Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 31 of 59
Found at i:11321963 original size:20 final size:20
Alignment explanation
Indices: 11321906--11321968 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
11321896 TATATACCCA
*
11321906 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
* *
11321925 CCATTATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
11321945 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
11321965 TCAT
1 TCAT
11321969 GCGCACTCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 9 0.24
20 29 0.76
ACGTcount: A:0.30, C:0.40, G:0.03, T:0.27
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:11322015 original size:43 final size:43
Alignment explanation
Indices: 11321967--11322076 Score: 168
Period size: 43 Copynumber: 2.6 Consensus size: 43
11321957 TCACCAGCTC
** * *
11321967 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
11322010 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
11322053 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
11322077 GTCGAGTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 61 0.98
ACGTcount: A:0.19, C:0.38, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:11329219 original size:20 final size:20
Alignment explanation
Indices: 11329162--11329224 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
11329152 TATATACCCA
*
11329162 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
11329181 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
11329201 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
11329221 TCAT
1 TCAT
11329225 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:11329271 original size:43 final size:43
Alignment explanation
Indices: 11329223--11329332 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
11329213 TCACCAGCTC
** * * *
11329223 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTAATC-CTCGGCTT
11329266 ATGCGCACTCCCTACTCGCACATAACCGGGTAATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTAATCCTCGGCTT
11329309 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
11329333 GCCGAGTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTAATCCTCGGCTT
Found at i:11336526 original size:24 final size:25
Alignment explanation
Indices: 11336498--11336551 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
11336488 CACAATGAAA
*
11336498 TATATCA-CTTGTGGCCTAGCCACG
1 TATATCATCCTGTGGCCTAGCCACG
*
11336522 TATATCATCCTGTGGCCTTGCCACG
1 TATATCATCCTGTGGCCTAGCCACG
11336547 TATAT
1 TATAT
11336552 ATATCACAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (25 bp):
TATATCATCCTGTGGCCTAGCCACG
Found at i:11337634 original size:26 final size:26
Alignment explanation
Indices: 11337605--11337654 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
11337595 ACTTACCCAT
11337605 TGCTTATCTAGCTCAAAATCACCAAC
1 TGCTTATCTAGCTCAAAATCACCAAC
11337631 TGCTTATCTAGCTCAAAATCACCA
1 TGCTTATCTAGCTCAAAATCACCA
11337655 TCCATTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.28
Consensus pattern (26 bp):
TGCTTATCTAGCTCAAAATCACCAAC
Found at i:11337924 original size:15 final size:16
Alignment explanation
Indices: 11337900--11337942 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
11337890 CAAGTTAAAC
11337900 CTTCCTTTCTCTTTTT
1 CTTCCTTTCTCTTTTT
*
11337916 CTT-CTTTCTC-CTTT
1 CTTCCTTTCTCTTTTT
11337930 CTTCCTTTCTCTT
1 CTTCCTTTCTCTT
11337943 CTTACTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.26
15 14 0.61
16 3 0.13
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
CTTCCTTTCTCTTTTT
Found at i:11338924 original size:18 final size:19
Alignment explanation
Indices: 11338877--11338923 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
11338867 TTAATATTTT
11338877 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
*
11338896 AATATTATTTTATT-TTAA
1 AATATTATTTTATTAATAA
11338914 AATATT-TTTT
1 AATATTATTTT
11338924 TCACCTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 9 0.33
19 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATATTATTTTATTAATAA
Found at i:11340831 original size:19 final size:18
Alignment explanation
Indices: 11340791--11340836 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
11340781 TTTATAGTTG
11340791 TTTTTA-TAATTATTTAA
1 TTTTTATTAATTATTTAA
11340808 TTTTTATTAAGTTATTCTAA
1 TTTTTATTAA-TTATT-TAA
11340828 TTTTATATT
1 TTTT-TATT
11340837 TATTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 3 0.12
19 5 0.20
20 7 0.28
21 4 0.16
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTATTAATTATTTAA
Found at i:11350106 original size:16 final size:16
Alignment explanation
Indices: 11350081--11350112 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11350071 AGGATTTCTC
11350081 CCCCTAAGTGTGTGCT
1 CCCCTAAGTGTGTGCT
*
11350097 CCCCTTAGTGTGTGCT
1 CCCCTAAGTGTGTGCT
11350113 TATTTTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.31, G:0.25, T:0.34
Consensus pattern (16 bp):
CCCCTAAGTGTGTGCT
Found at i:11354264 original size:43 final size:43
Alignment explanation
Indices: 11354146--11354267 Score: 167
Period size: 43 Copynumber: 2.8 Consensus size: 43
11354136 TGACTCGACT
**
11354146 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCAGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCAGGCC
*
11354189 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA-GCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA-CCAGGCC
* *
11354232 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
11354268 TGATGATGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 67 0.94
44 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCAGGCC
Found at i:11354278 original size:20 final size:20
Alignment explanation
Indices: 11354253--11354315 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
11354243 GGGAGTGCGC
11354253 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
11354273 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
11354293 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
11354312 ATGA
1 ATGA
11354316 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:11355414 original size:11 final size:11
Alignment explanation
Indices: 11355398--11355427 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11355388 ATTTTAGAAG
11355398 AGAGAAAATGT
1 AGAGAAAATGT
11355409 AGAGAAAATGT
1 AGAGAAAATGT
11355420 AGAGAAAA
1 AGAGAAAA
11355428 AAAGTTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (11 bp):
AGAGAAAATGT
Found at i:11358635 original size:37 final size:37
Alignment explanation
Indices: 11358571--11358688 Score: 175
Period size: 37 Copynumber: 3.2 Consensus size: 37
11358561 GTTGGGTGAG
* * *
11358571 GATGTTGAGGTGTACGAGTAGGGAGTGCACACATGAT
1 GATGATGAAGTGTGCGAGTAGGGAGTGCACACATGAT
* *
11358608 GATGAT-AGAGTGTGCGAGTAGGGAGTGCACAGATGAC
1 GATGATGA-AGTGTGCGAGTAGGGAGTGCACACATGAT
11358645 GATGATGAAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGATGAAGTGTGCGAGTAGGGAGTGCACACATGAT
11358682 GATGATG
1 GATGATG
11358689 TATGTATATG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
36 1 0.01
37 70 0.97
38 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.39, T:0.22
Consensus pattern (37 bp):
GATGATGAAGTGTGCGAGTAGGGAGTGCACACATGAT
Found at i:11363917 original size:27 final size:27
Alignment explanation
Indices: 11363879--11363934 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11363869 CGATCTTCGA
11363879 GCACAATCTCTTTACCCTTGTTAGAGG
1 GCACAATCTCTTTACCCTTGTTAGAGG
11363906 GCACAATCTCTTTACCCTTGTTAGAGG
1 GCACAATCTCTTTACCCTTGTTAGAGG
11363933 GC
1 GC
11363935 TCACCACCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (27 bp):
GCACAATCTCTTTACCCTTGTTAGAGG
Found at i:11370123 original size:40 final size:40
Alignment explanation
Indices: 11370061--11370163 Score: 122
Period size: 38 Copynumber: 2.6 Consensus size: 40
11370051 ACCCAGCTTA
* * *
11370061 TGTGTATCCCCCCACATCGTGCACATAGCCGGA-GTCATCG
1 TGTGCATCCCCCCACATCGTGCACATAG-CGAATGCCATCG
* **
11370101 TGTGCATTCCCCCACATCGTG--CATAGTTAATGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCGAATGCCATCG
11370139 TGTGCATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
11370164 CGAGCAGTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
37 1 0.02
38 31 0.58
40 21 0.40
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.24
Consensus pattern (40 bp):
TGTGCATCCCCCCACATCGTGCACATAGCGAATGCCATCG
Found at i:11377400 original size:54 final size:54
Alignment explanation
Indices: 11377336--11377438 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
11377326 ATTTGTATAC
11377336 CACCCCATCTCACCCAGCTCATGTACATCCCCCCACATCATGCACATAGTCGAA
