Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 81 of 313
Found at i:27248184 original size:49 final size:49
Alignment explanation
Indices: 27248131--27248326 Score: 383
Period size: 49 Copynumber: 4.0 Consensus size: 49
27248121 TTACATTCTT
*
27248131 CTCTTTTTTTTGTATCAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
1 CTCTTTTTTTTGTATAAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
27248180 CTCTTTTTTTTGTATAAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
1 CTCTTTTTTTTGTATAAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
27248229 CTCTTTTTTTTGTATAAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
1 CTCTTTTTTTTGTATAAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
27248278 CTCTTTTTTTTGTATAAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
1 CTCTTTTTTTTGTATAAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
27248327 ATCTCCTTCT
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 146 1.00
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (49 bp):
CTCTTTTTTTTGTATAAAAAAAACCTTTCAAAAATACAATTCTTTCCTC
Found at i:27249092 original size:43 final size:43
Alignment explanation
Indices: 27249037--27249873 Score: 408
Period size: 43 Copynumber: 19.6 Consensus size: 43
27249027 CGTCTTCGAT
*
27249037 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-TCTGTAAATTTAGAC
* * * ** *
27249080 CTGTTACCCTACTGTTTA-GGGGTTAAGGCTTGTCACCTTT-GAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTC-TGT-AAATTTAGAC
* * * ** * *
27249123 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTC-TGTAAATTTAGAC
* *
27249167 CTGTTTCCTTACTGTTTA---GG----GTCTGTAAATTTA-AC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTCTGTAAATTTAGAC
* * * * ** * *
27249202 CTGTTACCCTACTACTTAGGGGTTTAAGGCT-TATCGTCTTTGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTCTGTA-AAT-TTAGAC
*
27249246 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-TCTGTAAATTTAGAC
* * * ** **** * *
27249289 CTGCTACCCTACTG-TTAGGGGGTTAAGGCCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTCTGTAAATTTAGAC
27249331 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-TCTGTAAATTTAGAC
* * * ** **** * *
27249374 CTGCTACCCTACTG-TTAGGGGGTTAAGGCCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTCTGTAAATTTAGAC
*
27249416 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCA-AC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-TCTGTAAATTTAGAC
* * * ** * * *
27249459 CTGTTACCCTACTGCTTAGGGGTTTAAGGC-CCATCATCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTCTGTA-AAT-TTAGAC
*
27249503 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-TCTGTAAATTTAGAC
** * * * ** **** * *
27249546 CTACTACCCTACTACTTAGGGGGTTAAGGCCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTCTGTAAATTTAGAC
*
27249589 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCA-AC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-TCTGTAAATTTAGAC
* * * * ** * * *
27249632 CTGTTACCCTACTGCTTAAGGGTTTAAGGC-CCATCATCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTCTGTA-AAT-TTAGAC
27249676 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-TCTGTAAATTTAGAC
* * * * * *** * *
27249719 CTGTTACGCTACTACTTAGGGAGTTAAGGCTCGTTGCTTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGTCT-GTAAATTTAGAC
* * *
27249763 CTGTTTCCCTACTGCTTATGGGGTTAAGATCTATAAATTCA-AC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAG-TCTGTAAATTTAGAC
* * * * * ** * *
27249806 CTATTACCCTACTGCTTAGGGGTTTAAGGT-TCATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAA-GTCT-GTAAATTTAGAC
27249850 CTGTTTCCCTACTGCTTAGGGGGT
1 CTGTTTCCCTACTGCTTAGGGGGT
27249874 CAAATATTCT
Statistics
Matches: 565, Mismatches: 188, Indels: 81
0.68 0.23 0.10
Matches are distributed among these distances:
35 15 0.03
36 6 0.01
37 2 0.00
38 1 0.00
41 16 0.03
42 79 0.14
43 252 0.45
44 180 0.32
45 10 0.02
46 4 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGTCTGTAAATTTAGAC
Found at i:27249539 original size:87 final size:87
Alignment explanation
Indices: 27249188--27249873 Score: 970
Period size: 87 Copynumber: 7.9 Consensus size: 87
27249178 CTGTTTAGGG
* ** * * *
27249188 TCTGTAAATTTAACCTGTTACCCTACTACTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
27249253 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * *
27249275 TCTGTAAATTTAGCCTGCTACCCTACTG-TTAGGGGGTTAAGG-CCATCGCCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
27249338 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * *
27249360 TCTGTAAATTTAGCCTGCTACCCTACTG-TTAGGGGGTTAAGG-CCATCGCCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
27249423 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* **
27249445 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
27249510 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * ** * *
27249532 TTTGTAAATTTAGCCTACTACCCTACTACTTAGGGGGTTAAGG-CCATCGCCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
27249596 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * **
27249618 TCTGTAAATTCAACCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCATCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
27249683 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * * * * * *
27249705 TCTGTAAATTTAGCCTGTTACGCTACTACTTAGGGAG-TTAAGGCTCGTTGCTTTCGATCTGTTT
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGG-GTTTAAGGCCCATCGCCTTCGATCTGTTT
*
27249769 CCCTACTGCTTATGGGGTTAAGA
65 CCCTACTGCTTAGGGGGTTAAGA
* * * ** *
27249792 TCTATAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCACCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
27249857 CCTACTGCTTAGGGGGT
66 CCTACTGCTTAGGGGGT
27249874 CAAATATTCT
Statistics
Matches: 536, Mismatches: 58, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
85 148 0.28
86 103 0.19
87 284 0.53
88 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (87 bp):
TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
CCTACTGCTTAGGGGGTTAAGA
Found at i:27249621 original size:173 final size:174
Alignment explanation
Indices: 27249123--27249873 Score: 1096
Period size: 173 Copynumber: 4.4 Consensus size: 174
27249113 CACCTTTGAT
* *** * *
27249123 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCTTACTGTTTA---
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
* * * * * *
27249185 GG----G-TCTGTAAATTTAACCTGTTACCCTACTACTTAGGGGTTTAAGGCTTATCGTCTTTGA
66 GGTTAAGATCTGTAAATTTAGCCTGCTACCCTACTACTTAGGGGGTTAAGGCTCATCGCCTTCGA
* * *
27249245 TCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
131 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
* * *
27249289 CTGCTACCCTACTG-TTAGGGGGTTAAGG-CCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
*
27249352 GGTTAAGATCTGTAAATTTAGCCTGCTACCCTACT-GTTAGGGGGTTAAGGC-CATCGCCTTCGA
66 GGTTAAGATCTGTAAATTTAGCCTGCTACCCTACTACTTAGGGGGTTAAGGCTCATCGCCTTCGA
27249415 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
131 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
*
27249459 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
* *
27249524 GGTTAAGATTTGTAAATTTAGCCTACTACCCTACTACTTAGGGGGTTAAGGC-CATCGCCTTCGA
66 GGTTAAGATCTGTAAATTTAGCCTGCTACCCTACTACTTAGGGGGTTAAGGCTCATCGCCTTCGA
27249588 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
131 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
* *
27249632 CTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
* * * * * *
27249697 GGTTAAGATCTGTAAATTTAGCCTGTTACGCTACTACTTAGGGAGTTAAGGCTCGTTGCTTTCGA
66 GGTTAAGATCTGTAAATTTAGCCTGCTACCCTACTACTTAGGGGGTTAAGGCTCATCGCCTTCGA
* *
27249762 TCTGTTTCCCTACTGCTTATGGGGTTAAGATCTATAAATTCAAC
131 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
* **
27249806 CTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
27249871 GGT
66 GGT
27249874 CAAATATTCT
Statistics
Matches: 531, Mismatches: 42, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
164 26 0.05
165 13 0.02
166 12 0.02
167 2 0.00
170 63 0.12
171 28 0.05
172 91 0.17
173 182 0.34
174 114 0.21
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (174 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGG
GGTTAAGATCTGTAAATTTAGCCTGCTACCCTACTACTTAGGGGGTTAAGGCTCATCGCCTTCGA
TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
Found at i:27251370 original size:4 final size:4
Alignment explanation
Indices: 27251354--27251385 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
27251344 GCCTCTCCTT
27251354 TTTC TTCTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTT
27251386 TTTTTTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:27255921 original size:3 final size:3
Alignment explanation
Indices: 27255908--27255993 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
27255898 GAGGGCATAT
27255908 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
27255952 ATA ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
27255994 AAAAAATAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 13 0.19
3 46 0.68
