT-TTTTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-G-TGATTTT-AATCTG
** ***
17838222 CTCCACTGCAACTTCAGGGAGATAAGA-C-CCGA-TACGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTG
* * * **
17838263 CT-CTCTGCAACTTCAGAGAGATAAGATATGTGATTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTG
* * * *
17838306 CTCCACTGCAACTTTAGGGAGATAGGAT-TATTGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTAATCTG
* * ** * *
17838350 TTCCACTGCAACTTCAGAGAGATAAGAT-TCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGAT-TTTAATCTG
* * * * *
17838395 C-CTCACTACAACTTCA-GGAGGATAAG-GCT-TGCTTACTTAGTTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATCTGTGATT--TTAATCTG
* ***
17838439 CTCCACTGCAACTTCAGGGAGATAAGA-CT-AGA-TGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTG
* **
17838480 CT-CTCTGCAACTTCAGATAGATAAGATCTGTGATTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTG
* * * * ** *
17838523 CTCCACTACGACTTCAGGGAGATAGGAT-TATTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGATTTTAATCTG
* *
17838567 CTCTACTGTAACTTCAGGGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
17838595 TCGCCATCTT
Statistics
Matches: 343, Mismatches: 93, Indels: 54
0.70 0.19 0.11
Matches are distributed among these distances:
40 43 0.13
41 13 0.04
42 7 0.02
43 20 0.06
44 163 0.48
45 94 0.27
46 2 0.01
48 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGTGATTTTAATCTG
Found at i:17839030 original size:44 final size:43
Alignment explanation
Indices: 17838959--17839080 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 43
17838949 ATCTGCTATT
* * * *
17838959 TTCAACCTACTCTACTGTTGCTTAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTG-TCAGGGAGATAGGACTT-ACAATC
17839003 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-TCAGGGAGATAGGACTTACAATC
17839047 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGTC-AGGGAGATAGG
17839081 GTTGGGGTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
43 2 0.03
44 67 0.94
45 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGTCAGGGAGATAGGACTTACAATC
Found at i:17839206 original size:88 final size:88
Alignment explanation
Indices: 17839091--17839657 Score: 866
Period size: 88 Copynumber: 6.4 Consensus size: 88
17839081 GTTGGGGTCA
* *
17839091 TCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
17839156 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAAGGAGGCAAGGCTGGTGTCT
* * *
17839179 TCGATCTACTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
17839244 CCAAGGAGGCAAGGCTGGTGTCT
66 CCAAGGAGGCAAGGCTGGTGTCT
*
17839267 TCGATCTGCTTCGCT-TGCGGTGCAGGAAGGAAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
1 TCGATCTGCTTCGCTGT-CGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
**
17839331 CTGAAGGAGGCAAGGCTGGTGTCT
65 CCCAAGGAGGCAAGGCTGGTGTCT
* * ** * *
17839355 TCGATCTACTTCGCTGTCGGTACAGGAATACAAGATCTGCAATTTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* *
17839420 CCAGGGAGGCAAGGCTGGTGTTT
66 CCAAGGAGGCAAGGCTGGTGTCT
* * *
17839443 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAATATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* * *
17839508 CTAGGGAGGCAAGGCTAGTGTCT
66 CCAAGGAGGCAAGGCTGGTGTCT
* * *
17839531 TCGATCTGCTTTGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
17839596 CCAAGGAGGCAAGGTTGGTGTCT
66 CCAAGGAGGCAAGGCTGGTGTCT
*
17839619 TCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
17839658 TTATCTTCAC
Statistics
Matches: 431, Mismatches: 46, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 429 1.00
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAAGGAGGCAAGGCTGGTGTCT
Found at i:17839254 original size:44 final size:44
Alignment explanation
Indices: 17839118--17839344 Score: 111
Period size: 44 Copynumber: 5.2 Consensus size: 44
17839108 CGGTACAGGA
*
17839118 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
* * * * ** * * * *****
17839162 AGGCAAG-GCTGGTGTCTTCGATCTACTTCGCTGTTGGTGC-AGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCCAAGG
17839205 AAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
1 -AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
* * * * ** * * ****
17839250 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTTGCGGTGC-AGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGC-TGCAACCCAAGG
* * **
17839293 AAGGAAAGATCTGCTATTTTTAACCTGCTCCGCTACAACTGAAGG
1 -AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
17839338 AGGCAAG
1 AGGCAAG
17839345 GCTGGTGTCT
Statistics
Matches: 118, Mismatches: 57, Indels: 16
0.62 0.30 0.08
Matches are distributed among these distances:
43 38 0.32
44 41 0.35
45 39 0.33
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
Found at i:17841012 original size:14 final size:15
Alignment explanation
Indices: 17840989--17841021 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17840979 ATCGACGCTT
17840989 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
17841003 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
17841018 TTCC
1 TTCC
17841022 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:17841881 original size:26 final size:25
Alignment explanation
Indices: 17841847--17841913 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
17841837 AAGAAAATCC
**
17841847 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAGAAT-ATTAGCTCA
*
17841873 AAAAGAATGAAAAAATATTAGCTCA
1 AAAAGAATGAAAGAATATTAGCTCA
17841898 AAAATGAATGTAAAGA
1 AAAA-GAATG-AAAGA
17841914 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.31
26 20 0.57
27 4 0.11
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.22
Consensus pattern (25 bp):
AAAAGAATGAAAGAATATTAGCTCA
Found at i:17843021 original size:22 final size:23
Alignment explanation
Indices: 17842991--17843063 Score: 87
Period size: 22 Copynumber: 3.1 Consensus size: 23
17842981 AAATATACTC
17842991 AAAATTGGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
*
17843014 AAAA-TGGACAACATCAATATAC-TT
1 AAAATTGGACAGCAT---TATACATT
*
17843038 AAAATTTGACAGCATTATACATT
1 AAAATTGGACAGCATTATACATT
17843061 AAA
1 AAA
17843064 TTTATAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
22 14 0.33
23 9 0.21
24 6 0.14
25 13 0.31
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (23 bp):
AAAATTGGACAGCATTATACATT
Found at i:17843048 original size:25 final size:24
Alignment explanation
Indices: 17842982--17843048 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 24
17842972 AGATAGCTTA
* *
17842982 AATATACTCAAAATTGGACAGCAT
1 AATATACTTAAAATTGGACAACAT
17843006 --TATACATTAAAA-TGGACAACAT
1 AATATAC-TTAAAATTGGACAACAT
*
17843028 CAATATACTTAAAATTTGACA
1 -AATATACTTAAAATTGGACA
17843049 GCATTATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 14 0.40
23 5 0.14
24 6 0.17
25 10 0.29
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (24 bp):
AATATACTTAAAATTGGACAACAT
Found at i:17844060 original size:28 final size:28
Alignment explanation
Indices: 17843998--17844094 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
17843988 TTAATAAGTA
* *
17843998 CGCACACTTAGTGC-TTAATAATCAAACT
1 CGCACACTTAGTGCATT-ACAATTAAACT
* * ** *
17844026 AGCACACTTAGTGCCTTACCCTTATACT
1 CGCACACTTAGTGCATTACAATTAAACT
* *
17844054 CGTACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGCATTACAATTAAACT
17844082 CGCACACTTAGTG
1 CGCACACTTAGTG
17844095 TTGGAAGTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 52 0.96
29 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCATTACAATTAAACT
Found at i:17847863 original size:24 final size:25
Alignment explanation
Indices: 17847817--17847863 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17847807 CTTAATTTCA
* *
17847817 AAAATTTAAAAATATGATCCTTAAT
1 AAAACTTAAAAATATGATACTTAAT
*
17847842 AAAACTTAAAAA-ATGTTACTTA
1 AAAACTTAAAAATATGATACTTA
17847864 TTAAGACTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (25 bp):
AAAACTTAAAAATATGATACTTAAT
Found at i:17848942 original size:13 final size:14
Alignment explanation
Indices: 17848919--17848948 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
17848909 CATGCGCATG
17848919 AATATAATAATAAT
1 AATATAATAATAAT
17848933 AATA-AATAATAAT
1 AATATAATAATAAT
17848946 AAT
1 AAT
17848949 GATACAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATAATAATAAT
Found at i:17849443 original size:19 final size:19
Alignment explanation
Indices: 17849419--17849472 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
17849409 AATCATATAT
17849419 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
17849438 TCTAAGATTACATATTATA
1 TCTAAGATTGCATATCATA
*
17849457 TCCAAGATTGCATATC
1 TCTAAGATTGCATATC
17849473 CTTGAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17850786 original size:19 final size:19
Alignment explanation
Indices: 17850762--17850802 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17850752 AAAATTATGA
17850762 TGTTTTC-CTATTGTTTTCT
1 TGTTTTCTC-ATTGTTTTCT
*
17850781 TGTTTTCTCATTGTTTTGT
1 TGTTTTCTCATTGTTTTCT
17850800 TGT
1 TGT
17850803 CATTTTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.05, C:0.12, G:0.15, T:0.68
Consensus pattern (19 bp):
TGTTTTCTCATTGTTTTCT
Found at i:17853512 original size:14 final size:14
Alignment explanation
Indices: 17853489--17853525 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
17853479 GCTCAACCCG
17853489 TATTAATTTTTT-TA
1 TATT-ATTTTTTATA
17853503 TATTATTTTTTATA
1 TATTATTTTTTATA
17853517 TATT-TTTTT
1 TATTATTTTT
17853526 AAAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTATTTTTTATA
Found at i:17853520 original size:11 final size:12
Alignment explanation
Indices: 17853496--17853524 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17853486 CCGTATTAAT
17853496 TTTTTTATATTA
1 TTTTTTATATTA
17853508 TTTTTTATA-TA
1 TTTTTTATATTA
17853519 TTTTTT
1 TTTTTT
17853525 TAAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTATATTA
Found at i:17853525 original size:12 final size:12
Alignment explanation
Indices: 17853494--17853526 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17853484 ACCCGTATTA
17853494 ATTTTTTTATAT
1 ATTTTTTTATAT
17853506 -TATTTTTTATAT
1 AT-TTTTTTATAT
17853518 ATTTTTTTA
1 ATTTTTTTA
17853527 AAAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATAT
Found at i:17854506 original size:58 final size:58
Alignment explanation
Indices: 17854434--17854543 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
17854424 CTTTTTATCT
* * *
17854434 AATTTGGTATCTAAATTTGACAATTTTTCTTAAGTTAGTA-CTTAATCTTTTTGGGTTC
1 AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATC-TAATCTTTTTGGGTTC
** * *
17854492 AATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGGTATCTAATCTTTTT
1 AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATCTAATCTTTTT
17854544 TCTTTTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 43 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.50
Consensus pattern (58 bp):
AATTTGGTACCTAAACTTGACAATTTTTCCTAAGTTAGTATCTAATCTTTTTGGGTTC
Found at i:17855628 original size:17 final size:17
Alignment explanation
Indices: 17855608--17855647 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
17855598 ACTATAGTTT
*
17855608 TATTTAATTATTTTGTA
1 TATTCAATTATTTTGTA
17855625 TATTCAATTATTTTGTA
1 TATTCAATTATTTTGTA
17855642 TATTCA
1 TATTCA
17855648 TTTCGCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (17 bp):
TATTCAATTATTTTGTA
Found at i:17863776 original size:18 final size:18
Alignment explanation
Indices: 17863752--17863792 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
17863742 ATCCACTGCC
*
17863752 CCTTCTTTATCAATTGCA
1 CCTTCTTCATCAATTGCA
* *
17863770 TCTTCTTCCTCAATTGCA
1 CCTTCTTCATCAATTGCA
17863788 CCTTC
1 CCTTC
17863793 ATTGTTATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.34, G:0.05, T:0.44
Consensus pattern (18 bp):