1 CACCCCATCTCACCCAGCTCATGTACATCCCCCCACATCATGCACATAGTCGAA
* *
11377390 CACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAG
1 CACCCCATCTCACCCAGCTCATGTACATCCCCCCACATCATGCACATAG
11377439 CCAGAGTCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.46, G:0.11, T:0.18
Consensus pattern (54 bp):
CACCCCATCTCACCCAGCTCATGTACATCCCCCCACATCATGCACATAGTCGAA
Found at i:11377505 original size:38 final size:38
Alignment explanation
Indices: 11377408--11377551 Score: 164
Period size: 38 Copynumber: 3.7 Consensus size: 38
11377398 CTCACCCAGC
**
11377408 TCATGTGCATCCCCCCACATCGTGCACATAGCCAGA-GTCA
1 TCATGTGCATCCCCCCACATCGTGCACA-A-TTA-ATGTCA
* * * *
11377448 TCGTGTGCATCCTCTCACATCGTGCACAATTAATGCCA
1 TCATGTGCATCCCCCCACATCGTGCACAATTAATGTCA
* *
11377486 TCATGTGCATCCCCCCACATCATGCACAGTTAATGTCA
1 TCATGTGCATCCCCCCACATCGTGCACAATTAATGTCA
* *
11377524 TCGTGTGCATCCCCTCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
11377552 CAGGCAGTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 61 0.69
39 1 0.01
40 25 0.28
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (38 bp):
TCATGTGCATCCCCCCACATCGTGCACAATTAATGTCA
Found at i:11377547 original size:76 final size:77
Alignment explanation
Indices: 11377408--11377551 Score: 220
Period size: 76 Copynumber: 1.9 Consensus size: 77
11377398 CTCACCCAGC
* *
11377408 TCATGTGCATCCCCCCACATCGTGCACATAGCCAGAGTCATCGTGTGCATCCTCTCACATCGTGC
1 TCATGTGCATCCCCCCACATCATGCACA-AGCCAGAGTCATCGTGTGCATCCCCTCACATCGTGC
11377473 ACAATTAATGCCA
65 ACAATTAATGCCA
**
11377486 TCATGTGCATCCCCCCACATCATGCAC-AGTTA-ATGTCATCGTGTGCATCCCCTCACATCGTGC
1 TCATGTGCATCCCCCCACATCATGCACAAGCCAGA-GTCATCGTGTGCATCCCCTCACATCGTGC
11377549 ACA
65 ACA
11377552 CAGGCAGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
75 1 0.02
76 34 0.56
78 26 0.43
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (77 bp):
TCATGTGCATCCCCCCACATCATGCACAAGCCAGAGTCATCGTGTGCATCCCCTCACATCGTGCA
CAATTAATGCCA
Found at i:11379281 original size:58 final size:55
Alignment explanation
Indices: 11379202--11379318 Score: 153
Period size: 58 Copynumber: 2.1 Consensus size: 55
11379192 CATAATCATC
* * * *
11379202 CAAAGAAGAATGCATGCGATAGATTTATTTTATGCCATTTAATAAATGCTATGTGATG
1 CAAAGAAGAATGCATGAGATAGATTTA-TTTATG-CAATTAATAAATACTATG-CATG
* *
11379260 CAAAGTAGTATGCATGAGATAGATTTATTTATGCAATTAATAAATACTATGCATG
1 CAAAGAAGAATGCATGAGATAGATTTATTTATGCAATTAATAAATACTATGCATG
11379315 CAAA
1 CAAA
11379319 TATGAGACCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
55 7 0.13
56 16 0.30
57 6 0.11
58 24 0.45
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (55 bp):
CAAAGAAGAATGCATGAGATAGATTTATTTATGCAATTAATAAATACTATGCATG
Found at i:11383777 original size:37 final size:37
Alignment explanation
Indices: 11383719--11383833 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
11383709 CATATGCATT
* *
11383719 CATCATCATGTGTGCATTCCCTACTCGCACACTCTAA
1 CATCATCATGTGTGCACTCCCTACTTGCACACTCTAA
* *
11383756 CATTATCATGTGTGCACTCCCTACTTGTACACTCTAA
1 CATCATCATGTGTGCACTCCCTACTTGCACACTCTAA
11383793 CATCATCATGTGTGCACTCCCTACTTGCACACT-TCAA
1 CATCATCATGTGTGCACTCCCTACTTGCACACTCT-AA
11383830 CATC
1 CATC
11383834 CTCACACTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
36 1 0.01
37 70 0.99
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.31
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTTGCACACTCTAA
Found at i:11416700 original size:58 final size:57
Alignment explanation
Indices: 11416590--11416703 Score: 176
Period size: 58 Copynumber: 2.0 Consensus size: 57
11416580 TAAATAAACG
* * *
11416590 ATACATTCGTAATTAATTATAAAAAAAAGAATATATAAATACATAAATAATTAACTA
1 ATACATTCATAATTAATTATAAAAAAAAGAAAATATAAATACATAAACAATTAACTA
11416647 ATACATTCATAATTAATTATATAAAACAAA-AAAATATAAATACATAAACAATTAACT
1 ATACATTCATAATTAATTATA-AAAA-AAAGAAAATATAAATACATAAACAATTAACT
11416704 GATAAATATT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
57 20 0.38
58 29 0.56
59 3 0.06
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.31
Consensus pattern (57 bp):
ATACATTCATAATTAATTATAAAAAAAAGAAAATATAAATACATAAACAATTAACTA
Found at i:11419033 original size:157 final size:157
Alignment explanation
Indices: 11418765--11419063 Score: 431
Period size: 157 Copynumber: 1.9 Consensus size: 157
11418755 ACAGTTTAGA
* * *
11418765 ATAAGACATTTGCAGCAGCAGTAGTTTGGTCACCTGGCTTGGTTATTTGTCTTCTTTTTACATAT
1 ATAAGACAATTGCAACAGCAGTAGTTTGATCACCTGGCTTGGTTATTTGTCTTCTTTTTACATAT
* ** ** *
11418830 ATTTATGGATTTCAAAAGTGAATGGTAGGCTTTGATCAATTCCCACTAAGAGGTGCACAACCTAG
66 ATTCATGGATTTCAAAAGTGAACAGTAAACCTTGATCAATTCCCACTAAGAGGTGCACAACCTAG
11418895 GACTTAGAAATGTGTTTGTGTGTGTGT
131 GACTTAGAAATGTGTTTGTGTGTGTGT
* * * *
11418922 ATAATACAATTGCAACAGCAGTAGTTTGATCGCCTGTCTTGGTTATTTGTCTTCTTTTT-CTGTA
1 ATAAGACAATTGCAACAGCAGTAGTTTGATCACCTGGCTTGGTTATTTGTCTTCTTTTTAC-ATA
* *
11418986 TATTCATGGACTTTCAAAAGTGAACAGTAAACCTTGATCAATT-CCACTAGGAGGTGCACAACTT
65 TATTCATGGA-TTTCAAAAGTGAACAGTAAACCTTGATCAATTCCCACTAAGAGGTGCACAACCT
11419050 AGGACTTAGAAATG
129 AGGACTTAGAAATG
11419064 AATTTCATTT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
156 1 0.01
157 97 0.78
158 27 0.22
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (157 bp):
ATAAGACAATTGCAACAGCAGTAGTTTGATCACCTGGCTTGGTTATTTGTCTTCTTTTTACATAT
ATTCATGGATTTCAAAAGTGAACAGTAAACCTTGATCAATTCCCACTAAGAGGTGCACAACCTAG
GACTTAGAAATGTGTTTGTGTGTGTGT
Found at i:11429364 original size:46 final size:46
Alignment explanation
Indices: 11429311--11429402 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
11429301 AGGAGGAAAG
*
11429311 GTAAGGAACCTTGTATGGAAGTATTCTTTCGGAGTGTGATAGAGGT
1 GTAAGGAACCTTGTATGGAAGTATTCTTTCGGAGTGTGAGAGAGGT
11429357 GTAAGGAACCTTGTATGGAAGTATTCTTTCGGAGTGTGAGAGAGGT
1 GTAAGGAACCTTGTATGGAAGTATTCTTTCGGAGTGTGAGAGAGGT
11429403 TGGTAGTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.32
Consensus pattern (46 bp):
GTAAGGAACCTTGTATGGAAGTATTCTTTCGGAGTGTGAGAGAGGT
Found at i:11431475 original size:16 final size:17
Alignment explanation
Indices: 11431456--11431488 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11431446 AGCTAATGGC
11431456 ATATTGT-TGAAAAGTG
1 ATATTGTCTGAAAAGTG
11431472 ATATTGTGCTGAAAAGT
1 ATATTGT-CTGAAAAGT
11431489 TCATAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (17 bp):
ATATTGTCTGAAAAGTG
Found at i:11432562 original size:36 final size:36
Alignment explanation
Indices: 11432491--11432626 Score: 125
Period size: 36 Copynumber: 3.7 Consensus size: 36
11432481 CTCAACTCAG
*
11432491 CTCATGTGCACTCCCACATCGCACATAGCTAATATC
1 CTCATGTGCACTCCCACACCGCACATAGCTAATATC
*
11432527 CTCATGTGCACTCCCACACCGCACATGGC-ATATATC
1 CTCATGTGCACTCCCACACCGCACATAGCTA-ATATC
* * ****
11432563 ATCGATGTGTGCTCTCCCACACCGCACACTA-CCGGCA-C
1 CTC-A--TGTGCACTCCCACACCGCACA-TAGCTAATATC
11432601 CATCATGTGCACTCCCACACCGCACA
1 C-TCATGTGCACTCCCACACCGCACA
11432627 CACCCGATTA
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
35 1 0.01
36 54 0.65
37 1 0.01
38 2 0.02
39 24 0.29
40 1 0.01
ACGTcount: A:0.25, C:0.40, G:0.14, T:0.21
Consensus pattern (36 bp):
CTCATGTGCACTCCCACACCGCACATAGCTAATATC
Found at i:11433719 original size:13 final size:13
Alignment explanation
Indices: 11433697--11433737 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11433687 AGCTTTTCTC
11433697 TTCC-TTTTTCCT
1 TTCCTTTTTTCCT
11433709 TTCCTTTTTTCCT
1 TTCCTTTTTTCCT
*
11433722 TTCTTTTTTTTCCT
1 TTC-CTTTTTTCCT
11433736 TT
1 TT
11433738 ATTCTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 4 0.15
13 11 0.42
14 11 0.42
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
TTCCTTTTTTCCT
Found at i:11433719 original size:25 final size:23
Alignment explanation
Indices: 11433690--11433752 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 23
11433680 TCTTTCGAGC
11433690 TTTTCTCTTCCTTTTTCCTTTCCTT
1 TTTTCTCTTCCTTTTT--TTTCCTT
*
11433715 TTTTC-CTTTCTTTTTTTTCCTT
1 TTTTCTCTTCCTTTTTTTTCCTT
*
11433737 TATTCTTTCTTCCTTT
1 T-TT-TCTCTTCCTTT
11433753 CTCTCTCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 8 0.25
23 2 0.06
24 10 0.31
25 12 0.38
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTCTCTTCCTTTTTTTTCCTT
Found at i:11433745 original size:12 final size:11
Alignment explanation
Indices: 11433690--11433745 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 11
11433680 TCTTTCGAGC
11433690 TTTTCTCTTCCT
1 TTTTCT-TTCCT
11433702 TTTTCCTTTCCTT
1 TTTT-CTTTCC-T
11433715 TTTTCCTTT-CT
1 TTTT-CTTTCCT
11433726 TTTT-TTTCCT
1 TTTTCTTTCCT
11433736 TTATTCTTTC
1 TT-TTCTTTC
11433746 TTCCTTTCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.08
10 4 0.10
11 7 0.18
12 13 0.33
13 12 0.31
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTCTTTCCT