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:27255938 original size:30 final size:30
Alignment explanation
Indices: 27255904--27256002 Score: 76
Period size: 36 Copynumber: 3.0 Consensus size: 30
27255894 TGGAGAGGGC
27255904 ATATATAATATAATAATAATATAAAAAATA
1 ATATATAATATAATAATAATATAAAAAATA
27255934 ATATATACATGAGAAATAATAATAATAATAATATAAATA
1 ATATATA-AT-----ATAATAATAAT-ATAA-A-AAATA
* *
27255973 ATAGTA-AAAATAATAA-AATAAAAAAAATA
1 ATA-TATAATATAATAATAATATAAAAAATA
27256002 A
1 A
27256003 AACAAAGCTC
Statistics
Matches: 57, Mismatches: 2, Indels: 21
0.71 0.03 0.26
Matches are distributed among these distances:
29 6 0.11
30 8 0.14
31 5 0.09
32 3 0.05
33 7 0.12
36 11 0.19
37 4 0.07
38 2 0.04
39 9 0.16
40 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (30 bp):
ATATATAATATAATAATAATATAAAAAATA
Found at i:27256531 original size:30 final size:30
Alignment explanation
Indices: 27256497--27256578 Score: 155
Period size: 30 Copynumber: 2.7 Consensus size: 30
27256487 GATGGTGTAA
27256497 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
*
27256527 GTGCAAATGGGAGGCAAGGTGGTGGAGTAG
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
27256557 GTGCAAGTGGGAGGCAAGGTGG
1 GTGCAAGTGGGAGGCAAGGTGG
27256579 CTAGGGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.24, C:0.07, G:0.52, T:0.16
Consensus pattern (30 bp):
GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
Found at i:27256576 original size:18 final size:18
Alignment explanation
Indices: 27256497--27256577 Score: 51
Period size: 18 Copynumber: 5.2 Consensus size: 18
27256487 GATGGTGTAA
27256497 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
*
27256515 GTG---GT-GGA-G-TAG
1 GTGCAAGTGGGAGGCAAG
*
27256527 GTGCAAATGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
*
27256545 GTG---GT-GGA-G-TAG
1 GTGCAAGTGGGAGGCAAG
27256557 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
27256575 GTG
1 GTG
27256578 GCTAGGGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 24
0.60 0.08 0.32
Matches are distributed among these distances:
12 10 0.22
13 2 0.04
14 6 0.13
15 6 0.13
16 6 0.13
17 2 0.04
18 13 0.29
ACGTcount: A:0.25, C:0.07, G:0.52, T:0.16
Consensus pattern (18 bp):
GTGCAAGTGGGAGGCAAG
Found at i:27261885 original size:85 final size:85
Alignment explanation
Indices: 27261727--27261894 Score: 194
Period size: 85 Copynumber: 2.0 Consensus size: 85
27261717 TATGGGCCCA
* * * * * ***
27261727 TATGCCCGTGTAGGCCTACACACCCAGATTAGCCTTGCCCTTGTGGCCTACACGGCCTGGCCCAA
1 TATGCCCGTGTAGGCCCACACACCCAGACTAGCCTAGCCCGTGTGGCCCACACGGCCACACCCAA
27261792 ACCACCACACGCTCGTGTGG
66 ACCACCACACGCTCGTGTGG
* * *
27261812 TATGCTCGTGTAGGCCCACACACCCA-ACCTGGCCTAGCCCGTGTGGCCCACACGGCCACACTCA
1 TATGCCCGTGTAGGCCCACACACCCAGA-CTAGCCTAGCCCGTGTGGCCCACACGGCCACACCCA
* * *
27261876 CACCGCCACACGGTCGTGT
65 AACCACCACACGCTCGTGT
27261895 CTTGCGCACG
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
84 1 0.01
85 67 0.99
ACGTcount: A:0.19, C:0.40, G:0.23, T:0.18
Consensus pattern (85 bp):
TATGCCCGTGTAGGCCCACACACCCAGACTAGCCTAGCCCGTGTGGCCCACACGGCCACACCCAA
ACCACCACACGCTCGTGTGG
Found at i:27266190 original size:23 final size:24
Alignment explanation
Indices: 27266160--27266204 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27266150 TAGAAATCCC
27266160 CATTAATAAC-AAAAAACTACAAG
1 CATTAATAACGAAAAAACTACAAG
*
27266183 CATTAATAACGAAACAACTACA
1 CATTAATAACGAAAAAACTACA
27266205 CTAAGGGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.58, C:0.20, G:0.04, T:0.18
Consensus pattern (24 bp):
CATTAATAACGAAAAAACTACAAG
Found at i:27273164 original size:2 final size:2
Alignment explanation
Indices: 27273157--27273181 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27273147 CCTACTTAAA
27273157 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
27273182 AGAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27279786 original size:21 final size:21
Alignment explanation
Indices: 27279760--27279800 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27279750 AGACGAGCAA
* *
27279760 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
27279781 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
27279801 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:27284132 original size:28 final size:29
Alignment explanation
Indices: 27284100--27284166 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
27284090 TGAGTGCGGG
*
27284100 ATTAGAAAATAAAAATA-TTAATAATTAA
1 ATTAGAAAATAAAAATATTTAATAAGTAA
*
27284128 ATTAG-AAATAAAAATATTTAGTAAGTAA
1 ATTAGAAAATAAAAATATTTAATAAGTAA
27284156 ATTAGATAAAT
1 ATTAGA-AAAT
27284167 TATTAAGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.32
28 19 0.56
30 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (29 bp):
ATTAGAAAATAAAAATATTTAATAAGTAA
Found at i:27284261 original size:12 final size:14
Alignment explanation
Indices: 27284227--27284263 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
27284217 TAATTTGTAA
27284227 AGTGATTAAATTAG
1 AGTGATTAAATTAG
*
27284241 AGAGATTAAATT-G
1 AGTGATTAAATTAG
27284254 -GTGATTAAAT
1 AGTGATTAAAT
27284264 AAGTCCTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 9 0.43
13 1 0.05
14 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (14 bp):
AGTGATTAAATTAG
Found at i:27285875 original size:20 final size:20
Alignment explanation
Indices: 27285832--27285875 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
27285822 AGGAGCCAAT
* *
27285832 AAATCAATTTGATTAAAATT
1 AAATCAAATTGATTAAAATC
**
27285852 AAATCAAATTGATTGGAATC
1 AAATCAAATTGATTAAAATC
27285872 AAAT
1 AAAT
27285876 AGAACAAGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:27288406 original size:27 final size:27
Alignment explanation
Indices: 27288358--27288516 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
27288348 GCGAGGCTGC
* *
27288358 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
27288385 CAAATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
27288411 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * * *
27288438 CAGATAATCGTGGCATAACCACCATA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
27288465 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
27288492 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
27288517 GACGCTTCCT
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.08
27 95 0.87
28 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:27288451 original size:54 final size:54
Alignment explanation
Indices: 27288376--27288516 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
27288366 GTGACGAAGT
* *
27288376 CACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
27288430 CACCAGATCAGATAATCGTGGCATAACCACCATAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
27288484 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
27288517 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.05
54 73 0.95
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:27288684 original size:28 final size:26
Alignment explanation
Indices: 27288622--27288684 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
27288612 AAAGTAACCC
** *
27288622 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACA
*
27288648 TAGGGGTATAACAGTAATTTTTCGTACA
1 TAGGGGTATAACAGTAA-TTTT-GCACA
27288676 TAGGGGTAT
1 TAGGGGTAT
27288685 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 15 0.48
27 4 0.13
28 12 0.39
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACA
Found at i:27290111 original size:26 final size:26
Alignment explanation
Indices: 27290080--27290187 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27290070 TGAAATGCCC
*
27290080 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27290106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27290132 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
27290158 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27290184 ATCA
1 ATCA
27290188 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27295250 original size:264 final size:266
Alignment explanation
Indices: 27294771--27295266 Score: 657
Period size: 264 Copynumber: 1.9 Consensus size: 266
27294761 AGGAAATAGG
* * * * * *
27294771 CTTGGTGACTTAAATTTGCTCCATTGCTAATACATGGAGATAAGATTCGCCATCCTCAATCTGCT
1 CTTGGGGACTTAAATCTGCTCCATTGCCAATACATAGAAATAAGATTCGCCATCATCAA-CTGCT
* * * *
27294836 CCTCAACTGCTCTAGGGAAATAATATCTTCAATCTTCAGTCTGCTTCCTTGTCACTATAGGAAGA
65 CCTCAACTACTCTAAGGAAATAAGATCTTCAATCTTCAGTCTGCTTCCTTGTCACTACAGGAAGA
* *** * *
27294901 TAAGACCCAAACTTTAGCCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTGATGGTCTAAATCTA
130 TAAGACACAAACGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGTCTAAATCTA
* *
27294966 CTCCATTGCCGATACATGGAGATAAGATTCACCATCTGCAAATTGCTCTGCTGCAACTTTAGGGA
195 CTCCATTACCGATACATGGAGATAAGACTCACCATCTGCAAATTGCTCTGCTGCAACTTTAGGGA
27295031 AATAAAT
260 AATAAAT
* **
27295038 CTTGGGGACTTAAATCTGCTCCATTGCCAATACATAGAAATAAGATTTGCCATCATTGA-TGCT-