CCTTCTTCATCAATTGCA
Found at i:17866063 original size:26 final size:28
Alignment explanation
Indices: 17866016--17866074 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
17866006 TTTCACTCTT
*
17866016 AAAAACCTAAACCTTAATTCCT-AACAA
1 AAAAACCTAAACCCTAATTCCTAAACAA
*
17866043 AAAAACTCT-AACCCTAA-TCCTAAAGAA
1 AAAAAC-CTAAACCCTAATTCCTAAACAA
17866070 AAAAA
1 AAAAA
17866075 AGCTGGGCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 22 0.79
28 2 0.07
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.19
Consensus pattern (28 bp):
AAAAACCTAAACCCTAATTCCTAAACAA
Found at i:17867356 original size:18 final size:19
Alignment explanation
Indices: 17867330--17867368 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
17867320 GTTGAACCAG
*
17867330 AATTTTTTTTATTTTT-TA
1 AATTATTTTTATTTTTATA
17867348 AATTATTTTTATTTTTATA
1 AATTATTTTTATTTTTATA
17867367 AA
1 AA
17867369 ATTTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
AATTATTTTTATTTTTATA
Found at i:17867372 original size:17 final size:18
Alignment explanation
Indices: 17867335--17867383 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
17867325 ACCAGAATTT
17867335 TTTTTATTTTT-TAAATTA
1 TTTTTATTTTTATAAA-TA
17867353 TTTTTATTTTTATAAA-A
1 TTTTTATTTTTATAAATA
*
17867370 TTTTAATTATTTAT
1 TTTTTATT-TTTAT
17867384 TTAATTGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 8 0.29
18 16 0.57
19 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTATTTTTATAAATA
Found at i:17874326 original size:22 final size:22
Alignment explanation
Indices: 17874301--17874344 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17874291 ATAAGCTCCT
* *
17874301 TTACATTCGATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
*
17874323 TTACATTTAATCAATAAATGTA
1 TTACATTCAATCAATAAATGTA
17874345 AATTAAGTTT
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:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:17878747 original size:9 final size:9
Alignment explanation
Indices: 17878733--17878769 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17878723 TATAGTTTGA
17878733 TATTCGAAT
1 TATTCGAAT
17878742 TATTCGAAT
1 TATTCGAAT
*
17878751 TATTCGAGT
1 TATTCGAAT
17878760 TATTCGAAT
1 TATTCGAAT
17878769 T
1 T
17878770 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:17878832 original size:9 final size:9
Alignment explanation
Indices: 17878813--17878846 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
17878803 AAACAAAAGT
17878813 TCGAGTTAAC
1 TCGA-TTAAC
17878823 TCGATTAAC
1 TCGATTAAC
*
17878832 TCGAATAAC
1 TCGATTAAC
17878841 TCGATT
1 TCGATT
17878847 CGTTTAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (9 bp):
TCGATTAAC
Found at i:17880790 original size:38 final size:37
Alignment explanation
Indices: 17880736--17880821 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
17880726 ACCCTTATTG
17880736 AAGGGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAA
1 AAGGGTTGGGAAAGACC-AGTCTAAGG-CAACCTTTAAA
* *
17880774 AAGGGTTGGGATAGACCAGTCTAAGGTAACCTTTAAA
1 AAGGGTTGGGAAAGACCAGTCTAAGGCAACCTTTAAA
* *
17880811 AAAGATTGGGA
1 AAGGGTTGGGA
17880822 CAAAATTGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 23 0.53
38 20 0.47
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (37 bp):
AAGGGTTGGGAAAGACCAGTCTAAGGCAACCTTTAAA
Found at i:17883105 original size:18 final size:17
Alignment explanation
Indices: 17883070--17883102 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17883060 GATTCATAAT
17883070 AAAAAAAAACAGAAAAG
1 AAAAAAAAACAGAAAAG
*
17883087 AAAAAAACACAGAAAA
1 AAAAAAAAACAGAAAA
17883103 AGATGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAGAAAAG
Found at i:17883779 original size:37 final size:36
Alignment explanation
Indices: 17883687--17884565 Score: 732
Period size: 37 Copynumber: 23.9 Consensus size: 36
17883677 TACAAGAATC
* * *
17883687 TCTAAGGCAACC-TTAAATAGGTTGGTATAGATCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA-CCTG
* * * **
17883723 TCTAAGGCAACATTTAAAAAAGTTGGGATATACCAA
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
*
17883759 TCTAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC-TG
*
17883796 TCTAAGGCAACCTTTAAAATTATTGAAGGGTTGGGAAAGACCTAG
1 TCTAAGGCAACCTTT--AA--A---AA-GGTTGGGATAGACCT-G
*
17883841 TC-AAGGCCAACCTTTAAAAAGGGTTGGGATTGACCTAG
1 TCTAAGG-CAACCTTTAAAAA-GGTTGGGATAGACCT-G
* *
17883879 TC-AAGGCCAACCTTTGAAAAAGGTTGTGATAGACCTA
1 TCTAAGG-CAACCTTT-AAAAAGGTTGGGATAGACCTG
*
17883916 TCTAAGGCAACC-TTAACAAGGTTGGGATAGA-CTAG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT-G
** * *
17883951 TCTAAGATAACCTTTTAAAAAAGTTGGGATAGACCTTA
1 TCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACC-TG
* * *
17883989 TCTAAGGCAACATTTAAAAAAAGTTGGGATAGACATTG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGAC-CTG
* *
17884027 TCTAAGGCAACCTTTAAAAAAGATTGGGATAGA-ATCG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCT-G
* * *
17884064 TCTAAGGCAACC-TTAAATAGGTTGGTATAAACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC-TG
*
17884100 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCAG
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCTG
* * *
17884137 TCTAAGGCAACCTTTTAAAAATGTTGGGATAGAGCAG
1 TCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACCTG
* * * *
17884174 TCTAAGGTAACATTTTAAAAATGTTAGGATAGACCTTG
1 TCTAAGGCAAC-CTTTAAAAAGGTTGGGATAGACC-TG
* *
17884212 TCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACTTG
1 TCTAAGGCAACCTT-TAAAAAGGTTGGGATAGACCTG
* * * *
17884249 TGTAAGGAAACCTTCAAAAAAGGTTGGGATAGACTTG
1 TCTAAGGCAACCTT-TAAAAAGGTTGGGATAGACCTG
* *
17884286 TCTAAAGCAACC-TTAAAAAGGTTGGGATAGA-TTAG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT-G
*
17884321 TCTAAGGTAACC-TTAAAAAGGTTGGGATAGACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC-TG
* * *
17884357 TCTAAGGTAACTTTTAGAAAAGGTTGGGATTGACCTG
1 TCTAAGGCAACCTTTA-AAAAGGTTGGGATAGACCTG
* * *
17884394 TCTAAGACAACC-TTAAAAATGTTGGGATAGACCCG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
* * *
17884429 TTTAAAGCAACC-TTAAAAAGGTTGGGATA-AGCCTTT
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA-CC-TG
* * * ** *
17884465 TCCAAGGCAA-CTTCAAAAAAGTTGAAATAAACTCT-
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGAC-CTG
* *
17884500 TCTAAGGCAACC-TTAAAAAGGTTAAGG-TAAACCTG
1 TCTAAGGCAACCTTTAAAAAGGTT-GGGATAGACCTG
* * *
17884535 TCTAAGGAAAAC-TTAAAAAGGTTGGAATAGA
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGA
17884566 TCTTTGTCTC
Statistics
Matches: 699, Mismatches: 100, Indels: 89
0.79 0.11 0.10
Matches are distributed among these distances:
34 8 0.01
35 177 0.25
36 101 0.14
37 199 0.28
38 172 0.25
39 8 0.01
41 2 0.00
43 2 0.00
44 7 0.01
45 23 0.03
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (36 bp):
TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTG
Found at i:17883790 original size:73 final size:71
Alignment explanation
Indices: 17883687--17884565 Score: 754
Period size: 73 Copynumber: 11.9 Consensus size: 71
17883677 TACAAGAATC
* * *
17883687 TCTAAGGCAACCTTAAATAGGTTGGTATAGATCTTGTCTAAGGCAACATTTAAAAAAGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
* **
17883752 ATACCAA
65 AGACCTG
*
17883759 TCTAAGGCAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAATTATTGAAG
1 TCTAAGGCAACC-TTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTTT-AAA--A---AA-
*
17883824 GGTTGGGAAAGACCTAG
57 -GTTGGGATAGACCT-G
* * *
17883841 TC-AAGGCCAACCTTTAAAAAGGGTTGGGATTGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTT
1 TCTAAGG-CAACC-TTAAAAA-GGTTGGGATAGA-CTTGTCTAAGG-CAACCTTT-AAAAAAGTT
* *
17883904 GTGATAGACCTA
60 GGGATAGACCTG
* * **
17883916 TCTAAGGCAACCTTAACAAGGTTGGGATAGACTAGTCTAAGATAACCTTTTAAAAAAGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACC-TTTAAAAAAGTTGGGAT
*
17883981 AGACCTTA
65 AGACC-TG
* *
17883989 TCTAAGGCAACATTTAAAAAAAGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAAGATTGG
1 TCTAAGGCAAC-CTT-AAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACCTTTAAAAAAG-TTGG
*
17884054 GATAGA-ATCG
62 GATAGACCT-G
* * *
17884064 TCTAAGGCAACCTTAAATAGGTTGGTATAAACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGA
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAACCTTTAAAAAA-GTTGGGA
*
17884129 TAGACCAG
64 TAGACCTG
* * * * * *
17884137 TCTAAGGCAACCTTTTAAAAATGTTGGGATAGAGC-AGTCTAAGGTAACATTTTAAAAATGTTAG
1 TCTAAGGCAACC--TTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAAC-CTTTAAAAAAGTTGG
17884201 GATAGACCTTG
62 GATAGACC-TG
* * *
17884212 TCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACTTGTGTAAGGAAACCTTCAAAAAAGGTTGGG
1 TCTAAGGCAACCTT--AAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAA-GTTGGG
*
17884277 ATAGACTTG
63 ATAGACCTG
* * *
17884286 TCTAAAGCAACCTTAAAAAGGTTGGGATAGA-TTAGTCTAAGGTAACC-TTAAAAAGGTTGGGAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTT-GTCTAAGGCAACCTTTAAAAAAGTTGGGAT
17884349 AGACCTTG
65 AGACC-TG
* * * * * *
17884357 TCTAAGGTAACTTTTAGAAAAGGTTGGGATTGACCTGTCTAAGACAACC-TTAAAAATGTTGGGA
1 TCTAAGGCAAC-CTTA-AAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGA
*
17884421 TAGACCCG
64 TAGACCTG
* * * * * * **
17884429 TTTAAAGCAACCTTAAAAAGGTTGGGATAAGCCTTTTCCAAGGCAA-CTTCAAAAAAGTTGAAAT
1 TCTAAGGCAACCTTAAAAAGGTTGGGAT-AGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
*
17884493 AAACTCT-
65 AGAC-CTG
* * * * * * *
17884500 TCTAAGGCAACCTTAAAAAGGTTAAGG-TAAACCTGTCTAAGGAAAAC-TTAAAAAGGTTGGAAT
1 TCTAAGGCAACCTTAAAAAGGTT-GGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGAT
17884563 AGA
65 AGA
17884566 TCTTTGTCTC
Statistics
Matches: 662, Mismatches: 102, Indels: 88
0.78 0.12 0.10
Matches are distributed among these distances:
70 52 0.08
71 71 0.11
72 82 0.12
73 172 0.26
74 63 0.10
75 118 0.18
76 39 0.06
78 1 0.00
79 2 0.00
81 16 0.02
82 19 0.03
83 27 0.04
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (71 bp):
TCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTTAAAAAAGTTGGGATA
GACCTG
Found at i:17883876 original size:38 final size:37
Alignment explanation
Indices: 17883824--17884565 Score: 638
Period size: 35 Copynumber: 20.3 Consensus size: 37
17883814 ATTATTGAAG
*
17883824 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGG-CAACCTTTAAAAA
*
17883861 GGGTTGGGATTGACCTAGTC-AAGGCCAACCTTTGAAAAA
1 -GGTTGGGATAGACCTAGTCTAAGG-CAACCTTT-AAAAA
* *
17883900 GGTTGTGATAGACCTA-TCTAAGGCAACC-TTAACAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
**
17883935 GGTTGGGATAGA-CTAGTCTAAGATAACCTTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACC-TTTAAAAA
* *
17883972 AGTTGGGATAGACCTTA-TCTAAGGCAACATTTAAAAAA
1 GGTTGGGATAGACC-TAGTCTAAGGCAACCTTT-AAAAA
* * *
17884010 AGTTGGGATAGACATTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT-AAAAA
* * * *
17884048 GATTGGGATAGA-ATCGTCTAAGGCAACC-TTAAATA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * *
17884083 GGTTGGTATAAACCTTGTCTAAGGCAACCTTTAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTT-AAAAA
17884121 GGTTGGGATAGACC-AGTCTAAGGCAACCTTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACC-TTTAAAAA
* * * *
17884158 TGTTGGGATAGAGC-AGTCTAAGGTAACATTTTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAAC-CTTTAAAAA
* * * *
17884195 TGTTAGGATAGACCTTGTCTAAGGCAACCTTAAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTT-TAAAAA
* * * *
17884233 GGTTGGGATAGA-CTTGTGTAAGGAAACCTTCAAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTT-TAAAAA
* *
17884270 GGTTGGGATAGA-CTTGTCTAAAGCAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* *
17884305 GGTTGGGATAGA-TTAGTCTAAGGTAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * *
17884340 GGTTGGGATAGACCTTGTCTAAGGTAACTTTTAGAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTA-AAAA
* *