Found at i:11433749 original size:15 final size:15
Alignment explanation
Indices: 11433712--11433752 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
11433702 TTTTCCTTTC
*
11433712 CTTTTTTCCTTTCTT
1 CTTTTTTCCTTTATT
11433727 -TTTTTTCCTTTATT
1 CTTTTTTCCTTTATT
*
11433741 CTTTCTTCCTTT
1 CTTTTTTCCTTT
11433753 CTCTCTCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTTTTTCCTTTATT
Found at i:11435649 original size:2 final size:2
Alignment explanation
Indices: 11435636--11435672 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
11435626 TTTCTATAAA
* *
11435636 AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11435673 AACATGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:11435749 original size:36 final size:36
Alignment explanation
Indices: 11435702--11435821 Score: 163
Period size: 36 Copynumber: 3.4 Consensus size: 36
11435692 GCTCACGAGC
*
11435702 TCATGTGCACTCCTACACCGCACATAGCTGAA-ATCA
1 TCATGTGCACTCCCACACCGCACATAGCT-AATATCA
* * *
11435738 TCATGTGCACTCCCACACCACACATAGCTAATACCG
1 TCATGTGCACTCCCACACCGCACATAGCTAATATCA
*
11435774 TCATGTGCACTCCCACACCGCACATGGC-AATATCA
1 TCATGTGCACTCCCACACCGCACATAGCTAATATCA
*
11435809 TCATGTACACTCC
1 TCATGTGCACTCC
11435822 TGCACCAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
35 19 0.26
36 55 0.74
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.22
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATAGCTAATATCA
Found at i:11437333 original size:12 final size:12
Alignment explanation
Indices: 11437301--11437335 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
11437291 GAGAAAAGAA
*
11437301 GAAAAAAGAAAG
1 GAAAAAGGAAAG
11437313 GAAAGAAGGAAAG
1 GAAA-AAGGAAAG
11437326 GAAAAAGGAA
1 GAAAAAGGAA
11437336 GAGAAAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
GAAAAAGGAAAG
Found at i:11440394 original size:39 final size:39
Alignment explanation
Indices: 11440342--11440514 Score: 228
Period size: 39 Copynumber: 4.5 Consensus size: 39
11440332 GTGCTGGTAG
* *
11440342 TGTGCGGTTTGGGAGAGCACACG-TCGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGAT-GATGATATATGCCA
11440381 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
*
11440420 TGTGCGGTGTGGGAGATCACATGATGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
* * * * *
11440459 TGTGCGGTGCGAGAGTGCACATGAGGAT-AT-TA-GCTA
1 TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
*
11440495 TGTGCGGTGTGGGAGTGCAC
1 TGTGCGGTGTGGGAGAGCAC
11440515 GTGAGCTGAG
Statistics
Matches: 122, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
36 21 0.17
37 2 0.02
38 2 0.02
39 96 0.79
40 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.26
Consensus pattern (39 bp):
TGTGCGGTGTGGGAGAGCACATGATGATGATATATGCCA
Found at i:11446707 original size:18 final size:18
Alignment explanation
Indices: 11446684--11446719 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11446674 AGACTAATTA
11446684 CTGTGTTATAAATCATGG
1 CTGTGTTATAAATCATGG
11446702 CTGTGTTATAAATCATGG
1 CTGTGTTATAAATCATGG
11446720 TTTGAATTGA
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:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (18 bp):
CTGTGTTATAAATCATGG
Found at i:11448675 original size:58 final size:57
Alignment explanation
Indices: 11448581--11448700 Score: 186
Period size: 58 Copynumber: 2.1 Consensus size: 57
11448571 AGGGTCTCAT
* *
11448581 CTTTGCATGCATAGCATTTATTAAATCGCATTAAATAAATCTATCAAATGCATACTA
1 CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCAAATGCAAACTA
* * *
11448638 CTTTGCATTGTATAGCATTTATTAAATTGCATAAAATAAATCTATCACATGCAAACTA
1 CTTTGCA-TGCATAGCATTTATTAAATCGCATAAAATAAATCTATCAAATGCAAACTA
11448696 CTTTG
1 CTTTG
11448701 GATGATTATG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 7 0.12
58 50 0.88
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (57 bp):
CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCAAATGCAAACTA
Found at i:11458774 original size:28 final size:25
Alignment explanation
Indices: 11458738--11458818 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 25
11458728 GCTTTAGACA
*
11458738 TGGCTAGGCCACGGTCTGTGATTATACG
1 TGGCAAGGCCACGG-CT-TG-TTATACG
* *
11458766 TGGCAAGGCCATGGGTTGTTATACG
1 TGGCAAGGCCACGGCTTGTTATACG
* *
11458791 TGGCAAGGCTACGAG-TTGATATACG
1 TGGCAAGGCCACG-GCTTGTTATACG
11458816 TGG
1 TGG
11458819 TTGCGACCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
25 30 0.65
26 3 0.07
27 1 0.02
28 12 0.26
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (25 bp):
TGGCAAGGCCACGGCTTGTTATACG
Found at i:11458793 original size:25 final size:25
Alignment explanation
Indices: 11458759--11458818 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
11458749 CGGTCTGTGA
* *
11458759 TTATACGTGGCAAGGCCATGGGTTG
1 TTATACGTGGCAAGGCCACGAGTTG
*
11458784 TTATACGTGGCAAGGCTACGAGTTG
1 TTATACGTGGCAAGGCCACGAGTTG
*
11458809 ATATACGTGG
1 TTATACGTGG
11458819 TTGCGACCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.28
Consensus pattern (25 bp):
TTATACGTGGCAAGGCCACGAGTTG
Found at i:11467540 original size:22 final size:22
Alignment explanation
Indices: 11467501--11467578 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
11467491 GATAGAGGGT
* * *
11467501 TTCTCGCTGTAGCAGAAAGGCA
1 TTCTCACTGCAGCGGAAAGGCA
11467523 TTCTCACTGCAGCGGAAAGGCA
1 TTCTCACTGCAGCGGAAAGGCA
* *
11467545 TTCT-AGCTACAACGGAAAGGCA
1 TTCTCA-CTGCAGCGGAAAGGCA
*
11467567 TTCTCGCTGCAG
1 TTCTCACTGCAG
11467579 TGAAATTCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.02
22 45 0.98
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.22
Consensus pattern (22 bp):
TTCTCACTGCAGCGGAAAGGCA
Found at i:11475140 original size:84 final size:84
Alignment explanation
Indices: 11474951--11475288 Score: 337
Period size: 84 Copynumber: 4.0 Consensus size: 84
11474941 GCCACACTCA
* * * *
11474951 GCTCATGTGCACTCCCTACTCGCACATA-ACTTGATCATCATCAGCTCATGTGCACTTTCACACC
1 GCTCATGTGCACTCCCTACTCGCACATAGTC-GGGTCATCATCAGCTCATGTGCA--TTCCCACC
* *
11475015 GAACATAGCTGGGTCATCAT-T
63 GCACATAGCTAGGTCATCATCT
* *
11475036 GGCTCATGTGCACTCTCTACTCGCACATAGTCGGGTCATCATTAGCTCATGTGCATTCCCACCGC
1 -GCTCATGTGCACTCCCTACTCGCACATAGTCGGGTCATCATCAGCTCATGTGCATTCCCACCGC
11475101 ACATAGCTAGGTCATCATCT
65 ACATAGCTAGGTCATCATCT
* * * * * *
11475121 GCTCATGTGCACCCCCTACTTGCACACAGTCAGGTCATCCTCAGCTCATTTGCATTCCCTA-CGC
1 GCTCATGTGCACTCCCTACTCGCACATAGTCGGGTCATCATCAGCTCATGTGCATTCCC-ACCGC
* * * *
11475185 ACAGAACTAGGTCATCAACG
65 ACATAGCTAGGTCATCATCT
* * * *
11475205 GCTCAAGTGCACTCCCTACTCGCACATAGCTAGGTGGTCATCAACA--T-ATGTGCACTCCCACC
1 GCTCATGTGCACTCCCTACTCGCACATAG-T-CG-GGTCATCATCAGCTCATGTGCATTCCCA--
*
11475267 CCGCACATAGCTGGGTCATCAT
61 CCGCACATAGCTAGGTCATCAT
11475289 TATCACACAA
Statistics
Matches: 209, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
83 1 0.00
84 130 0.62
85 4 0.02
86 64 0.31
87 10 0.05
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.26
Consensus pattern (84 bp):
GCTCATGTGCACTCCCTACTCGCACATAGTCGGGTCATCATCAGCTCATGTGCATTCCCACCGCA
CATAGCTAGGTCATCATCT
Found at i:11475159 original size:43 final size:44
Alignment explanation
Indices: 11474951--11475288 Score: 244
Period size: 43 Copynumber: 8.0 Consensus size: 44
11474941 GCCACACTCA
* * * *
11474951 GCTCATGTGCACTCCCTACTCGCACATA-ACTTGATCATCATCA
1 GCTCATGTGCACTCCCTACTCGCACATAGTCTAGGTCATCATCT
* * *
11474994 GCTCATGTGCACTTTCAC-AC-CGAACATAG-CTGGGTCATCAT-T
1 GCTCATGTGCAC--TCCCTACTCGCACATAGTCTAGGTCATCATCT
* *
11475036 GGCTCATGTGCACTCTCTACTCGCACATAGTC-GGGTCATCAT-T
1 -GCTCATGTGCACTCCCTACTCGCACATAGTCTAGGTCATCATCT
*
11475079 AGCTCATGTGCATTCCC-AC-CGCACATAG-CTAGGTCATCATCT
1 -GCTCATGTGCACTCCCTACTCGCACATAGTCTAGGTCATCATCT
* * * * *
11475121 GCTCATGTGCACCCCCTACTTGCACACAGTC-AGGTCATCCTCA
1 GCTCATGTGCACTCCCTACTCGCACATAGTCTAGGTCATCATCT
* * * * * *
11475164 GCTCATTTGCATTCCCTA--CGCACAGA-ACTAGGTCATCAACG
1 GCTCATGTGCACTCCCTACTCGCACATAGTCTAGGTCATCATCT
* ** *
11475205 GCTCAAGTGCACTCCCTACTCGCACATAG-CTAGGTGGTCATCA
1 GCTCATGTGCACTCCCTACTCGCACATAGTCTAGGTCATCATCT
* * *
11475248 ACAT-ATGTGCACTCCC-ACCCCGCACATAG-CTGGGTCATCAT
1 GC-TCATGTGCACTCCCTA-CTCGCACATAGTCTAGGTCATCAT
11475289 TATCACACAA
Statistics
Matches: 237, Mismatches: 40, Indels: 36
0.76 0.13 0.12
Matches are distributed among these distances:
40 2 0.01
41 65 0.27
42 8 0.03
43 154 0.65
44 5 0.02
45 3 0.01
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.26
Consensus pattern (44 bp):
GCTCATGTGCACTCCCTACTCGCACATAGTCTAGGTCATCATCT
Found at i:11479958 original size:37 final size:37
Alignment explanation
Indices: 11479917--11479989 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
11479907 ATGATGTTGT