1 CTTGGGGACTTAAATCTGCTCCATTGCCAATACATAGAAATAAGATTCGCCATCATCAACTGCTC
27295101 CTACAACTACT-TAAGGAAAT-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTTC-CT-CAGGAA
66 CT-CAACTACTCTAAGGAAATAAGATCTTCAATCTTCAGTCTGCTTCCTTG--TCACTACAGGAA
* *
27295162 GATAAGACTACAATCGCCAACCTGCTCTCTTGTTACCTCAGAGAGATAAGGCT-AGTGG-CTAAA
128 GATAAGAC-ACAAACGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGA-TGGTCT-AA
*
27295225 ATCTACTCCATTACCGATACATGGAGATAAGACTCGCCATCT
190 ATCTACTCCATTACCGATACATGGAGATAAGACTCACCATCT
27295267 TTGATCTGCT
Statistics
Matches: 199, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
263 44 0.22
264 92 0.46
265 13 0.07
267 50 0.25
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (266 bp):
CTTGGGGACTTAAATCTGCTCCATTGCCAATACATAGAAATAAGATTCGCCATCATCAACTGCTC
CTCAACTACTCTAAGGAAATAAGATCTTCAATCTTCAGTCTGCTTCCTTGTCACTACAGGAAGAT
AAGACACAAACGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGTCTAAATCTAC
TCCATTACCGATACATGGAGATAAGACTCACCATCTGCAAATTGCTCTGCTGCAACTTTAGGGAA
ATAAAT
Found at i:27295355 original size:43 final size:45
Alignment explanation
Indices: 27295295--27295387 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 45
27295285 GCTTAGGGAA
* * * *
27295295 ATAAGATCTTCAATCTTC-AGTCTGCTTTCTTGCTACCTCAGAAAG
1 ATAAGATCTTCAATCTTCAACT-TGCTCTATTGCTACATCAGAAAG
*
27295340 ATAAGA-C-TCAATCTTCAACTTGCTCTATTGCTACATCAGAGAG
1 ATAAGATCTTCAATCTTCAACTTGCTCTATTGCTACATCAGAAAG
27295383 ATAAG
1 ATAAG
27295388 GCTTGAGGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 33 0.79
44 3 0.07
45 6 0.14
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (45 bp):
ATAAGATCTTCAATCTTCAACTTGCTCTATTGCTACATCAGAAAG
Found at i:27295430 original size:176 final size:174
Alignment explanation
Indices: 27295046--27295432 Score: 497
Period size: 176 Copynumber: 2.2 Consensus size: 174
27295036 ATCTTGGGGA
* * * * *
27295046 CTTAAATCTGCTCCATTGCCAATACATAGAAATAAGATTTGCCATCATTGATGCTCTACAACTAC
1 CTTAAATCTGCTCCATTGCCGATACATAGAGATAAGACTCGCCATCATTGATGCTCCACAACTAC
* *
27295111 TTAAGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTTCCTCAGGAAGATAAGACTACAAT
66 TTAAGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAAT
* * * *
27295176 CGCCAACCTGCTCTCTTGTTACCTCAGAGAGATAAGGCTAGTGG
131 CGCCAACCTGCTCTATTGCTACATCAGAGAGATAAGGCTAGAGG
* * * * * * *
27295220 CTAAAATCTACTCCATTACCGATACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCGCTACT
1 CTTAAATCTGCTCCATTGCCGATACATAGAGATAAGACTCGCCATCATTGA--TGCTCCACAACT
* * *
27295285 GCTTAGGGAAATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACT-C
64 ACTTAAGGAAAT-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTAC
** * *
27295349 AATCTTCAACTTGCTCTATTGCTACATCAGAGAGATAAGGCTTGAGG
128 AATCGCCAACCTGCTCTATTGCTACATCAGAGAGATAAGGCTAGAGG
* *
27295396 CTTAAATCTGCTTCATTGTCGATACATAGAGATAAGA
1 CTTAAATCTGCTCCATTGCCGATACATAGAGATAAGA
27295433 TTTGCCTCTT
Statistics
Matches: 179, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
174 42 0.23
176 90 0.50
177 47 0.26
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (174 bp):
CTTAAATCTGCTCCATTGCCGATACATAGAGATAAGACTCGCCATCATTGATGCTCCACAACTAC
TTAAGGAAATAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACAAT
CGCCAACCTGCTCTATTGCTACATCAGAGAGATAAGGCTAGAGG
Found at i:27295569 original size:147 final size:146
Alignment explanation
Indices: 27295300--27295582 Score: 424
Period size: 147 Copynumber: 1.9 Consensus size: 146
27295290 GGGAAATAAG
*
27295300 ATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACTTGCTC
1 ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACTTGCTC
** * * *
27295365 TATTGCTACATCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTTCATTGTCGATACATAGAGATA
66 TATTGCTACATCAGAGAGATAAGGCCAGAGGCTAAAATCTGCTCCATTGCCGATACATAGAGATA
27295430 AGATTTGCCTCTTCCA
131 AGATTTGCCTCTTCCA
* *
27295446 ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACCATCTTCAACTTGCT
1 ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACT-CAATCTTCAACTTGCT
* * * * *
27295511 CTCTTGCTTCCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCTG-TACATGGAGA
65 CTATTGCTACATCAGAGAGATAAGGCCAGAGGCTAAAATCTGCTCCATTGCC-GATACATAGAGA
27295575 TAAGATTT
129 TAAGATTT
27295583 TCCATTTTTG
Statistics
Matches: 122, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
146 46 0.38
147 75 0.61
148 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (146 bp):
ATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACTTGCTC
TATTGCTACATCAGAGAGATAAGGCCAGAGGCTAAAATCTGCTCCATTGCCGATACATAGAGATA
AGATTTGCCTCTTCCA
Found at i:27295953 original size:64 final size:66
Alignment explanation
Indices: 27295793--27295977 Score: 248
Period size: 64 Copynumber: 2.8 Consensus size: 66
27295783 ATGTTTGTGC
* * * * *
27295793 CAAATAATTAGGATGCTATGATTGAAATGAATCCAATGCTTCTAACTAAATGAGATATGAGCGAT
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGA-ATGAGCGAT
27295858 GT
65 GT
* * **
27295860 CAAATAATTAGGATGCTACGATCAAAATGAATCAAATGCTCCTAACTAGATGTG-ATG-TTGATG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGAATGAGCGATG
27295923 T
66 T
* *
27295924 CAATTAATTAGGATGCTATGATCGCAATGAATCAAATGCTCCTAACTAGATGTG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
27295978 TTATGAATGA
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
64 55 0.52
65 3 0.03
67 47 0.45
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (66 bp):
CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGAATGAGCGATG
T
Found at i:27297108 original size:23 final size:24
Alignment explanation
Indices: 27297067--27297111 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27297057 TTTTTTCAAC
27297067 TTCTTTTATTGATTCTTTCTTTCT
1 TTCTTTTATTGATTCTTTCTTTCT
*
27297091 TTCTTTT-TTGATTTTTTCTTT
1 TTCTTTTATTGATTCTTTCTTT
27297112 TTATTTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.07, C:0.13, G:0.04, T:0.76
Consensus pattern (24 bp):
TTCTTTTATTGATTCTTTCTTTCT
Found at i:27297126 original size:14 final size:13
Alignment explanation
Indices: 27297090--27297132 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
27297080 TCTTTCTTTC
*
27297090 TTTCTTTTTTGAT
1 TTTCTTTTTTTAT
27297103 TTT-TTCTTTTTAT
1 TTTCTT-TTTTTAT
27297116 TTCTCTTTTTTTAT
1 TT-TCTTTTTTTAT
27297130 TTT
1 TTT
27297133 GATTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 2 0.08
13 12 0.46
14 10 0.38
15 2 0.08
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTTAT
Found at i:27304737 original size:71 final size:71
Alignment explanation
Indices: 27304620--27304773 Score: 285
Period size: 71 Copynumber: 2.2 Consensus size: 71
27304610 TAAATTAGTT
27304620 GTATGAATTGTAAATGTGCAAATATTATGAATGAAAATTAAATCGGTATATCAAAGTAGTTGAAA
1 GTATGAATTGTAAATGTGCAAATATTATGAATGAAAATTAAATCGGTATATCAAAGTAGTTGAAA
27304685 AGGGGA
66 AGGGGA
*
27304691 GTATGAATTGTAAATGTGCAAATATTATGAATGAAAATTAAGTCGGTATATCAAAGTAGTTGAAA
1 GTATGAATTGTAAATGTGCAAATATTATGAATGAAAATTAAATCGGTATATCAAAGTAGTTGAAA
27304756 AGGGGA
66 AGGGGA
27304762 GTA--AATTGTAAA
1 GTATGAATTGTAAA
27304774 GTAAGAAAAA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
69 9 0.11
71 73 0.89
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.30
Consensus pattern (71 bp):
GTATGAATTGTAAATGTGCAAATATTATGAATGAAAATTAAATCGGTATATCAAAGTAGTTGAAA
AGGGGA
Found at i:27307878 original size:11 final size:11
Alignment explanation
Indices: 27307862--27307886 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27307852 TTAGATATCA
27307862 ATTTTAGGGAT
1 ATTTTAGGGAT
27307873 ATTTTAGGGAT
1 ATTTTAGGGAT
27307884 ATT
1 ATT
27307887 ACATTTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (11 bp):
ATTTTAGGGAT
Found at i:27309897 original size:14 final size:14
Alignment explanation
Indices: 27309875--27309905 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27309865 ACTTTTTCCC
*
27309875 CCAACAATTACATT
1 CCAAAAATTACATT
27309889 CCAAAAATTACATT
1 CCAAAAATTACATT
27309903 CCA
1 CCA
27309906 TTAAAATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
CCAAAAATTACATT
Found at i:27314761 original size:15 final size:15
Alignment explanation
Indices: 27314749--27314806 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
27314739 TCTTGCTGCT
27314749 GTCGTAGTTGCTGTA
1 GTCGTAGTTGCTGTA
* *
27314764 GTCGTTGTTGCTGTT
1 GTCGTAGTTGCTGTA
**
27314779 GTCACAGTTGCTGTA
1 GTCGTAGTTGCTGTA
*
27314794 GTTGTAGTTGCTG
1 GTCGTAGTTGCTG
27314807 CAAAATTTGT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.10, C:0.14, G:0.33, T:0.43
Consensus pattern (15 bp):
GTCGTAGTTGCTGTA
Found at i:27314776 original size:30 final size:30
Alignment explanation
Indices: 27314741--27314807 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
27314731 ACAGTTGTTC
** *
27314741 TTGCTGCTGTCGTAGTTGCTGTAGTCGTTG
1 TTGCTGCTGTCACAGTTGCTGTAGTCGTAG
* *
27314771 TTGCTGTTGTCACAGTTGCTGTAGTTGTAG
1 TTGCTGCTGTCACAGTTGCTGTAGTCGTAG
27314801 TTGCTGC
1 TTGCTGC
27314808 AAAATTTGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.09, C:0.16, G:0.31, T:0.43
Consensus pattern (30 bp):
