Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 364 of 427
Found at i:105650762 original size:43 final size:43
Alignment explanation
Indices: 105650707--105650828 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
105650697 AATAAAATAT
* * *
105650707 GATGCC-GATGTCCCAAACATGGTCTTACACAAAATCTCTAATC
1 GATGCCAG-TGTCCCAGACATGGTCTTACACGAAATCTCAAATC
* *
105650750 GATGCCAGTGTCCCAGACACT-GTCTTACACGATATCTCAAATT
1 GATGCCAGTGTCCCAGACA-TGGTCTTACACGAAATCTCAAATC
** * *
105650793 GATGCCAACGTCCTAGACGTGGTCTTACACGAAATC
1 GATGCCAGTGTCCCAGACATGGTCTTACACGAAATC
105650829 ATATCTCGGA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 63 0.95
44 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
GATGCCAGTGTCCCAGACATGGTCTTACACGAAATCTCAAATC
Found at i:105650978 original size:2 final size:2
Alignment explanation
Indices: 105650971--105651011 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
105650961 TCATAATAAC
105650971 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105651012 ACTTATTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:105655511 original size:26 final size:26
Alignment explanation
Indices: 105655474--105655557 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
105655464 TGATACAAAT
* *
105655474 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105655500 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105655526 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105655552 TGATAA
1 TGATAA
105655558 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:105659741 original size:22 final size:22
Alignment explanation
Indices: 105659715--105659772 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
105659705 GCTGTTTTTT
105659715 GTGCTGTTTTGATGGTATTTGG
1 GTGCTGTTTTGATGGTATTTGG
*
105659737 GTGCTGTTTTGATGGTATTTTG
1 GTGCTGTTTTGATGGTATTTGG
**
105659759 GTTTTGTTTTGATG
1 GTGCTGTTTTGATG
105659773 CTGTTTTCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.09, C:0.03, G:0.33, T:0.55
Consensus pattern (22 bp):
GTGCTGTTTTGATGGTATTTGG
Found at i:105659777 original size:11 final size:11
Alignment explanation
Indices: 105659701--105659779 Score: 52
Period size: 11 Copynumber: 7.1 Consensus size: 11
105659691 GTGTTGTTGG
105659701 TGATGCTGTTTTT
1 TGATGCTG--TTT
105659714 TG-TGCTGTTT
1 TGATGCTGTTT
* *
105659724 TGATGGTATTT
1 TGATGCTGTTT
* *
105659735 GGGTGCTGTTT
1 TGATGCTGTTT
* *
105659746 TGATGGTATTT
1 TGATGCTGTTT
* **
105659757 TGGTTTTGTTT
1 TGATGCTGTTT
105659768 TGATGCTGTTT
1 TGATGCTGTTT
105659779 T
1 T
105659780 CGTGCTATTT
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
10 5 0.10
11 36 0.75
12 5 0.10
13 2 0.04
ACGTcount: A:0.08, C:0.05, G:0.29, T:0.58
Consensus pattern (11 bp):
TGATGCTGTTT
Found at i:105659790 original size:22 final size:22
Alignment explanation
Indices: 105659701--105659791 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 22
105659691 GTGTTGTTGG
* *
105659701 TGATGCTGTTTTTTGTGCTGTTT
1 TGATGCT-ATTTTGGTGCTGTTT
* *
105659724 TGATGGTATTTGGGTGCTGTTT
1 TGATGCTATTTTGGTGCTGTTT
* **
105659746 TGATGGTATTTTGGTTTTGTTT
1 TGATGCTATTTTGGTGCTGTTT
* * *
105659768 TGATGCTGTTTTCGTGCTATTT
1 TGATGCTATTTTGGTGCTGTTT
105659790 TG
1 TG
105659792 CTACTACTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
22 49 0.89
23 6 0.11
ACGTcount: A:0.08, C:0.07, G:0.29, T:0.57
Consensus pattern (22 bp):
TGATGCTATTTTGGTGCTGTTT
Found at i:105660505 original size:31 final size:31
Alignment explanation
Indices: 105660459--105660532 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
105660449 TTTTATTATA
* *
105660459 TTTTTAAGTTATGTA-TTATTTTAAGAATTG
1 TTTTTATGTTTTGTATTTATTTTAAGAATTG
* * * *
105660489 TTTGTTTTGTTTTGTATTTGTTTTAATATTTG
1 TTT-TTATGTTTTGTATTTATTTTAAGAATTG
105660521 TTTTTATGTTTT
1 TTTTTATGTTTT
105660533 AAATGTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 3 0.09
31 17 0.49
32 15 0.43
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.68
Consensus pattern (31 bp):
TTTTTATGTTTTGTATTTATTTTAAGAATTG
Found at i:105665074 original size:14 final size:14
Alignment explanation
Indices: 105665052--105665088 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
105665042 TGTTTTAAAT
*
105665052 TTTTGGTGAATTAA
1 TTTTAGTGAATTAA
105665066 TTTTAGTGAATTAA
1 TTTTAGTGAATTAA
105665080 TTTTAGTGA
1 TTTTAGTGA
105665089 TTGTTTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (14 bp):
TTTTAGTGAATTAA
Found at i:105666309 original size:96 final size:96
Alignment explanation
Indices: 105666145--105666419 Score: 320
Period size: 96 Copynumber: 2.9 Consensus size: 96
105666135 TATGTGTGCC
* * * *
105666145 AGTGTAAGATCATGTCTGGGACAT-GACATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATAG-CATCGGCCTCAATATGAGAGCTAGTGTAAGACCATGTT
** *
105666209 TGGAACATGACATCGGCAACGTTATGAGAGCT
65 TGGAACATGACATCGGCAACGAGACGAGAGCT
* * *
105666241 AGTGTAAGACCATGTTTGGGACATAGCATCGGCCTCAATATGCGAGCTAGTGTAAGACCATATTT
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCAATATGAGAGCTAGTGTAAGACCATGTTT
* **
105666306 GGAACATGACATCGGTATTGAGACGAGAGCT
66 GGAACATGACATCGGCAACGAGACGAGAGCT
* * * * * * *
105666337 ACTGTAAGACTATGTCTGGGACATAGCATCGGTCTCGACATGTGAG-TCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCAATATGAGAGCT-AGTGTAAGACCATGTT
* *
105666401 TGGGACATGGCATCGGCAA
65 TGGAACATGACATCGGCAA
105666420 TTTACCCTCT
Statistics
Matches: 151, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 149 0.99
97 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCAATATGAGAGCTAGTGTAAGACCATGTTT
GGAACATGACATCGGCAACGAGACGAGAGCT
Found at i:105666336 original size:48 final size:48
Alignment explanation
Indices: 105666145--105666418 Score: 236
Period size: 48 Copynumber: 5.7 Consensus size: 48
105666135 TATGTGTGCC
* * * *
105666145 AGTGTAAGATCATGTCTGGGACATGACATCGGCCA-C-ATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGACATCGG-CATCGA-TATGAGAGCT
* *
105666193 AGTGTAAGACCATGTTTGGAACATGACATCGGCAACGTTATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGACATCGGCATCGATATGAGAGCT
* * * *
105666241 AGTGTAAGACCATGTTTGGGACAT-AGCATCGGCCTCAATATGCGAGCT
1 AGTGTAAGACCATGTTTGGAACATGA-CATCGGCATCGATATGAGAGCT
* * * * *
105666289 AGTGTAAGACCATATTTGGAACATGACATCGGTATTGAGACGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGACATCGGCATCGATATGAGAGCT
* * * * * *
105666337 ACTGTAAGACTATGTCTGGGACAT-AGCATCGGTC-TCGACATGTGAG-T
1 AGTGTAAGACCATGTTTGGAACATGA-CATCGG-CATCGATATGAGAGCT
* * *
105666384 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 -AGTGTAAGACCATGTTTGGAACATGACATCGGCA
105666419 ATTTACCCTC
Statistics
Matches: 184, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
47 6 0.03
48 177 0.96
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGACATCGGCATCGATATGAGAGCT
Found at i:105666731 original size:20 final size:17
Alignment explanation
Indices: 105666706--105666745 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 17
105666696 TCACTCAAGA
105666706 ATGTTATGTTGATTTATAAT
1 ATGTTATG-TG-TTTA-AAT
105666726 ATGTTATGTGTTTAAAT
1 ATGTTATGTGTTTAAAT
105666743 ATG
1 ATG
105666746 CATGGTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 2 0.10
20 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (17 bp):
ATGTTATGTGTTTAAAT
Found at i:105672608 original size:25 final size:25
Alignment explanation
Indices: 105672574--105672628 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
105672564 AATTATTATA
*
105672574 TTGCCCGTGCTTTACGTATCACATG
1 TTGCTCGTGCTTTACGTATCACATG
105672599 TTGCTCGTGCTTTACGTATCACATG
1 TTGCTCGTGCTTTACGTATCACATG
105672624 TTGCT
1 TTGCT
105672629 TGTGTATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.40
Consensus pattern (25 bp):
TTGCTCGTGCTTTACGTATCACATG
Found at i:105677064 original size:27 final size:27
Alignment explanation
Indices: 105677016--105677174 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
105677006 GCGAGGCTGC
* *
105677016 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
105677043 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
105677069 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
105677096 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
105677123 CAGATACATGTGGCAGAGCCACCAGAT-
1 CAGATA-TTGTGGCAGAGCCACCAGATA
*
105677150 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
105677175 GACGCTTCTT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 9 0.08
27 102 0.89
28 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:105677109 original size:54 final size:54
Alignment explanation
Indices: 105677034--105677174 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
105677024 GTGACGAAGT
* *
105677034 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
*
105677088 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
105677142 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
105677175 GACGCTTCTT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
Found at i:105678792 original size:26 final size:26
Alignment explanation
Indices: 105678762--105678869 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
105678752 TGAAATTCCC
105678762 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