* **
11479917 ATGATGATAATGAGGTGTGCGAGTAGGGAGTGCACAC
1 ATGATGACAATGAAATGTGCGAGTAGGGAGTGCACAC
*
11479954 ATGATGACATTGAAATGTGCGAGTAGGGAGTGCACA
1 ATGATGACAATGAAATGTGCGAGTAGGGAGTGCACA
11479990 TGTGGTGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.22
Consensus pattern (37 bp):
ATGATGACAATGAAATGTGCGAGTAGGGAGTGCACAC
Found at i:11484366 original size:63 final size:63
Alignment explanation
Indices: 11484258--11484414 Score: 253
Period size: 63 Copynumber: 2.5 Consensus size: 63
11484248 TTGATGTAAC
* * ** *
11484258 CGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTTGGATGACAATGTTGTGACAATTACAA-
1 CGTGCATGTGCGGAGTGGGCAGTGCACATGCCAGTTAAATAACAATGTTGTGACAATTACAAT
11484320 CTGTGCATGTGCGGAGTGGGCAGTGCACATGCCAGTTAAATAACAATGTTGTGACAATTACAAT
1 C-GTGCATGTGCGGAGTGGGCAGTGCACATGCCAGTTAAATAACAATGTTGTGACAATTACAAT
11484384 CGTGCATGTGCGGAGTGGGCAGTGCACATGC
1 CGTGCATGTGCGGAGTGGGCAGTGCACATGC
11484415 AGACTGTGAT
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
62 1 0.01
63 86 0.98
64 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.24
Consensus pattern (63 bp):
CGTGCATGTGCGGAGTGGGCAGTGCACATGCCAGTTAAATAACAATGTTGTGACAATTACAAT
Found at i:11486208 original size:42 final size:42
Alignment explanation
Indices: 11486161--11486301 Score: 135
Period size: 42 Copynumber: 3.4 Consensus size: 42
11486151 GCAATGATAT
* *
11486161 TGACCTAGCTGTGTGCT-AGTAGGAGTGTGCATAAGCTGATGC
1 TGACCCAGCTATGTG-TGAGTAGGAGTGTGCATAAGCTGATGC
** * * * *
11486203 TGACCTGGCTATGTGTGATTGGGAGTGCGCATAAGCCGATGC
1 TGACCCAGCTATGTGTGAGTAGGAGTGTGCATAAGCTGATGC
* *
11486245 TGACCCGGCTATGTGTGAGTAGGAGTGCT-CATAAG-TCGATGT
1 TGACCCAGCTATGTGTGAGTAGGAGTG-TGCATAAGCT-GATGC
*
11486287 TGACCCAGCCATGTG
1 TGACCCAGCTATGTG
11486302 CTAGTGGGAG
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 81 0.99
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (42 bp):
TGACCCAGCTATGTGTGAGTAGGAGTGTGCATAAGCTGATGC
Found at i:11486312 original size:42 final size:42
Alignment explanation
Indices: 11486182--11486314 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 42
11486172 TGTGCTAGTA
* * ** * *
11486182 GGAGTGTGCATAAGCTGATGCTGACCTGGCTATGTGTGATTG
1 GGAGTGCGCATAAGCCGATGCTGACCCAGCCATGTGTGAGTG
* * *
11486224 GGAGTGCGCATAAGCCGATGCTGACCCGGCTATGTGTGAGTA
1 GGAGTGCGCATAAGCCGATGCTGACCCAGCCATGTGTGAGTG
* * *
11486266 GGAGTGCTCATAAGTCGATGTTGACCCAGCCATGTGCT-AGTG
1 GGAGTGCGCATAAGCCGATGCTGACCCAGCCATGTG-TGAGTG
11486308 GGAGTGC
1 GGAGTGC
11486315 ATATGAGCTA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 78 0.99
43 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.35, T:0.26
Consensus pattern (42 bp):
GGAGTGCGCATAAGCCGATGCTGACCCAGCCATGTGTGAGTG
Found at i:11489505 original size:225 final size:224
Alignment explanation
Indices: 11489114--11489560 Score: 759
Period size: 225 Copynumber: 2.0 Consensus size: 224
11489104 ATCCTTTCTG
* * ** * *
11489114 ATTATATGCTTAAGTATCATTATACTATATATGCTTGCATCGTAATGTCATTAGTCACCTCTCAC
1 ATTATATGCTTAAGTATCATCATACTATATATCCTTGCATCACAATGTCATTAATCACATCTCAC
* *
11489179 TTGCCAAATTTCATTTTCATTAAATTACAATCCGGTATTCGTATATGTTTTATAATCTCGTTGAT
66 TTGCCAAATGTCATTTGCATTAAATTACAATCCGGTATTCGTATATGTTTTATAATCTCGTTGAT
11489244 CTTTCAAAGGTTTATCTTTATTGGATCATTGCATCTTATGCAATACAACAATCCCTAAAAGTCAT
131 CTTTCAAAGGTTTATCTTTATTGGATCATTGCATCTTATGCAATACAACAATCCCTAAAAGTCAT
11489309 CCTTATTCCTCAATTATTCTTCATACNCCA
196 CCTTATTCCTCAATTATTCTTCATAC-CCA
* * *
11489339 ATTATATGCTTGAGTTTCATCGTACTATATATCCTTGCATCACAATGTCATTAATCACATCTCAC
1 ATTATATGCTTAAGTATCATCATACTATATATCCTTGCATCACAATGTCATTAATCACATCTCAC
*
11489404 TTGCTAAATGTCATTTGCATTAAATTACAATCCGGTATTCGTATATGTTTTATAATCTCGTTGAT
66 TTGCCAAATGTCATTTGCATTAAATTACAATCCGGTATTCGTATATGTTTTATAATCTCGTTGAT
*
11489469 CTTTCAAAGGTTTATCTTTATTGGATCATTGCATCTTATGCAATACCACAATCCCTAAAAGTCAT
131 CTTTCAAAGGTTTATCTTTATTGGATCATTGCATCTTATGCAATACAACAATCCCTAAAAGTCAT
*
11489534 CCTTATTTCTCAATTATTCTTCATACC
196 CCTTATTCCTCAATTATTCTTCATACC
11489561 TCTAACATAT
Statistics
Matches: 208, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
224 1 0.00
225 207 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.41
Consensus pattern (224 bp):
ATTATATGCTTAAGTATCATCATACTATATATCCTTGCATCACAATGTCATTAATCACATCTCAC
TTGCCAAATGTCATTTGCATTAAATTACAATCCGGTATTCGTATATGTTTTATAATCTCGTTGAT
CTTTCAAAGGTTTATCTTTATTGGATCATTGCATCTTATGCAATACAACAATCCCTAAAAGTCAT
CCTTATTCCTCAATTATTCTTCATACCCA
Found at i:11492594 original size:21 final size:22
Alignment explanation
Indices: 11492565--11492605 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11492555 CCTAGGTGGA
*
11492565 AAAACTCAAGGGAA-AAGTGTG
1 AAAACTCAAGGAAACAAGTGTG
*
11492586 AAAATTCAAGGAAACAAGTG
1 AAAACTCAAGGAAACAAGTG
11492606 AAAAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.51, C:0.10, G:0.24, T:0.15
Consensus pattern (22 bp):
AAAACTCAAGGAAACAAGTGTG
Found at i:11492610 original size:21 final size:20
Alignment explanation
Indices: 11492563--11492610 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
11492553 ACCCTAGGTG
*
11492563 GAAAAACTCAAGGGAAAAGT
1 GAAAAACTCAAGGAAAAAGT
* *
11492583 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAACTCAAGGAAA-AAGT
11492605 GAAAAA
1 GAAAAA
11492611 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.56, C:0.08, G:0.23, T:0.12
Consensus pattern (20 bp):
GAAAAACTCAAGGAAAAAGT
Found at i:11495941 original size:211 final size:210
Alignment explanation
Indices: 11495577--11495997 Score: 824
Period size: 211 Copynumber: 2.0 Consensus size: 210
11495567 CACAAAACCC
11495577 AATCATGTTGTCATGACCCGGAACTCCCATTGAGCCTGTGACAACCGCCGTGATGTCCCGATAGA
1 AATCATGTTGTCATGACCCGGAACTCCCATTGAGCCTGTGACAACCGCCGTGATGTCCCGATAGA
11495642 CATTCATTAACCGGAATGTCAATCGAAACCTCTCAAGGCTTAACATTAGTTTTTCTCACTTACCC
66 CATTCATTAACCGGAATGTCAATCGAAACCTCTCAAGGCTTAACATTAGTTTTTCTCACTTACCC
11495707 TATGAGTATTAGTCACTAAAATTATATTTTGAGAGATTATAAACTATTTCCAAATCAAAACAATA
131 TATGAGTATTAGTCACTAAAATTATATTTTGAGAGATTATAAACTATTTCCAAATCAAAACAATA
11495772 GAAAAACAATTTTTT
196 GAAAAACAATTTTTT
11495787 NAATCATGTTGTCATGACCCGGAACTCCCATTGAGCCTGTGACAACCGCCGTGATGTCCCGATAG
1 -AATCATGTTGTCATGACCCGGAACTCCCATTGAGCCTGTGACAACCGCCGTGATGTCCCGATAG
*
11495852 ACATTCATTACCCGGAATGTCAATCGAAACCTCTCAAGGCTTAACATTAGTTTTTCTCACTTACC
65 ACATTCATTAACCGGAATGTCAATCGAAACCTCTCAAGGCTTAACATTAGTTTTTCTCACTTACC
11495917 CTATGAGTATTAGTCACTAAAATTATATTTTGAGAGATTATAAACTATTTCCAAATCAAAACAAT
130 CTATGAGTATTAGTCACTAAAATTATATTTTGAGAGATTATAAACTATTTCCAAATCAAAACAAT
11495982 AGAAAAACAATTTTTT
195 AGAAAAACAATTTTTT
11495998 TCTCACAGAG
Statistics
Matches: 209, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 209 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (210 bp):
AATCATGTTGTCATGACCCGGAACTCCCATTGAGCCTGTGACAACCGCCGTGATGTCCCGATAGA
CATTCATTAACCGGAATGTCAATCGAAACCTCTCAAGGCTTAACATTAGTTTTTCTCACTTACCC
TATGAGTATTAGTCACTAAAATTATATTTTGAGAGATTATAAACTATTTCCAAATCAAAACAATA
GAAAAACAATTTTTT
Found at i:11500997 original size:43 final size:41
Alignment explanation
Indices: 11500918--11501256 Score: 338
Period size: 43 Copynumber: 8.0 Consensus size: 41
11500908 CGCCACAGTT
* * * *
11500918 AGCT-ATGTGCACTCCCTACTCACATATAACCGGGTCATCATC
1 AGCTCATGTGCACTCCC-AC-CGCACATAGCTGGGTCATCATC
* *
11500960 AGCTCATGTGCACTCTCACACCGCACATAGTTAGGTCATCATC
1 AGCTCATGTGCACTC-C-CACCGCACATAGCTGGGTCATCATC
* * **
11501003 GGCTCATGTGCACTCCCTACTCACACATAGCTGGGAAATCATC
1 AGCTCATGTGCACTCCC-AC-CGCACATAGCTGGGTCATCATC
* * *
11501046 AGCTCACGTGCACTCCCTACTCTCACATAGCCGGGTCATCATC
1 AGCTCATGTGCACTCCC-AC-CGCACATAGCTGGGTCATCATC
* *
11501089 AGCTCATGTGCACTCCCACCGCACATAGTTGGGTCATCATT
1 AGCTCATGTGCACTCCCACCGCACATAGCTGGGTCATCATC
* * * *
11501130 GGCTCATGTGCACTCCTTACCTGCACATAGCCGGGTCAACATC
1 AGCTCATGTGCACTCC-CACC-GCACATAGCTGGGTCATCATC
* * * *
11501173 AACTTATGTGCACTCCCTACCGCATATAACTGGGTCATCATC
1 AGCTCATGTGCACTCCC-ACCGCACATAGCTGGGTCATCATC
*
11501215 AGCTCATATGCACTCCCACACCGCACATAGCTGGGTCATCAT
1 AGCTCATGTGCACT-CC-CACCGCACATAGCTGGGTCATCAT
11501257 TATCACATAA
Statistics
Matches: 245, Mismatches: 42, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
41 34 0.14
42 40 0.16
43 166 0.68
44 4 0.02
45 1 0.00
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (41 bp):
AGCTCATGTGCACTCCCACCGCACATAGCTGGGTCATCATC
Found at i:11501157 original size:127 final size:128
Alignment explanation
Indices: 11500924--11501257 Score: 460
Period size: 127 Copynumber: 2.6 Consensus size: 128
11500914 AGTTAGCTAT
11500924 GTGCACTCCCTACTCACATATAACCGGGTCATCATCAGCTCATGTGCACTCTCACACCGCACATA
1 GTGCACTCCCTACTCACATATAACCGGGTCATCATCAGCTCATGTGCACTC-CACACCGCACATA
* * * *
11500989 GTTAGGTCATCATCGGCTCATGTGCACTCCCTACTCACACATAGCTGGG-AAATCATCAGCTCAC