TTGCTGCTGTCACAGTTGCTGTAGTCGTAG
Found at i:27321859 original size:35 final size:35
Alignment explanation
Indices: 27321805--27322102 Score: 283
Period size: 35 Copynumber: 8.5 Consensus size: 35
27321795 TCCTCATTGA
* *
27321805 AATACCATACCTACGTTTCACAACTCGGTATGGAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * ** * *
27321840 AACACCATACCTACTTTTCA-TGCTCGGTATGGAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * ** * *
27321874 AAGACCATAGCTATATTTCATAACTCAGTATGGAC
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * * * *
27321909 GATGCCATACCTACGTATCATAGCTCAGTATGGAC
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* ** * ** *
27321944 GACGCCATACCTACGTTTCATAGTTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
27321979 AATACCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
27322014 GATACCATACCTACGTTTCACAACTCAATATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
27322049 AATACCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
27322084 GATACCATACCTACGTTTC
1 AATACCATACCTACGTTTC
27322103 GCACTTTGCC
Statistics
Matches: 218, Mismatches: 44, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
34 28 0.13
35 190 0.87
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:27322023 original size:105 final size:105
Alignment explanation
Indices: 27321806--27322102 Score: 335
Period size: 105 Copynumber: 2.8 Consensus size: 105
27321796 CCTCATTGAA
* *
27321806 ATACCATACCTACGTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCAT-GCTCGGTAT
1 ATACCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACATTTCATAGCTCGGTAT
* * * ** *
27321870 GGAAAAGACCATAGCTATATTTCATAACTCAGTATGGACG
66 GGATAATACCATACCTACGTTTCACAACTCAGTATGGACG
* * * * ** * * * *
27321910 ATGCCATACCTACGTATCATAGCTCAGTATGGACGACGCCATACCTACGTTTCATAGTTCAGTAT
1 ATACCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACATTTCATAGCTCGGTAT
* * *
27321975 GGTTAATACCATACCTACGTTTCACAACTCGGTATGGATG
66 GGATAATACCATACCTACGTTTCACAACTCAGTATGGACG
* ** * * *
27322015 ATACCATACCTACGTTTCACAACTCAATATGGTTAATACCATACCTACATTTCACAACTCGGTAT
1 ATACCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACATTTCATAGCTCGGTAT
*
27322080 GGATGATACCATACCTACGTTTC
66 GGATAATACCATACCTACGTTTC
27322103 GCACTTTGCC
Statistics
Matches: 155, Mismatches: 37, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
104 46 0.30
105 109 0.70
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (105 bp):
ATACCATACCTACGTTTCACAACTCAGTATGGAAAACACCATACCTACATTTCATAGCTCGGTAT
GGATAATACCATACCTACGTTTCACAACTCAGTATGGACG
Found at i:27329271 original size:28 final size:28
Alignment explanation
Indices: 27329202--27329271 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
27329192 TATGGCTCTC
* *
27329202 AGTGTACGAAATTTTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
* * *
27329230 AGCGTGTGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
27329258 AGTGTGCGAAATAT
1 AGTGTGCGAAATAT
27329272 CGAATAATTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:27329673 original size:21 final size:22
Alignment explanation
Indices: 27329642--27329682 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27329632 TAATGTATTG
*
27329642 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
27329664 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
27329683 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:27332473 original size:19 final size:21
Alignment explanation
Indices: 27332449--27332502 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 21
27332439 GGACCTTTTT
27332449 ATGAAAAT-TAATGCAT-ATG-
1 ATGAAAATGTAATGC-TGATGA
27332468 ATG-AAATGTAATGCTGATGA
1 ATGAAAATGTAATGCTGATGA
27332488 ATGAAAAATG-AATGC
1 ATG-AAAATGTAATGC
27332503 AAAAAAAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 5 0.17
19 12 0.40
20 3 0.10
21 5 0.17
22 5 0.17
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (21 bp):
ATGAAAATGTAATGCTGATGA
Found at i:27336283 original size:4 final size:4
Alignment explanation
Indices: 27336269--27336316 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
27336259 ACAAAAACAT
* * ** *
27336269 TAAA GAAA TAAA TAAA TGAA CGAA TACA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
27336317 ACAGAACAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:27341710 original size:18 final size:17
Alignment explanation
Indices: 27341682--27341716 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27341672 ATTATTAAGA
*
27341682 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27341699 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27341717 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27341927 original size:44 final size:45
Alignment explanation
Indices: 27341878--27341972 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
27341868 TTACACCTCT
* *
27341878 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
27341922 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
27341967 ATTACA
1 ATTACA
27341973 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:27341972 original size:16 final size:16
Alignment explanation
Indices: 27341951--27341983 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27341941 TTGATTTGCT
*
27341951 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
27341967 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
27341983 A
1 A
27341984 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:27341993 original size:21 final size:21
Alignment explanation
Indices: 27341964--27342006 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
27341954 ACACCTCTAT
*
27341964 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
*
27341985 TCCAATACACCTCTAATTCAA
1 TCCAATACACCTCTAATCCAA
27342006 T
1 T
27342007 ACAGCGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:27342714 original size:21 final size:21
Alignment explanation
Indices: 27342688--27342743 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
27342678 TTCCCTTTTA
*
27342688 CTAAAAAATCTAAAGTTAA-TT
1 CTAAAAAA-CTAAAATTAATTT
*
27342709 CTAAAAAAATAAAATTAATTT
1 CTAAAAAACTAAAATTAATTT
*
27342730 TTAAAAAAGCTAAA
1 CTAAAAAA-CTAAA
27342744 TAAGTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 8 0.28
21 17 0.59
22 4 0.14
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (21 bp):
CTAAAAAACTAAAATTAATTT
Found at i:27342942 original size:15 final size:17
Alignment explanation
Indices: 27342924--27342962 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
27342914 TTACATTCTA
27342924 TTAATTTAA-TAATT-T
1 TTAATTTAATTAATTAT
27342939 TTAATTTAATTAATTAT
1 TTAATTTAATTAATTAT
27342956 TT-ATTTA
1 TTAATTTA
27342963 TTTTATTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 10 0.45
17 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATTTAATTAATTAT
Found at i:27343922 original size:24 final size:24
Alignment explanation
Indices: 27343895--27343940 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
27343885 AACCTAATTC
27343895 TAATCAAAG-TCAAATATATTATGT
1 TAATCAAAGCT-AAATATATTATGT
* *
27343919 TAATTAATGCTAAATATATTAT
1 TAATCAAAGCTAAATATATTAT
27343941 ACTTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATCAAAGCTAAATATATTATGT
Found at i:27343955 original size:24 final size:24
Alignment explanation
Indices: 27343906--27343957 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
27343896 AATCAAAGTC
* * *
27343906 AAATATATTATGTTAATTAATGCT
1 AAATATATTATCTTAATAAATACT
27343930 AAATATATTATACTT-ATAAATACT
1 AAATATATTAT-CTTAATAAATACT
27343954 AAAT
1 AAAT
27343958 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATATTATCTTAATAAATACT
Found at i:27345033 original size:72 final size:72
Alignment explanation
Indices: 27344916--27345059 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
27344906 TGACTTAGGT
*
27344916 ACAATTTACTTGCTTTTCTATCTCTAAGAATCTCCATACCAAGTATCTTCTTTGCTGGTCCTAAA
1 ACAATTTACTTGCTTTTCTATCTCTAAGAATCTCCATACCAAGTATCTTCTTTGCTGGTCCCAAA
27344981 TCTTTCA
66 TCTTTCA
*
27344988 ACAATTTACTTGCTTTTCTATCTCTGAGAATCTCCATACCAAGTATCTTCTTTGCTGGTCCCAAA
1 ACAATTTACTTGCTTTTCTATCTCTAAGAATCTCCATACCAAGTATCTTCTTTGCTGGTCCCAAA
27345053 TCTTTCA
66 TCTTTCA
27345060 TCTAAAATTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (72 bp):
ACAATTTACTTGCTTTTCTATCTCTAAGAATCTCCATACCAAGTATCTTCTTTGCTGGTCCCAAA
TCTTTCA
Found at i:27345055 original size:35 final size:35
Alignment explanation
Indices: 27344944--27345055 Score: 88
Period size: 35 Copynumber: 3.1 Consensus size: 35
27344934 TATCTCTAAG
*
27344944 AATCTCCATACCAAGTATCTTCTTTGCTGGTCCTA
1 AATCTCCATACCAAGTATCTTCTTTGCTGGTCCCA
* * * * *
27344979 AATCTTTCA-A-CAA-TTTACTTGCTTTTCT-ATCTCTGA
1 AATC-TCCATACCAAGTAT-CTT-CTTTGCTGGTC-C-CA
27345015 GAATCTCCATACCAAGTATCTTCTTTGCTGGTCCCA
1 -AATCTCCATACCAAGTATCTTCTTTGCTGGTCCCA
27345051 AATCT
1 AATCT
27345056 TTCATCTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 20
0.66 0.11 0.23
Matches are distributed among these distances:
33 2 0.04
34 8 0.14
35 17 0.30