105678788 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
105678814 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105678840 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105678866 ATCA
1 ATCA
105678870 ATTTGTGTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105685151 original size:27 final size:27
Alignment explanation
Indices: 105685103--105685261 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
105685093 GCGAGGCTGC
* *
105685103 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
105685130 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
105685156 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
105685183 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
105685210 CAGATACATGTGGCAGAGCCACCAGAT-
1 CAGATA-TTGTGGCAGAGCCACCAGATA
*
105685237 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
105685262 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 9 0.08
27 102 0.89
28 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:105685196 original size:54 final size:54
Alignment explanation
Indices: 105685121--105685261 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
105685111 GTGACGAAGT
* *
105685121 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
*
105685175 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
105685229 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
105685262 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATACATGTGGCAGAGC
Found at i:105686648 original size:22 final size:22
Alignment explanation
Indices: 105686589--105686648 Score: 52
Period size: 23 Copynumber: 2.6 Consensus size: 22
105686579 TTGAATTGAG
*
105686589 AAAGTGAATTATAATTGATACTA
1 AAAGTGAGTTA-AATTGATACTA
*
105686612 AAA-TGAGATAGAAATTG-TACTGA
1 AAAGTGAG-T-TAAATTGATACT-A
105686635 AAAGTGAGTTAAAT
1 AAAGTGAGTTAAAT
105686649 ACCCTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
22 11 0.37
23 14 0.47
24 5 0.17
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.30
Consensus pattern (22 bp):
AAAGTGAGTTAAATTGATACTA
Found at i:105686807 original size:45 final size:45
Alignment explanation
Indices: 105686757--105686863 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
105686747 CGACTACTCT
* *
105686757 TACTGTTACCGTTACTGCTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGCTACCGATTCAGCACTTTGTGTGTCGAA
* * * *
105686802 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGCTACCGATTCAGCACTTTGTGTGTCGAA
105686847 TACTGTTACTGTTACTG
1 TACTGTTACTGTTACTG
105686864 TTCCAGATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACTGCTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:105687176 original size:18 final size:18
Alignment explanation
Indices: 105687104--105687180 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
105687094 AATTGATCAA
* * *
105687104 TACTGAATAATTGGTTAT
1 TACTGAATAAATGATTGT
* *
105687122 TATTGAATAATTGATTGT
1 TACTGAATAAATGATTGT
* * *
105687140 TACCGAATAACTGACTGT
1 TACTGAATAAATGATTGT
*
105687158 TACTGAATAAATAATTGT
1 TACTGAATAAATGATTGT
105687176 T-CTGA
1 TACTGA
105687181 TTGTTAATGA
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 4 0.08
18 44 0.92
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (18 bp):
TACTGAATAAATGATTGT
Found at i:105687589 original size:25 final size:25
Alignment explanation
Indices: 105687561--105687667 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 25
105687551 TGATACAAAT
105687561 TGATAATGGGTTAGGTAAATG-TTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
*
105687586 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
105687612 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTTCA
105687637 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTTCA
105687662 TGATAA
1 TGATAA
105687668 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 68 0.87
26 10 0.13
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:105689176 original size:24 final size:25
Alignment explanation
Indices: 105689148--105689195 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
105689138 ACAGTTTTAC
105689148 CCCTAGGAGATAAATT-ACC-AAATA
1 CCCTAGG-GATAAATTGACCTAAATA
*
105689172 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCTAAAT
105689196 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 10 0.48
25 4 0.19
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (25 bp):
CCCTAGGGATAAATTGACCTAAATA
Found at i:105689687 original size:136 final size:137
Alignment explanation
Indices: 105689443--105689728 Score: 529
Period size: 136 Copynumber: 2.1 Consensus size: 137
105689433 GAGTAGTCTC
105689443 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
105689508 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCT-GCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
105689572 ACTGTTA
131 ACTATTA
105689579 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
105689644 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
105689709 ACTATTA
131 ACTATTA
**
105689716 CCTGAATGGGCTT
1 CCCAAATGGGCTT
105689729 AGGCCCAATA
Statistics
Matches: 145, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
136 118 0.81
137 27 0.19
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:105691069 original size:18 final size:20
Alignment explanation
Indices: 105691027--105691063 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
105691017 ATATTTTATG
*
105691027 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
105691046 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
105691064 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:105693267 original size:46 final size:46
Alignment explanation
Indices: 105693210--105693721 Score: 610
Period size: 46 Copynumber: 11.0 Consensus size: 46
105693200 AGTGTGCTCT
* *
105693210 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
105693256 CTGATAAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
105693302 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
105693348 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
105693394 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * *
105693440 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCACATGGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA-A---C
*
105693490 AGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --C-TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
105693539 ATGACAAAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
105693585 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
105693631 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
105693677 ATGACAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGAC-ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
105693722 TCATGTCAAA
Statistics
Matches: 419, Mismatches: 39, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
46 342 0.82
47 34 0.08
49 1 0.00
50 1 0.00
52 1 0.00
53 40 0.10
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:105693459 original size:138 final size:138
Alignment explanation
Indices: 105693210--105693748 Score: 695
Period size: 138 Copynumber: 3.9 Consensus size: 138
105693200 AGTGTGCTCT
* ** * * *
105693210 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAAGAAATGTGTAAG
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAAAAAATGAGTAAG
* * *** ***
105693275 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGATACC
105693340 ATGGCAGC
131 ATGGCAGC
* ** * * ** *
105693348 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGAATAAG
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAAAAAATGAGTAAG
105693413 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGATACC
105693478 ATGGCACATGGC
131 ATGG--CA--GC
* *
105693490 AGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAATGTGT
1 --C-TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAAAAAATGAGT
105693555 AAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGAT
63 AAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGAT
105693620 ACCATGGCAGC
128 ACCATGGCAGC
* *
105693631 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAAATGAGTAA
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-TAAAAAATGAGTAA
* * * * * *
105693696 GACCATAGTTGAAAGACACTATGGCATCATGTC--AAAGATAAATAAGACCATGG
65 GACCATGGTTGAAAGATACCATGGCAACATGACGGGAA-ATAAATAAGACCATGG
105693749 ATGGGAGACG
Statistics
Matches: 361, Mismatches: 31, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
137 2 0.01
138 187 0.52
139 40 0.11
140 2 0.01
141 2 0.01
142 2 0.01
143 2 0.01
144 1 0.00
145 123 0.34
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (138 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAAAAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGATACC
ATGGCAGC
Found at i:105693642 original size:237 final size:234
Alignment explanation
Indices: 105693225--105693726 Score: 688
Period size: 237 Copynumber: 2.1 Consensus size: 234
105693215 ATGAAATGTG
* **
105693225 TAAGACCATGGTTGAAAGATACCATGGCA-A--CCTGATAAGAAATGTGTAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCATGGCACATGCCTGACAAGAAATGAATAAGACCATGGTTGAA
* * * ** * *