65 GTTGGGTCATCATTGGCTCATGTGCACTCCCTACTCACACATAGCCGGGTAAA-CATCAACTCAC
* * *
11501053 GTGCACTCCCTACTCTCACATAGCCGGGTCATCATCAGCTCATGTGCACTCC-CACCGCACATAG
1 GTGCACTCCCTACTCACATATAACCGGGTCATCATCAGCTCATGTGCACTCCACACCGCACATAG
* * * * *
11501117 TTGGGTCATCATTGGCTCATGTGCACTCCTTAC-CTGCACATAGCCGGGTCAACATCAACTTAT
66 TTGGGTCATCATTGGCTCATGTGCACTCCCTACTC-ACACATAGCCGGGTAAACATCAACTCAC
* * *
11501180 GTGCACTCCCTAC-CGCATATAACTGGGTCATCATCAGCTCATATGCACTCCCACACCGCACATA
1 GTGCACTCCCTACTCACATATAACCGGGTCATCATCAGCTCATGTGCACT-CCACACCGCACATA
*
11501244 GCTGGGTCATCATT
65 GTTGGGTCATCATT
11501258 ATCACATAAA
Statistics
Matches: 183, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
126 32 0.17
127 76 0.42
128 27 0.15
129 48 0.26
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (128 bp):
GTGCACTCCCTACTCACATATAACCGGGTCATCATCAGCTCATGTGCACTCCACACCGCACATAG
TTGGGTCATCATTGGCTCATGTGCACTCCCTACTCACACATAGCCGGGTAAACATCAACTCAC
Found at i:11507091 original size:40 final size:39
Alignment explanation
Indices: 11507036--11507181 Score: 181
Period size: 39 Copynumber: 3.7 Consensus size: 39
11507026 CACACCCAGC
* *
11507036 TCATGTACATCCCCCCACATCGTGCACATAGCCG-GCACCA
1 TCATGTACATCCCCCCACATCGTGCACATATCAGTG--CCA
* *
11507076 TCATGTGCATCCCCCCACATCGTGAACA-ATCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATATCAGTGCCA
* *
11507114 TCGTGTACATCCCCCCGACATCGTGCA-AAATCAGTGCCA
1 TCATGTACATCCCCCC-ACATCGTGCACATATCAGTGCCA
*
11507153 TCGTGTACATCCCCCCACATCGTGCACAT
1 TCATGTACATCCCCCCACATCGTGCACAT
11507182 GGGCACTATC
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
38 28 0.30
39 39 0.41
40 27 0.29
ACGTcount: A:0.25, C:0.39, G:0.16, T:0.21
Consensus pattern (39 bp):
TCATGTACATCCCCCCACATCGTGCACATATCAGTGCCA
Found at i:11507305 original size:2 final size:2
Alignment explanation
Indices: 11507298--11507325 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11507288 CATGCACAAC
11507298 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
11507326 CATCATAATG
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:11512436 original size:26 final size:27
Alignment explanation
Indices: 11512398--11512450 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11512388 GTTTATATAT
11512398 GTTTATATATAT-ATATGTGATAGAAA
1 GTTTATATATATAATATGTGATAGAAA
*
11512424 GTTTATGAT-TATAATATGTGATTGAAA
1 GTTTAT-ATATATAATATGTGATAGAAA
11512451 TGAATAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (27 bp):
GTTTATATATATAATATGTGATAGAAA
Found at i:11512575 original size:35 final size:34
Alignment explanation
Indices: 11512529--11512598 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 34
11512519 TGTGGCATGT
*
11512529 GAAAATCCCTTAATTGTCATCTGCCCTGAATCTC
1 GAAAATCCCTTAATTGTCATCTACCCTGAATCTC
*
11512563 NGAAAATCCCTTAATTGTCATCTACCTTGAATCTC
1 -GAAAATCCCTTAATTGTCATCTACCCTGAATCTC
11512598 G
1 G
11512599 TTAGCGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.33
Consensus pattern (34 bp):
GAAAATCCCTTAATTGTCATCTACCCTGAATCTC
Found at i:11517320 original size:2 final size:2
Alignment explanation
Indices: 11517313--11517362 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
11517303 ATGATGATTG
11517313 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
*
11517355 AC AT AT AT
1 AT AT AT AT
11517363 GGTATATGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11525650 original size:21 final size:21
Alignment explanation
Indices: 11525601--11525652 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
11525591 AAATAGAAAG
*
11525601 TTTCTCGCTGCAGCGAGATTC
1 TTTCTCGTTGCAGCGAGATTC
11525622 TTTCTCGTTGCAGCGAGATTC
1 TTTCTCGTTGCAGCGAGATTC
11525643 TTTCTCGTTG
1 TTTCTCGTTG
11525653 TAGCAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (21 bp):
TTTCTCGTTGCAGCGAGATTC
Found at i:11526163 original size:38 final size:38
Alignment explanation
Indices: 11526065--11526166 Score: 120
Period size: 38 Copynumber: 2.7 Consensus size: 38
11526055 ACCCGGCTCA
*
11526065 TGTACATCCCCCCACATCGTGCACATAGCCGACACCATCG
1 TGTACATCCCCCCACATTGTGCACATAGCCG--ACCATCG
* *
11526105 TGTGCAT-CCCCCACATTGTGCACAGTCAG-TG-CCATCG
1 TGTACATCCCCCCACATTGTGCACA-T-AGCCGACCATCG
11526142 TGTACATCCCCCCACATTGTGCACA
1 TGTACATCCCCCCACATTGTGCACA
11526167 CGGGCACTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
37 12 0.22
38 17 0.31
39 16 0.29
40 8 0.15
41 2 0.04
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.22
Consensus pattern (38 bp):
TGTACATCCCCCCACATTGTGCACATAGCCGACCATCG
Found at i:11528306 original size:68 final size:68
Alignment explanation
Indices: 11528197--11528337 Score: 212
Period size: 68 Copynumber: 2.1 Consensus size: 68
11528187 CGTGTTTGGT
* * *
11528197 ATGATGTATGCCATAAGATTATATATATGATGTAAATTCCATAT-ACCGTATGAGATGATTAAGT
1 ATGATGTATACCAAAAGATTATATATATGATGTAAATTCCAT-TCACCATATGAGATGATTAAGT
11528261 ATGC
65 ATGC
* * *
11528265 ATGATGTATACTAAAAGATTGTATATATGATGTAAATTCCATTCACCATATGAGGTGATTAAGTA
1 ATGATGTATACCAAAAGATTATATATATGATGTAAATTCCATTCACCATATGAGATGATTAAGTA
11528330 TGC
66 TGC
11528333 ATGAT
1 ATGAT
11528338 AAATGCCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 1 0.02
68 65 0.98
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (68 bp):
ATGATGTATACCAAAAGATTATATATATGATGTAAATTCCATTCACCATATGAGATGATTAAGTA
TGC
Found at i:11528360 original size:68 final size:68
Alignment explanation
Indices: 11528220--11528458 Score: 250
Period size: 68 Copynumber: 3.5 Consensus size: 68
11528210 TAAGATTATA
* * * * *
11528220 TATATGATGTAAATTCCATATACCGTATGAGATGATTAAGTATGCATGATGTAT-AC-TAAAAGA
1 TATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATGAATGCCATGAAATA
11528283 TTG
66 TTG
* *
11528286 TATATATGATGTAAATTCCAT-TCACCATATGAGGTGATTAAGTATGCATGATAAATGCCATGAA
1 --TATATGATGTAAATTCCATAT-ACCATATGAGATGATTAAGTATGCATGATGAATGCCATGAA
*
11528350 ATAATG
63 ATATTG
* * * * * * *
11528356 TATATGATGTATATTCCATATACTACATGAGATGATTGAGAAAGCATGATGAATGCCATGAAATT
1 TATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATGAATGCCATGAAATA
11528421 TTG
66 TTG
* *** *
11528424 TATAAGATGTGTTTTCCATATACCTTATGAGATGA
1 TATATGATGTAAATTCCATATACCATATGAGATGA
11528459 GTGAGCTGGT
Statistics
Matches: 143, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
67 1 0.01
68 133 0.93
69 2 0.01
70 7 0.05
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (68 bp):
TATATGATGTAAATTCCATATACCATATGAGATGATTAAGTATGCATGATGAATGCCATGAAATA
TTG
Found at i:11529843 original size:17 final size:17
Alignment explanation
Indices: 11529813--11529845 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11529803 TTCTTGATAC
11529813 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
11529830 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
11529846 TTATTATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:11530049 original size:28 final size:28
Alignment explanation
Indices: 11530018--11530217 Score: 256
Period size: 28 Copynumber: 7.0 Consensus size: 28
11530008 AAATATTTTA
* * *
11530018 TCTTGTCTAAATTGAGACAAATATGTTT
1 TCTTATCTAAATTAAGACAAACATGTTT
* * * *
11530046 TCTTGTCTAGATTAAGACAAAGAATATTTT
1 TCTTATCTAAATTAAGACAAA-CAT-GTTT
* * *
11530076 TCTTGTTTTAAATTAAGACAAACATATTT
1 TCTT-ATCTAAATTAAGACAAACATGTTT
11530105 TCTTATCTAAATTAAGACCAAACATGTTT
1 TCTTATCTAAATTAAGA-CAAACATGTTT
*
11530134 TCTTATCTAAATTAAGACAAACATATTT
1 TCTTATCTAAATTAAGACAAACATGTTT
11530162 TCTTATCTAAATTAAGACCAAACATGTTT
1 TCTTATCTAAATTAAGA-CAAACATGTTT
11530191 TCTTATCTAAATTAAGACAAACATGTT
1 TCTTATCTAAATTAAGACAAACATGTT
11530218 AAAGCTGCCA
Statistics
Matches: 153, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
28 67 0.44
29 63 0.41
30 9 0.06
31 14 0.09
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (28 bp):
TCTTATCTAAATTAAGACAAACATGTTT
Found at i:11530126 original size:29 final size:28
Alignment explanation
Indices: 11529997--11530214 Score: 256
Period size: 29 Copynumber: 7.5 Consensus size: 28
11529987 TCTTGTCTTT
* * *
11529997 AATTAAGATAAAAATATTTTATCTTGTCTA
1 AATTAAGACAAACATA-TTT-TCTTATCTA
* * * *
11530027 AATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAACATATTTTCTTATCTA
* * * *
11530055 GATTAAGACAAAGAATATTTTTCTTGTTTTA
1 AATTAAGACAAA-CATA-TTTTCTT-ATCTA
11530086 AATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAACATATTTTCTTATCTA
*
11530114 AATTAAGACCAAACATGTTTTCTTATCTA
1 AATTAAGA-CAAACATATTTTCTTATCTA
11530143 AATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAACATATTTTCTTATCTA
*
11530171 AATTAAGACCAAACATGTTTTCTTATCTA
1 AATTAAGA-CAAACATATTTTCTTATCTA
11530200 AATTAAGACAAACAT
1 AATTAAGACAAACAT
11530215 GTTAAAGCTG
Statistics
Matches: 166, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