36 8 0.14
37 12 0.21
38 8 0.14
39 2 0.04
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (35 bp):
AATCTCCATACCAAGTATCTTCTTTGCTGGTCCCA
Found at i:27351014 original size:16 final size:16
Alignment explanation
Indices: 27350977--27351019 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
27350967 TAACCCAAAT
27350977 TAAATTAGATTAAAACTA
1 TAAATTA-A-TAAAACTA
*
27350995 -AAATTAATAATACTA
1 TAAATTAATAAAACTA
27351010 TAAATTAATA
1 TAAATTAATA
27351020 TTCATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 10 0.43
17 6 0.26
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (16 bp):
TAAATTAATAAAACTA
Found at i:27351593 original size:6 final size:6
Alignment explanation
Indices: 27351570--27351645 Score: 59
Period size: 6 Copynumber: 12.7 Consensus size: 6
27351560 CTTTATCCAA
* * * *
27351570 TTTTAT GTTTTA- -TTTAT TTTTAT TTTTAT TTCTAG TTGTAC TTTTAT
1 TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
27351617 TTTTAT TGTTAT TATTT-T ATTTTAT TTTT
1 TTTTAT TTTTAT T-TTTAT -TTTTAT TTTT
27351646 CATACTTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
4 4 0.07
6 43 0.77
7 9 0.16
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:27356403 original size:13 final size:13
Alignment explanation
Indices: 27356385--27356409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27356375 TTTGGACCAT
27356385 TTTGGATTTTTAC
1 TTTGGATTTTTAC
27356398 TTTGGATTTTTA
1 TTTGGATTTTTA
27356410 ACTGCTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTGGATTTTTAC
Found at i:27359883 original size:2 final size:2
Alignment explanation
Indices: 27359878--27359906 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27359868 GACAAATATA
27359878 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
27359907 TTGTATGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:27361335 original size:4 final size:4
Alignment explanation
Indices: 27361326--27361354 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
27361316 CCCTTTTCTA
27361326 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
27361355 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:27363577 original size:4 final size:4
Alignment explanation
Indices: 27363568--27363604 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
27363558 GGGCCTTAAT
27363568 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
27363605 CACGTTTGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:27366962 original size:40 final size:40
Alignment explanation
Indices: 27366907--27367144 Score: 458
Period size: 40 Copynumber: 6.0 Consensus size: 40
27366897 GAAAAAAAAA
27366907 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
27366947 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
27366987 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
27367027 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
27367067 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
27367107 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
27367145 GTTACATCCG
Statistics
Matches: 196, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 196 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:27367168 original size:120 final size:120
Alignment explanation
Indices: 27366922--27367170 Score: 408
Period size: 120 Copynumber: 2.1 Consensus size: 120
27366912 CCGGGTTAAG
27366922 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * ** *
27366987 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAG
66 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGCCAAA
27367042 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * * *
27367107 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACATCCGAGCCAAA
66 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGCCAAA
*
27367162 TTCCGAAGG
1 TCCCGAAGG
27367171 TAATTATGTT
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTACAACCGAGCCAAA
Found at i:27376530 original size:5 final size:5
Alignment explanation
Indices: 27376520--27376549 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
27376510 AGGAAAGAGG
27376520 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
27376550 GAAGGGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:27380589 original size:23 final size:23
Alignment explanation
Indices: 27380557--27380610 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
27380547 CCTGCTAAGG
*
27380557 ACAAAACCCGAATAATCACCAGC
1 ACAAAGCCCGAATAATCACCAGC
27380580 ACAAAGCCCGAATAATCACCAGC
1 ACAAAGCCCGAATAATCACCAGC
27380603 ACAAAGCC
1 ACAAAGCC
27380611 TGCTAGGCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.35, G:0.11, T:0.07
Consensus pattern (23 bp):
ACAAAGCCCGAATAATCACCAGC
Found at i:27380643 original size:39 final size:39
Alignment explanation
Indices: 27380578--27380712 Score: 148
Period size: 39 Copynumber: 3.5 Consensus size: 39
27380568 ATAATCACCA
27380578 GCACA-AAGCCCGAATAATCACCAGCACAAAGCCTGCTAG
1 GCACATAA-CCCGAATAATCACCAGCACAAAGCCTGCTAG
* * *
27380617 GCACTTAACCTGAATAATCACCAGCACAAAGTCTGCTAG
1 GCACATAACCCGAATAATCACCAGCACAAAGCCTGCTAG
* * * * *
27380656 GCACATAACCCGAACAATCAAC-GACACAAAGCTTGTTAT
1 GCACATAACCCGAATAATCACCAG-CACAAAGCCTGCTAG
**
27380695 GCACATGGCCCGAATAAT
1 GCACATAACCCGAATAAT
27380713 TACCGTATTT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 77 0.96
40 2 0.03
ACGTcount: A:0.38, C:0.30, G:0.16, T:0.16
Consensus pattern (39 bp):
GCACATAACCCGAATAATCACCAGCACAAAGCCTGCTAG
Found at i:27384798 original size:5 final size:5
Alignment explanation
Indices: 27384788--27384815 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
27384778 TAAACTGTGA
27384788 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
27384816 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:27390805 original size:12 final size:13
Alignment explanation
Indices: 27390790--27390818 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27390780 AATATTTAAA
27390790 ATTAATA-AAAAT
1 ATTAATATAAAAT
27390802 ATTAATATAAAAT
1 ATTAATATAAAAT
27390815 ATTA
1 ATTA
27390819 TAATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAATATAAAAT
Found at i:27390889 original size:16 final size:16
Alignment explanation
Indices: 27390868--27390917 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 16
27390858 ATATCTAATC
27390868 ATATAATAAATTATTA
1 ATATAATAAATTATTA
27390884 ATATAAT--A-TATTA
1 ATATAATAAATTATTA
*
27390897 ATTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
27390914 ATAT
1 ATAT
27390918 TTCAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 11 0.39
14 1 0.04
15 1 0.04
16 9 0.32
17 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:27390946 original size:19 final size:18
Alignment explanation
Indices: 27390924--27390979 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
27390914 ATATTTCAAT
27390924 TTTATTTTAATAATAAATA
1 TTTA-TTTAATAATAAATA
* *
27390943 TTTATGATAATTATAAATA
1 TTTAT-TTAATAATAAATA
27390962 --TA-TTAATAATAAATA
1 TTTATTTAATAATAAATA
27390977 TTT
1 TTT
27390980 TATAGTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 11 0.37
17 3 0.10
18 1 0.03
19 15 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TTTATTTAATAATAAATA
Found at i:27390989 original size:31 final size:34
Alignment explanation
Indices: 27390930--27390993 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
27390920 CAATTTTATT
*
27390930 TTAATAATAAATATTTATGATAATTATAAATATA
1 TTAATAATAAATATTTATGATAAGTATAAATATA
27390964 TTAATAATAAATATTT-T-AT-AGTATAAATAT
1 TTAATAATAAATATTTATGATAAGTATAAATAT
27390994 TAAAATATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 10 0.34
32 2 0.07
33 1 0.03
34 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (34 bp):
TTAATAATAAATATTTATGATAAGTATAAATATA
Found at i:27391404 original size:22 final size:23
Alignment explanation
Indices: 27391358--27391404 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
27391348 CCTAGTATAA
*
27391358 AAATATGAGTATTTTAATTATAT
1 AAATATGAGTATTTTAATTAAAT
*
27391381 AAATATGAGTA-TTTATTTAAAT
1 AAATATGAGTATTTTAATTAAAT
27391403 AA
1 AA
27391405 TGCTTAGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
AAATATGAGTATTTTAATTAAAT
Found at i:27392807 original size:21 final size:22
Alignment explanation
Indices: 27392764--27392812 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
27392754 AACACTAGTT
**
27392764 AATTTTTTTTGTATTGAGTTTG
1 AATTTTTTTTGTATTGAAATTG
*
27392786 AATTTTTTTT-TATTTAAATTG
1 AATTTTTTTTGTATTGAAATTG
*
27392807 AGTTTT
1 AATTTT
27392813 GAATTTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.65
Consensus pattern (22 bp):
AATTTTTTTTGTATTGAAATTG
Found at i:27395319 original size:16 final size:16
Alignment explanation
Indices: 27395300--27395330 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27395290 CCAGAAAAAG
27395300 AATAACAATGAAAGAT
1 AATAACAATGAAAGAT
27395316 AATAACAATGAAAGA
1 AATAACAATGAAAGA
27395331 CAAAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AATAACAATGAAAGAT
Found at i:27398079 original size:18 final size:18