105693287 AGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGA
66 AGATACCATGGCAACATGACAAAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
* * *** *
105693352 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGAATAAGACCA
131 CAGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAATGAATAAGACCA
***
105693417 TGGTTGAAAGATACCATGGCAACATGAC-GGGAAATAAA
196 TGGTTGAAAGATACCATGGCAACATGACAAAAAAATAAA
*
105693455 TAAGACCATGGTTGAAAGATACCATGGCACATGGCAGCGTGACATGAAATGAATAAGACCATGGT
1 TAAGACCATGGTTGAAAGATACCATGGCACAT-GC--C-TGACAAGAAATGAATAAGACCATGGT
105693520 TGAAAGATACCATGGCAACATGACAAAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
62 TGAAAGATACCATGGCAACATGACAAAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
105693585 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAG
127 ATGACAGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAATGAATAAG
* *
105693650 ACCATGGTTGAAAGATACCATGGCAACATGACAAAAAAATGAG
192 ACCATGGTTGAAAGATACCATGGCAACATGACAAAAAAATAAA
* * *
105693693 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCA-CATG
105693727 TCAAAGATAA
Statistics
Matches: 236, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
230 29 0.12
231 1 0.00
234 1 0.00
236 1 0.00
237 169 0.72
238 32 0.14
239 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (234 bp):
TAAGACCATGGTTGAAAGATACCATGGCACATGCCTGACAAGAAATGAATAAGACCATGGTTGAA
AGATACCATGGCAACATGACAAAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
CAGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAATGAATAAGACCA
TGGTTGAAAGATACCATGGCAACATGACAAAAAAATAAA
Found at i:105696425 original size:11 final size:11
Alignment explanation
Indices: 105696394--105696432 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
105696384 ATTAGATATA
105696394 TATTATTTTAAT
1 TATTATTTT-AT
* *
105696406 GAATATTTTAT
1 TATTATTTTAT
105696417 TATTATTTTAT
1 TATTATTTTAT
105696428 TATTA
1 TATTA
105696433 ATTATTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:105698563 original size:46 final size:46
Alignment explanation
Indices: 105698511--105699021 Score: 576
Period size: 46 Copynumber: 11.0 Consensus size: 46
105698501 AGTGTGCTCT
*
105698511 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
105698557 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC-TGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
105698602 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
105698648 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
105698694 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** ***
105698740 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCACATGGC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA-A---C
* ** *
105698790 AGCGTAACATGAAATGAATAAGACCATCGTTGAAAGATACCATGGCAAC
1 --C-TGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
105698839 ATGACAAAAAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAAC
1 CTGAC-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
** *** *
105698886 AC-GACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 -CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
105698932 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * * *
105698978 ATGACAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
105699022 TCATGTCAAA
Statistics
Matches: 410, Mismatches: 44, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
45 45 0.11
46 283 0.69
47 41 0.10
49 1 0.00
50 1 0.00
52 1 0.00
53 38 0.09
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:105698943 original size:238 final size:232
Alignment explanation
Indices: 105698526--105699026 Score: 625
Period size: 238 Copynumber: 2.1 Consensus size: 232
105698516 ATGAAATGTG
* * ** *
105698526 TAAGACCATGGTTGAAAGATACCATGGCA-A--CCTGATATGAAATGTGTAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCATGGCACATGCCTAACATGAAATGAATAAGACCATCGTTGAA
* * ** * * *
105698588 AGATACCTGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
66 AGATACCTGGCAACATGAAAAAAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAACCTGAC
* *** * *
105698653 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAAT-ATGTAAGACCA
131 AGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAATGA-ATAAGACCA
***
105698717 TGGTTGAAAGATACCATGGAAACATGACGGGAAATAAA
195 TGGTTGAAAGATACCATGGAAACATGACAAAAAATAAA
105698755 TAAGACCATGGTTGAAAGATACCATGGCACATGGCAGCGTAACATGAAATGAATAAGACCATCGT
1 TAAGACCATGGTTGAAAGATACCATGGCACAT-GC--C-TAACATGAAATGAATAAGACCATCGT
105698820 TGAAAGATACCATGGCAACATGACAAAAAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAA
62 TGAAAGATACC-TGGCAACATGA-AAAAAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAA
* *
105698885 CAC-GACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATA
125 C-CTGACAGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAATGAATA
* * *
105698949 AGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAATGAG
189 AGACCATGGTTGAAAGATACCATGGAAACATGACAAAAAATAAA
* * *
105698993 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCA-CATG
105699027 TCAAAGATAA
Statistics
Matches: 231, Mismatches: 29, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
229 29 0.13
230 1 0.00
233 1 0.00
235 1 0.00
236 32 0.14
237 10 0.04
238 152 0.66
239 5 0.02
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (232 bp):
TAAGACCATGGTTGAAAGATACCATGGCACATGCCTAACATGAAATGAATAAGACCATCGTTGAA
AGATACCTGGCAACATGAAAAAAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAACCTGAC
AGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGAAACATGACAAAAAATAAA
Found at i:105700961 original size:55 final size:55
Alignment explanation
Indices: 105700877--105700986 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
105700867 ATATTTCACT
105700877 AAGTCTCAAAGAAATTTATTGAGTTTTAAAGATATTCGTCTTAATGGATATCATA
1 AAGTCTCAAAGAAATTTATTGAGTTTTAAAGATATTCGTCTTAATGGATATCATA
105700932 AAGTCTCAAAGAAATTTATTGAGTTTTAAAGATATTCGTCTTAATGGATATCATA
1 AAGTCTCAAAGAAATTTATTGAGTTTTAAAGATATTCGTCTTAATGGATATCATA
105700987 TTGAGACTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (55 bp):
AAGTCTCAAAGAAATTTATTGAGTTTTAAAGATATTCGTCTTAATGGATATCATA
Found at i:105702258 original size:26 final size:26
Alignment explanation
Indices: 105702221--105702304 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
105702211 TGATACAAAT
* *
105702221 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105702247 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105702273 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105702299 TGATAA
1 TGATAA
105702305 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:105703948 original size:26 final size:27
Alignment explanation
Indices: 105703919--105704082 Score: 201
Period size: 26 Copynumber: 6.2 Consensus size: 27
105703909 GAGGAAGCGT
*
105703919 TCTGGTGGCTATGCCACAAATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
105703945 TCTGGTGGCTCTACCAC-AATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
105703971 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
105703998 T-TGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
105704024 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
105704052 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
105704078 TCTGG
1 TCTGG
105704083 CAGCCATGCT
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
25 7 0.06
26 61 0.50
27 39 0.32
28 15 0.12
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:105704003 original size:52 final size:53
Alignment explanation
Indices: 105703917--105704082 Score: 228
Period size: 52 Copynumber: 3.1 Consensus size: 53
105703907 TGGAGGAAGC
* *
105703917 GTTCTGGTGGCTATGCCACAAATATCT-ATCTGGTGGCTCTACCACAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAATATCT
*
105703969 GATCTGGTGGCTCTGCCACAAATATCTGAT-TGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACA-ATATCT
* * * * *
105704022 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACATTATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGGCTCTGCCACAATATCT
105704076 GTTCTGG
1 GTTCTGG
105704083 CAGCCATGCT
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
52 40 0.40
53 33 0.33
54 14 0.14
55 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAATATCT
Found at i:105708117 original size:26 final size:26
Alignment explanation
Indices: 105708030--105708163 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
105708020 TGATACAAAT
105708030 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105708056 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
105708080 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
105708106 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
105708132 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105708158 TGATAA
1 TGATAA
105708164 GAATTTCATG
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 9 0.09
25 30 0.29
26 65 0.62
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:105709849 original size:25 final size:27
Alignment explanation
Indices: 105709777--105709939 Score: 201
Period size: 26 Copynumber: 6.2 Consensus size: 27
105709767 GAGGAAGCGT
*