28 64 0.39
29 66 0.40
30 22 0.13
31 14 0.08
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.39
Consensus pattern (28 bp):
AATTAAGACAAACATATTTTCTTATCTA
Found at i:11530156 original size:57 final size:57
Alignment explanation
Indices: 11530018--11530214 Score: 270
Period size: 57 Copynumber: 3.4 Consensus size: 57
11530008 AAATATTTTA
* * * * * * * *
11530018 TCTTGTCTAAATTGAGACAAATATGTTTTCTTGTCTAGATTAAGA-CAAAGAATATTTT
1 TCTTATCTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGACCAAA-CAT-GTTT
* *
11530076 TCTTGTTTTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGACCAAACATGTTT
1 TCTT-ATCTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGACCAAACATGTTT
11530134 TCTTATCTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGACCAAACATGTTT
1 TCTTATCTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGACCAAACATGTTT
11530191 TCTTATCTAAATTAAGACAAACAT
1 TCTTATCTAAATTAAGACAAACAT
11530215 GTTAAAGCTG
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
57 75 0.60
58 11 0.09
59 36 0.29
60 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.40
Consensus pattern (57 bp):
TCTTATCTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGACCAAACATGTTT
Found at i:11532289 original size:171 final size:171
Alignment explanation
Indices: 11531992--11533354 Score: 1103
Period size: 171 Copynumber: 8.0 Consensus size: 171
11531982 TCTTTAAATT
* * * * * * ** * *
11531992 GATCATGATTGAATGTTTGCATCGAAAAACGTGAAGCATATGCCATCCATCAACAGGAAACGTCC
1 GATCATAATTGGATGTTTGCATTGAGAAACATGAAGCAAATGCCATCCATTGACAAGAAAAGTCC
* * * *
11532057 ATTTATAGTCACTCATGCCTTTGAAAGACTTGTTAGTTGCTTTAAATGGTTTTATAATCTTACT-
66 ATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTA-TA
* * *
11532121 AATGATTTT-AACTGAAAATCTTTTTTGTTTTTGGTTAAAAGA
130 AATGATTTTAAATTG-AAATCTTTTTCGTTTTTGGTTAAAACA
* * * *
11532163 GATCATAATTGGATGTTTGCAGTAAGAAACATGAAGCAAATGCCATCCATGGACAAGAAAAGCCC
1 GATCATAATTGGATGTTTGCATTGAGAAACATGAAGCAAATGCCATCCATTGACAAGAAAAGTCC
** * *
11532228 ATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTATAA
66 ATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTATAA
* * * * *
11532293 ATAACTTTAAATCGAAATCTTTTTCGTTTTCGGTTAACACA
131 ATGATTTTAAATTGAAATCTTTTTCGTTTTTGGTTAAAACA
* * * * ** * *
11532334 AATCATATTTGGATGTTTACATTGAGAAACATGGAGCGGATGCCATCCATTGACAAGAAAAATTC
1 GATCATAATTGGATGTTTGCATTGAGAAACATGAAGCAAATGCCATCCATTGACAAGAAAAGTCC
* * * * * *
11532399 -TTTCATAGTCAC-CAATGCCATCGAAAGCCTTATTA-TTCGCTTTAAAAGATTTTATAGTCTTA
66 ATTT-ATAGTCACTC-ATGCCTTCGAAAGCCTTGTTACTT-ACTTTAAATGGTTTTATAATCTTA
* * * *
11532461 AAAATGATTTTAAATTGAAATCTTTTACATTTTTGGTTAAAACT
128 TAAATGATTTTAAATTGAAATCTTTTTCGTTTTTGGTTAAAACA
* * * * * *
11532505 GATCATAATAGAATGTTTGCA-TCAGAAAACATGAAGCGAAAAG-CATCCATTCACAGGAAAAGT
1 GATCATAATTGGATGTTTGCATTGAG-AAACATGAAGC-AAATGCCATCCATTGACAAGAAAAGT
* * * ** * * * * * * ** *
11532568 CCATTTATAATCACTAATGTCTTTAAAAGCCTTTTTACTCATTTTCAGTGCTTTTATAGGCTTTT
64 CCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTAT
* * * *
11532633 AAATGATTTTCAATTGAAATC-TTTTCATTTTTGGTTCAAACT
129 AAATGATTTTAAATTGAAATCTTTTTCGTTTTTGGTTAAAACA
* * * ** * * * * *
11532675 TATCAAAATTGGCTGTTTGCATTGAGAAATGTGAACCAAATGCCATCCACTAACAAGAAATGTGC
1 GATCATAATTGGATGTTTGCATTGAGAAACATGAAGCAAATGCCATCCATTGACAAGAAAAGTCC
* * ** *
11532740 ATTTATAGTCACTCATACCTTCGTAAGCCTTGTTACTCGCTTTAAATGGTTTTATAACCTTATAA
66 ATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTATAA
** * ** * *
11532805 ATGATTTTAAA-CCAAAACACTTTCTGTTTTTGCTTAAAATA
131 ATGATTTTAAATTGAAATCTTTTTC-GTTTTTGGTTAAAACA
* * * * * ** *
11532846 GATCATATTTGAATGTTAGCATCGGGAAACGA-GAAGCGGATGCCATCCATTGACAAGAAAAATC
1 GATCATAATTGGATGTTTGCATTGAGAAAC-ATGAAGCAAATGCCATCCATTGACAAGAAAAGTC
** * * *
11532910 CATTTATAGTCACTCATGCGATCGAAACCCTTGCTACTTATTTTAAATGGTTTTATAAT-TTA-A
65 CATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTATA
* * ** * *
11532973 AATTTATTTTATATCAAAATCTTTTTTGTTTTTGGTTAAAACT
130 AA-TGATTTTAAATTGAAATCTTTTTCGTTTTTGGTTAAAACA
* * ** * * * *
11533016 TATCATAATTGGATATTTTTATT-AGGAAACGTTAA-TAGAA-GCCATCCATTGATAAGAAAAGT
1 GATCATAATTGGATGTTTGCATTGA-GAAACATGAAGCA-AATGCCATCCATTGACAAGAAAAGT
* * * *
11533078 CCATTTATAGGCACTCATGCCTTTGAAAG-CTTAGTTACTTGCTTTAAATGGTTTTATAACCTTA
64 CCATTTATAGTCACTCATGCCTTCGAAAGCCTT-GTTACTTACTTTAAATGGTTTTATAATCTTA
* * * *
11533142 TAAATAATTTTAAATCGAAATCTTGTTCGTTTTAT-GTTCAAACA
128 TAAATGATTTTAAATTGAAATCTTTTTCGTTTT-TGGTTAAAACA
* * * * * * * * **
11533186 AATCATATTTGGATTTTTGTATTGGGAAACATGGATG--GATGCCATTCATTGGGAAGAAAAGTC
1 GATCATAATTGGATGTTTGCATTGAGAAACAT-GAAGCAAATGCCATCCATTGACAAGAAAAGTC
* * * *
11533249 CATTTATAGTCACTTATGCCTTC-AAAGGACTTGTTAGTCACTTTAAATGGTTTTATAATCTTAT
65 CATTTATAGTCACTCATGCCTTCGAAA-GCCTTGTTACTTACTTTAAATGGTTTTATAATCTTAT
* * * *
11533313 ATGA-GATTTTAAATTGAAATCTTTTTTGTTTATGGTTCAAAC
129 A-AATGATTTTAAATTGAAATCTTTTTCGTTTTTGGTTAAAAC
11533355 CTAAAGTGGA
Statistics
Matches: 930, Mismatches: 230, Indels: 65
0.76 0.19 0.05
Matches are distributed among these distances:
168 3 0.00
169 83 0.09
170 338 0.36
171 497 0.53
172 9 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (171 bp):
GATCATAATTGGATGTTTGCATTGAGAAACATGAAGCAAATGCCATCCATTGACAAGAAAAGTCC
ATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTATAA
ATGATTTTAAATTGAAATCTTTTTCGTTTTTGGTTAAAACA
Found at i:11532852 original size:341 final size:335
Alignment explanation
Indices: 11531985--11534924 Score: 1353
Period size: 341 Copynumber: 8.7 Consensus size: 335
11531975 CATTTTTTCT
* * * * * * *
11531985 TTAAA-TTGATCATGATTGAATGTTTGCATCGAAAAACGTGAAGCATATGCCATCCATCAACAGG
1 TTAAACTT-ATCATAATTGGATGTTTGCATTGAGAAACGTGAAGCAAATGCCATCCATTAACAAG
* * * * *
11532049 AAACGTCCATTTATAGTCACTCATGCCTTTGAAAGACTTGTTAGTTGCTTTAAATGGTTTTATAA
65 AAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAA
* * * * *
11532114 TCTTACT-AATGATTTT-AACTGAAAATCTTTTTTGTTTTTGGTTAAAAGAGATCATAATTGGAT
130 CCTTA-TAAATGATTTTAAAC-CAAAA-C-CTTTTGTTTTTGGTTAAAATAGATCATAATTGAAT
* * * **
11532177 GTTTGCAGTAAGAAACATGAAGC-AAATGCCATCCATGGACAAGAAAAGCCCATCCATAGTCACT
191 GTTTGCA-TCAGAAACATGAAGCGAAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACT
* * * *
11532241 CATACCTTCAAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTATAAATAACTTTAAATC
255 CAT-GCTTCAAAAGCCTTGTTACTTATTTTAAATGGTTTTAT-A-CTTTTAAATAA-TTTTAATC
*
11532306 GAAATCTTTTTCGTTTTCGG
316 GAAATCTTTTTCGTTTTTGG
** * * * * ** *
11532326 TTAACACAAATCATATTTGGATGTTTACATTGAGAAACATGGAGCGGATGCCATCCATTGACAAG
1 TTAA-ACTTATCATAATTGGATGTTTGCATTGAGAAACGTGAAGCAAATGCCATCCATTAACAAG
* * * * * * *
11532391 AAAAATTC-TTTCATAGTCAC-CAATGCCATCGAAAGCCTTATTATTCGCTTTAAAAGATTTTAT
65 AAAAGTCCATTT-ATAGTCACTC-ATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTAT
** * *** * * *
11532454 AGTCTTAAAAATGATTTTAAATTGAAATCTTTTACATTTTTGGTTAAAACT-GATCATAATAGAA
128 AACCTTATAAATGATTTTAAACCAAAACCTTTT--GTTTTTGGTTAAAA-TAGATCATAATTGAA
* * * *
11532518 TGTTTGCATCAGAAAACATGAAGCGAAAAG-CATCCATTCACAGGAAAAGTCCATTTATAATCAC
190 TGTTTGCATCAG-AAACATGAAGCGAAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
* * * * * * * *
11532582 TAATGTCTTTAAAAGCCTTTTTACTCATTTTCAGTGCTTTTATAGGCTTTTAAATGATTTTCAAT
254 TCATG-CTTCAAAAGCCTTGTTACTTATTTTAAATGGTTTTATA--CTTTTAAATAATTTT-AAT
* *
11532647 TGAAATC-TTTTCATTTTTGG
315 CGAAATCTTTTTCGTTTTTGG
* * * * *
11532667 TTCAAACTTATCAAAATTGGCTGTTTGCATTGAGAAATGTGAACCAAATGCCATCCACTAACAAG
1 TT-AAACTTATCATAATTGGATGTTTGCATTGAGAAACGTGAAGCAAATGCCATCCATTAACAAG
* * * *
11532732 AAATGTGCATTTATAGTCACTCATACCTTCGTAAGCCTTGTTACTCGCTTTAAATGGTTTTATAA
65 AAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAA
* *
11532797 CCTTATAAATGATTTTAAACCAAAACACTTTCTGTTTTTGCTTAAAATAGATCATATTTGAATGT
130 CCTTATAAATGATTTTAAACCAAAAC-CTTT-TGTTTTTGGTTAAAATAGATCATAATTGAATGT
* * * *
11532862 TAGCATCGGGAAACGA-GAAGCG-GATGCCATCCATTGACAAGAAAAATCCATTTATAGTCACTC
193 TTGCATC-AGAAAC-ATGAAGCGAAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
* * * * * * * *
11532925 ATGCGATCGAAACCCTTGCTACTTATTTTAAATGGTTTTATAATTTAAAATTTATTTTATATCAA
256 ATGC-TTCAAAAGCCTTGTTACTTATTTTAAATGGTTTTATACTTTTAAA-TAATTTTA-ATCGA
*
11532990 AATCTTTTTTGTTTTTGG
318 AATCTTTTTCGTTTTTGG
* ** * * * *
11533008 TTAAAACTTATCATAATTGGATATTTTTATT-AGGAAACGTTAA-TAGAA-GCCATCCATTGATA
1 TT-AAACTTATCATAATTGGATGTTTGCATTGA-GAAACGTGAAGCA-AATGCCATCCATTAACA
* * *
11533070 AGAAAAGTCCATTTATAGGCACTCATGCCTTTGAAAG-CTTAGTTACTTGCTTTAAATGGTTTTA
63 AGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTT-GTTACTCGCTTTAAATGGTTTTA
* * * * * * * * *
11533134 TAACCTTATAAATAATTTTAAATCGAAATCTTGTTCGTTTTAT-GTTCAAACAAATCATATTTGG
127 TAACCTTATAAATGATTTTAAACCAAAACCTT-TT-GTTTT-TGGTTAAAATAGATCATAATTGA