17884378 GGTTGGGATTGACCT-GTCTAAGACAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
* * * *
17884413 TGTTGGGATAGACC-CGTTTAAAGCAACC-TTAAAAA
1 GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
** * *
17884448 GGTTGGGATA-AGCCTTTTCCAAGGCAA-CTTCAAAAA
1 GGTTGGGATAGA-CCTAGTCTAAGGCAACCTTTAAAAA
* ** *
17884484 AGTTGAAATAAACTCT--TCTAAGGCAACC-TTAAAAA
1 GGTTGGGATAGAC-CTAGTCTAAGGCAACCTTTAAAAA
* * * *
17884519 GGTTAAGG-TAAACCT-GTCTAAGGAAAAC-TTAAAAA
1 GGTT-GGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
*
17884554 GGTTGGAATAGA
1 GGTTGGGATAGA
17884566 TCTTTGTCTC
Statistics
Matches: 590, Mismatches: 85, Indels: 61
0.80 0.12 0.08
Matches are distributed among these distances:
34 7 0.01
35 178 0.30
36 57 0.10
37 172 0.29
38 169 0.29
39 7 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
GGTTGGGATAGACCTAGTCTAAGGCAACCTTTAAAAA
Found at i:17884893 original size:75 final size:75
Alignment explanation
Indices: 17884755--17884905 Score: 203
Period size: 75 Copynumber: 2.0 Consensus size: 75
17884745 TAGTAATTTA
* * * * *
17884755 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCGAACATGTTGTCGACCTATTTCACATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
*
17884820 ATCCAAAAAT
66 ATCAAAAAAT
* * * * *
17884830 TATACAAAATCCTAATAGAAGCAGTTAACACGTTGCAAACATGATGCCAACTTGTTTCCCATGAA
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
17884895 ATCAAAAAAT
66 ATCAAAAAAT
17884905 T
1 T
17884906 TTGGGACAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGATGCCAACCTATTTCACATGAA
ATCAAAAAAT
Found at i:17885879 original size:10 final size:10
Alignment explanation
Indices: 17885864--17885889 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17885854 ATTGATGTCA
17885864 AAATAAATAT
1 AAATAAATAT
17885874 AAATAAATAT
1 AAATAAATAT
17885884 AAATAA
1 AAATAA
17885890 TACTCATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAAATAT
Found at i:17888454 original size:18 final size:19
Alignment explanation
Indices: 17888431--17888471 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
17888421 ACTTAATCAT
17888431 AGAAAGAATAAGTACCAG-
1 AGAAAGAATAAGTACCAGC
17888449 AGAAAGAATAAGTACCAGC
1 AGAAAGAATAAGTACCAGC
17888468 AGAA
1 AGAA
17888472 GGTAATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.56, C:0.12, G:0.22, T:0.10
Consensus pattern (19 bp):
AGAAAGAATAAGTACCAGC
Found at i:17889053 original size:8 final size:8
Alignment explanation
Indices: 17889040--17889107 Score: 59
Period size: 8 Copynumber: 8.5 Consensus size: 8
17889030 TTCCAGATTT
17889040 TATAAATA
1 TATAAATA
17889048 TATAAATA
1 TATAAATA
*
17889056 TAT--ATG
1 TATAAATA
*
17889062 TAAAAATA
1 TATAAATA
17889070 TATAAATA
1 TATAAATA
*
17889078 TATAAAAGCA
1 TAT-AAA-TA
* *
17889088 TATAATTT
1 TATAAATA
17889096 TATAAATA
1 TATAAATA
17889104 TATA
1 TATA
17889108 TTATAAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
6 4 0.09
8 33 0.72
9 5 0.11
10 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (8 bp):
TATAAATA
Found at i:17889083 original size:18 final size:18
Alignment explanation
Indices: 17889043--17889108 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
17889033 CAGATTTTAT
17889043 AAATATATAAATATATATGTAA
1 AAATATAT-AA-ATATA--TAA
17889065 AAATATATAAATATATAA
1 AAATATATAAATATATAA
** * *
17889083 AAGCATATAATTTTATAA
1 AAATATATAAATATATAA
*
17889101 ATATATAT
1 AAATATAT
17889109 TATAAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 22 0.59
20 5 0.14
21 2 0.05
22 8 0.22
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (18 bp):
AAATATATAAATATATAA
Found at i:17889144 original size:22 final size:22
Alignment explanation
Indices: 17889113--17889160 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
17889103 ATATATTATA
*
17889113 AAAAATTATATATATAAGTTTAC
1 AAAAATTATAT-TATAAATTTAC
*
17889136 AAAAA-TATATTATAAATTTAG
1 AAAAATTATATTATAAATTTAC
17889157 AAAA
1 AAAA
17889161 TATGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
22 5 0.22
23 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
AAAAATTATATTATAAATTTAC
Found at i:17889155 original size:21 final size:23
Alignment explanation
Indices: 17889095--17889160 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
17889085 GCATATAATT
* *
17889095 TTATAAATATATATTATA-AAAAA
1 TTATATATATAAATT-TACAAAAA
*
17889118 TTATATATATAAGTTTACAAAAA
1 TTATATATATAAATTTACAAAAA
*
17889141 -TATAT-TATAAATTTAGAAAA
1 TTATATATATAAATTTACAAAA
17889161 TATGTATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.35
22 7 0.19
23 17 0.46
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (23 bp):
TTATATATATAAATTTACAAAAA
Found at i:17894305 original size:86 final size:87
Alignment explanation
Indices: 17894152--17894310 Score: 223
Period size: 86 Copynumber: 1.8 Consensus size: 87
17894142 TTTTTTGGCT
* * * * * * *
17894152 AACCTTTATACAAAGAGTTGGCTAAAGTGTATGTTGGCAAGTCTATCCCAATACTTAAGAAAGTG
1 AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAATG
17894217 TTGCCTTAAGTATGCATATCCC
66 TTGCCTTAAGTATGCATATCCC
17894239 AACCCTTATACAAAAAGTTGACCAAAG-GTATGTCGGCAAGTCTATCCCAACACTT-AGAAAAAT
1 AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAG-AAAAT
*
17894302 GTTGTCTTA
65 GTTGCCTTA
17894311 GGACTAGACA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 2 0.03
86 38 0.60
87 23 0.37
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (87 bp):
AACCCTTATACAAAAAGTTGACCAAAGTGTATGTCGGCAAGTCTATCCCAACACTTAAGAAAATG
TTGCCTTAAGTATGCATATCCC
Found at i:17894558 original size:140 final size:140
Alignment explanation
Indices: 17894306--17894721 Score: 608
Period size: 140 Copynumber: 3.0 Consensus size: 140
17894296 AAAAATGTTG
* *
17894306 TCTTAGGACTAGACAAAGCCAACTCTTATTTAA-CTGTTGCCTTAGGCATGCATACCCCAACCTT
1 TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGC-GTTGCCTTAGGCATGCATATCCCAACCCT
* * *
17894370 TATACAAAGTGTTGGCCAGAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCACCC
65 TATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
17894435 CAAAAGTGTCA
130 CAAAAGTGTCA
* * *
17894446 TCTTAGGACTACACAAAAGCC-ACTCTTATTTAAGCGTTGCCTAAGGCATACATATCCCAACCCT
1 TCTTAGGACTAGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCT
* * *
17894510 TATACAAAGAGTTGGTCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
65 TATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCC
*
17894575 CAAAAGTGTCG
130 CAAAAGTGTCA
* * *
17894586 TCTTAGGACTAGACAAAGCCAACTTTTATTTAAGTGTTGCCTTAGGCATGCATATCTCAACCCTT
1 TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
* * **
17894651 ATACAAAGAGTTGACCAAAGCGCATGTTGATTAGTCTATCCCAACACTTAGG-AA--GTCGCCCC
66 ATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCC
17894713 AAAAGTGTC
131 AAAAGTGTC
17894722 GTATTAAGAC
Statistics
Matches: 248, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
137 17 0.07
139 8 0.03
140 216 0.87
141 7 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (140 bp):
TCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
ATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCC
AAAAGTGTCA
Found at i:17895191 original size:22 final size:22
Alignment explanation
Indices: 17895166--17895208 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17895156 ATAAGCTCCT
*
17895166 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
*
17895188 TTACATTTAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
17895209 GAATTAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:17895473 original size:51 final size:51
Alignment explanation
Indices: 17895403--17895505 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
17895393 CTTGGTATGA
* *
17895403 ATTTCATGAGTTTATCTTTTATACGATAGTTTTATATTTTATATGTTGTAG
1 ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
* *
17895454 ATTTTATGACTTTATCTTTTATATGATAGTTTTATATTCTATATGTTGTAG
1 ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
17895505 A
1 A
17895506 AATAGTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (51 bp):
ATTTCATGACTTTATCTTTTATACGATAGTTTTATATTCTATATGTTGTAG
Found at i:17895583 original size:18 final size:18
Alignment explanation
Indices: 17895560--17895598 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17895550 TTAATTCTGT
*
17895560 ATAAT-AGCATTATTTAAA
1 ATAATAAGCA-TAATTAAA
17895578 ATAATAAGCATAATTAAA
1 ATAATAAGCATAATTAAA
17895596 ATA
1 ATA
17895599 TATCAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATAAGCATAATTAAA
Found at i:17898642 original size:16 final size:16
Alignment explanation
Indices: 17898600--17898643 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
17898590 TTATTTTTTA
*
17898600 AATATATATTTATAAC
1 AATATAAATTTATAAC
*
17898616 ATATAATAAATTTATAAT
1 A-AT-ATAAATTTATAAC
17898634 AATATAAATT
1 AATATAAATT
17898644 AAACTCAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 8 0.33
17 4 0.17
18 12 0.50
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATAAATTTATAAC
Found at i:17901408 original size:26 final size:26
Alignment explanation
Indices: 17901360--17901428 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
17901350 CCTGTTATAT
*
17901360 GGCTTTTCGTGAGCTTTTCGATTAAA
1 GGCTTTTCGTGAGCTTCTCGATTAAA
* *
17901386 GGCTTTTTGTGAGCTTC-CTGATTAAT
1 GGCTTTTCGTGAGCTTCTC-GATTAAA
*
17901412 GGCTCTTCG-GAGCTTCT
1 GGCTTTTCGTGAGCTTCT
17901429 TGAAATGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 8 0.22
26 28 0.78
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (26 bp):
GGCTTTTCGTGAGCTTCTCGATTAAA
Found at i:17901497 original size:24 final size:24
Alignment explanation
Indices: 17901407--17901512 Score: 74
Period size: 24 Copynumber: 4.4 Consensus size: 24
17901397 AGCTTCCTGA
* *
17901407 TTAATGGCTCTTCGGAGCTTCTTG
1 TTAATGGCTCTTCGAAGCTTCTCG
*
17901431 -AAATGGCTCGCTT-GAA-CTTCTCG
1 TTAATGGCT--CTTCGAAGCTTCTCG
* * * *
17901454 ATATATGGCTATCCGGAGCTTCTCG
1 TTA-ATGGCTCTTCGAAGCTTCTCG
* *
17901479 TTAATGGCTCTTCGAAGCTACCCG
1 TTAATGGCTCTTCGAAGCTTCTCG
*
17901503 TTATTGGCTC
1 TTAATGGCTC
17901513 GCATGAGCTT
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
23 14 0.23
24 30 0.48
25 18 0.29
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
TTAATGGCTCTTCGAAGCTTCTCG
Found at i:17901571 original size:25 final size:25
Alignment explanation
Indices: 17901502--17901587 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
17901492 GAAGCTACCC
*
17901502 GTTAT-TGGCTCGCATGAGCTTCTT
1 GTTATATGGCTCACATGAGCTTCTT
* * *
17901526 GTTATATAGCCTGA-ATAAGCTTCTT
1 GTTATAT-GGCTCACATGAGCTTCTT
* *
17901551 GTTACATGGCTCACATGAGCTTCTC
1 GTTATATGGCTCACATGAGCTTCTT
17901576 GTTATATGGCTC
1 GTTATATGGCTC
17901588 GAGAAAAGGC
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
24 9 0.18
25 37 0.76
26 3 0.06
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (25 bp):
GTTATATGGCTCACATGAGCTTCTT
Found at i:17903647 original size:61 final size:60
Alignment explanation
Indices: 17903576--17903739 Score: 181
Period size: 61 Copynumber: 2.7 Consensus size: 60
17903566 TTTTTAATTG
** *
17903576 GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAATGTTTAGGGCTAAATAT-ATT
1 GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAAT-TGATT
* * * *
17903636 GAATTTTTTAGAATCAGAACTAAAATGACAAGTTTTGTAAACATTAAGGGCTAAATTGGTT
1 GAA-TTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAATTGATT
* * * *
17903697 GAATTTTTAGATTTAG-ACCAAATTGATAGAA-TGTGTAAACATT
1 GAATTTTTAGAATTAGAACTAAATTGACA-AATTTTGTAAACATT
17903740 GGAGGCTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
59 20 0.23
60 16 0.18
61 51 0.59
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (60 bp):
GAATTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAACATTAAGGGCTAAATTGATT
Found at i:17913891 original size:20 final size:20
Alignment explanation
Indices: 17913864--17913975 Score: 93
Period size: 20 Copynumber: 5.5 Consensus size: 20
17913854 AAAATGTATA