105709777 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
105709804 TCT-GTGGCTCTGCCACAAATAT-TGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
105709829 TCTGGTGGCTCTGCCAC-AATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
105709855 T-TGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
105709881 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
105709909 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
105709935 TCTGG
1 TCTGG
105709940 CAGCCATGCT
Statistics
Matches: 121, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
25 26 0.21
26 48 0.40
27 32 0.26
28 15 0.12
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:105709885 original size:52 final size:54
Alignment explanation
Indices: 105709775--105709939 Score: 223
Period size: 52 Copynumber: 3.1 Consensus size: 54
105709765 TGGAGGAAGC
* *
105709775 GTTCTGGTGGCTATGCCACAAATATCTGATCT-GTGGCTCTGCCACAAATAT-T
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
*
105709827 GATCTGGTGGCTCTGCCAC-AATATCTGAT-TGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
* * * *
105709879 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGGCTCTGCCACATATATCT
105709933 GTTCTGG
1 GTTCTGG
105709940 CAGCCATGCT
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
50 1 0.01
51 28 0.28
52 36 0.36
53 7 0.07
54 14 0.14
55 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:105713871 original size:37 final size:36
Alignment explanation
Indices: 105713738--105713872 Score: 103
Period size: 37 Copynumber: 3.6 Consensus size: 36
105713728 CATGTAACAA
* * *
105713738 AAAATTATATAAAAA-ATAAATTTTTTATACAAATTAT
1 AAAATTTTATAAAAATATAAAATATTTA-A-AAATTAT
* **
105713775 TAAATTTTAATAAAAATATAAAAATATTTAAATTTTATT
1 AAAATTTT-ATAAAAATAT-AAAATATTTAAAAATTA-T
* * * *
105713814 AAAA-GTCAGAAAATATATAAAATCTTTAAAAATTAT
1 AAAATTTTATAAAA-ATATAAAATATTTAAAAATTAT
105713850 AAAATTTTATAAAAATCATAAAA
1 AAAATTTTATAAAAAT-ATAAAA
105713873 AAAATTTATG
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
36 7 0.09
37 37 0.49
38 16 0.21
39 7 0.09
40 8 0.11
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (36 bp):
AAAATTTTATAAAAATATAAAATATTTAAAAATTAT
Found at i:105713894 original size:23 final size:22
Alignment explanation
Indices: 105713850--105713899 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
105713840 TAAAAATTAT
*
105713850 AAAATTTTATAAAAATCATAAA
1 AAAAATTTATAAAAATCATAAA
* * *
105713872 AAAAATTTATGAAATTCATTAA
1 AAAAATTTATAAAAATCATAAA
105713894 AAAAAT
1 AAAAAT
105713900 CGTTTAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAATTTATAAAAATCATAAA
Found at i:105714113 original size:21 final size:21
Alignment explanation
Indices: 105714057--105714125 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 21
105714047 TTGGTACAAT
*
105714057 ATTTTTATAATTTTTTTTACG
1 ATTTTTATAATTTTCTTTACG
*
105714078 AATTTTAT-A-TTTCTTTAC-
1 ATTTTTATAATTTTCTTTACG
105714096 ATTTTTTATAATTTTC-TTACG
1 A-TTTTTATAATTTTCTTTACG
*
105714117 A-CTTTATAA
1 ATTTTTATAA
105714126 GATTTTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 1 0.03
19 21 0.52
20 6 0.15
21 12 0.30
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.61
Consensus pattern (21 bp):
ATTTTTATAATTTTCTTTACG
Found at i:105715085 original size:22 final size:22
Alignment explanation
Indices: 105715056--105715123 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
105715046 TGCACAAACG
105715056 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
105715078 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
105715100 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
105715123 A
1 A
105715124 TAATAGAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:105716204 original size:5 final size:6
Alignment explanation
Indices: 105716190--105716252 Score: 63
Period size: 6 Copynumber: 9.7 Consensus size: 6
105716180 AAATCCCAAA
* *
105716190 TTTTCT TTTTCT TTTTCT TTCTCCCT TTTTCT CTATTTCT TTTTCT TTTTGT
1 TTTTCT TTTTCT TTTTCT TT-T-TCT TTTTCT -T-TTTCT TTTTCT TTTTCT
105716242 TTCTTCT TTTT
1 TT-TTCT TTTT
105716253 TTATTTGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
6 30 0.62
7 9 0.19
8 9 0.19
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTCT
Found at i:105716207 original size:12 final size:12
Alignment explanation
Indices: 105716190--105716252 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 12
105716180 AAATCCCAAA
105716190 TTTTCTTTTTCT
1 TTTTCTTTTTCT
*
105716202 TTTTCTTTCTCCCT
1 TTTTCTTT-T-TCT
105716216 TTTTCTCTATTTCT
1 TTTTCT-T-TTTCT
*
105716230 TTTTCTTTTTGT
1 TTTTCTTTTTCT
105716242 TTCTTCTTTTT
1 TT-TTCTTTTT
105716253 TTATTTGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
12 14 0.33
13 10 0.23
14 16 0.37
15 2 0.05
16 1 0.02
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:105716248 original size:19 final size:19
Alignment explanation
Indices: 105716226--105716264 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
105716216 TTTTCTCTAT
105716226 TTCTTTTTCTT-TTTGTTTC
1 TTCTTTTT-TTATTTGTTTC
105716245 TTCTTTTTTTATTTGTTTC
1 TTCTTTTTTTATTTGTTTC
105716264 T
1 T
105716265 ATTTATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.79
Consensus pattern (19 bp):
TTCTTTTTTTATTTGTTTC
Found at i:105718732 original size:13 final size:13
Alignment explanation
Indices: 105718703--105718742 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
105718693 GAAGCATCAC
105718703 TATAAATAATA-T
1 TATAAATAATATT
105718715 TATAAATAATATT
1 TATAAATAATATT
105718728 TAT-AATAAATATT
1 TATAAAT-AATATT
105718741 TA
1 TA
105718743 CGAATCCGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATAAATAATATT
Found at i:105719145 original size:88 final size:86
Alignment explanation
Indices: 105719026--105719210 Score: 232
Period size: 88 Copynumber: 2.1 Consensus size: 86
105719016 TTAACGGTCA
* * *
105719026 AAGGTCTTTTTTGATGAATTTTGACAATTCAATTACCTAATTTAGTGTAAAAAAAAGTAGGGACC
1 AAGG-CTTTTTTGATGAATTTTGACAATTCAATTACCGAATTGAGTG-AAAAAAAAATA-GG-CC
105719091 TAATTGC-TTTTTTGAAAAAGTTTG
62 TAATTGCTTTTTTTGAAAAAGTTTG
* * *
105719115 AAGGCCTTTTTT-ATGCATTTTGA-AAGTTCAATTACCGAATTGAGTGAAAAAAAAATATGCTTA
1 AAGG-CTTTTTTGATGAATTTTGACAA-TTCAATTACCGAATTGAGTGAAAAAAAAATAGGCCTA
*
105719178 ATTGCTTTTTTTGAAAATGTTTG
64 ATTGCTTTTTTTGAAAAAGTTTG
105719201 AAGGCTTTTT
1 AAGGCTTTTT
105719211 ACACCCATAA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 14 0.16
86 21 0.24
87 12 0.14
88 28 0.33
89 11 0.13
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.41
Consensus pattern (86 bp):
AAGGCTTTTTTGATGAATTTTGACAATTCAATTACCGAATTGAGTGAAAAAAAAATAGGCCTAAT
TGCTTTTTTTGAAAAAGTTTG
Found at i:105720112 original size:46 final size:46
Alignment explanation
Indices: 105720042--105720166 Score: 171
Period size: 46 Copynumber: 2.7 Consensus size: 46
105720032 TGCCATAATG
* * * *
105720042 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATGGTA
**
105720088 TCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
*
105720134 TCTTTCAACCATGGTCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCA
105720167 GAGAGCACAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 4 0.06
46 65 0.94
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
Found at i:105722325 original size:19 final size:19
Alignment explanation
Indices: 105722301--105722342 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
105722291 CTAAATAATT
* *
105722301 AATAATAATATAATAATGA
1 AATAATAATAAAATAATAA
*
105722320 AATAATTATAAAATAATAA
1 AATAATAATAAAATAATAA
105722339 AATA
1 AATA
105722343 TCTCATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AATAATAATAAAATAATAA
Found at i:105723695 original size:21 final size:22
Alignment explanation
Indices: 105723657--105723697 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
105723647 TTTTAAAAAA
105723657 TTTTGAAAAATAATTTCTCAAT
1 TTTTGAAAAATAATTTCTCAAT
* *
105723679 TTTTTAAAGATAA-TTCTCA
1 TTTTGAAAAATAATTTCTCA
105723698 TTAATACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (22 bp):
TTTTGAAAAATAATTTCTCAAT
Found at i:105725527 original size:14 final size:13
Alignment explanation
Indices: 105725508--105725538 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
105725498 CAAAGCTTAA
105725508 TTTAAAAAAATAAT
1 TTTAAAAAAAT-AT
105725522 TTTAAAAAAATAT
1 TTTAAAAAAATAT
105725535 TTTA
1 TTTA
105725539 TTAATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTAAAAAAATAT
Found at i:105726831 original size:2 final size:2
Alignment explanation
Indices: 105726826--105726853 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
105726816 TATTTTTTAA
105726826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105726854 TGTGATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105728141 original size:2 final size:2
Alignment explanation
Indices: 105728134--105728164 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
105728124 AAATTTCATG
105728134 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105728165 GTACTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:105732718 original size:75 final size:75
Alignment explanation
Indices: 105732599--105732770 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