* * ** * * **
11533198 ATTTTTGTATTGGGAAACATGGATG-G--ATGCCATTCATTGGGAAGAAAAGTCCATTTATAGTC
189 ATGTTTGCA-TCAGAAACAT-GAAGCGAAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
* * * * * * * * *
11533260 ACTTATGCCTTCAAAGGACTTGTTAGTCACTTTAAATGGTTTTATAATCTTATATGAGATTTTAA
252 ACTCATG-CTTCAAAAGCCTTGTTACTTATTTTAAATGGTTTTATACTTTTAAAT-A-ATTTT-A
* * *
11533325 ATTGAAATCTTTTTTGTTTATGG
313 ATCGAAATCTTTTTCGTTTTTGG
* * ** * * * ** *
11533348 TTCAAAC--CT-A-AAGTGGATGCCATCCATTGA-CAA---GAA--AAGT-CCATTTA-TATTC-
1 TT-AAACTTATCATAATTGGATG-TTTGCATTGAGAAACGTGAAGCAAATGCCATCCATTA-ACA
** * * * * ** * * * *
11533400 ACTAATG-CC-TTCGACAGT--CTTATTAC-TC----G-CTT-TAAATGGTTTTATAA---TTTT
63 AGAAAAGTCCATT-TATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTA-AATGGTTTT
* * * *** * * * * *
11533451 ATAA----AT-GAT-TTTA-AATGGAAATCTTTTTTGTTTTTTGTTAAAATAGATCATATTTGGA
126 ATAACCTTATAAATGATTTTAAACCAAAAC-CTTTTGTTTTTGGTTAAAATAGATCATAATTGAA
* * ** * * * * * *
11533509 CGTTTGGATCGAGAAATGTTAAGC-AGATGCCATTCATTGATAACAAAAGTCCATTTATAGTCAG
190 TGTTTGCATC-AGAAACATGAAGCGAAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
* * * * * * * *
11533573 TCATGCCTTCGAAAGCGTAGTTACTCACTTTAAATGGTTTTATAATCTTAAAATTTATTTTAAAT
254 TCATG-CTTCAAAAGCCTTGTTACTTATTTTAAATGGTTTTATACT-TTTAAA-TAATTTT-AAT
* ***
11533638 AGAAATCTTTTTAACTTTTGG
315 CGAAATCTTTTTCGTTTTTGG
* * * * * * * *
11533659 TTAAAATCAATCATAATTGGATGTTTGCATTCG-CAAACATGGAGCAGATGCCATCCATTGACGA
1 TTAAACT-TATCATAATTGGATGTTTGCATT-GAGAAACGTGAAGCAAATGCCATCCATTAACAA
* * * * * *
11533723 GAAATGTCCATTTATAGTTACTTATGCCTTCGAAAGCCTTGTTAATCGCTTTAAATGATTTTATG
64 GAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTATA
* * ** * *
11533788 ATCTTATAAATGATTTTAAA-TAGAAATGTTTTTCATTTTTGGTTAAAATCA-ATCATAATTGGA
129 ACCTTATAAATGATTTTAAACCA-AAA-CCTTTT-GTTTTTGGTTAAAAT-AGATCATAATTGAA
* * * * *
11533851 TGTTTGCCTCAGAAAACGTAAAGC-ATATGCCATCTATTTG-CAAGAAAAGTCCATTTATAGTCA
190 TGTTTGCATCAG-AAACATGAAGCGAAATGCCATCCA-TTGACAAGAAAAGTCCATTTATAGTCA
* * * * * * *
11533914 CTAATGCCTTCGAAAGCCTTATTACTTGTTTTAAATGGTTTTGTAATTTATAAATAATTTGAAAT
253 CTCATG-CTTCAAAAGCCTTGTTACTTATTTTAAATGGTTTTATACTTT-TAAATAATTT-TAAT
*
11533979 TGAAATCTTTCTT-GTTTTTGG
315 CGAAATCTTT-TTCGTTTTTGG
* * * * * * ** ** *
11534000 TAAAAAC-AATTCATATTTGGATGCTTGCA-TCAAAAGATATGAAGCGGATGCCATCCATTGACA
1 T-TAAACTTA-TCATAATTGGATGTTTGCATTGAGAA-ACGTGAAGCAAATGCCATCCATTAACA
* * * **** ** **
11534063 AGAAAAGTCCA-TTATAGTCATTCATGCCATCAAAAGCCCAAATACTCATTTTAAATCATTTTAT
63 AGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTAT
* * * * *** * *
11534127 AATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGTCCGAACAGATCATATTTCG-A
128 AACCTTATAAATGATTTTAAACCAAAA-CCTTTT-GTTTTTGGTTAAAATAGATCATAATT-GAA
* * * ** * * ** *
11534191 TGTTTTCTTTGAGAAATGTGAAGC-AGATGCCATCCATTGCCTTCGGGAAAAGTCCATTAATAGT
190 TGTTTGC-ATCAGAAACATGAAGCGAAATGCCATCCATTG---ACAAGAAAAGTCCATTTATAGT
* * *** * * * *
11534255 CACTGATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTAGAATCTTATAAATGATTCTA
251 CACTCATG-CTTCAAAAGCCTTGTTACTTATTTTAAATGGTTTTA-TA-CTTTTAAATAATT-TT
**
11534320 AATCGAAATCTTTTTAATTTTTGG
312 AATCGAAATCTTTTTCGTTTTTGG
* * * * * ** * **
11534344 TTAAAGC-AAGTCAT-ATGTAGATGATTT-CAATGGGAAACATGAAGTGAATGACATCCATTGCC
1 TTAAA-CTTA-TCATAAT-TGGATG-TTTGCATTGAGAAACGTGAAGCAAATGCCATCCATTAAC
* * * ** * *
11534406 AAGAAATGTCCATTTATAGTCACGCATGCCATATAAAG-CTTAGTTACTTGGTTTAAATGGTTTT
62 AAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTT-GTTACTCGCTTTAAATGGTTTT
* * * ***** * * *
11534470 ATAATCTTATAAATCATTTTAAATCGATTTTTTTTTGTTTTTGGTTAAAACAGATCATAAGTG-G
126 ATAACCTTATAAATGATTTTAAA-CCAAAACCTTTTGTTTTTGGTTAAAATAGATCATAATTGAA
* ** *
11534534 TCGTTCGCAATGGGAAACATGAAGCGAAA-GTCATCCATTGACAAGAAAAGTCCATTTATAGTCA
190 T-GTTTGC-ATCAGAAACATGAAGCGAAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCA
* ** * * ** ** * * *
11534598 CTCATACCTTCGGAAGCTTTTTTACTTGCTCGAAATGGTTTTACAATCTTATAAATTATTTTTAA
253 CTCAT-GCTTCAAAAGCCTTGTTACTTATTTTAAATGGTTTTA-TA-CTTTTAAA-TAATTTTAA
* *
11534663 CCGAAATCTTTTTCATTTTTGG
314 TCGAAATCTTTTTCGTTTTTGG
* * * * * **** *
11534685 TTCACACCTATTATAATTGGATGTTTGCATCGAGAAACATGAAATGGATGTCATCCATTAACAAG
1 TT-AAACTTATCATAATTGGATGTTTGCATTGAGAAACGTGAAGCAAATGCCATCCATTAACAAG
* * * * * * **
11534750 AAAAGTCTATTTATAGTCACTCATGCCATCTAAACCCTTGTTGCTCACTTTAAATATTTTTTATA
65 AAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAAT-GGTTTTATA
** ** * ** * * * *** *
11534815 ATGTTATAAAAAATTTTAAATCAAAATGTTTTTCATTTTTTGTTCAAACCTATCATAATTGGATG
129 ACCTTATAAATGATTTTAAACCAAAA-CCTTTT-GTTTTTGGTTAAAATAGATCATAATTGAATG
* * * *
11534880 TTTGCATTGAGAAACATGGACCG-GATGCCATCCATTGACAAGAAA
192 TTTGCA-TCAGAAACATGAAGCGAAATGCCATCCATTGACAAGAAA
11534925 TGTCATGACC
Statistics
Matches: 1988, Mismatches: 474, Indels: 272
0.73 0.17 0.10
Matches are distributed among these distances:
309 4 0.00
310 37 0.02
311 106 0.05
312 7 0.00
313 4 0.00
314 8 0.00
315 11 0.01
318 10 0.01
320 10 0.01
321 8 0.00
322 10 0.01
323 6 0.00
324 2 0.00
325 6 0.00
326 3 0.00
327 5 0.00
328 2 0.00
329 5 0.00
330 6 0.00
331 11 0.01
332 10 0.01
333 2 0.00
334 7 0.00
336 9 0.00
337 5 0.00
338 5 0.00
339 92 0.05
340 305 0.15
341 561 0.28
342 399 0.20
343 134 0.07
344 124 0.06
345 73 0.04
346 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (335 bp):
TTAAACTTATCATAATTGGATGTTTGCATTGAGAAACGTGAAGCAAATGCCATCCATTAACAAGA
AAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTATAAC
CTTATAAATGATTTTAAACCAAAACCTTTTGTTTTTGGTTAAAATAGATCATAATTGAATGTTTG
CATCAGAAACATGAAGCGAAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCT
TCAAAAGCCTTGTTACTTATTTTAAATGGTTTTATACTTTTAAATAATTTTAATCGAAATCTTTT
TCGTTTTTGG
Found at i:11532936 original size:512 final size:512
Alignment explanation
Indices: 11531966--11532941 Score: 1139
Period size: 512 Copynumber: 1.9 Consensus size: 512
11531956 AATGTGATAT
* * * * * * *
11531966 AAATCTTTTCATTTTTTCTTTAAATTGATCATGATTGAATGTTTGCATCGAAAAACGTGAAGCAT
1 AAATCTTTTCATTTTTGCTTAAAACTGATCATAATAGAATGTTTGCATCGAAAAACATGAAGCAA
* * * * * * **
11532031 ATGCCATCCATCAACAGGAAACGTCCATTTATAGTCACTCATGCCTTTGAAAGACTTGTTAGTTG
66 AAGCCATCCATCAACAGGAAAAGTCCATTTATAATCACTAATGCCTTTAAAAGACTTGTTACTCA
* * **
11532096 CTTTAAATGGTTTTATAATCTTACTAATGATTTTAACTGAAAATCTTTTTTGTTTTTGGTTAAAA
131 CTTTAAATGCTTTTATAAGCTTACTAATGATTTTAACTGAAAATCTTTTTCATTTTTGGTTAAAA
* * * *
11532161 GAGATCATAATTGGATGTTTGCAGTAAGAAACATGAAGCAAATGCCATCCATGGACAAGAAAAGC
196 CAGATCAAAATTGGATGTTTGCAGTAAGAAACATGAACCAAATGCCATCCATGAACAAGAAAAGC
* *
11532226 CCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTAT
261 CCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACCTTAT
* * * * * * *
11532291 AAATAACTTTAAATCGAAATCTTTTTCGTTTTCGGTTAACACAAATCATATTTGGATGTTTACAT
326 AAATAACTTTAAACCAAAAACTTTCTCGTTTTCGCTTAAAACAAATCATATTTGAATGTTTACAT
* * *
11532356 TGAGAAACATGGAGCGGATGCCATCCATTGACAAGAAAAATTCTTTCATAGTCACCAATGCCATC
391 CGAGAAACATGAAGCGGATGCCATCCATTGACAAGAAAAATCCTTTCATAGTCACCAATGCCATC
*
11532421 GAAAGCCTTATTATTCGCTTTAAAAGATTTTATAGTCTTAAAAATGATTTTAAATTG
456 GAAACCCTTATTATTCGCTTTAAAAGATTTTATAGTCTTAAAAATGATTTTAAATTG
*
11532478 AAATCTTTTACATTTTTGGTTAAAACTGATCATAATAGAATGTTTGCATC-AGAAAACATGAAGC
1 AAATCTTTT-CATTTTTGCTTAAAACTGATCATAATAGAATGTTTGCATCGA-AAAACATGAAGC
* * *
11532542 GAAAAG-CATCCATTC-ACAGGAAAAGTCCATTTATAATCACTAATGTCTTTAAAAGCCTTTTTA
64 -AAAAGCCATCCA-TCAACAGGAAAAGTCCATTTATAATCACTAATGCCTTTAAAAGACTTGTTA
* * * * * *
11532605 CTCATTTTCAGTGCTTTTATAGGCTT-TTAAATGATTTTCAATTG-AAATC-TTTTCATTTTTGG
127 CTCACTTTAAATGCTTTTATAAGCTTACT-AATGATTTT-AACTGAAAATCTTTTTCATTTTTGG
* ** * * * **
11532667 TTCAAACTTATCAAAATTGGCTGTTTGCATTGAGAAATGTGAACCAAATGCCATCCACT-AACAA
190 TTAAAACAGATCAAAATTGGATGTTTGCAGTAAGAAACATGAACCAAATGCCATCCA-TGAACAA
* ** ** ** *
11532731 GAAATGTGCATTTATAGTCACTCATACCTTCGTAAGCCTTGTTACTCGCTTTAAATGGTTTTATA
254 GAAAAGCCCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATA
* * * * *
11532796 ACCTTATAAATGATTTTAAACCAAAACACTTTCT-GTTTTTGCTTAAAATAGATCATATTTGAAT
319 ACCTTATAAATAACTTTAAACCAAAA-ACTTTCTCGTTTTCGCTTAAAACAAATCATATTTGAAT
*
11532860 G-TTAGCATCGGGAAACGA-GAAGCGGATGCCATCCATTGACAAGAAAAATCCATTT-ATAGTCA
383 GTTTA-CATCGAGAAAC-ATGAAGCGGATGCCATCCATTGACAAGAAAAATCC-TTTCATAGTCA
*
11532922 CTC-ATGCGATCGAAACCCTT
445 C-CAATGCCATCGAAACCCTT
11532942 GCTACTTATT
Statistics
Matches: 383, Mismatches: 69, Indels: 24
0.80 0.14 0.05
Matches are distributed among these distances:
511 3 0.01
512 237 0.62
513 134 0.35
514 9 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (512 bp):
AAATCTTTTCATTTTTGCTTAAAACTGATCATAATAGAATGTTTGCATCGAAAAACATGAAGCAA