Alignment explanation
Indices: 27398051--27398094 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
27398041 ACTGAAATTT
27398051 ATATGAAAATCCCAGAAGG
1 ATAT-AAAATCCCAGAAGG
* *
27398070 ATTTAAAATCCCTGAAGG
1 ATATAAAATCCCAGAAGG
27398088 ATATAAA
1 ATATAAA
27398095 GTTTCCTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGG
Found at i:27398655 original size:72 final size:72
Alignment explanation
Indices: 27398538--27398683 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
27398528 ATCAATTTCG
*
27398538 TCCTTGTGAGAATGATGAAGAGTTTCTTGGTCCTGAAGTACCATATCTAAGTGCCATAGGAGCAT
1 TCCTTATGAGAATGATGAAGAGTTTCTTGGTCCTGAAGTACCATATCTAAGTGCCATAGGAGCAT
27398603 TGATGTA
66 TGATGTA
27398610 TCCTTATGAGAATGATGAAGAGTTTCTTGGTCCTGAAGTACCATATCTAAGTGCCATAGGAGCAT
1 TCCTTATGAGAATGATGAAGAGTTTCTTGGTCCTGAAGTACCATATCTAAGTGCCATAGGAGCAT
27398675 TGATGTA
66 TGATGTA
27398682 TC
1 TC
27398684 TTGCAAATAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (72 bp):
TCCTTATGAGAATGATGAAGAGTTTCTTGGTCCTGAAGTACCATATCTAAGTGCCATAGGAGCAT
TGATGTA
Found at i:27403807 original size:14 final size:15
Alignment explanation
Indices: 27403790--27403819 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27403780 ATGAATATAG
27403790 TAAATA-TTAAAAAA
1 TAAATATTTAAAAAA
27403804 TAAATATTTAAAAAA
1 TAAATATTTAAAAAA
27403819 T
1 T
27403820 TACTAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAATATTTAAAAAA
Found at i:27404421 original size:16 final size:17
Alignment explanation
Indices: 27404391--27404423 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27404381 CCTTTTGTAT
*
27404391 ATGCTAACAATTTTAAA
1 ATGCTAACAAGTTTAAA
27404408 ATGC-AACAAGTTTAAA
1 ATGCTAACAAGTTTAAA
27404424 GGATCTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (17 bp):
ATGCTAACAAGTTTAAA
Found at i:27406609 original size:24 final size:26
Alignment explanation
Indices: 27406567--27406618 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
27406557 TGATAGGATG
* *
27406567 TTTATTATGC-ATT-TTTTTGAAGAT
1 TTTATTATACAATTATTTGTGAAGAT
27406591 TTTATTATACAATTATTTGTGAAGAT
1 TTTATTATACAATTATTTGTGAAGAT
27406617 TT
1 TT
27406619 CAATCTACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 3 0.12
26 12 0.50
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.56
Consensus pattern (26 bp):
TTTATTATACAATTATTTGTGAAGAT
Found at i:27408763 original size:16 final size:15
Alignment explanation
Indices: 27408746--27408800 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
27408736 TATAAAATAT
27408746 ATTATATTAATTAT-
1 ATTATATTAATTATA
* *
27408760 A-TATGTTAAATAATA
1 ATTATATT-AATTATA
*
27408775 ATTATATATATTTATA
1 ATTATAT-TAATTATA
27408791 ATTATATTAA
1 ATTATATTAA
27408801 ATCACTAGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
13 5 0.16
14 6 0.19
15 3 0.10
16 16 0.52
17 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTATATTAATTATA
Found at i:27408992 original size:15 final size:16
Alignment explanation
Indices: 27408961--27408994 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
27408951 TTAGTGTATT
27408961 ATATTTTGTAAAAAAA
1 ATATTTTGTAAAAAAA
27408977 ATATTTT-TAAATAAAA
1 ATATTTTGTAAA-AAAA
27408993 AT
1 AT
27408995 TATGTAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATTTTGTAAAAAAA
Found at i:27412661 original size:5 final size:5
Alignment explanation
Indices: 27412646--27412695 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 5
27412636 GGAAGATGAG
*
27412646 TATTT TGTTT TATTT TATTT TATTTT TATTTT TATTTT TATTTT TATTT
1 TATTT TATTT TATTT TATTT TA-TTT TA-TTT TA-TTT TA-TTT TATTT
27412695 T
1 T
27412696 TAATTAACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 19 0.45
6 23 0.55
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (5 bp):
TATTT
Found at i:27412674 original size:6 final size:6
Alignment explanation
Indices: 27412653--27412697 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
27412643 GAGTATTTTG
27412653 TTTTA- TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
27412698 ATTAACTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
5 10 0.26
6 29 0.74
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:27420307 original size:5 final size:5
Alignment explanation
Indices: 27420300--27420331 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
27420290 AGGGAAGAGG
*
27420300 GAGAG GAGAA GAGAA GAGAA GAGAA GAGAA GA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GA
27420332 ACGTGAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:27420372 original size:7 final size:7
Alignment explanation
Indices: 27420362--27420407 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
27420352 AAAAGAGAAA
27420362 AATAAAT
1 AATAAAT
27420369 AATAAAT
1 AATAAAT
27420376 AATAAAT
1 AATAAAT
27420383 AATAAA-
1 AATAAAT
27420389 AATAATAT
1 AATAA-AT
27420397 CAAT-AAT
1 -AATAAAT
27420404 AATA
1 AATA
27420408 TGTTAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 8 0.23
7 23 0.66
8 1 0.03
9 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:27421139 original size:12 final size:12
Alignment explanation
Indices: 27421122--27421150 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
27421112 ACACGGGGTA
27421122 GGACATGGGCTG
1 GGACATGGGCTG
27421134 GGACATGGGCTG
1 GGACATGGGCTG
27421146 GGACA
1 GGACA
27421151 CGACTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.48, T:0.14
Consensus pattern (12 bp):
GGACATGGGCTG
Found at i:27427273 original size:25 final size:25
Alignment explanation
Indices: 27427239--27427288 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27427229 ATTGAGAAAA
27427239 CATATCTTGTCTGTTCTAAGATGTT
1 CATATCTTGTCTGTTCTAAGATGTT
27427264 CATATCTTGTCTGTTCTAAGATGTT
1 CATATCTTGTCTGTTCTAAGATGTT
27427289 TCTTTATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (25 bp):
CATATCTTGTCTGTTCTAAGATGTT
Found at i:27430824 original size:36 final size:33
Alignment explanation
Indices: 27430768--27430853 Score: 84
Period size: 36 Copynumber: 2.5 Consensus size: 33
27430758 GAGACTTTGA
* *
27430768 TGAATTACTTTTGTATTCCTACTTCAATTTGAAATT
1 TGAATTA-TTTTCTTTTCCTACTTCAA-TTGAAA-T
* *
27430804 TG-ATTATTCTTTCTTTTCCTATTTCCATTGAAAT
1 TGAATTA-T-TTTCTTTTCCTACTTCAATTGAAAT
27430838 TGAATTATTTTCTTTT
1 TGAATTATTTTCTTTT
27430854 ATCTTTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
33 8 0.19
34 4 0.09
35 15 0.35
36 16 0.37
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (33 bp):
TGAATTATTTTCTTTTCCTACTTCAATTGAAAT
Found at i:27431269 original size:15 final size:14
Alignment explanation
Indices: 27431243--27431328 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
27431233 TATTCTAATA
*
27431243 CTATTATTATTTAT
1 CTATTTTTATTTAT
27431257 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
27431272 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
27431286 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
27431301 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
*
27431316 -TATTTCTATTTAT
1 CTATTTTTATTTAT
27431329 ATACTAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
12 2 0.03
13 4 0.07
14 22 0.37
15 30 0.50
16 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:27431282 original size:14 final size:15
Alignment explanation
Indices: 27431250--27431283 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
27431240 ATACTATTAT
*
27431250 TATTTATCTAATTTT
1 TATTTATCTAATTTA
27431265 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
27431279 TATTT
1 TATTT
27431284 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:27431282 original size:29 final size:29
Alignment explanation
Indices: 27431250--27431308 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
27431240 ATACTATTAT
*
27431250 TATTTAT-CTAATTTTTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATATT-TCTATTTA
*
27431279 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTATTATTATATTTCTATTTA
27431308 T
1 T
27431309 TATATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATACTATTATTATATTTCTATTTA
Found at i:27431319 original size:20 final size:20
Alignment explanation
Indices: 27431260--27431328 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
27431250 TATTTATCTA
*
27431260 ATTTTTATTTATCTAT-TTAT
1 ATTTCTATTTAT-TATATTAT
*
27431280 ATTTCTA-CTA-T-TATTAT
1 ATTTCTATTTATTATATTAT
*
27431297 ATTTCTATTTATTATATTTT
1 ATTTCTATTTATTATATTAT
27431317 ATTTCTATTTAT
1 ATTTCTATTTAT
27431329 ATACTAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.02
17 12 0.29
18 2 0.05
19 3 0.07
20 23 0.56
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTCTATTTATTATATTAT
Found at i:27431320 original size:14 final size:15
Alignment explanation
Indices: 27431276--27431320 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
27431266 ATTTATCTAT
27431276 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
27431293 TTATATTTCTATTTA
1 TTATATTTCTATTTA
27431308 TTATATTT-TATTT
1 TTATATTTCTATTT