105732589 CATGGCAAAG
** *
105732599 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
105732658 CCATACTGAGC
65 CCATACCGAGC
105732669 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
105732734 CATACCGAGT
66 CATACCGAGC
***
105732744 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
105732771 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:105732737 original size:35 final size:35
Alignment explanation
Indices: 105732602--105732768 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
105732592 GGCAAAGTGT
* **
105732602 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
105732637 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
105732672 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
105732712 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
105732748 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
105732769 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:105732760 original size:36 final size:35
Alignment explanation
Indices: 105732698--105732768 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
105732688 ATTATCAAAT
* *
105732698 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
105732733 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
105732769 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:105736633 original size:21 final size:20
Alignment explanation
Indices: 105736596--105736634 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
105736586 ATTGCAAAAC
*
105736596 ATAGAAGTGAAAAATTACAA
1 ATAGAAGAGAAAAATTACAA
*
105736616 ATAGAAAGAGAAAGATTAC
1 ATAG-AAGAGAAAAATTAC
105736635 CTTATAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (20 bp):
ATAGAAGAGAAAAATTACAA
Found at i:105742670 original size:16 final size:16
Alignment explanation
Indices: 105742649--105742682 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
105742639 TATACTTTTT
105742649 TAAAAAATA-TAATAAA
1 TAAAAAATACTAA-AAA
105742665 TAAAAAATACTAAAAA
1 TAAAAAATACTAAAAA
105742681 TA
1 TA
105742683 TTAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAAATACTAAAAA
Found at i:105742730 original size:15 final size:15
Alignment explanation
Indices: 105742710--105742740 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
105742700 CAACAAATTG
105742710 AAAATAAATTTTTAA
1 AAAATAAATTTTTAA
*
105742725 AAAATATATTTTTAA
1 AAAATAAATTTTTAA
105742740 A
1 A
105742741 TAACACTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATAAATTTTTAA
Found at i:105742877 original size:11 final size:11
Alignment explanation
Indices: 105742839--105742881 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
105742829 ACAATAACAA
105742839 CAAAATAGTAG
1 CAAAATAGTAG
*
105742850 CAACATAGTAG
1 CAAAATAGTAG
** *
105742861 TGAAATGGTAG
1 CAAAATAGTAG
105742872 CAAAATAGTA
1 CAAAATAGTA
105742882 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:105743761 original size:5 final size:5
Alignment explanation
Indices: 105743751--105743778 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
105743741 AATGTTTAAG
105743751 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
105743779 TATAATAATA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:105743844 original size:17 final size:18
Alignment explanation
Indices: 105743822--105743856 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
105743812 GAAGCAAAAC
105743822 GAAAGAAA-AGAAAAAGG
1 GAAAGAAAGAGAAAAAGG
105743839 GAAAGAAAGGAGAAAAAG
1 GAAAGAAA-GAGAAAAAG
105743857 TTAGGGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAGAAAAAGG
Found at i:105744301 original size:103 final size:103
Alignment explanation
Indices: 105744183--105744389 Score: 405
Period size: 103 Copynumber: 2.0 Consensus size: 103
105744173 GAAAATATGG
*
105744183 AATTAATTTTGAAGAAATAAAGTTAGTCTCGGTTTAGGGACTAAATTAGAAATTAGGCAAATGTT
1 AATTAATTTTGAAGAAATAAAGTTAGTCTCGATTTAGGGACTAAATTAGAAATTAGGCAAATGTT
105744248 GAATAAAAATTGAAATATTTAATGTGAAATTGAATTGT
66 GAATAAAAATTGAAATATTTAATGTGAAATTGAATTGT
105744286 AATTAATTTTGAAGAAATAAAGTTAGTCTCGATTTAGGGACTAAATTAGAAATTAGGCAAATGTT
1 AATTAATTTTGAAGAAATAAAGTTAGTCTCGATTTAGGGACTAAATTAGAAATTAGGCAAATGTT
105744351 GAATAAAAATTGAAATATTTAATGTGAAATTGAATTGT
66 GAATAAAAATTGAAATATTTAATGTGAAATTGAATTGT
105744389 A
1 A
105744390 TTGTATTGAT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (103 bp):
AATTAATTTTGAAGAAATAAAGTTAGTCTCGATTTAGGGACTAAATTAGAAATTAGGCAAATGTT
GAATAAAAATTGAAATATTTAATGTGAAATTGAATTGT
Found at i:105744860 original size:37 final size:40
Alignment explanation
Indices: 105744761--105744894 Score: 105
Period size: 37 Copynumber: 3.4 Consensus size: 40
105744751 ACCTTGAGTT
***
105744761 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTT
1 GATGAGACACTGGGTGTCAATTTACTA-TTCGGATTAAGCC
* * * * *
105744802 GATAAGGCATTGGGTGCCAATTTACT-TT-GG-TTTAGCC
1 GATGAGACACTGGGTGTCAATTTACTATTCGGATTAAGCC
* * **
105744839 GATGAGACACTGGGTGTCAATTTATTACTTCGAATT-TTCC
1 GATGAGACACTGGGTGTCAATTTACTA-TTCGGATTAAGCC
*
105744879 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
105744895 CCAAACTAGT
Statistics
Matches: 72, Mismatches: 17, Indels: 9
0.73 0.17 0.09
Matches are distributed among these distances:
37 24 0.33
38 2 0.03
39 4 0.06
40 18 0.25
41 24 0.33
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTACTATTCGGATTAAGCC
Found at i:105744881 original size:40 final size:39
Alignment explanation
Indices: 105744761--105744894 Score: 105
Period size: 40 Copynumber: 3.4 Consensus size: 39
105744751 ACCTTGAGTT
* *
105744761 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT-T
1 GATGAGACACTGGGTGTCAATTTATTACTTC-GATT--TTCC
* * * * * * *
105744802 GATAAGGCATTGGGTGCCAA--T-TTACTTTGGTTTAGCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCGATTT-TCC
105744839 GATGAGACACTGGGTGTCAATTTATTACTTCGAATTTTCC
1 GATGAGACACTGGGTGTCAATTTATTACTTCG-ATTTTCC
*
105744879 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
105744895 CCAAACTAGT
Statistics
Matches: 70, Mismatches: 17, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
35 1 0.01
37 19 0.27
38 5 0.07
39 2 0.03
40 24 0.34
41 19 0.27
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAATTTATTACTTCGATTTTCC
Found at i:105750809 original size:17 final size:19
Alignment explanation
Indices: 105750789--105750826 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
105750779 CAGGGGAAGG
105750789 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
105750806 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
105750825 AA
1 AA
105750827 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:105751441 original size:3 final size:3
Alignment explanation
Indices: 105751426--105751464 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
105751416 GAATGGTAAG
*
105751426 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
105751465 GGTATTGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:105754170 original size:19 final size:19
Alignment explanation
Indices: 105754146--105754183 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
105754136 TAGCATTTAG
*
105754146 GTTAATTTTATTACATTTT
1 GTTAATTTTATTAAATTTT
105754165 GTTAATTTTATTAAATTTT
1 GTTAATTTTATTAAATTTT
105754184 ATTGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (19 bp):
GTTAATTTTATTAAATTTT
Found at i:105754178 original size:9 final size:9
Alignment explanation
Indices: 105754147--105754186 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
105754137 AGCATTTAGG
105754147 TTAATTTTA
1 TTAATTTTA
*
105754156 TTACATTTTG
1 TTA-ATTTTA
105754166 TTAATTTTA
1 TTAATTTTA
105754175 TTAAATTTTA
1 TT-AATTTTA
105754185 TT
1 TT
105754187 GTTTTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 10 0.37
10 17 0.63
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (9 bp):
TTAATTTTA
Found at i:105755309 original size:26 final size:26
Alignment explanation
Indices: 105755272--105755355 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
105755262 TGATACAAAT
* *
105755272 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105755298 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
105755324 TGATGATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105755350 TGATAA
1 TGATAA
105755356 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:105761554 original size:21 final size:21
Alignment explanation
Indices: 105761528--105761570 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
105761518 GTACATCGCC
105761528 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
*
105761549 AACAGAAGCTCATGAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
105761570 A
1 A
105761571 TCCACCCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:105763723 original size:6 final size:6
Alignment explanation
Indices: 105763712--105763741 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
105763702 ACTTAAACCA
105763712 TCCTAT TCCTAT TCCTAT TCCTAT TCCTAT
1 TCCTAT TCCTAT TCCTAT TCCTAT TCCTAT
105763742 GTTAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCTAT
Found at i:105764176 original size:192 final size:193
Alignment explanation
Indices: 105763843--105764232 Score: 737