17913864 TGATTGCACTTCAGTGCCCC
1 TGATTGCACTTCAGTGCCCC
* *
17913884 TAATTGCACATTC-GTGCCCT
1 TGATTGCAC-TTCAGTGCCCC
* *
17913904 TGATTGTAC-TCTGGTGCCCC
1 TGATTGCACTTC-AGTGCCCC
* * *
17913924 TGATTGCACTCCGGTGCCCT
1 TGATTGCACTTCAGTGCCCC
* *
17913944 TGATTGCACTTTAGTTCCCTC
1 TGATTGCACTTCAGTGCCC-C
*
17913965 TAATTGCACTT
1 TGATTGCACTT
17913976 TTGTGCCCTT
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.03
20 57 0.78
21 14 0.19
ACGTcount: A:0.15, C:0.30, G:0.19, T:0.36
Consensus pattern (20 bp):
TGATTGCACTTCAGTGCCCC
Found at i:17913921 original size:40 final size:39
Alignment explanation
Indices: 17913864--17913996 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 39
17913854 AAAATGTATA
17913864 TGATTGCACT-TCAGTGCCCCTAATTGCACATTCGTGCCCT
1 TGATTGCACTCT-AGTGCCCCTAATTGCAC-TTCGTGCCCT
* * * *
17913904 TGATTGTACTCTGGTGCCCCTGATTGCACTCCGGTGCCCT
1 TGATTGCACTCTAGTGCCCCTAATTGCACTTC-GTGCCCT
* * *
17913944 TGATTGCACTTTAGTTCCCTCTAATTGCACTTTTGTGCCCT
1 TGATTGCACTCTAGTGCCC-CTAATTGCAC-TTCGTGCCCT
*
17913985 TTATTTGCACTC
1 TGA-TTGCACTC
17913997 CCGTGCCTCT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.03
40 46 0.61
41 19 0.25
42 8 0.11
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (39 bp):
TGATTGCACTCTAGTGCCCCTAATTGCACTTCGTGCCCT
Found at i:17913972 original size:21 final size:21
Alignment explanation
Indices: 17913866--17913995 Score: 88
Period size: 20 Copynumber: 6.4 Consensus size: 21
17913856 AATGTATATG
*
17913866 ATTGCACTTCAGTGCCC-CTA
1 ATTGCACTTTAGTGCCCTCTA
* * *
17913886 ATTGCACATTCGTGCCCT-TG
1 ATTGCACTTTAGTGCCCTCTA
* * * *
17913906 ATTGTACTCTGGTGCCC-CTG
1 ATTGCACTTTAGTGCCCTCTA
*** *
17913926 ATTGCACTCCGGTGCCCT-TG
1 ATTGCACTTTAGTGCCCTCTA
*
17913946 ATTGCACTTTAGTTCCCTCTA
1 ATTGCACTTTAGTGCCCTCTA
* *
17913967 ATTGCACTTTTGTGCCCTTTA
1 ATTGCACTTTAGTGCCCTCTA
*
17913988 TTTGCACT
1 ATTGCACT
17913996 CCCGTGCCTC
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
20 61 0.70
21 26 0.30
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (21 bp):
ATTGCACTTTAGTGCCCTCTA
Found at i:17917700 original size:4 final size:4
Alignment explanation
Indices: 17917691--17917730 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
17917681 GACAACTCAT
*
17917691 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAT TAAC
1 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC TAAC
17917731 ATGTGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAC
Found at i:17918804 original size:51 final size:52
Alignment explanation
Indices: 17918726--17918849 Score: 173
Period size: 51 Copynumber: 2.4 Consensus size: 52
17918716 ATACCCTTAA
* *
17918726 TAATTTATAAAAGTAAT--TATTTAAATGGTAATTTCAC-ATTTTCTAATAT
1 TAATTTTTATAAGTAATAATATTTAAATGGTAATTTCACTATTTTCTAATAT
* *
17918775 TAATTTTTATAAGTAATAATATTTAAATGGTAATTTCACTTTTTTTTAATAT
1 TAATTTTTATAAGTAATAATATTTAAATGGTAATTTCACTATTTTCTAATAT
17918827 TAATTTTTTGATAAGTAATAATA
1 TAA-TTTTT-ATAAGTAATAATA
17918850 ATACTTTTTG
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
49 15 0.23
51 20 0.30
52 13 0.20
53 5 0.08
54 13 0.20
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (52 bp):
TAATTTTTATAAGTAATAATATTTAAATGGTAATTTCACTATTTTCTAATAT
Found at i:17919698 original size:18 final size:19
Alignment explanation
Indices: 17919659--17919698 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17919649 GCTTAATTAA
*
17919659 TTTTTAATATTTTTTAATT
1 TTTTTAATATTGTTTAATT
17919678 TTTTATAATATTGTTT-ATT
1 TTTT-TAATATTGTTTAATT
17919697 TT
1 TT
17919699 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTAATATTGTTTAATT
Found at i:17925994 original size:30 final size:31
Alignment explanation
Indices: 17925926--17925994 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
17925916 AATTAAAAAG
17925926 ATAAAAATTAAATCCTCTTACTTTTCTGATT
1 ATAAAAATTAAATCCTCTTACTTTTCTGATT
17925957 ATAAAAATTAAATCCTCTTACTTTTCTGATT
1 ATAAAAATTAAATCCTCTTACTTTTCTGATT
17925988 -TAAAAAT
1 ATAAAAAT
17925995 ATCATTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.43
Consensus pattern (31 bp):
ATAAAAATTAAATCCTCTTACTTTTCTGATT
Found at i:17935987 original size:5 final size:5
Alignment explanation
Indices: 17935977--17936039 Score: 51
Period size: 5 Copynumber: 12.6 Consensus size: 5
17935967 AAGCAAAACG
* *
17935977 AAAGA AAAGAA AAAGA AAACA AAAG- GAAGA AATA-A CAAAGA AAAGA
1 AAAGA AAAG-A AAAGA AAAGA AAAGA AAAGA AA-AGA -AAAGA AAAGA
*
17936023 AAAGA ATA-A AAAGA AAA
1 AAAGA AAAGA AAAGA AAA
17936040 CAAGAACGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
4 6 0.13
5 31 0.67
6 9 0.20
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:17936008 original size:25 final size:24
Alignment explanation
Indices: 17935978--17936039 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
17935968 AGCAAAACGA
17935978 AAGAAAAGAAAAAGAAAACAAAAGG
1 AAGAAAAGAAAAAGAAAACAAAA-G
* *
17936003 AAGAAATA-ACAAAGAAAAGAAAAG
1 AAGAAA-AGAAAAAGAAAACAAAAG
*
17936027 AATAAAAAGAAAA
1 AA-GAAAAGAAAA
17936040 CAAGAACGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 4 0.13
25 25 0.83
26 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (24 bp):
AAGAAAAGAAAAAGAAAACAAAAG
Found at i:17936579 original size:133 final size:134
Alignment explanation
Indices: 17936430--17936806 Score: 471
Period size: 133 Copynumber: 2.8 Consensus size: 134
17936420 GCTTTTTCTT
* * *
17936430 AGAAACGCCGGTAAAGATAACGAATTTGAGGAAAAAATCTGAGTAAAACAGTACCGTTTTGTTGT
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAAC-GTACCGTTTTGTTGT
17936495 TTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATT-GAAT-TAGCGGCGTT
65 TTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCGGCGTT
17936558 -TTCAGG
130 ATT--GG
*
17936564 -GAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTG-GACAAAACGCTACCGTTTTATTG
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAG-CAAAACG-TACCGTTTTGTTG
* * * * * * *
17936627 CTTCATTTTATTTCTTTAATGGCGCATTGTAAAAGACGCC-GCAAATATTGGGATATAGTGGCGT
64 TTTCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCGGCGT
17936691 TATTGG
129 TATTGG
* * *
17936697 AGAAACGCCGGTAAAGATATCTAATTTGAGGAAAAATTTTGAGCAAAACGGTACTGTTTTGTTGT
1 AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAAC-GTACCGTTTTGTTGT
* * * *
17936762 TTCCTTTT-TATGCTTTAGTGGCGAAATGTTAAAAAACGCCGGAAA
65 TTCATTTTAT-TTCTTTAGTGGCGCATTG-TAAAAAACGCCGGAAA
17936807 CGGTTCAGAT
Statistics
Matches: 209, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
132 9 0.04
133 98 0.47
134 85 0.41
135 14 0.07
136 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (134 bp):
AGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTGAGCAAAACGTACCGTTTTGTTGTT
TCATTTTATTTCTTTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGGAATATAGCGGCGTTA
TTGG
Found at i:17937192 original size:21 final size:20
Alignment explanation
Indices: 17937153--17937205 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
17937143 TTTGTGTTCT
*
17937153 GGGCTTAGAGTTTAGGTTTA
1 GGGCTTAGAGTTGAGGTTTA
*
17937173 GGGCTTGGAGATTGAGGTTTA
1 GGGCTTAGAG-TTGAGGTTTA
* *
17937194 AGGTTTAGAGTT
1 GGGCTTAGAGTT
17937206 TACATTTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.21, C:0.04, G:0.38, T:0.38
Consensus pattern (20 bp):
GGGCTTAGAGTTGAGGTTTA
Found at i:17938175 original size:15 final size:14
Alignment explanation
Indices: 17938155--17938202 Score: 69
Period size: 15 Copynumber: 3.3 Consensus size: 14
17938145 GCGTTTTGGA
17938155 TTTAGGGTTTAAGTG
1 TTTAGGGTTT-AGTG
*
17938170 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGTG
17938184 TTTAGGGTTTTAGTG
1 TTTAGGG-TTTAGTG
17938199 TTTA
1 TTTA
17938203 ATTACTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAGTG
Found at i:17938202 original size:7 final size:7
Alignment explanation
Indices: 17938155--17938193 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
17938145 GCGTTTTGGA
17938155 TTTAGGG
1 TTTAGGG
*
17938162 TTTAAGTG
1 TTT-AGGG
17938170 TTTAGGG
1 TTTAGGG
17938177 TTTAGGG
1 TTTAGGG
17938184 TTTAGGG
1 TTTAGGG
17938191 TTT
1 TTT
17938194 TAGTGTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:17941174 original size:39 final size:39
Alignment explanation
Indices: 17941131--17941211 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
17941121 CCAAAAACGC
*
17941131 AATATATTTCGGTTTGCAATACTATATCGTAAATATTAA
1 AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
*
17941170 AATATATTTCAGTTTGCAATACTATATCGTAAATATTTA
1 AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
17941209 AAT
1 AAT
17941212 TTATATTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.42
Consensus pattern (39 bp):
AATATATTTCAGTTTGCAATACTATATCGTAAATATTAA
Found at i:17941471 original size:17 final size:17
Alignment explanation
Indices: 17941451--17941500 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
17941441 TTAATATCTA
17941451 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
17941468 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
17941482 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
17941498 TAT
1 TAT
17941501 TTGTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
16 2 0.07
17 14 0.48
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:17941487 original size:13 final size:13
Alignment explanation
Indices: 17941469--17941496 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17941459 TTCTAAATTT
17941469 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
17941482 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
17941495 AT
1 AT
17941497 TTATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:17941527 original size:15 final size:15
Alignment explanation
Indices: 17941492--17941530 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
17941482 ATAAGTTTTC
*
17941492 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
17941507 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
17941523 TAAATTTA
1 TAAATTTA
17941531 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:17941543 original size:62 final size:61
Alignment explanation
Indices: 17941462--17941611 Score: 210
Period size: 62 Copynumber: 2.4 Consensus size: 61
17941452 ATAAGTTTTC
* *
17941462 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTTGTATTAAAATTTATTAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
** * * *
17941523 TAAATTTACTTCGTTTTCTAAATAGGTGTTCTAAATTTGTTAGTAATAAAATTTATTAGTAT
1 TAAATTTA-TAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
* *
17941585 TAATTTTATAAGTTTTCTACATAAGTT
1 TAAATTTATAAGTTTTCTAAATAAGTT
17941612 ACATAATACA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
61 22 0.29
62 53 0.71
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTAGTAATAAAATTTATTAGTAT
Found at i:17941645 original size:18 final size:16
Alignment explanation
Indices: 17941614--17941664 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
17941604 CATAAGTTAC
**
17941614 ATAATACACCACTTAT
1 ATAATACAAAACTTAT
17941630 ATAACCTACAAAACTTAT
1 ATAA--TACAAAACTTAT
*
17941648 ATAATACATAACTTAT
1 ATAATACAAAACTTAT
17941664 A
1 A
17941665 GTTAAGCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 16 0.53
18 14 0.47
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATACAAAACTTAT
Found at i:17941693 original size:12 final size:12
Alignment explanation
Indices: 17941676--17941733 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
17941666 TTAAGCTTGC
17941676 ATAACTTACATA
1 ATAACTTACATA
17941688 ATAACTTAC---
1 ATAACTTACATA
*
17941697 ATAACTTATAT-
1 ATAACTTACATA
*
17941708 ATAA-TAACATA
1 ATAACTTACATA
*
17941719 ATAAATTACATA
1 ATAACTTACATA
17941731 ATA
1 ATA
17941734 CTTTATGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 8 0.21
10 4 0.11
11 8 0.21
12 18 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:17941766 original size:95 final size:95