27431321 CTATTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 1 0.04
17 11 0.39
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:27431330 original size:17 final size:16
Alignment explanation
Indices: 27431276--27431330 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
27431266 ATTTATCTAT
*
27431276 TTATATTTCTACTATTA
1 TTATATTTCTA-TTTTA
27431293 TTATATTTCTA-TTTA
1 TTATATTTCTATTTTA
27431308 TTATATTT-TATTTCTA
1 TTATATTTCTATTT-TA
27431324 TTTATAT
1 -TTATAT
27431331 ACTAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 2 0.06
15 13 0.38
16 2 0.06
17 17 0.50
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTTCTATTTTA
Found at i:27431339 original size:20 final size:20
Alignment explanation
Indices: 27431260--27431339 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
27431250 TATTTATCTA
* *
27431260 ATTTTTATTTATCTAT-TTAT
1 ATTTCTATTTAT-TATATAAT
*
27431280 ATTTCTA-CTATTAT-T-AT
1 ATTTCTATTTATTATATAAT
**
27431297 ATTTCTATTTATTATATTTT
1 ATTTCTATTTATTATATAAT
27431317 ATTTCTATTTA-TATACTAAT
1 ATTTCTATTTATTATA-TAAT
27431337 ATT
1 ATT
27431340 ATTTTCATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
17 9 0.18
18 10 0.20
19 8 0.16
20 23 0.46
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTCTATTTATTATATAAT
Found at i:27431511 original size:25 final size:24
Alignment explanation
Indices: 27431450--27431511 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
27431440 TATAATGCTC
* * *
27431450 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATAAATTATGT
27431474 ACTTT-AATATTTTCATAAATTATGT
1 A-TTTCAA-ATTTTCATAAATTATGT
27431499 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
27431512 TTTTCACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTTCAAATTTTCATAAATTATGT
Found at i:27434195 original size:18 final size:18
Alignment explanation
Indices: 27434172--27434207 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27434162 TAAGAATGTT
27434172 TACATTGCGAGAAAGACA
1 TACATTGCGAGAAAGACA
*
27434190 TACATTGTGAGAAAGACA
1 TACATTGCGAGAAAGACA
27434208 ACTTACTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (18 bp):
TACATTGCGAGAAAGACA
Found at i:27434434 original size:23 final size:22
Alignment explanation
Indices: 27434404--27434447 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
27434394 TACATTAGAC
27434404 TGGACCCA-AGATGAATTAATTT
1 TGGACCCATAG-TGAATTAATTT
*
27434426 TGGATCCCATTGTGAATTAATT
1 TGGA-CCCATAGTGAATTAATT
27434448 CACTGCTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (22 bp):
TGGACCCATAGTGAATTAATTT
Found at i:27434841 original size:19 final size:19
Alignment explanation
Indices: 27434794--27434851 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
27434784 AAAATGATAA
27434794 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
**
27434814 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
27434833 AATCAAGTTAAAATTGTTT
1 AATCAAGTTAAAA-TGTTT
27434852 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:27440648 original size:12 final size:12
Alignment explanation
Indices: 27440628--27440660 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
27440618 AGTGTCATCG
27440628 CACATGGCCTAC
1 CACATGGCCTAC
*
27440640 CACACGGCCTAC
1 CACATGGCCTAC
27440652 CACATGGCC
1 CACATGGCC
27440661 GTGTGGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.12
Consensus pattern (12 bp):
CACATGGCCTAC
Found at i:27446195 original size:23 final size:21
Alignment explanation
Indices: 27446169--27446215 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
27446159 TAATGTTTTT
27446169 ATAA-CTATATACAGTATTTCAGA
1 ATAATCTATATA-AGT-TTT-AGA
*
27446192 ATAATCTATTTAAGTTTTAGA
1 ATAATCTATATAAGTTTTAGA
27446213 ATA
1 ATA
27446216 CTTATAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.27
22 3 0.14
23 7 0.32
24 6 0.27
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
ATAATCTATATAAGTTTTAGA
Found at i:27448111 original size:43 final size:43
Alignment explanation
Indices: 27448064--27448179 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
27448054 TGTGATTACA
* *
27448064 TGTAAGACCATGTCTGGGATATTTGGCATTG-TA-TTGGATTATG
1 TGTAAGACCATGTCTGGGACA-TTGGCATCGTTAGTT-GATTATG
* *
27448107 TGTAAGACCATGTCTGAGACATTGGCATCGTTAGTTGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTAGTTGATTATG
* *
27448150 TGTAAGACCTTGTCTGGGACAATGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
27448180 ATGTGTGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
42 8 0.12
43 54 0.84
44 2 0.03
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTAGTTGATTATG
Found at i:27448197 original size:43 final size:43
Alignment explanation
Indices: 27448054--27448219 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
27448044 GTTATCGAGA
* *
27448054 TGTGATTACATGTAAGACCATGTCTGGGATATTTGGCATTGTAT-
1 TGTGATTACATGTAAGACCATGTCTGGGACA-TTGGCATCG-ATG
** * *
27448098 TG-GATTATGTGTAAGACCATGTCTGAGACATTGGCATCGTTAG
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT-G
*** * *
27448141 T-TGATTTTGTGTAAGACCTTGTCTGGGACAATGGCATCGATG
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATG
* * * *
27448183 TGTGATAACATGTAAGGCCATATCTGGGATA-TGGCAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
27448220 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 16 0.16
43 80 0.81
44 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGATG
Found at i:27452734 original size:19 final size:19
Alignment explanation
Indices: 27452687--27452735 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
27452677 AAAATGATAA
27452687 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
**
27452707 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
27452726 AATCAAGTTA
1 AATCAAGTTA
27452736 CTGTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 12 0.50
20 10 0.42
21 2 0.08
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:27471866 original size:17 final size:16
Alignment explanation
Indices: 27471826--27471862 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
27471816 CTCAGATCTT
*
27471826 AAAAACAAAACATTAA
1 AAAAATAAAACATTAA
27471842 AAAAATAAAACATTAA
1 AAAAATAAAACATTAA
27471858 AAAAA
1 AAAAA
27471863 ATAACAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAATAAAACATTAA
Found at i:27471868 original size:15 final size:14
Alignment explanation
Indices: 27471824--27471868 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
27471814 ACCTCAGATC
*
27471824 TTAAAAACAAAACA
1 TTAAAAAAAAAACA
27471838 TTAAAAAAATAAAACA
1 TT-AAAAAA-AAAACA
27471854 TTAAAAAAAATAACA
1 TTAAAAAAAA-AACA
27471869 AAACACTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.15
15 15 0.56
16 8 0.30
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (14 bp):
TTAAAAAAAAAACA
Found at i:27471871 original size:20 final size:20
Alignment explanation
Indices: 27471829--27471881 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
27471819 AGATCTTAAA
27471829 AACAAAACATT-AAAAAAAT
1 AACAAAACATTAAAAAAAAT
27471848 ---AAAACATTAAAAAAAAT
1 AACAAAACATTAAAAAAAAT
*
27471865 AACAAAACACTAAAAAA
1 AACAAAACATTAAAAAA
27471882 TAAAGTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 8 0.28
17 8 0.28
20 13 0.45
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.13
Consensus pattern (20 bp):
AACAAAACATTAAAAAAAAT
Found at i:27472839 original size:13 final size:13
Alignment explanation
Indices: 27472821--27472847 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27472811 AAAGTTGTGA
27472821 TCCATGATAAATT
1 TCCATGATAAATT
27472834 TCCATGATAAATT
1 TCCATGATAAATT
27472847 T
1 T
27472848 AAAAGTTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TCCATGATAAATT
Found at i:27478070 original size:17 final size:18
Alignment explanation
Indices: 27478048--27478092 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
27478038 TTATGAATTA
27478048 AAAAATAATTATA-AAAG
1 AAAAATAATTATACAAAG
*
27478065 AAAAATAGTTATACTAAAG
1 AAAAATAATTATAC-AAAG
*
27478084 ATAAATAAT
1 AAAAATAAT
27478093 ATGAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 12 0.52
19 11 0.48
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAAATAATTATACAAAG
Found at i:27481853 original size:46 final size:46
Alignment explanation
Indices: 27481785--27481887 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
27481775 TATGTGCATG
*
27481785 TGAATTTAAGTTGGTGTTTAAGTGCTTCTGAACTAGGCAAAATGGAT
1 TGAATTT-GGTTGGTGTTTAAGTGCTTCTGAACTAGGCAAAATGGAT
27481832 TGAATTTGGTTGGTGTTTAAGTGCTTCTGAACTAGGCAAAATGGAT
1 TGAATTTGGTTGGTGTTTAAGTGCTTCTGAACTAGGCAAAATGGAT
27481878 TGAATTTGGT
1 TGAATTTGGT
27481888 AGGTTTATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 48 0.87
47 7 0.13
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (46 bp):
TGAATTTGGTTGGTGTTTAAGTGCTTCTGAACTAGGCAAAATGGAT
Found at i:27491309 original size:32 final size:32
Alignment explanation
Indices: 27491273--27491335 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
27491263 CACATCTAAG
27491273 ATGAACTTGGAGAAATAGTTG-TCCAAGTTCAA