Period size: 192 Copynumber: 2.0 Consensus size: 193
105763833 GTGTCCCCTG
*
105763843 CATATTTAGGCATTGGCATAAAAAAAGGGAATGAGAAAGCCCAGTGGTGGTTGCCTGTTTGTTTG
1 CATATATAGGCATTGGCATAAAAAAAGGGAATGAGAAAGCCCAGTGGTGGTTGCCTGTTTGTTTG
* *
105763908 GAACTATTGTTTTATCTCTATCACTCACATCTTTCCATAGTCTAAATCAAAGCATGGCGAATGGT
66 GAACTACTGTGTTATCTCTATCACTCACATCTTTCCATAGTCTAAATCAAAGCATGGCGAATGGT
105763973 TCAGATATATACAACCTTCACCTATGTTATCTC-CTCTACTCTCTGTAATCCATAAGCCATGC
131 TCAGATATATACAACCTTCACCTATGTTATCTCTCTCTACTCTCTGTAATCCATAAGCCATGC
105764035 CATATATAGGCATTGGCATAAAAAAAGGGAATGAGAAAGCCCAGTGGTGGTTGCCTGTTTGTTTG
1 CATATATAGGCATTGGCATAAAAAAAGGGAATGAGAAAGCCCAGTGGTGGTTGCCTGTTTGTTTG
105764100 GAACTACTGTGTTATCTCTATCACTCACATCTTTCCATAGTCTAAATCAAAGCATGGCGAATGGT
66 GAACTACTGTGTTATCTCTATCACTCACATCTTTCCATAGTCTAAATCAAAGCATGGCGAATGGT
*
105764165 TCAGATATATACGACCTTCACCTATGTTATCTCTCTCTACTCTCTGTAATCCATAAGCCATGC
131 TCAGATATATACAACCTTCACCTATGTTATCTCTCTCTACTCTCTGTAATCCATAAGCCATGC
105764228 CATAT
1 CATAT
105764233 TCAAATTATA
Statistics
Matches: 193, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
192 159 0.82
193 34 0.18
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (193 bp):
CATATATAGGCATTGGCATAAAAAAAGGGAATGAGAAAGCCCAGTGGTGGTTGCCTGTTTGTTTG
GAACTACTGTGTTATCTCTATCACTCACATCTTTCCATAGTCTAAATCAAAGCATGGCGAATGGT
TCAGATATATACAACCTTCACCTATGTTATCTCTCTCTACTCTCTGTAATCCATAAGCCATGC
Found at i:105768826 original size:18 final size:16
Alignment explanation
Indices: 105768803--105768842 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 16
105768793 CTTAAAATAT
105768803 ATATTATTTCATTATTTA
1 ATATTA-TT-ATTATTTA
105768821 ATATTA-TATTATTTA
1 ATATTATTATTATTTA
105768836 ATATTAT
1 ATATTAT
105768843 ATCACATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 14 0.67
16 1 0.05
18 6 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTATTATTATTTA
Found at i:105768831 original size:15 final size:15
Alignment explanation
Indices: 105768813--105768844 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
105768803 ATATTATTTC
105768813 ATTATTTAATATTAT
1 ATTATTTAATATTAT
105768828 ATTATTTAATATTAT
1 ATTATTTAATATTAT
105768843 AT
1 AT
105768845 CACATACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTTAATATTAT
Found at i:105769567 original size:235 final size:239
Alignment explanation
Indices: 105769029--105769616 Score: 665
Period size: 235 Copynumber: 2.5 Consensus size: 239
105769019 TATGCTTATA
* * * * *
105769029 ATTTATATGTGTGCATCAATAATTGAACATTATAATAACATGTAATATTATATCTTTTATTATAA
1 ATTTATATATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATAA
* * * * * *
105769094 TCTATAATATAATAGTAG-TACAT-TATATACTATTTCTTATACATTATTGTTTATAATTATAAT
66 TCTATAATATAATAATAGTTATATATA-ATAGTATATATTATATATTATTGTTTATAATTATAAT
* * * * *
105769157 GGTTGAAATATGCTCTAAGTCTCTATATTTTTCATACATTTGAATGTTAGTCCTCCTGTTATACT
130 AGTTGAAATATACTCTAAGTCTCTATATTTTTCATACA-TTGAAAGTTAGCCCTCATGTTATACT
* * *
105769222 GTATAATGTGATAACATATCATAGAGTATATAATATATTAATGGTTT
194 ATATAATATGATAACATATCATAGAGTATATAATATATTAATAG-TT
** * * ** * *
105769269 ATTTATATATATGCATTGATGATTAAACATTAAAATATCGTGTAATGCTATATATTCTATTATAA
1 ATTTATATATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATAA
* * * * * *
105769334 TCTATAATATAATAATAGTTATATATAATGGTAGTATATTATTTATTATTTTTTGTTATTATACT
66 TCTATAATATAATAATAGTTATATATAATAGTA-TATATTATATATTATTGTTTATAATTATAAT
* *
105769399 AGTTGAAATATACTCTAAGTTTCTATATTTTTCATACA-T-AAAGTTAGCCCTCATAG-TATATT
130 AGTTGAAATATACTCTAAGTCTCTATATTTTTCATACATTGAAAGTTAGCCCTCAT-GTTATACT
* * *
105769461 ATATAATATTATATCATATTATATG-GTATATAATATATTAATAG-T
194 ATATAATATGATAACATATCATA-GAGTATATAATATATTAATAGTT
* *
105769506 -TTT-TATATATGCATCAATGATTAAACATTATAACATCATGTAATATTGTATCTTTTATTATAA
1 ATTTATATATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATAA
*
105769569 TGC-ATAATATAATAATAGTTATATATAATAGTAATACATTATATATTA
66 T-CTATAATATAATAATAGTTATATATAATAGT-ATATATTATATATTA
105769617 ATTATTGTAT
Statistics
Matches: 290, Mismatches: 51, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
235 91 0.31
236 5 0.02
237 1 0.00
239 53 0.18
240 72 0.25
241 8 0.03
242 60 0.21
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (239 bp):
ATTTATATATATGCATCAATGATTAAACATTATAATATCATGTAATATTATATCTTTTATTATAA
TCTATAATATAATAATAGTTATATATAATAGTATATATTATATATTATTGTTTATAATTATAATA
GTTGAAATATACTCTAAGTCTCTATATTTTTCATACATTGAAAGTTAGCCCTCATGTTATACTAT
ATAATATGATAACATATCATAGAGTATATAATATATTAATAGTT
Found at i:105770588 original size:5 final size:5
Alignment explanation
Indices: 105770578--105770627 Score: 84
Period size: 5 Copynumber: 10.2 Consensus size: 5
105770568 TCAAGTTTAA
*
105770578 ATATT ATATT ATATT ATA-T ATATT ATACT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
105770627 A
1 A
105770628 GTTTAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:105777526 original size:14 final size:16
Alignment explanation
Indices: 105777492--105777528 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
105777482 CATTACAGTA
*
105777492 TTTAAAATATATATTT
1 TTTAAAATATATATAT
105777508 TTTAAAAT-TA-ATAT
1 TTTAAAATATATATAT
105777522 TTTAAAA
1 TTTAAAA
105777529 ATTTTGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 2 0.10
16 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAAATATATATAT
Found at i:105781283 original size:25 final size:26
Alignment explanation
Indices: 105781189--105781297 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
105781179 TGATACAAAT
105781189 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
105781215 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105781241 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105781267 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105781292 TGATAA
1 TGATAA
105781298 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105782807 original size:26 final size:26
Alignment explanation
Indices: 105782778--105782830 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105782768 TTTACAGTTT
105782778 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
105782804 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
105782830 T
1 T
105782831 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:105787014 original size:25 final size:26
Alignment explanation
Indices: 105786973--105787080 Score: 175
Period size: 25 Copynumber: 4.2 Consensus size: 26
105786963 TGATACAAAT
105786973 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105786999 TGATAAT-GGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105787024 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105787050 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105787075 TGATAA
1 TGATAA
105787081 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 48 0.62
26 30 0.38
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105787028 original size:51 final size:51
Alignment explanation
Indices: 105786973--105787080 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 51
105786963 TGATACAAAT
105786973 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
* * *
105787024 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
105787075 TGATAA
1 TGATAA
105787081 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
Found at i:105790050 original size:126 final size:125
Alignment explanation
Indices: 105789820--105790216 Score: 514
Period size: 126 Copynumber: 3.2 Consensus size: 125
105789810 GGATTTTGGC
* ** * * *
105789820 TTTTTCTACAGTAGTT-TCAGAAAAGTTAATTTTGAGAAGACGGTTTTAAAAAAATAATGTCAAA
1 TTTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGATGGTTCTAAAAAAATAGTGTCAAA
* * *
105789884 AATGCTTCAAGC-AGAATGCACAGTCAGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCT
65 AATGCTTCAAGCAAG-ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCT
*
105789945 ATTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATGGTTCTAAAAAAATAGCT-TAAA
1 -TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATGGTTCTAAAAAAATAG-TGTCAA
* * *
105790009 AAATGCTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTTACATGGACGCT
64 AAATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCT
* *
105790071 CTTTTTCTACAGTAGTTCTTAAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAA
1 -TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATGGTTCTAAAAAAATAGTGTCAAA
* * * * *
105790136 AAGGCTTCAAGCAGGATGCACTGTCAGCAAAATGACTAAAAAAAGCTCCTA-GTGGACTCT
65 AATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCT
* *
105790196 CTTTTCTTATAGTAGTTCTTG
1 TTTTTC-TACAGTAGTTCTTG
105790217 TTTGGCCTTA
Statistics
Matches: 238, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
124 5 0.02
125 20 0.08
126 209 0.88
127 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGATGGTTCTAAAAAAATAGTGTCAAAA
ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCT
Found at i:105793307 original size:25 final size:25
Alignment explanation
Indices: 105793266--105793313 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
105793256 ACTTCTATTT
*
105793266 TATTAAAAATATAAAAATAATTTAC
1 TATTAAAAATATAAAAACAATTTAC
*
105793291 TATT-AAAATATTCAAAACAATTT
1 TATTAAAAATA-TAAAAACAATTT