Alignment explanation
Indices: 17941647--17941819 Score: 312
Period size: 95 Copynumber: 1.8 Consensus size: 95
17941637 ACAAAACTTA
*
17941647 TATAATACATAACTTATAGTTAAGCTTGCATAACTTACATAATAACTTACATAACTTATATATAA
1 TATAATACATAACTTATAGTTAAGCTTGCATAACTTACATAATAACTTACATAACTTACATATAA
17941712 TAACATAATAAATTACATAATACTTTATGT
66 TAACATAATAAATTACATAATACTTTATGT
*
17941742 TATAATACATAACTTGTA-TATAAGCTTGCATAACTTACATAATAACTTACATAACTTACATATA
1 TATAATACATAACTTATAGT-TAAGCTTGCATAACTTACATAATAACTTACATAACTTACATATA
17941806 ATAACATAATAAAT
65 ATAACATAATAAAT
17941820 GGGTTCGTAA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
94 1 0.01
95 74 0.99
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (95 bp):
TATAATACATAACTTATAGTTAAGCTTGCATAACTTACATAATAACTTACATAACTTACATATAA
TAACATAATAAATTACATAATACTTTATGT
Found at i:17941786 original size:12 final size:12
Alignment explanation
Indices: 17941771--17941795 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17941761 ATAAGCTTGC
17941771 ATAACTTACATA
1 ATAACTTACATA
17941783 ATAACTTACATA
1 ATAACTTACATA
17941795 A
1 A
17941796 CTTACATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:17941841 original size:95 final size:92
Alignment explanation
Indices: 17941644--17941849 Score: 297
Period size: 95 Copynumber: 2.2 Consensus size: 92
17941634 CCTACAAAAC
*
17941644 TTATATAATACATAACTTATAGTTAAGCTTGCATAACTTACATAATAACTTACATAACTTATATA
1 TTATATAATACATAACTTATAGTTAAGCTTGCATAACTTACATAATAACTTACATAACTTACATA
17941709 TAATAACATAATAAATTACATAATACT
66 TAATAACATAATAAATTACATAATACT
*
17941736 TTATGTTATAATACATAACTTGTA-TATAAGCTTGCATAACTTACATAATAACTTACATAACTTA
1 TTA---TATAATACATAACTTATAGT-TAAGCTTGCATAACTTACATAATAACTTACATAACTTA
* *
17941800 CATATAATAACATAATAAATGGGTTCGTAATACT
62 CATATAATAACATAATAAAT---TACATAATACT
17941834 TTATATAATAACATAA
1 TTATATAAT-ACATAA
17941850 TAACTTAAAT
Statistics
Matches: 102, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
92 3 0.03
94 1 0.01
95 80 0.78
96 6 0.06
98 12 0.12
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (92 bp):
TTATATAATACATAACTTATAGTTAAGCTTGCATAACTTACATAATAACTTACATAACTTACATA
TAATAACATAATAAATTACATAATACT
Found at i:17941952 original size:18 final size:17
Alignment explanation
Indices: 17941929--17942351 Score: 367
Period size: 18 Copynumber: 24.5 Consensus size: 17
17941919 CATATATAGA
17941929 AACTTACATAAATTAATT
1 AACTTACATAAATTAA-T
*
17941947 AACTTACATAACTTACAT
1 AACTTACATAAATTA-AT
*
17941965 AAATTACATAAATTAAAT
1 AACTTACATAAATT-AAT
*
17941983 AACTTACATAACTTACAT
1 AACTTACATAAATTA-AT
17942001 AACTTACATAAATTAAAT
1 AACTTACATAAATT-AAT
17942019 AACTTAC--------AT
1 AACTTACATAAATTAAT
*
17942028 AACTTACATGAATTGAAT
1 AACTTACATAAATT-AAT
*
17942046 AACTTACATAAACTAAAT
1 AACTTACATAAA-TTAAT
17942064 AACTTACATAAATTAAAT
1 AACTTACATAAATT-AAT
17942082 AACTTACATAAATTGAAT
1 AACTTACATAAATT-AAT
*
17942100 AACTTACATAACTTACAT
1 AACTTACATAAATTA-AT
* * *
17942118 AAATTAAATAACTTACAT
1 AACTTACATAAATTA-AT
17942136 AACTTACATAAATTACAT
1 AACTTACATAAATTA-AT
* * *
17942154 AAATTGA-ATGACTTACAT
1 AACTT-ACATAAATTA-AT
17942172 AACTTACATAAATTAAAT
1 AACTTACATAAATT-AAT
17942190 AACTTACATAAATTGAAT
1 AACTTACATAAATT-AAT
17942208 AACTTAC--------AT
1 AACTTACATAAATTAAT
17942217 AACTTACATAAATTAAAT
1 AACTTACATAAATT-AAT
17942235 AACTTACATAAATTAAAT
1 AACTTACATAAATT-AAT
* *
17942253 AACTTAAATAACTTACAT
1 AACTTACATAAATTA-AT
17942271 AACTTACATAAATTAAAT
1 AACTTACATAAATT-AAT
*
17942289 AACTTACATAACTTACAT
1 AACTTACATAAATTA-AT
17942307 AACTTACATAAATTAAAT
1 AACTTACATAAATT-AAT
**
17942325 AACTTACATAACCTACAT
1 AACTTACATAAATTA-AT
17942343 AACTTACAT
1 AACTTACAT
17942352 TATACATAAC
Statistics
Matches: 341, Mismatches: 31, Indels: 66
0.78 0.07 0.15
Matches are distributed among these distances:
9 18 0.05
17 7 0.02
18 308 0.90
19 8 0.02
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (17 bp):
AACTTACATAAATTAAT
Found at i:17941959 original size:27 final size:26
Alignment explanation
Indices: 17941929--17942493 Score: 371
Period size: 27 Copynumber: 21.5 Consensus size: 26
17941919 CATATATAGA
17941929 AACTTACATAAATTAATTAACTTACAT
1 AACTTACATAAATTAA-TAACTTACAT
* *
17941956 AACTTACATAAATTACATAAATTAAAT
1 AACTTACATAAATTA-ATAACTTACAT
*
17941983 AACTTACATAACTTACATAACTTACAT
1 AACTTACATAAATTA-ATAACTTACAT
* * *
17942010 AAATTAAATAACTTACATAACTTACAT
1 AACTTACATAAATTA-ATAACTTACAT
* *
17942037 GAA-TTGA-ATAACTTACATAAAC-TAAAT
1 -AACTT-ACATAAATTA-AT-AACTTACAT
17942064 AACTTACATAAATTAAATAACTTACAT
1 AACTTACATAAATT-AATAACTTACAT
* *
17942091 AAATTGA-ATAACTTACATAACTTACAT
1 AACTT-ACATAAATTA-ATAACTTACAT
* * *
17942118 AAATTAAATAACTTACATAACTTACAT
1 AACTTACATAAATTA-ATAACTTACAT
* *
17942145 AAATTACATAAATTGAATGACTTACAT
1 AACTTACATAAATT-AATAACTTACAT
17942172 AACTTACATAAATTAAATAACTTACAT
1 AACTTACATAAATT-AATAACTTACAT
* *
17942199 AAATTGA-ATAACTTACATAACTTACAT
1 AACTT-ACATAAATTA-ATAACTTACAT
* * * * *
17942226 AAATTAAATAACTTACATAAATTAAAT
1 AACTTACATAAATTA-ATAACTTACAT
* *
17942253 AACTTAAATAACTTACATAACTTACAT
1 AACTTACATAAATTA-ATAACTTACAT
* * *
17942280 AAATTAAATAACTTACATAACTTACAT
1 AACTTACATAAATTA-ATAACTTACAT
17942307 AACTTACATAAATTAAATAACTTACAT
1 AACTTACATAAATT-AATAACTTACAT
* * *
17942334 AACCTACATAACTTACATTA--TACAT
1 AACTTACATAAATTA-ATAACTTACAT
* * * *
17942359 AACCTT-CTTAACTTACATTA--TACAC
1 AA-CTTACATAAATTA-ATAACTTACAT
* * *
17942384 AACTCACAT-AATTAAT-ATTATACAC
1 AACTTACATAAATTAATAACT-TACAT
17942409 AACTTACAT-AA-TACATAACTTACAT
1 AACTTACATAAATTA-ATAACTTACAT
* * *
17942434 TACTTACATTACTTACAGT-ACTTACAT
1 AACTTACATAAATTA-A-TAACTTACAT
17942461 AA--TACAT-AA-TACATAACTTACAT
1 AACTTACATAAATTA-ATAACTTACAT
17942484 AA--TACATAAA
1 AACTTACATAAA
17942494 AATATATCAT
Statistics
Matches: 464, Mismatches: 45, Indels: 61
0.81 0.08 0.11
Matches are distributed among these distances:
22 2 0.00
23 21 0.05
24 11 0.02
25 62 0.13
26 16 0.03
27 339 0.73
28 13 0.03
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.33
Consensus pattern (26 bp):
AACTTACATAAATTAATAACTTACAT
Found at i:17941972 original size:36 final size:35
Alignment explanation
Indices: 17941932--17942493 Score: 449
Period size: 36 Copynumber: 16.3 Consensus size: 35
17941922 ATATAGAAAC
17941932 TTACATAAATTAATTAACTTACATAACTTACATAAA
1 TTACATAAATTAA-TAACTTACATAACTTACATAAA
*
17941968 TTACATAAATTAAATAACTTACATAACTTACATAAC
1 TTACATAAATT-AATAACTTACATAACTTACATAAA
*
17942004 TTACATAAATTAAATAACTTACATAACTTACATGAA
1 TTACATAAATT-AATAACTTACATAACTTACATAAA
* *
17942040 TTGA-ATAACTTACATAAAC-TAAATAACTTACATAAA
1 TT-ACATAAATTA-AT-AACTTACATAACTTACATAAA
* * * *
17942076 TTAAATAACTTACATAAATTGA-ATAACTTACATAAC
1 TTACATAAATTA-ATAACTT-ACATAACTTACATAAA
17942112 TTACATAAATTAAATAACTTACATAACTTACATAAA
1 TTACATAAATT-AATAACTTACATAACTTACATAAA
*
17942148 TTACATAAATTGAATGACTTACATAACTTACATAAA
1 TTACATAAATT-AATAACTTACATAACTTACATAAA
* * * *
17942184 TTAAATAACTTACATAAATTGA-ATAACTTACATAAC
1 TTACATAAATTA-ATAACTT-ACATAACTTACATAAA
17942220 TTACATAAA-T--T-A---A-ATAACTTACATAAA
1 TTACATAAATTAATAACTTACATAACTTACATAAA
* *
17942247 TTAAATAACTTAAATAACTTACATAACTTACATAAA
1 TTACATAAATT-AATAACTTACATAACTTACATAAA
* *
17942283 TTAAATAACTTACATAACTTACATAACTTACATAAA
1 TTACATAAATTA-ATAACTTACATAACTTACATAAA
* * * *
17942319 TTAAATAACTTACATAACCTACATAACTTACAT-TA
1 TTACATAAATTA-ATAACTTACATAACTTACATAAA
* ** * * *
17942354 -TACATAACCTTCTTAACTTACATTA--TACACAAC
1 TTACATAA-ATTAATAACTTACATAACTTACATAAA
* * *
17942387 TCACAT-AATTAAT-ATTATACACAACTTACAT-AA
1 TTACATAAATTAATAACT-TACATAACTTACATAAA
* * * *
17942420 -TACATAACTTACATTACTTACATTACTTACAGT-AC
1 TTACATAAATTA-ATAACTTACATAACTTACA-TAAA
17942455 TTACAT-AA-TACATAA--TACATAACTTACAT-AA
1 TTACATAAATTA-ATAACTTACATAACTTACATAAA
17942486 -TACATAAA
1 TTACATAAA
17942494 AATATATCAT
Statistics
Matches: 440, Mismatches: 53, Indels: 71
0.78 0.09 0.13
Matches are distributed among these distances:
27 21 0.05
28 1 0.00
30 5 0.01
31 8 0.02
32 30 0.07
33 6 0.01
34 43 0.10
35 18 0.04
36 299 0.68
37 9 0.02
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.33
Consensus pattern (35 bp):
TTACATAAATTAATAACTTACATAACTTACATAAA
Found at i:17942424 original size:66 final size:65
Alignment explanation
Indices: 17942266--17942492 Score: 201
Period size: 66 Copynumber: 3.4 Consensus size: 65
17942256 TTAAATAACT
* * * * * * *
17942266 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTA
1 TACATAACTTACAT-AA-TACATAACTTACATTACTTACATTAC-TACACAACTCACATAA--TA
17942331 CATAA
61 CATAA
*
17942336 CCTACATAACTTACATTATACATAACCTT-C-TTAACTTACATTA-TACACAACTCACATAATTA
1 --TACATAACTTACATAATACATAA-CTTACATT-ACTTACATTACTACACAACTCACATAA-TA
17942398 -ATATTA
61 CATA--A
* ** *
17942404 TACACAACTTACATAATACATAACTTACATTACTTACATTACTTACAGTACTTACATAATACATA
1 TACATAACTTACATAATACATAACTTACATTACTTACATTAC-TACACAACTCACATAATACATA
17942469 A
65 A
17942470 TACATAACTTACATAATACATAA
1 TACATAACTTACATAATACATAA
17942493 AAATATATCA
Statistics
Matches: 132, Mismatches: 14, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
65 3 0.02
66 58 0.44
67 7 0.05
68 29 0.22
69 1 0.01
70 16 0.12
71 4 0.03
72 14 0.11
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.33
Consensus pattern (65 bp):
TACATAACTTACATAATACATAACTTACATTACTTACATTACTACACAACTCACATAATACATAA
Found at i:17942447 original size:18 final size:18
Alignment explanation
Indices: 17942420--17942482 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
17942410 ACTTACATAA
*
17942420 TACATAACTTACATTACT
1 TACATAACTTACAGTACT
*
17942438 TACATTACTTACAGTACT
1 TACATAACTTACAGTACT
*
17942456 TACATAA--TACA-TA-A
1 TACATAACTTACAGTACT
17942470 TACATAACTTACA
1 TACATAACTTACA
17942483 TAATACATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 7 0.18
15 2 0.05
16 8 0.21
18 22 0.56
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.35
Consensus pattern (18 bp):
TACATAACTTACAGTACT
Found at i:17942468 original size:7 final size:7
Alignment explanation
Indices: 17942456--17942492 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
17942446 TTACAGTACT
17942456 TACATAA
1 TACATAA
17942463 TACATAA
1 TACATAA
17942470 TACATAA
1 TACATAA
17942477 CTTACATAA
1 --TACATAA
17942486 TACATAA
1 TACATAA
17942493 AAATATATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:17942479 original size:23 final size:22
Alignment explanation
Indices: 17942413--17942492 Score: 55
Period size: 23 Copynumber: 3.6 Consensus size: 22
17942403 ATACACAACT
17942413 TACATAATACATAACTTACAT-
1 TACATAATACATAACTTACATA
*
17942434 TAC-T--TACATTACTTACAGTA
1 TACATAATACATAACTTACA-TA
17942454 CTTACATAATACATAA--TACATAA
1 --TACATAATACATAACTTACAT-A
17942477 CTTACATAATACATAA
1 --TACATAATACATAA
17942493 AAATATATCA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
18 12 0.24
19 1 0.02
20 1 0.02
21 3 0.06
22 4 0.08
23 22 0.45
25 6 0.12
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (22 bp):
TACATAATACATAACTTACATA
Found at i:17948322 original size:21 final size:21
Alignment explanation
Indices: 17948296--17948346 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
17948286 CTATAACTTA
* *
17948296 AAGCAGATGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
17948317 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
17948338 AAGCAGAGG
1 AAGCAGAGG
17948347 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:17948966 original size:42 final size:42
Alignment explanation
Indices: 17948732--17948968 Score: 309
Period size: 42 Copynumber: 5.6 Consensus size: 42
17948722 GTAAAAAAGT
*
17948732 GCCGCTAAAGAACATGTTCTTTAGAGGCGCTT-AGAAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAG-AAAAAAC
** * *
17948774 GCCGCTAAAGAACATGTTCTTTAGCGATGCTCATATAAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGAAAAAAC
* *
17948817 ACCGCTAAAGAACATGTTCTTTAGAGGCGCTTAA-AAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGAAAAAAC
* * * *
17948858 GCCGCTAAAGAACATTTTCTTTAGTGGCGCTTAAGGAAAAAT
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGAAAAAAC
* *
17948900 GCCGCTAAAGAACATGATCTTTAGCGGCGCTTAAGGAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGAAAAAAC
17948942 GCCGCTAAAGATA-ATGTTCTTTAGCGG
1 GCCGCTAAAGA-ACATGTTCTTTAGCGG
17948969 TGTTTTTAGT
Statistics
Matches: 171, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
41 38 0.22
42 96 0.56
43 36 0.21
44 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (42 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGAAAAAAC
Found at i:17954302 original size:42 final size:41
Alignment explanation
Indices: 17954204--17954324 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 41
17954194 ATTTACAAAC
* * * * * *
17954204 AAAAACACCGCTAAAGACCATGATCTTTAGCGGTGCTTAAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGTTTAAA
*
17954245 AAAAACGCTGCTAAAGAACATGTTCTTTAGAGGCGTTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGTTTA-AA
* *
17954287 AAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGTTT
17954325 TTTCTTAACC
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 32 0.46
42 37 0.54
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGTTTAAA
Found at i:17954338 original size:42 final size:41
Alignment explanation
Indices: 17954292--17954494 Score: 262
Period size: 42 Copynumber: 4.9 Consensus size: 41
17954282 TAGAAAAAAA
* * *
17954292 CGCCGCTAAAGATCATGTTCTTTAGTGGCGTTTTTTCTTAAC
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTC-TAAC
* *
17954334 CGCCGCTAAAGAAGATGGTCTTTAGCGGCATTTTTTCTTAAC
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTC-TAAC
* * * *
17954376 CGCCGCTAAAGAAGATGGTCTTTAGCAGCGTTTCTTACTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTCTAAC
* *
17954418 CACCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTCTAAC
*
17954460 CGCCGCTAAAGAACATAGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
17954495 ATACAAAAAC
Statistics
Matches: 145, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
41 2 0.01
42 140 0.97
43 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAC
Found at i:17954407 original size:126 final size:126
Alignment explanation
Indices: 17954254--17954494 Score: 306
Period size: 126 Copynumber: 1.9 Consensus size: 126
17954244 AAAAAACGCT
* * * * *
17954254 GCTAAAGAACATGTTCTTTAGAGGCGTTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGTG
1 GCTAAAGAACATGGTCTTTAGAGGCGTTTAGAAAAAAACACCGCTAAAGAACATGGTCTTTAGCG
* *
17954319 GCGTTT-TTTCTTAACCGCCGCTAAAGAAGATGGTCTTTAGCGGCATTTTTTCTTAACCGCC
66 GCGTTTCTTTC-TAACCGCCGCTAAAGAACATAGTCTTTAGCGGCATTTTTTCTTAACCGCC
* *** ** *
17954380 GCTAAAGAAGATGGTCTTTAGCA-GCGTTTCTTACTAAGCACCGCTAAAGAACATGGTCTTTAGC
1 GCTAAAGAACATGGTCTTTAG-AGGCGTTTAGAAAAAAACACCGCTAAAGAACATGGTCTTTAGC
* *
17954444 GGCGTTTCTTTCTAAGCGCCGCTAAAGAACATAGTCTTTAGCGGCGTTTTT
65 GGCGTTTCTTTCTAACCGCCGCTAAAGAACATAGTCTTTAGCGGCATTTTT
17954495 ATACAAAAAC
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
126 92 0.95
127 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (126 bp):
GCTAAAGAACATGGTCTTTAGAGGCGTTTAGAAAAAAACACCGCTAAAGAACATGGTCTTTAGCG
GCGTTTCTTTCTAACCGCCGCTAAAGAACATAGTCTTTAGCGGCATTTTTTCTTAACCGCC
Found at i:17954843 original size:21 final size:21
Alignment explanation
Indices: 17954809--17954858 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
17954799 TTATACTCTG
* *
17954809 CTCTGCTTCTCTCGTTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
17954830 CTCTGTTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTAGC
17954851 CTCTGCTT
1 CTCTGCTT
17954859 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.38, G:0.18, T:0.42
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:17960375 original size:16 final size:16
Alignment explanation
Indices: 17960354--17960687 Score: 191
Period size: 16 Copynumber: 20.5 Consensus size: 16
17960344 TGATATATAT
* *
17960354 TTATGTATTAGGTAAA
1 TTATGTATTATGTAAG
17960370 TTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAG
17960388 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
17960404 TTATGTATAATATTAATTAAG
1 TTATGTAT--TA-T--GTAAG
*
17960425 TTGTGTATTATGTAAG
1 TTATGTATTATGTAAG
*
17960441 TTATGTATTATGTAAT
1 TTATGTATTATGTAAG
17960457 TTATGTAAGTTATGT-A-
1 TTATGT-A-TTATGTAAG
17960473 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
**
17960487 TTATGTATTATGTATT
1 TTATGTATTATGTAAG
17960503 TTATGTATAATATTAAGTAAG
1 TTATGTAT--TA-T--GTAAG
*
17960524 TTGTGTATTATGT-A-
1 TTATGTATTATGTAAG
*
17960538 TTATGTATGTTATGTATAA
1 TTATGTA--TTATGTA-AG
*
17960557 CT-TGTA--AT-TAAG
1 TTATGTATTATGTAAG
*
17960569 TTATGTATAATATTAATTAAG
1 TTATGTAT--TA-T--GTAAG
*
17960590 TTGTGTATTATGTAAG
1 TTATGTATTATGTAAG
17960606 TTATGTATTATGT-A-
1 TTATGTATTATGTAAG
*
17960620 TTATGTATTATGTATG
1 TTATGTATTATGTAAG
17960636 TTATGTATAATAT-TAA-
1 TTATGTAT--TATGTAAG
*
17960652 TTAAG--TTATGT-A-
1 TTATGTATTATGTAAG
*
17960664 TTATGTATTATGTATG
1 TTATGTATTATGTAAG
17960680 TTATGTAT
1 TTATGTAT
17960688 AATATTAATT
Statistics
Matches: 256, Mismatches: 23, Indels: 78
0.72 0.06 0.22
Matches are distributed among these distances:
12 10 0.04
13 7 0.03
14 48 0.19
15 3 0.01
16 105 0.41
17 7 0.03
18 35 0.14
19 9 0.04
21 32 0.12
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:17960382 original size:9 final size:9
Alignment explanation
Indices: 17960365--17960472 Score: 95
Period size: 9 Copynumber: 12.3 Consensus size: 9
17960355 TATGTATTAG
*
17960365 GTAAATTAT
1 GTAAGTTAT
17960374 GTAAGTTAT
1 GTAAGTTAT
17960383 GTAAGTTAT
1 GTAAGTTAT
17960392 GT-A-TTAT
1 GTAAGTTAT
17960399 GTAAGTTAT
1 GTAAGTTAT
*
17960408 GTATAATATTAAT
1 G--TAA-GTT-AT
*
17960421 -TAAGTTGT
1 GTAAGTTAT
17960429 GT-A-TTAT
1 GTAAGTTAT
17960436 GTAAGTTAT
1 GTAAGTTAT
17960445 GT-A-TTAT
1 GTAAGTTAT
*
17960452 GTAATTTAT
1 GTAAGTTAT
17960461 GTAAGTTAT
1 GTAAGTTAT
17960470 GTA
1 GTA
17960473 TTATGTATTA
Statistics
Matches: 82, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
7 17 0.21
8 7 0.09
9 48 0.59
10 3 0.04
11 3 0.04
12 2 0.02
13 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17960508 original size:9 final size:7
Alignment explanation
Indices: 17960354--17960678 Score: 137
Period size: 7 Copynumber: 42.1 Consensus size: 7
17960344 TGATATATAT
17960354 TTATGTA
1 TTATGTA
*
17960361 TTAGGTAAA
1 TTATGT--A
17960370 TTATGTAA
1 TTATGT-A
17960378 GTTATGTAA
1 -TTATGT-A
17960387 GTTATGTA
1 -TTATGTA
17960395 TTATGTAA
1 TTATGT-A
17960403 GTTATGTA
1 -TTATGTA
*
17960411 -TA-ATA
1 TTATGTA
17960416 TTAAT-TAA
1 TT-ATGT-A
*
17960424 GTTGTGTA
1 -TTATGTA
17960432 TTATGTAA
1 TTATGT-A
17960440 GTTATGTA
1 -TTATGTA
17960448 TTATGTAA
1 TTATGT-A
17960456 TTTATGTAA
1 -TTATGT-A
17960465 GTTATGTA
1 -TTATGTA
17960473 TTATGTA
1 TTATGTA
17960480 TTATGTA
1 TTATGTA
17960487 TTATGTA
1 TTATGTA
17960494 TTATGTA
1 TTATGTA
17960501 TT-T-TA
1 TTATGTA
*
17960506 TGTATAATA
1 T-TAT-GTA
*
17960515 TTAAGTAA
1 TTATGT-A
*
17960523 GTTGTGTA
1 -TTATGTA
17960531 TTATGTA
1 TTATGTA
17960538 TTATGTA
1 TTATGTA
17960545 TGTTATGTA
1 --TTATGTA
*
17960554 TAACTTGTAA
1 TTA--TGT-A
*
17960564 TTAAGTTA
1 TTATG-TA
*
17960572 TGTATAATA
1 T-TAT-GTA
17960581 TTAAT-TAA
1 TT-ATGT-A
*
17960589 GTTGTGTA
1 -TTATGTA
17960597 TTATGTAA
1 TTATGT-A
17960605 GTTATGTA
1 -TTATGTA
17960613 TTATGTA
1 TTATGTA
17960620 TTATGTA
1 TTATGTA
17960627 TTATGTA
1 TTATGTA
17960634 TGTTATGTA
1 --TTATGTA
*
17960643 -TA-ATA
1 TTATGTA
17960648 TTAAT-TAA
1 TT-ATGT-A
17960656 GTTATGTA
1 -TTATGTA
17960664 TTATGTA
1 TTATGTA
17960671 TTATGTA
1 TTATGTA
17960678 T
1 T
17960679 GTTATGTATA
Statistics
Matches: 256, Mismatches: 19, Indels: 86
0.71 0.05 0.24
Matches are distributed among these distances:
5 7 0.03
6 8 0.03
7 115 0.45
8 29 0.11
9 94 0.37
10 3 0.01
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (7 bp):
TTATGTA
Found at i:17960572 original size:22 final size:21
Alignment explanation
Indices: 17960503--17960708 Score: 136
Period size: 21 Copynumber: 9.4 Consensus size: 21
17960493 ATTATGTATT
*
17960503 TTATGTATAATATTAAGTAAG
1 TTATGTATAATATTAATTAAG
* * *
17960524 TTGTGTATTATGTATT-ATGTATG
1 TTATGTA-TA-ATATTAAT-TAAG
17960547 TTATGTATAACT-TGTAATTAAG
1 TTATGTATAA-TAT-TAATTAAG
17960569 TTATGTATAATATTAATTAAG
1 TTATGTATAATATTAATTAAG
* *
17960590 TTGTGTAT--TATGTAAGTTATG
1 TTATGTATAATAT-TAA-TTAAG
* *
17960611 TATTATGTATTATGTATT-ATGTATG
1 --TTATGTA-TA-ATATTAAT-TAAG
17960636 TTATGTATAATATTAATTAAG
1 TTATGTATAATATTAATTAAG
* *
17960657 TTATGTATTATGTATT-ATGTATG
1 TTATGTA-TA-ATATTAAT-TAAG
17960680 TTATGTATAATATTAATTAAG
1 TTATGTATAATATTAATTAAG
*
17960701 TTGTGTAT
1 TTATGTAT
17960709 TATGTATTAT
Statistics
Matches: 147, Mismatches: 17, Indels: 42
0.71 0.08 0.20
Matches are distributed among these distances:
19 3 0.02
20 3 0.02
21 55 0.37
22 33 0.22
23 42 0.29
24 2 0.01
25 5 0.03
26 1 0.01
27 3 0.02
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (21 bp):
TTATGTATAATATTAATTAAG
Found at i:17960583 original size:133 final size:132
Alignment explanation
Indices: 17960457--17960708 Score: 402
Period size: 133 Copynumber: 1.9 Consensus size: 132
17960447 ATTATGTAAT
*
17960457 TTATGTAAGTTATGT-A-TTATGTATTATGTATTATGTATTATGTATTTTATGTATAATATTAAG
1 TTATGT-A-TTATGTAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATAATATTAAG
*
17960520 TAAGTTGTGTATTATGTATTATGTATGTTATGTATAACT-TGTAATTAAGTTATGTATAATATTA
64 TAAGTTATGTATTATGTATTATGTATGTTATGTATAA-TAT-TAATTAAGTTATGTATAATATTA
17960584 ATTAAG
127 ATTAAG
* *
17960590 TTGTGTATTATGTAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATAATATTAATTA
1 TTATGTATTATGTAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATAATATTAAGTA
*
17960655 AGTTATGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTAT
66 AGTTATGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGTTATGTAT
17960709 TATGTATTAT
Statistics
Matches: 111, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
131 6 0.05
132 18 0.16
133 87 0.78
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.52
Consensus pattern (132 bp):
TTATGTATTATGTAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATAATATTAAGTA
AGTTATGTATTATGTATTATGTATGTTATGTATAATATTAATTAAGTTATGTATAATATTAATTA
AG
Found at i:17960650 original size:51 final size:49
Alignment explanation
Indices: 17960430--17960627 Score: 64
Period size: 51 Copynumber: 4.0 Consensus size: 49
17960420 TTAAGTTGTG
17960430 TATTATGTAAGTTATGTATTATGTAATTTATGTAAGTTATGTA--TTATGTAT-
1 TATTAT-TAAGTTATGTATTATGT-A-TTATGT-A-TTATGTATGTTATGTATA
* * * * *
17960481 TATGTATTATGTATTATGTATT-T-TATGTATAATATTAAGTAAGTTGTGTAT-
1 TAT-TATTAAG--TTATGTATTATGTAT-TAT-GTATTATGTATGTTATGTATA
* * *
17960532 TATGTATTATG-TATG--TTATGTATAACTTGTA--AT-TAAGTTATGTATAA
1 TAT-TATTAAGTTATGTATTATGTATTA--TGTATTATGTATGTTATGTAT-A
*
17960579 TATTAATTAAGTTGTGTATTATGTAAGTTATGTATTATGTA--TTATGTAT
1 TATT-ATTAAGTTATGTATTATGT-A-TTATGTATTATGTATGTTATGTAT
17960628 TATGTATGTT
Statistics
Matches: 114, Mismatches: 11, Indels: 44
0.67 0.07 0.26
Matches are distributed among these distances:
45 11 0.10
46 4 0.04
47 10 0.09
48 12 0.11
49 8 0.07
50 15 0.13
51 35 0.31
52 8 0.07
53 11 0.10
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.52
Consensus pattern (49 bp):
TATTATTAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATA
Found at i:17960657 original size:51 final size:51
Alignment explanation
Indices: 17960602--17960719 Score: 178
Period size: 44 Copynumber: 2.5 Consensus size: 51
17960592 GTGTATTATG
17960602 TAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATAATATTAAT
1 TAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATAATATTAAT
17960653 T-A---A-G--TTATGTATTATGTATTATGTATGTTATGTATAATATTAAT
1 TAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATAATATTAAT
*
17960697 TAAGTTGTGTATTATGTATTATG
1 TAAGTTATGTATTATGTATTATG
17960720 CAAGTTTTAT
Statistics
Matches: 59, Mismatches: 1, Indels: 14
0.80 0.01 0.19
Matches are distributed among these distances:
44 41 0.69
45 1 0.02
46 1 0.02
47 1 0.02
49 1 0.02
50 1 0.02
51 13 0.22
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (51 bp):
TAAGTTATGTATTATGTATTATGTATTATGTATGTTATGTATAATATTAAT
Found at i:17960719 original size:44 final size:44
Alignment explanation
Indices: 17960375--17960620 Score: 122
Period size: 44 Copynumber: 5.8 Consensus size: 44
17960365 GTAAATTATG
*
17960375 TAAGTTATGTAAGTTATGTATTATGTAAGTTATGTATAATATTAAT
1 TAAGTTATGT-A-TTATGTATTATGTATGTTATGTATAATATTAAT
*
17960421 TAAGTTGTGTATTATGTAAGTTATGTA--TTATG--TAAT-TT-AT
1 TAAGTTATGTATTATGT-A-TTATGTATGTTATGTATAATATTAAT
17960461 GTAAGTTATGTATTATGTATTATGTA--TTATGTAT--TATGT-AT
1 -TAAGTTATGTATTATGTATTATGTATGTTATGTATAATAT-TAAT
* * * * *
17960502 T---TTATGTA-TA-ATATTAAGTAAGTTGTGTATTATGTATT-AT
1 TAAGTTATGTATTATGTATTATGTATGTTATGTA-TA-ATATTAAT
* * *
17960542 GTATGTTATGTATAACTTGTA--AT-TAAGTTATGTATAATATTAAT
1 -TAAGTTATGTATTA--TGTATTATGTATGTTATGTATAATATTAAT
*
17960586 TAAGTTGTGTATTATGTAAGTTATGTA--TTATGTAT
1 TAAGTTATGTATTATGT-A-TTATGTATGTTATGTAT
17960621 TATGTATTAT
Statistics
Matches: 160, Mismatches: 13, Indels: 56
0.70 0.06 0.24
Matches are distributed among these distances:
35 8 0.05
36 2 0.01
37 13 0.08
38 1 0.01
39 13 0.08
40 8 0.05
41 29 0.18
42 5 0.03
43 15 0.09
44 30 0.19
45 15 0.09
46 19 0.12
48 2 0.01
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (44 bp):
TAAGTTATGTATTATGTATTATGTATGTTATGTATAATATTAAT
Found at i:17961285 original size:18 final size:18
Alignment explanation
Indices: 17961262--17961352 Score: 107
Period size: 18 Copynumber: 4.9 Consensus size: 18
17961252 AGCTAATTTT
17961262 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
17961280 TATTTAAGTAATGTAAGTTA
1 TATTTAAGTAATGTAA--TA
17961300 TAAACTTT-AGTAA-GTAATA
1 T--A-TTTAAGTAATGTAATA
17961319 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
*
17961337 TATTTTAGTAA-GTAAT
1 TATTTAAGTAATGTAAT
17961353 GTAAGTAATG
Statistics
Matches: 65, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
16 3 0.05
17 11 0.17
18 32 0.49
19 3 0.05
20 3 0.05
21 4 0.06
22 6 0.09
23 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (18 bp):
TATTTAAGTAATGTAATA
Found at i:17961351 original size:39 final size:40
Alignment explanation
Indices: 17961264--17961338 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
17961254 CTAATTTTTA
17961264 TTTAAGTAATGTAATATATTTAAGTAATGTAAGTTATAAAC
1 TTTAAGTAATGTAATATATTTAAGTAATGTAAG-TATAAAC
17961305 TTT-AGTAA-GTAATATATTTAAGTAATGTAA-TATA
1 TTTAAGTAATGTAATATATTTAAGTAATGTAAGTATA
17961339 TTTTAGTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
37 4 0.12
39 22 0.65
40 5 0.15
41 3 0.09
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (40 bp):
TTTAAGTAATGTAATATATTTAAGTAATGTAAGTATAAAC
Found at i:17964114 original size:7 final size:7
Alignment explanation
Indices: 17964039--17964117 Score: 50
Period size: 7 Copynumber: 10.4 Consensus size: 7
17964029 TCCAAATCCA
17964039 TAACCCTC
1 TAACCC-C
17964047 TAACCCC
1 TAACCCC
*
17964054 TTACCCC
1 TAACCCC
17964061 TAAATCCCC
1 T-AA-CCCC
*
17964070 TAACCCT
1 TAACCCC
** *
17964077 TAAAGCA
1 TAACCCC
*
17964084 TAACCCT
1 TAACCCC
17964091 TAACCCC
1 TAACCCC
17964098 TAAATCCCCC
1 T-AA--CCCC
17964108 TAACCCC
1 TAACCCC
17964115 TAA
1 TAA
17964118 ACATTAAATC
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
7 33 0.59
8 11 0.20
9 7 0.12
10 5 0.09
ACGTcount: A:0.32, C:0.46, G:0.01, T:0.22
Consensus pattern (7 bp):
TAACCCC
Found at i:17964125 original size:45 final size:45
Alignment explanation
Indices: 17964037--17964125 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
17964027 ACTCCAAATC
* *
17964037 CATAACCCTCTAACCCCTTACCCCTAAATCCCCTAACCCTTAAAG
1 CATAACCCTCTAACCCCTTACCCCTAAATCCCCTAAACATTAAAG
*
17964082 CATAACCCT-TAACCCCTAAATCCCCCT-AA-CCCCTAAACATTAAA
1 CATAACCCTCTAACCCCT---TACCCCTAAATCCCCTAAACATTAAA
17964126 TCCCAAACCC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
44 8 0.21
45 22 0.58
46 2 0.05
47 6 0.16
ACGTcount: A:0.35, C:0.43, G:0.01, T:0.21
Consensus pattern (45 bp):
CATAACCCTCTAACCCCTTACCCCTAAATCCCCTAAACATTAAAG
Found at i:17964137 original size:38 final size:37
Alignment explanation
Indices: 17964058--17964142 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 37
17964048 AACCCCTTAC
* *
17964058 CCCTAAAT-CCCCTAACCCTTAAAGCATAACCCTTAAC
1 CCCTAAATCCCCCTAACCCCTAAAGCATAACCC-TAAA
17964095 CCCTAAATCCCCCTAACCCCTAAA-CATTAAATCCC-AAA
1 CCCTAAATCCCCCTAACCCCTAAAGCA-T-AA-CCCTAAA
17964133 CCCTAAATCC
1 CCCTAAATCC
17964143 ATACCCCGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
37 10 0.24
38 27 0.64
39 2 0.05
40 3 0.07
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.20
Consensus pattern (37 bp):
CCCTAAATCCCCCTAACCCCTAAAGCATAACCCTAAA
Found at i:17964488 original size:114 final size:114
Alignment explanation
Indices: 17964338--17964666 Score: 604
Period size: 114 Copynumber: 2.9 Consensus size: 114
17964328 TTTAAATCCT
* *
17964338 TGAGCATTAGCGGCGCTTACCTAGAAACGCCGCTAAATCCCCGACAGCTCAGAAAACGACGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
17964403 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
*
17964452 TGAGCATTAGCGGCGCTTACCTAGAAATGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
*
17964517 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCT
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* *
17964566 TGAGCATTAGCGGCGCTTACTTAGAAACGCCACTAAATCCCCGACAGCTCAAAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
17964631 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAAC
66 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAAC
17964667 AGAAAATCAA
Statistics
Matches: 208, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 208 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (114 bp):
TGAGCATTAGCGGCGCTTACCTAGAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
Found at i:17965388 original size:7 final size:7
Alignment explanation
Indices: 17965376--17965400 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17965366 AAGAAAATAA
17965376 GAAAATT
1 GAAAATT
17965383 GAAAATT
1 GAAAATT
17965390 GAAAATT
1 GAAAATT
17965397 GAAA
1 GAAA
17965401 TGCAGGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (7 bp):
GAAAATT
Found at i:17973989 original size:42 final size:42
Alignment explanation
Indices: 17973943--17974151 Score: 293
Period size: 42 Copynumber: 5.0 Consensus size: 42
17973933 TAGAAAAAAA
*
17973943 CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
17973985 CGCCGCTAAAGAACATGATT-TTTAGCGGCGTTTTTGTT-TAAG
1 CGCCGCTAAAGAACATG-TTCTTTAGCGGCGTTTTT-TTCTAAG
* * *
17974027 CGCCTCTAAAGAACATGGTCTTTAGCGGC-ATTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
*
17974068 CGCCGCTAAAGAATAT-TATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGT-TCTTTAGCGGCGTTTTTTTCTAAG
17974110 CGCCGCTAAAGAACAT-TATCTTTAGCGGCGTTTTTTTTCTAA
1 CGCCGCTAAAGAACATGT-TCTTTAGCGGCG-TTTTTTTCTAA
17974152 CCGATGTTCT
Statistics
Matches: 151, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
40 2 0.01
41 34 0.23
42 100 0.66
43 15 0.10
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:17974009 original size:84 final size:83
Alignment explanation
Indices: 17973901--17974145 Score: 206
Period size: 83 Copynumber: 2.9 Consensus size: 83
17973891 CAAACAAAAA
* * * *
17973901 CGCCGCAAAAGACCATG-TTCTTTAGCGGAG-CTTAGAAAAAAACGCCGCTAAAGACCATGTTCT
1 CGCCGCTAAAGAACATGATT-TTTAGCGGAGTCTTAG-AAAAAACGCCGCTAAAGAACATGGTCT
*
17973964 TTAGCGGCGTTTTTTTCTAAG
64 TTAGCGGC-ATTTTTTCTAAG
* * * *** * *
17973985 CGCCGCTAAAGAACATGATTTTTAGCGGCGTTTTTGTTTAAGCGCCTCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGATTTTTAGCGGAGTCTTAGAAAAAACGCCGCTAAAGAACATGGTCTTT
17974050 AGCGGCATTTTTTCTAAG
66 AGCGGCATTTTTTCTAAG
* * * * * ***** * **
17974068 CGCCGCTAAAGAATATTATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATTATCTTT
1 CGCCGCTAAAGAACATGATTTTTAGCGGAGTCTTAGAAAAAACGCCGCTAAAGAACATGGTCTTT
*
17974133 AGCGGCGTTTTTT
66 AGCGGCATTTTTT
17974146 TTCTAACCGA
Statistics
Matches: 137, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
83 80 0.58
84 52 0.38
85 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGATTTTTAGCGGAGTCTTAGAAAAAACGCCGCTAAAGAACATGGTCTTT
AGCGGCATTTTTTCTAAG
Found at i:17974095 original size:83 final size:83
Alignment explanation
Indices: 17973943--17974145 Score: 291
Period size: 83 Copynumber: 2.4 Consensus size: 83
17973933 TAGAAAAAAA
* * * *
17973943 CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGC-ATTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
17974008 AGCGGCGTTTTTGTT-TAAG
65 AGCGGCGTTTTT-TTCTAAG
* * * *
17974027 CGCCTCTAAAGAACATGGTCTTTAGCGGCATTTTTTCTAAGCGCCGCTAAAGAATATTATCTTTA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
17974092 GCGGCGTTTTTTTCTAAG
66 GCGGCGTTTTTTTCTAAG
* *
17974110 CGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTT
17974146 TTCTAACCGA
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
82 2 0.02
83 79 0.74
84 26 0.24
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTA
GCGGCGTTTTTTTCTAAG
Found at i:17974517 original size:21 final size:21
Alignment explanation
Indices: 17974491--17974540 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
17974481 TTTTGCTCTG
*
17974491 CTCTGCTTCTCTCGCTG-CAGC
1 CTCTGCTTCCCTCGCTGTC-GC
17974512 CTCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTCGC
17974533 CTCTGCTT
1 CTCTGCTT
17974541 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.02, C:0.44, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTCGC
Found at i:17980065 original size:9 final size:9
Alignment explanation
Indices: 17980048--17980320 Score: 216
Period size: 9 Copynumber: 31.4 Consensus size: 9
17980038 TATGTATTAA
*
17980048 GTAAATTAT
1 GTAAGTTAT
17980057 GTAAGTTAT
1 GTAAGTTAT
*
17980066 GTACGTGTA-
1 GTAAGT-TAT
17980075 -TAAGTTAT
1 GTAAGTTAT
17980083 GTAAGTTAT
1 GTAAGTTAT
*
17980092 GT-A-TTAA
1 GTAAGTTAT
*
17980099 GTAAGCTAT
1 GTAAGTTAT
*
17980108 GTAAGTTGT
1 GTAAGTTAT
17980117 GT-A-TTAT
1 GTAAGTTAT
17980124 GTAAGTTAT
1 GTAAGTTAT
17980133 GTAAGTTAT
1 GTAAGTTAT
** *
17980142 CAAAGTAAT
1 GTAAGTTAT
*
17980151 GTATGTTAT
1 GTAAGTTAT
17980160 GTAAG-T-T
1 GTAAGTTAT
17980167 GTAAGTTAT
1 GTAAGTTAT
*
17980176 -TATGTATTAT
1 GTAAG--TTAT
17980186 GTAAGTTAT
1 GTAAGTTAT
17980195 GTAAGTTAAAT
1 GTAAGTT--AT
17980206 GT-A-TTAT
1 GTAAGTTAT
*
17980213 GTAGGTTAT
1 GTAAGTTAT
* *
17980222 ATAAGTTGT
1 GTAAGTTAT
*
17980231 GTAAGATAT
1 GTAAGTTAT
*
17980240 TTAAGTTAT
1 GTAAGTTAT
* *
17980249 GTGAGTTTT
1 GTAAGTTAT
17980258 GT-A-TTAT
1 GTAAGTTAT
17980265 GTAAGTTAT
1 GTAAGTTAT
*
17980274 GTAAGTTTT
1 GTAAGTTAT
17980283 GT-A-TTAT
1 GTAAGTTAT
17980290 GTAAGTTAT
1 GTAAGTTAT
*
17980299 GTAGGTTAT
1 GTAAGTTAT
*
17980308 GTAAGTTTT
1 GTAAGTTAT
17980317 GTAA
1 GTAA
17980321 TGTACAAGTG
Statistics
Matches: 207, Mismatches: 37, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
7 32 0.15
8 17 0.08
9 144 0.70
10 7 0.03
11 7 0.03
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:17980067 original size:25 final size:25
Alignment explanation
Indices: 17980037--17980141 Score: 133
Period size: 25 Copynumber: 4.2 Consensus size: 25
17980027 TGATATATAT
*
17980037 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
17980062 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
17980088 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
17980113 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
17980138 TTAT
1 TTAT
17980142 CAAAGTAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
23 1 0.01