1 ATGAACTTGGAGAAATAGTTGCT-CAAGTTCAA
*
27491305 ATGAACTTGGATAAATAGTTGCTCAAGTTCA
1 ATGAACTTGGAGAAATAGTTGCTCAAGTTCA
27491336 TCTTAAACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (32 bp):
ATGAACTTGGAGAAATAGTTGCTCAAGTTCAA
Found at i:27491392 original size:21 final size:22
Alignment explanation
Indices: 27491351--27491392 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
27491341 AACATAGTCT
*
27491351 TTTAAATAATTATATAAAATTA
1 TTTAAATAATTATAGAAAATTA
*
27491373 TTTAAA-AATTATAGAGAATT
1 TTTAAATAATTATAGAAAATT
27491393 GTATGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TTTAAATAATTATAGAAAATTA
Found at i:27491920 original size:6 final size:6
Alignment explanation
Indices: 27491911--27491949 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
27491901 AAGTAAAATG
27491911 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATA
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATA
27491950 GTTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:27492074 original size:18 final size:17
Alignment explanation
Indices: 27492024--27492092 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
27492014 CATTTTCAAC
* *
27492024 ATTATTTTTAAATAACTT
1 ATTA-TTTTATATAATTT
27492042 ATTAATATTTA-ATAATATT
1 ATT-AT-TTTATATAAT-TT
27492061 ATTATTTTATATAATTT
1 ATTATTTTATATAATTT
*
27492078 TTTATTTT-TATAATT
1 ATTATTTTATATAATT
27492093 ATTTCAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
16 7 0.16
17 13 0.29
18 15 0.33
19 10 0.22
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATTTTATATAATTT
Found at i:27502873 original size:46 final size:46
Alignment explanation
Indices: 27502806--27502898 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
27502796 CAAAAGTAAC
27502806 AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
1 AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
27502852 AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
1 AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
27502898 A
1 A
27502899 GGTTAGAACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (46 bp):
AAACAACATTGGCAATTGGATTGCATCTTGCTTAAATCCTTTTCTT
Found at i:27508126 original size:136 final size:136
Alignment explanation
Indices: 27507969--27508240 Score: 544
Period size: 136 Copynumber: 2.0 Consensus size: 136
27507959 AATAACACTA
27507969 GGATAATTACAACTTAGTAAGCAAATGCCTCTAATTTAAGTATAAAGACTCTTCAAATCTGTATT
1 GGATAATTACAACTTAGTAAGCAAATGCCTCTAATTTAAGTATAAAGACTCTTCAAATCTGTATT
27508034 ACTCATTTTAATTTCAATCTTTTAAACTCTACTATGGCTATATTAAGGACAGTGAATCATATAAC
66 ACTCATTTTAATTTCAATCTTTTAAACTCTACTATGGCTATATTAAGGACAGTGAATCATATAAC
27508099 ACAAGT
131 ACAAGT
27508105 GGATAATTACAACTTAGTAAGCAAATGCCTCTAATTTAAGTATAAAGACTCTTCAAATCTGTATT
1 GGATAATTACAACTTAGTAAGCAAATGCCTCTAATTTAAGTATAAAGACTCTTCAAATCTGTATT
27508170 ACTCATTTTAATTTCAATCTTTTAAACTCTACTATGGCTATATTAAGGACAGTGAATCATATAAC
66 ACTCATTTTAATTTCAATCTTTTAAACTCTACTATGGCTATATTAAGGACAGTGAATCATATAAC
27508235 ACAAGT
131 ACAAGT
27508241 AGCCAATGAT
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 136 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (136 bp):
GGATAATTACAACTTAGTAAGCAAATGCCTCTAATTTAAGTATAAAGACTCTTCAAATCTGTATT
ACTCATTTTAATTTCAATCTTTTAAACTCTACTATGGCTATATTAAGGACAGTGAATCATATAAC
ACAAGT
Found at i:27514990 original size:17 final size:19
Alignment explanation
Indices: 27514957--27514991 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
27514947 GAATAGAATA
27514957 GAAAATAGTGTAAATTGAT
1 GAAAATAGTGTAAATTGAT
27514976 GAAAATA-TG-AAATTGA
1 GAAAATAGTGTAAATTGA
27514992 CTTTGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (19 bp):
GAAAATAGTGTAAATTGAT
Found at i:27515777 original size:35 final size:35
Alignment explanation
Indices: 27515731--27515810 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
27515721 GGCTCATGCC
*
27515731 CACGTCTAAGGCGA-CTTTAAAAAGGTTGGAATAGA
1 CACGTCTAAGGCAACCTTT-AAAAGGTTGGAATAGA
*
27515766 CCCGTCTAAGGCAACCTTTAAAAGGTTGGAATAGA
1 CACGTCTAAGGCAACCTTTAAAAGGTTGGAATAGA
27515801 CACGTCTAAG
1 CACGTCTAAG
27515811 ACAAAATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 37 0.90
36 4 0.10
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (35 bp):
CACGTCTAAGGCAACCTTTAAAAGGTTGGAATAGA
Found at i:27518078 original size:13 final size:13
Alignment explanation
Indices: 27518057--27518130 Score: 103
Period size: 13 Copynumber: 5.7 Consensus size: 13
27518047 CTTAAATTTT
27518057 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
27518070 TCTAAAGCACTTC
1 TCAAAAGCACTTC
* *
27518083 TTAAAAGCACTTT
1 TCAAAAGCACTTC
* *
27518096 TCCACAGCACTTC
1 TCAAAAGCACTTC
27518109 TCAAAAGCACTTC
1 TCAAAAGCACTTC
27518122 TCAAAAGCA
1 TCAAAAGCA
27518131 TTGCCAAACT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.36, C:0.30, G:0.08, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:27518718 original size:37 final size:37
Alignment explanation
Indices: 27518677--27518772 Score: 95
Period size: 41 Copynumber: 2.5 Consensus size: 37
27518667 TAATAAAAAA
* *
27518677 AGTGTAAGATAATATTTTTGGTACTAAAAAAATAGAT
1 AGTGTAAGATAATATTTTGGGCACTAAAAAAATAGAT
* *
27518714 AGTGTAA-ATTTAATGAAATTTTGGGCATTAAACAAATAGAT
1 AGTGTAAGA--TAAT---ATTTTGGGCACTAAAAAAATAGAT
*
27518755 AGTGTAAGATTATATTTT
1 AGTGTAAGATAATATTTT
27518773 ATCTAATTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
36 1 0.02
37 12 0.25
38 4 0.08
40 3 0.06
41 27 0.56
42 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.38
Consensus pattern (37 bp):
AGTGTAAGATAATATTTTGGGCACTAAAAAAATAGAT
Found at i:27519326 original size:126 final size:126
Alignment explanation
Indices: 27519101--27519352 Score: 396
Period size: 126 Copynumber: 2.0 Consensus size: 126
27519091 TATAAAAAAA
* * * *
27519101 GTCGGCATGGTGTTGAACAAAACTGACTCTTATTTAAGCGTTGCCTTAGGCATACATATCCCGAC
1 GTCGGCATAGTGTTGAACAAAACTGACTCTTATGTAAGCGCTGCCTTAGGCATACATATCCCAAC
* *
27519166 TCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGT
66 CCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAAGAAAGT
* * *
27519227 GTCGGCATAGTGTTGGACAAAGCTGACTCTTATGTAAGCGCTGCCTTAGGCATCCATATCCCAAC
1 GTCGGCATAGTGTTGAACAAAACTGACTCTTATGTAAGCGCTGCCTTAGGCATACATATCCCAAC
* **
27519292 CCTTATACAAAGAGTTGGCTAAAGCTTATGTTGGCAAGTCTATCCCAACACTTAAGAAAGT
66 CCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAAGAAAGT
27519353 ATTAGCCCAA
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 114 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (126 bp):
GTCGGCATAGTGTTGAACAAAACTGACTCTTATGTAAGCGCTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAAGAAAGT
Found at i:27524864 original size:13 final size:13
Alignment explanation
Indices: 27524846--27524874 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27524836 AGGAGCAATC
27524846 GTTGATCCATAGG
1 GTTGATCCATAGG
27524859 GTTGATCCATAGG
1 GTTGATCCATAGG
27524872 GTT
1 GTT
27524875 AAAGTCAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.34
Consensus pattern (13 bp):
GTTGATCCATAGG
Found at i:27533254 original size:4 final size:4
Alignment explanation
Indices: 27533245--27533277 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
27533235 AGCAAACGTG
27533245 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
27533278 TAGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:27534097 original size:47 final size:47
Alignment explanation
Indices: 27534033--27534143 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
27534023 GACATTGAGT
* *
27534033 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
27534080 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
27534127 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
27534144 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:27535543 original size:2 final size:2
Alignment explanation
Indices: 27535538--27535566 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27535528 ATACATACAA
27535538 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
27535567 TATATTTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:27539053 original size:13 final size:13
Alignment explanation
Indices: 27539035--27539059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27539025 ATAAAGCAGT
27539035 TAAAAATCCAAAG
1 TAAAAATCCAAAG
27539048 TAAAAATCCAAA
1 TAAAAATCCAAA
27539060 ATGGTCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
TAAAAATCCAAAG
Found at i:27543824 original size:6 final size:6
Alignment explanation
Indices: 27543799--27543874 Score: 59
Period size: 6 Copynumber: 12.7 Consensus size: 6
27543789 TATAAGTATG
* * * * *
27543799 AAAAAT -AAAAT AAAATAAT AACAAT AAAAAT AAAAGT ACAACT AGAAAT
1 AAAAAT AAAAAT -AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
27543848 AAAAAT AAAAAT --AAAT AAAACAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAA
27543875 TTGGATAAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
4 4 0.07
5 5 0.09
6 34 0.61
7 10 0.18
8 3 0.05
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Done.