105793314 TTATTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
TATTAAAAATATAAAAACAATTTAC
Found at i:105793318 original size:24 final size:24
Alignment explanation
Indices: 105793263--105793318 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
105793253 AGAACTTCTA
*
105793263 TTTTATTAAAAATATAAAAATAAT
1 TTTTATTAAAAATATAAAAACAAT
* *
105793287 TTACTATT-AAAATATTCAAAACAAT
1 TT-TTATTAAAAATA-TAAAAACAAT
105793312 TTTTATT
1 TTTTATT
105793319 TGATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTTATTAAAAATATAAAAACAAT
Found at i:105793763 original size:18 final size:18
Alignment explanation
Indices: 105793737--105793780 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
105793727 GACTGAGAAA
* *
105793737 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
105793755 AGGATACATGTAAGGGCT
1 AGGATACATATAAGGGCT
105793773 AGGATACA
1 AGGATACA
105793781 CACCTGGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:105798822 original size:16 final size:16
Alignment explanation
Indices: 105798788--105798821 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
105798778 TAAAAAACAG
*
105798788 TTTATTTAAAAATACT
1 TTTATCTAAAAATACT
105798804 TTTATCTAAAAATA-T
1 TTTATCTAAAAATACT
105798819 TTT
1 TTT
105798822 TGACAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTATCTAAAAATACT
Found at i:105800982 original size:19 final size:19
Alignment explanation
Indices: 105800960--105800999 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
105800950 TAGGAAAAAA
105800960 AAATAAATT-TACTTTTTTT
1 AAAT-AATTGTACTTTTTTT
*
105800979 AAATAATTGTTCTTTTTTT
1 AAATAATTGTACTTTTTTT
105800998 AA
1 AA
105801000 TGTTATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATAATTGTACTTTTTTT
Found at i:105802175 original size:36 final size:37
Alignment explanation
Indices: 105802106--105802176 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
105802096 CAACGAAAAT
*
105802106 ATCCACAGGTATTTCATCGGATTTCTACTTTCTCCGA
1 ATCCACAGGTATTTCATCAGATTTCTACTTTCTCCGA
105802143 ATCCACAGGTATTTCCA-CAGA-TTCTACTTTCTCC
1 ATCCACAGGTATTT-CATCAGATTTCTACTTTCTCC
105802177 TAATAATCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 13 0.41
37 17 0.53
38 2 0.06
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.37
Consensus pattern (37 bp):
ATCCACAGGTATTTCATCAGATTTCTACTTTCTCCGA
Found at i:105808671 original size:18 final size:18
Alignment explanation
Indices: 105808648--105808683 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
105808638 ATGTCATGTG
105808648 TTGAACACTTTTGTTTAT
1 TTGAACACTTTTGTTTAT
105808666 TTGAACACTTTTGTTTAT
1 TTGAACACTTTTGTTTAT
105808684 GACATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (18 bp):
TTGAACACTTTTGTTTAT
Found at i:105821751 original size:29 final size:29
Alignment explanation
Indices: 105821719--105821780 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
105821709 TTGTAATTTC
*
105821719 TTATATATTTTTA-AATTTTTACAACTTTT
1 TTATA-ATTTTAATAATTTTTACAACTTTT
* *
105821748 TTATACTTTTAATAATTTTTATAACTTTT
1 TTATAATTTTAATAATTTTTACAACTTTT
105821777 TTAT
1 TTAT
105821781 TAAAATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (29 bp):
TTATAATTTTAATAATTTTTACAACTTTT
Found at i:105821822 original size:9 final size:9
Alignment explanation
Indices: 105821786--105821852 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
105821776 TTTATTAAAA
*
105821786 TTTATAGAT
1 TTTATATAT
105821795 TTT-TATCAT
1 TTTATAT-AT
105821804 TTTA-ATTAT
1 TTTATA-TAT
105821813 TTTATATAT
1 TTTATATAT
*
105821822 TTTCTATAAT
1 TTTATAT-AT
105821832 TTCTATA-AT
1 TT-TATATAT
105821841 TTTATAATAT
1 TTTAT-ATAT
105821851 TT
1 TT
105821853 ATTTAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
8 5 0.11
9 29 0.62
10 10 0.21
11 3 0.06
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTATATAT
Found at i:105821833 original size:28 final size:27
Alignment explanation
Indices: 105821719--105821848 Score: 52
Period size: 29 Copynumber: 4.6 Consensus size: 27
105821709 TTGTAATTTC
* *
105821719 TTATATATTTTTA-AATTTTTACAACTT
1 TTATATATTTTTATAATTTCTATAA-TT
* * *
105821746 TTTTATACTTTTAATAATTTTTATAACTT
1 TTATATA-TTTTTATAATTTCTATAA-TT
* ** * *
105821775 TTTTATTAAAATTTATAGATTTTTATCATT
1 TTATA-T-ATTTTTATA-ATTTCTATAATT
*
105821805 TTA-ATTATTTTATATATTTTCTATAATT
1 TTATA-TATTTT-TATAATTTCTATAATT
105821833 TCTATA-A-TTTTATAAT
1 T-TATATATTTTTATAAT
105821849 ATTTATTTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 17
0.72 0.12 0.15
Matches are distributed among these distances:
26 5 0.06
27 9 0.11
28 19 0.23
29 27 0.33
30 11 0.14
31 10 0.12
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (27 bp):
TTATATATTTTTATAATTTCTATAATT
Found at i:105821852 original size:10 final size:10
Alignment explanation
Indices: 105821810--105821968 Score: 60
Period size: 9 Copynumber: 16.7 Consensus size: 10
105821800 TCATTTTAAT
105821810 TATTTTAT-A
1 TATTTTATAA
105821819 TATTTTCTATAA
1 TA-TTT-TATAA
*
105821831 T-TTCTAT-A
1 TATTTTATAA
105821839 -ATTTTATAA
1 TATTTTATAA
*
105821848 TATTTATTTAA
1 TATTT-TATAA
*
105821859 TATTTCATAA
1 TATTTTATAA
*
105821869 CA---TATAA
1 TATTTTATAA
105821876 TATTTTATAA
1 TATTTTATAA
*
105821886 TA-TTTAGTAG
1 TATTTTA-TAA
105821896 T-TTTTA-AA
1 TATTTTATAA
*
105821904 -ATTTTATTA
1 TATTTTATAA
105821913 TA-TTTA-AA
1 TATTTTATAA
105821921 TATTTTATTATA
1 TATTTTA-TA-A
* *
105821933 GATTTTCT-A
1 TATTTTATAA
*
105821942 TATTTTTTAA
1 TATTTTATAA
*
105821952 TAATTTAATAA
1 T-ATTTTATAA
105821963 -ATTTTA
1 TATTTTA
105821969 AGTTTAAATA
Statistics
Matches: 110, Mismatches: 19, Indels: 42
0.64 0.11 0.25
Matches are distributed among these distances:
7 5 0.05
8 15 0.14
9 31 0.28
10 30 0.27
11 21 0.19
12 8 0.07
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (10 bp):
TATTTTATAA
Found at i:105822599 original size:14 final size:16
Alignment explanation
Indices: 105822582--105822615 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
105822572 ATAAATATTT
105822582 TATTTTTTAA-AA-AA
1 TATTTTTTAACAATAA
105822596 TATTTTTTAACAATAA
1 TATTTTTTAACAATAA
105822612 TATT
1 TATT
105822616 AAACATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 2 0.11
16 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTTTAACAATAA
Found at i:105822602 original size:20 final size:20
Alignment explanation
Indices: 105822560--105822601 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
105822550 TTTTCGTGTA
105822560 TTTATGTTTAAAATAAATAT
1 TTTATGTTTAAAATAAATAT
* *
105822580 TTTATTTTTTAAA-AAATAT
1 TTTATGTTTAAAATAAATAT
105822599 TTT
1 TTT
105822602 TTAACAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTATGTTTAAAATAAATAT
Found at i:105824293 original size:2 final size:2
Alignment explanation
Indices: 105824288--105824319 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
105824278 TTCTAAACCC
*
105824288 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105824320 GTTATAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:105824479 original size:52 final size:52
Alignment explanation
Indices: 105824422--105824522 Score: 177
Period size: 52 Copynumber: 1.9 Consensus size: 52
105824412 GATCTCTATA
*
105824422 TTTTATAATATTATTAATTAGTCAAAAT-AGTTAATATTGTTAATTTTTTTAT
1 TTTTATAATATTATTAATTAATCAAAATGA-TTAATATTGTTAATTTTTTTAT
105824474 TTTTATAATATTATTAATTAATCAAAATGATTAATATTGTTAATTTTTT
1 TTTTATAATATTATTAATTAATCAAAATGATTAATATTGTTAATTTTTT
105824523 ATTAAAATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 46 0.98
53 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (52 bp):
TTTTATAATATTATTAATTAATCAAAATGATTAATATTGTTAATTTTTTTAT
Found at i:105836913 original size:40 final size:40
Alignment explanation
Indices: 105836864--105837015 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
105836854 ACAACCACAA
* * *** *
105836864 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
105836904 GCACCATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
105836944 GCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
105836984 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
105837016 CATTCAAATG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:105844900 original size:40 final size:40
Alignment explanation
Indices: 105844851--105845001 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
105844841 ACAACCACAA
* * *** *
105844851 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
105844891 GCACCATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
105844931 GCACGAA-TGCCTTCGGGTCTTAGCCC-GACATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * * *
105844970 GCATAAATGCCTTCGGGACTTAGCCCGAATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
105845002 CATTCAAATG
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.32
40 60 0.65
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:105844992 original size:39 final size:39
Alignment explanation
Indices: 105844898--105844997 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 39
105844888 CTTGCACCAT
* * *
105844898 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCC-GACATAACAACTAGCACAAA
*