24 2 0.03
25 44 0.64
26 19 0.28
27 2 0.03
28 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:17980137 original size:34 final size:34
Alignment explanation
Indices: 17980052--17980319 Score: 190
Period size: 34 Copynumber: 8.0 Consensus size: 34
17980042 TATTAAGTAA
*
17980052 ATTATGTAAGTTATGTACGTGTA--TAAGTTATGT
1 ATTATGTAAGTTATGTAAGT-TATGTAAGTTATGT
* * *
17980085 AAGTTATGT-A-TTAAGTAAGCTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
** *
17980119 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGT
1 ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
17980153 ATGTTATGTAAG-T-TGTAAG---T-T-A-TTATGT
1 A--TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
17980181 ATTATGTAAGTTATGTAAGTTAAATGT-A-TTATGT
1 ATTATGTAAGTTATGTAAGTT--ATGTAAGTTATGT
* * * *
17980215 AGGTTATATAAGTTGTGTAAGATATTTAAGTTATGT
1 A--TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* *
17980251 GAGTTTTGT-A-TTATGTAAGTTATGTAAGTTTTGT
1 -A-TTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* *
17980285 ATTATGTAAGTTATGTAGGTTATGTAAGTTTTGT
1 ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
17980319 A
1 A
17980320 ATGTACAAGT
Statistics
Matches: 188, Mismatches: 24, Indels: 44
0.73 0.09 0.17
Matches are distributed among these distances:
26 9 0.05
27 1 0.01
28 12 0.06
29 1 0.01
31 1 0.01
32 13 0.07
33 12 0.06
34 92 0.49
35 9 0.05
36 37 0.20
37 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.46
Consensus pattern (34 bp):
ATTATGTAAGTTATGTAAGTTATGTAAGTTATGT
Found at i:17980180 original size:19 final size:19
Alignment explanation
Indices: 17980156--17980194 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17980146 GTAATGTATG
17980156 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
17980175 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
17980194 T
1 T
17980195 GTAAGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:17980275 original size:25 final size:25
Alignment explanation
Indices: 17980241--17980310 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
17980231 GTAAGATATT
*
17980241 TAAGTTATGTGAGTTTTGTATTATG
1 TAAGTTATGTAAGTTTTGTATTATG
17980266 TAAGTTATGTAAGTTTTGTATTATG
1 TAAGTTATGTAAGTTTTGTATTATG
* *
17980291 TAAGTTATGTAGGTTATGTA
1 TAAGTTATGTAAGTTTTGTA
17980311 AGTTTTGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (25 bp):
TAAGTTATGTAAGTTTTGTATTATG
Found at i:17980364 original size:25 final size:26
Alignment explanation
Indices: 17980336--17980384 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
17980326 AAGTGTCAGG
*
17980336 TTATTGTT-ATTAAATTTTAATAAGA
1 TTATTGTTAAATAAATTTTAATAAGA
*
17980361 TTATTGTTAAATATATTTTAATAA
1 TTATTGTTAAATAAATTTTAATAA
17980385 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAGA
Found at i:17981355 original size:31 final size:30
Alignment explanation
Indices: 17981313--17981412 Score: 157
Period size: 31 Copynumber: 3.3 Consensus size: 30
17981303 GAGCTCTTAG
17981313 CCATTTAGCAGCAGAAATCAATAGAAGGTA
1 CCATTTAGCAGCAGAAATCAATAGAAGGTA
17981343 CCATCTTAGCAGCAGAAATCAATAGAAGGTA
1 CCAT-TTAGCAGCAGAAATCAATAGAAGGTA
* *
17981374 CCA-TTAGCAGCAAAAACCAATAGAAGGTA
1 CCATTTAGCAGCAGAAATCAATAGAAGGTA
17981403 CCATCTTAGC
1 CCAT-TTAGC
17981413 TGCAAAAACC
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
29 27 0.42
30 4 0.06
31 34 0.52
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (30 bp):
CCATTTAGCAGCAGAAATCAATAGAAGGTA
Found at i:17981418 original size:31 final size:30
Alignment explanation
Indices: 17981313--17981425 Score: 156
Period size: 31 Copynumber: 3.7 Consensus size: 30
17981303 GAGCTCTTAG
* *
17981313 CCATTTAGCAGCAGAAATCAATAGAAGGTA
1 CCATTTAGCAGCAAAAACCAATAGAAGGTA
* *
17981343 CCATCTTAGCAGCAGAAATCAATAGAAGGTA
1 CCAT-TTAGCAGCAAAAACCAATAGAAGGTA
17981374 CCA-TTAGCAGCAAAAACCAATAGAAGGTA
1 CCATTTAGCAGCAAAAACCAATAGAAGGTA
*
17981403 CCATCTTAGCTGCAAAAACCAAT
1 CCAT-TTAGCAGCAAAAACCAAT
17981426 TAAAATCCAA
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
29 27 0.35
30 4 0.05
31 46 0.60
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (30 bp):
CCATTTAGCAGCAAAAACCAATAGAAGGTA
Found at i:17983736 original size:38 final size:39
Alignment explanation
Indices: 17983662--17983747 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
17983652 CCAAATCCCT
* * *
17983662 AACCCATAACCCTTAAATCCTCCTTAACCCTTAAAGCATA
1 AACCC-TAACCCCTAAATCCTCCCTAACCCCTAAAGCATA
17983702 AACCCTAACCCCTAAAT-CTCCCTAACCCCTAAAGCATA
1 AACCCTAACCCCTAAATCCTCCCTAACCCCTAAAGCATA
*
17983740 ACCCCTAA
1 AACCCTAA
17983748 AAAATTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 26 0.62
39 11 0.26
40 5 0.12
ACGTcount: A:0.37, C:0.40, G:0.02, T:0.21
Consensus pattern (39 bp):
AACCCTAACCCCTAAATCCTCCCTAACCCCTAAAGCATA
Found at i:17984585 original size:113 final size:111
Alignment explanation
Indices: 17984396--17984932 Score: 430
Period size: 113 Copynumber: 4.8 Consensus size: 111
17984386 CGCTACACCT
* * * * *
17984396 AAAATGCCGCTAAATCCCCGAAAGGCTAAG-AAGCGGTGTCATTGGGCTTAGGTTTTCTTGCGGC
1 AAAACGCCGC-AAATCCCTGAAA-GCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTCTTGCGGC
** *
17984460 GCTTTTTTAAAAACGCCGCTAAAGCGCTAAGCATTAGCGGCGCTTTTAAA
64 GC-TTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTT-AA
* * * * *
17984510 AAAATGCCGCAAAAT-CCTGAAAGCACAGAAAACGGTGCCGTTGGGCTTAGGTTTTTTTGCGGTG
1 AAAACGCCGC-AAATCCCTGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTCTTGCGGCG
*
17984574 CTATTCCAAAAACGCCGCTAAATCCCT--GCATTAGCGGCGCGTCTTT-A
65 CT-TTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGC-T-TTTAA
* * * * * **
17984621 GAAACGCCGCTAAATCCCCGAAAAGCTCAG-AAACAGTGTCGTTGTGCTTTGGTTTTCTTGTAGC
1 AAAACGCCGC-AAATCCCTG-AAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTCTTGCGGC
* * * * *
17984685 TCTCTTTCAAAAACACCACTAAAGCCCTAAGCATTAGCGGCG-TGTTATTA
64 GCT-TTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCT-TT-TAA
* * ** * * *
17984735 AAAACGCCACTAATGACTCGAAAGCTCAGAAAATGGCGTCGTTGGGATTAGGTTTT-TTGCGGCG
1 AAAACGCCGCAAATCCCT-GAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTCTTGCGGCG
* * *
17984799 CTTTCTCAAAAATGCCGCTAAAGCCCTGAA-CATTAGCGGCACTTTATTA
65 CTTTC-CAAAAACGCCGCTAAAGCCCT-AAGCATTAGCGGCGCTTT-TAA
* ** * * *
17984848 AAAACGCCGCTAAATCCCCGAAAGCTC-GATAAACGACGTCATTCGACTTAGGTTTT-TTGCGGC
1 AAAACGCCGC-AAATCCCTGAAAGCTCAGA-AAACGGTGTCGTTGGGCTTAGGTTTTCTTGCGGC
*
17984911 GCTTTCTATAAAACGCCGCTAA
64 GCTTTCCA-AAAACGCCGCTAA
17984933 TTCTTATTTT
Statistics
Matches: 339, Mismatches: 66, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
111 26 0.08
112 65 0.19
113 185 0.55
114 63 0.19
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (111 bp):
AAAACGCCGCAAATCCCTGAAAGCTCAGAAAACGGTGTCGTTGGGCTTAGGTTTTCTTGCGGCGC
TTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTTAA
Found at i:17984793 original size:225 final size:226
Alignment explanation
Indices: 17984396--17984913 Score: 559
Period size: 225 Copynumber: 2.3 Consensus size: 226
17984386 CGCTACACCT
* * * * * *
17984396 AAAATGCCGCTAAATCCCCGAAAGGCTAAGAAGCGGTGTCATTGGGCTTAGGTTTTCTTGCGGCG
1 AAAACGCCGCTAAATCCCCGAAAAGCTCAGAAACAGTGTCATTGGGCTTAGGTTTTCTTGCAGCG
* * * * * * * * *
17984461 CTTTTTTAAAAACGCCGCTAAAGCGCTAAGCATTAGCGGCGCTTTTAAAAAAATGCCGCAAAATC
66 CTCTTTCAAAAACACCACTAAAGCCCTAAGCATTAGCGGCGCTGTTAAAAAAACGCCACAAAATA
* * *
17984526 CTGAAAGCACAGAAAACGGTGCCGTTGGGCTTAGGTTTTTTTGCGGTGCTATTC-CAAAAACGCC
131 CTGAAAGCACAGAAAACGGCGCCGTTGGGATTAGGTTTTTTTGCGGCGCT-TTCTCAAAAACGCC
* *
17984590 GCTAAATCCCTG-CATTAGCGGCGCGTCT-TTA
195 GCTAAAGCCCTGACATTAGCGGCAC-TCTATTA
* * * * * *
17984621 GAAACGCCGCTAAATCCCCGAAAAGCTCAGAAACAGTGTCGTTGTGCTTTGGTTTTCTTGTAGCT
1 AAAACGCCGCTAAATCCCCGAAAAGCTCAGAAACAGTGTCATTGGGCTTAGGTTTTCTTGCAGCG
* *
17984686 CTCTTTCAAAAACACCACTAAAGCCCTAAGCATTAGCGGCG-TGTTATTAAAAACGCCAC-TAAT
66 CTCTTTCAAAAACACCACTAAAGCCCTAAGCATTAGCGGCGCTGTTA-AAAAAACGCCACAAAAT
* * * *
17984749 GACTCGAAAGCTCAGAAAATGGCGTCGTTGGGATTAGG-TTTTTTGCGGCGCTTTCTCAAAAATG
130 -ACT-GAAAGCACAGAAAACGGCGCCGTTGGGATTAGGTTTTTTTGCGGCGCTTTCTCAAAAACG
*
17984813 CCGCTAAAGCCCTGAACATTAGCGGCACTTTATTA
193 CCGCTAAAGCCCTG-ACATTAGCGGCACTCTATTA
* * * * *
17984848 AAAACGCCGCTAAATCCCCG-AAAGCTCGATAAAC-GACGTCATTCGACTTAGGTTTT-TTGCGG
1 AAAACGCCGCTAAATCCCCGAAAAGCTC-AGAAACAG-TGTCATTGGGCTTAGGTTTTCTTGCAG
17984910 CGCT
64 CGCT
17984914 TTCTATAAAA
Statistics
Matches: 240, Mismatches: 44, Indels: 17
0.80 0.15 0.06
Matches are distributed among these distances:
224 10 0.04
225 133 0.55
226 45 0.19
227 52 0.22
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (226 bp):
AAAACGCCGCTAAATCCCCGAAAAGCTCAGAAACAGTGTCATTGGGCTTAGGTTTTCTTGCAGCG
CTCTTTCAAAAACACCACTAAAGCCCTAAGCATTAGCGGCGCTGTTAAAAAAACGCCACAAAATA
CTGAAAGCACAGAAAACGGCGCCGTTGGGATTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCG
CTAAAGCCCTGACATTAGCGGCACTCTATTA
Found at i:17986760 original size:40 final size:40
Alignment explanation
Indices: 17986639--17986768 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
17986629 GACTTCGAGT
*
17986639 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATATATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGAT-TATC
* * * * * *
17986680 CGATGAGGCATTAGGTG-CAAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
*
17986717 CGATGAGACACTGGGTGTCAAATTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
*
17986757 CGATGAGGCACT
1 CGATGAGACACT
17986769 AAGTGCCAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
37 16 0.23
38 13 0.18
39 2 0.03
40 26 0.37
41 14 0.20
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
Found at i:17987756 original size:43 final size:43
Alignment explanation
Indices: 17987708--17987912 Score: 270
Period size: 43 Copynumber: 4.8 Consensus size: 43
17987698 GCATCGCTAA
*
17987708 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACTAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACAAC
*
17987751 CTTTAGCGGCGC-TTTTCTCACAAACGCCGCTAAAGACCAAAAC
1 CTTTAGCGGCGCTTTTTC-CACAAACGCCGCTAAAGACCACAAC
* *
17987794 CTTTAGCGGTGCTTTTTCCACAAACGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACAAC
* * * **
17987837 TTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGAATA-AAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACAAC
* ** *
17987879 CTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAA
17987913 AACATAATCT
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
42 35 0.25
43 102 0.72
44 5 0.04
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACAAC
Found at i:17987812 original size:86 final size:85
Alignment explanation
Indices: 17987708--17987912 Score: 304
Period size: 86 Copynumber: 2.4 Consensus size: 85
17987698 GCATCGCTAA
* *
17987708 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACTACCTTTAGCGGCGCTTTTCTCACA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACA
*
17987773 AACGCCGCTAAAGACCA-AAAC
66 AACACCGCTAAAGA--ATAAAC
* *
17987794 CTTTAGCGGTGCTTTTTCCACAAACGCCGCTAAAGACCACGACTTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACA
17987859 AACACCGCTAAAGAATAAAC
66 AACACCGCTAAAGAATAAAC
* ** *
17987879 CTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAA
17987913 AACATAATCT
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
84 1 0.01
85 33 0.31
86 74 0.69
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (85 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACA
AACACCGCTAAAGAATAAAC
Found at i:17987958 original size:20 final size:19
Alignment explanation
Indices: 17987933--17987980 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
17987923 TTAAAAAAAA
17987933 TTATTTTAATCGA-ATAATAT
1 TTATTTTAAT-GATA-AATAT
*
17987953 TTATTTTTATGATAAATAT
1 TTATTTTAATGATAAATAT
17987972 TATATTTTA
1 T-TATTTTA
17987981 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TTATTTTAATGATAAATAT
Done.