105844938 TGCCTTCGGGTCTTAGCCCGACATAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGACATAA-CAACTAGCACAAA
*
105844977 TGCCTTCGGGACTTAGCCCGA
1 TGCCTTCGGGTCTTAGCCCGA
105844998 ATATCATTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.63
40 20 0.37
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
TGCCTTCGGGTCTTAGCCCGACATAACAACTAGCACAAA
Found at i:105853181 original size:12 final size:12
Alignment explanation
Indices: 105853164--105853208 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
105853154 ATAATTAATT
*
105853164 AATTAAATTAGA
1 AATTAAATTGGA
105853176 AATTAAATTGGA
1 AATTAAATTGGA
105853188 AATTAAATTGGA
1 AATTAAATTGGA
105853200 AATTAAATT
1 AATTAAATT
105853209 CAGATTTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (12 bp):
AATTAAATTGGA
Found at i:105855412 original size:2 final size:2
Alignment explanation
Indices: 105855405--105855443 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
105855395 TTAATGTGTT
105855405 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105855444 TCTTCATGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:105870340 original size:12 final size:12
Alignment explanation
Indices: 105870325--105870349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
105870315 AAAAATAAAA
105870325 ATAAAACATATG
1 ATAAAACATATG
105870337 ATAAAACATATG
1 ATAAAACATATG
105870349 A
1 A
105870350 AGAGTTCGAG
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:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
ATAAAACATATG
Found at i:105873924 original size:20 final size:21
Alignment explanation
Indices: 105873895--105873953 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
105873885 TATATTAATT
*
105873895 TTTAATTATTTTAA-A-AATA
1 TTTAATTATTTTAATATAACA
105873914 TTTATATTATTTTAATATAACA
1 TTTA-ATTATTTTAATATAACA
105873936 TTTAATTATTTTATATAT
1 TTTAATTATTTTA-ATAT
105873954 TTTTTCTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 4 0.11
20 10 0.29
21 10 0.29
22 11 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAATTATTTTAATATAACA
Found at i:105876784 original size:20 final size:20
Alignment explanation
Indices: 105876759--105876800 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
105876749 AAATGAGTTT
105876759 TAACTATAACTTTAATGATA
1 TAACTATAACTTTAATGATA
*
105876779 TAACTATAACTTTAGTGATA
1 TAACTATAACTTTAATGATA
105876799 TA
1 TA
105876801 TATATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (20 bp):
TAACTATAACTTTAATGATA
Found at i:105884530 original size:12 final size:12
Alignment explanation
Indices: 105884513--105884538 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
105884503 TCCCCTTATA
105884513 TTTTTGTTTCCC
1 TTTTTGTTTCCC
105884525 TTTTTGTTTCCC
1 TTTTTGTTTCCC
105884537 TT
1 TT
105884539 ATATTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTTGTTTCCC
Found at i:105884545 original size:17 final size:17
Alignment explanation
Indices: 105884505--105884557 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
105884495 TTATTTTTTC
105884505 CCCTTATATTTTTGTTT
1 CCCTTATATTTTTGTTT
105884522 CCC-----TTTTTGTTT
1 CCCTTATATTTTTGTTT
105884534 CCCTTATATTTTTGTTT
1 CCCTTATATTTTTGTTT
105884551 CCCTTAT
1 CCCTTAT
105884558 TCCTCTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 12 0.39
17 19 0.61
ACGTcount: A:0.09, C:0.23, G:0.06, T:0.62
Consensus pattern (17 bp):
CCCTTATATTTTTGTTT
Found at i:105889142 original size:19 final size:20
Alignment explanation
Indices: 105889118--105889157 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
105889108 TAATTTGGAT
105889118 ATAAAAAATTTT-ATATTTA
1 ATAAAAAATTTTAATATTTA
*
105889137 ATAAAACATTTTAATATTTA
1 ATAAAAAATTTTAATATTTA
105889157 A
1 A
105889158 AATTAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAAAATTTTAATATTTA
Found at i:105892317 original size:17 final size:17
Alignment explanation
Indices: 105892284--105892317 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
105892274 AATGGATTTC
*
105892284 TAAATTTTGAGATATAA
1 TAAATTTTGAGAGATAA
*
105892301 TAAATTTTGTGAGATAA
1 TAAATTTTGAGAGATAA
105892318 GGTCAGAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (17 bp):
TAAATTTTGAGAGATAA
Found at i:105893885 original size:14 final size:14
Alignment explanation
Indices: 105893862--105893891 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105893852 TTGAAAATAT
105893862 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
105893876 GTTGATTTGGATTG
1 GTTGAATTGGATTG
105893890 GT
1 GT
105893892 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:105899034 original size:29 final size:29
Alignment explanation
Indices: 105898991--105899049 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
105898981 ATCGCAATTA
*
105898991 TACTTGAAGTGACCACTACAATCAAACAT
1 TACTTGAAGTAACCACTACAATCAAACAT
105899020 TACTTGAAGTAACCACTACAATCAAACAT
1 TACTTGAAGTAACCACTACAATCAAACAT
105899049 T
1 T
105899050 CACTCAATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.25
Consensus pattern (29 bp):
TACTTGAAGTAACCACTACAATCAAACAT
Found at i:105899763 original size:26 final size:26
Alignment explanation
Indices: 105899734--105899843 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
105899724 TGATACAAAT
105899734 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
105899760 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105899786 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105899812 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105899838 TGATAA
1 TGATAA
105899844 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105901344 original size:26 final size:26
Alignment explanation
Indices: 105901315--105901367 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105901305 TTTACAGTTT
105901315 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
105901341 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
105901367 T
1 T
105901368 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:105905490 original size:26 final size:26
Alignment explanation
Indices: 105905461--105905570 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
105905451 TGATACAAAT
105905461 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
105905487 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105905513 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
105905539 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
105905565 TGATAA
1 TGATAA
105905571 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:105907071 original size:26 final size:26
Alignment explanation
Indices: 105907042--105907094 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105907032 TTTACAGTTT
105907042 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
105907068 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
105907094 T
1 T
105907095 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:105912449 original size:26 final size:24
Alignment explanation
Indices: 105912409--105912467 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
105912399 TATTTCGTTA
* * *
105912409 AATAAAAAAATTTAAAAATATAAT
1 AATAAATATATTTAAAAACATAAT
105912433 AAATCAAATATATTTAAAAACATAAT
1 -AAT-AAATATATTTAAAAACATAAT
105912459 AATAAATAT
1 AATAAATAT
105912468 TAAAACAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.20
25 6 0.20
26 18 0.60
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (24 bp):
AATAAATATATTTAAAAACATAAT
Found at i:105918006 original size:2 final size:2
Alignment explanation
Indices: 105918001--105918029 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
105917991 TATATATATA
105918001 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
105918030 TATTCATAGT
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:105918729 original size:21 final size:21
Alignment explanation
Indices: 105918703--105918742 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
105918693 GAAATGTTAG
*
105918703 TTTAATTTTTTTAGTTTTAAA
1 TTTAATTTTTTTAGATTTAAA
105918724 TTTAATTTTTTTAGATTTA
1 TTTAATTTTTTTAGATTTA
105918743 TACATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTAATTTTTTTAGATTTAAA
Found at i:105921636 original size:34 final size:34
Alignment explanation
Indices: 105921570--105921673 Score: 95
Period size: 34 Copynumber: 3.0 Consensus size: 34
105921560 TACTGAGTTG
* * *
105921570 ATCTATTATAAGCATATTATTTGCCACTATATTGA
1 ATCTGTTATAAGCATATTA-TTGCTACCATATTGA
105921605 AT-TGTTATAAGCATATTGATTGCTACCATATT-A
1 ATCTGTTATAAGCATATT-ATTGCTACCATATTGA
* * * *
105921638 TTCTGTTAAAAGCATAATTAAATGCTACCGTATTGA
1 ATCTGTTATAAGCAT-ATT-ATTGCTACCATATTGA
105921674 TCCGTTTTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
33 2 0.04
34 36 0.63
35 18 0.32
36 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (34 bp):
ATCTGTTATAAGCATATTATTGCTACCATATTGA
Found at i:105922341 original size:16 final size:16
Alignment explanation
Indices: 105922320--105922351 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
105922310 ATTTATGAGT
105922320 TAAATATAGTATAATA
1 TAAATATAGTATAATA
105922336 TAAATATAGTATAATA
1 TAAATATAGTATAATA
105922352 GTGAATCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
TAAATATAGTATAATA
Done.