AAGCCATCCATCAACAGGAAAAGTCCATTTATAATCACTAATGCCTTTAAAAGACTTGTTACTCA
CTTTAAATGCTTTTATAAGCTTACTAATGATTTTAACTGAAAATCTTTTTCATTTTTGGTTAAAA
CAGATCAAAATTGGATGTTTGCAGTAAGAAACATGAACCAAATGCCATCCATGAACAAGAAAAGC
CCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACCTTAT
AAATAACTTTAAACCAAAAACTTTCTCGTTTTCGCTTAAAACAAATCATATTTGAATGTTTACAT
CGAGAAACATGAAGCGGATGCCATCCATTGACAAGAAAAATCCTTTCATAGTCACCAATGCCATC
GAAACCCTTATTATTCGCTTTAAAAGATTTTATAGTCTTAAAAATGATTTTAAATTG
Found at i:11532966 original size:512 final size:511
Alignment explanation
Indices: 11531966--11533313 Score: 1136
Period size: 512 Copynumber: 2.6 Consensus size: 511
11531956 AATGTGATAT
** * * * * * *
11531966 AAATCTTTTCATTTTTTCTTTAAATTGATCATGATTGAATGTTTGCATCGAAAAACGTGAAGCAT
1 AAATCTTTTCATTTTTGGTTAAAACTGATCATAATAGAATGTTTGCATCGAAAAACATGAAGCAA
* * * * * * **
11532031 ATGCCATCCATCAACAGGAAACGTCCATTTATAGTCACTCATGCCTTTGAAAGACTTGTTAGTTG
66 AAGCCATCCATCAACAGGAAAAGTCCATTTATAATCACTAATGCCTTTAAAAGACTTGTTACTCA
* * **
11532096 CTTTAAATGGTTTTATAATCTTACTAATGATTTTAACTGAAAATCTTTTTTGTTTTTGGTTAAAA
131 CTTTAAATGCTTTTATAAGCTTACTAATGATTTTAACTGAAAATCTTTTTCATTTTTGGTTAAAA
* * * *
11532161 GAGATCATAATTGGATGTTTGCAGTAAGAAACATGAAGCAAATGCCATCCATGGACAAGAAAAGC
196 CAGATCAAAATTGGATGTTTGCAGTAAGAAACATGAACCAAATGCCATCCATGAACAAGAAAAGC
* *
11532226 CCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTTACTTTAAATGGTTTTATAATCTTAT
261 CCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACCTTAT
* * * * * * *
11532291 AAATAACTTTAAATCGAAATCTTTTTCGTTTTCGGTTAACACAAATCATATTTGGATGTTTACAT
326 AAATAACTTTAAACCAAAAACTTTCTCGTTTTCGCTTAAAACAAATCATATTTGAATGTTTACAT
* * *
11532356 TGAGAAACATGGAGCGGATGCCATCCATTGACAAGAAAAATTCTTTCATAGTCACCAATGCCATC
391 CGAGAAACATGAAGCGGATGCCATCCATTGACAAGAAAAATCCTTTCATAGTCACCAATGCCATC
* * * * **
11532421 GAAAGCCTTATTATTCGCTTTAAAAGATTTTATAGTCTTAAAAATGATTTTAAATTG
456 GAAACCCTTACTATTCACTTTAAAAGATTTTATAAT-TTAAAAATGATTTTAAATCA
11532478 AAATCTTTTACATTTTTGGTTAAAACTGATCATAATAGAATGTTTGCATC-AGAAAACATGAAGC
1 AAATCTTTT-CATTTTTGGTTAAAACTGATCATAATAGAATGTTTGCATCGA-AAAACATGAAGC
* * *
11532542 GAAAAG-CATCCATTC-ACAGGAAAAGTCCATTTATAATCACTAATGTCTTTAAAAGCCTTTTTA
64 -AAAAGCCATCCA-TCAACAGGAAAAGTCCATTTATAATCACTAATGCCTTTAAAAGACTTGTTA
* * * * * *
11532605 CTCATTTTCAGTGCTTTTATAGGCTT-TTAAATGATTTTCAATTG-AAATC-TTTTCATTTTTGG
127 CTCACTTTAAATGCTTTTATAAGCTTACT-AATGATTTT-AACTGAAAATCTTTTTCATTTTTGG
* ** * * * **
11532667 TTCAAACTTATCAAAATTGGCTGTTTGCATTGAGAAATGTGAACCAAATGCCATCCACT-AACAA
190 TTAAAACAGATCAAAATTGGATGTTTGCAGTAAGAAACATGAACCAAATGCCATCCA-TGAACAA
* ** ** ** *
11532731 GAAATGTGCATTTATAGTCACTCATACCTTCGTAAGCCTTGTTACTCGCTTTAAATGGTTTTATA
254 GAAAAGCCCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATA
* * * * *
11532796 ACCTTATAAATGATTTTAAACCAAAACACTTTCT-GTTTTTGCTTAAAATAGATCATATTTGAAT
319 ACCTTATAAATAACTTTAAACCAAAA-ACTTTCTCGTTTTCGCTTAAAACAAATCATATTTGAAT
*
11532860 G-TTAGCATCGGGAAACGA-GAAGCGGATGCCATCCATTGACAAGAAAAATCCATTT-ATAGTCA
383 GTTTA-CATCGAGAAAC-ATGAAGCGGATGCCATCCATTGACAAGAAAAATCC-TTTCATAGTCA
* * * * * * * *
11532922 CTC-ATGCGATCGAAACCCTTGCTACTT-ATTTTAAATGGTTTTATAATTTAAAATTTATTTTAT
445 C-CAATGCCATCGAAACCCTTACTA-TTCACTTTAAAAGATTTTATAATTTAAAAATGATTTTAA
11532985 ATCA
508 ATCA
** * * * * ** * * * * *
11532989 AAATCTTTTTTGTTTTTGGTTAAAACTTATCATAATTGGATATTTTTAT-TAGGAAACGTTAA-T
1 AAATC-TTTTCATTTTTGGTTAAAACTGATCATAATAGAATGTTTGCATCGA-AAAACATGAAGC
* ** * * ** * *
11533052 AGAAGCCATCCATTGATAAGAAAAGTCCATTTATAGGCACTCATGCCTTTGAAAG-CTTAGTTAC
64 AAAAGCCATCCATCAACAGGAAAAGTCCATTTATAATCACTAATGCCTTTAAAAGACTT-GTTAC
** * * * * * *
11533116 TTGCTTTAAATGGTTTTATAACCTTA-TAAATAATTTTAAATCG-AAATCTTGTTCGTTTTAT-G
128 TCACTTTAAATGCTTTTATAAGCTTACT-AATGATTTTAACT-GAAAATCTTTTTCATTTT-TGG
* * * * * * * ** * *** * **
11533178 TTCAAACAAATCATATTTGGATTTTTGTATTGGGAAACATGGA-TGGATGCCATTCATTG-GGAA
190 TTAAAACAGATCAAAATTGGATGTTTGCAGTAAGAAACATGAACCAAATGCCATCCA-TGAACAA
* ** * * * * *
11533241 GAAAAGTCCATTTATAGTCACTTATGCCTTCAAAGGACTTGTTAGTCACTTTAAATGGTTTTATA
254 GAAAAGCCCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATA
*
11533306 ATCTTATA
319 ACCTTATA
11533314 TGAGATTTTA
Statistics
Matches: 669, Mismatches: 144, Indels: 48
0.78 0.17 0.06
Matches are distributed among these distances:
509 11 0.02
510 150 0.22
511 104 0.16
512 259 0.39
513 136 0.20
514 9 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (511 bp):
AAATCTTTTCATTTTTGGTTAAAACTGATCATAATAGAATGTTTGCATCGAAAAACATGAAGCAA
AAGCCATCCATCAACAGGAAAAGTCCATTTATAATCACTAATGCCTTTAAAAGACTTGTTACTCA
CTTTAAATGCTTTTATAAGCTTACTAATGATTTTAACTGAAAATCTTTTTCATTTTTGGTTAAAA
CAGATCAAAATTGGATGTTTGCAGTAAGAAACATGAACCAAATGCCATCCATGAACAAGAAAAGC
CCATCCATAGTCACTCATACCTTCAAAAGCCTTGTTACTCACTTTAAATGGTTTTATAACCTTAT
AAATAACTTTAAACCAAAAACTTTCTCGTTTTCGCTTAAAACAAATCATATTTGAATGTTTACAT
CGAGAAACATGAAGCGGATGCCATCCATTGACAAGAAAAATCCTTTCATAGTCACCAATGCCATC
GAAACCCTTACTATTCACTTTAAAAGATTTTATAATTTAAAAATGATTTTAAATCA
Found at i:11533402 original size:140 final size:140
Alignment explanation
Indices: 11533221--11533483 Score: 377
Period size: 140 Copynumber: 1.9 Consensus size: 140
11533211 GAAACATGGA
* ** * *
11533221 TGGATGCCATTCATTGGGAAGAAAAGTCCATTTATAGTCACTTATGCCTTC-AAAGGACTTGTTA
1 TGGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAA-GACTTATTA
* * *
11533285 GTCACTTTAAATGGTTTTATAATCTTATATGA-GATTTTAAATTGAAATCTTTTTTGTTTATGGT
65 CTCACTTTAAATGGTTTTATAATCTTATA-AATGATTTTAAATGGAAATCTTTTTTGTTTATGGT
11533349 TCAAACCTAAAG
129 TCAAACCTAAAG
* * *
11533361 TGGATGCCATCCATTGACAAGAAAAGTCCATTTATATTCACTAATGCCTTCGACAGTCTTATTAC
1 TGGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGACTTATTAC
* *
11533426 TCGCTTTAAATGGTTTTATAATTTTATAAATGATTTTAAATGGAAATCTTTTTTGTTT
66 TCACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATGGAAATCTTTTTTGTTT
11533484 TTTGTTAAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
139 1 0.01
140 105 0.97
141 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (140 bp):
TGGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGACTTATTAC
TCACTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATGGAAATCTTTTTTGTTTATGGTTC
AAACCTAAAG
Found at i:11534067 original size:170 final size:169
Alignment explanation
Indices: 11533362--11534924 Score: 1314
Period size: 171 Copynumber: 9.1 Consensus size: 169
11533352 AACCTAAAGT
* * * *
11533362 GGATGCCATCCATTGACAAGAAAAGTCCATTTATATTCACTAATGCCTTCGACAGTCTTATTACT
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTATTACT
* * ** * *
11533427 CGCTTTAAATGGTTTTATAATTTTATAAATGATTTTAAATGGAAATCTTTTTTGTTTTTTGTTAA
66 CGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTTTTCATTTTTGGTAAA
* * * * ** *
11533492 AATAGATCATATTTGGACGTTTGGATCGAGAAATGTTAAGC
131 AACA-ATCATAATTGGATGTTTGCATC-AGAAACATGAAGC
* * * * * *
11533533 AGATGCCATTCATTGATAACAAAAGTCCATTTATAGTCAGTCATGCCTTCGAAAG-CGTAGTTAC
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTA-TTAC
* * * * *
11533597 TCACTTTAAATGGTTTTATAATCTTA-AAATTTATTTTAAATAGAAATCTTTTTAACTTTTGGTT
65 TCGCTTTAAATGGTTTTATAATCTTATAAA-TGATTTTAAATCGAAATCTTTTTCATTTTTGG-T
* *
11533661 AAAATCAATCATAATTGGATGTTTGCATTC-GCAAACATGGAGC
128 AAAAACAATCATAATTGGATGTTTGCA-TCAG-AAACATGAAGC
* * * * * * *
11533704 AGATGCCATCCATTGACGAGAAATGTCCATTTATAGTTACTTATGCCTTCGAAAGCCTTGTTAAT
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTATTACT
* * * *
11533769 CGCTTTAAATGATTTTATGATCTTATAAATGATTTTAAATAGAAATGTTTTTCATTTTTGGTTAA
66 CGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTTTTCATTTTTGG-TAA
* * * *
11533834 AATCAATCATAATTGGATGTTTGCCTCAGAAAACGTAAAGC
130 AAACAATCATAATTGGATGTTTGCATCAG-AAACATGAAGC
** * *
11533875 ATATGCCATCTATTTG-CAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTATTAC
1 GGATGCCATCCA-TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTATTAC
* * * * * * *
11533939 TTGTTTTAAATGGTTTTGTAAT-TTATAAATAATTTGAAATTGAAATCTTTCTT-GTTTTTGGTA
65 TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTT-TTCATTTTTGGTA
* * * *
11534002 AAAACAATTCATATTTGGATGCTTGCATCAAAAGATATGAAGC
129 AAAACAA-TCATAATTGGATGTTTGCATCAGAA-ACATGAAGC
* * * ** *
11534045 GGATGCCATCCATTGACAAGAAAAGTCCA-TTATAGTCATTCATGCCATCAAAAGCCCAAATACT
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTATTACT
** ** * ***
11534109 CATTTTAAATCATTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGTCCG
66 CGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTTTTCATTTTTGGTAAA
* * * * * **
11534174 AACAGATCATATTTCGATGTTTTCTTTGAGAAATGTGAAGC
131 AACA-ATCATAATTGGATGTTTGC-ATCAGAAACATGAAGC
* * ** * * *
11534215 AGATGCCATCCATTGCCTTCGGGAAAAGTCCATTAATAGTCACTGATGCCTTCGAAAGCCTTGTT
1 GGATGCCATCCATTG---ACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTATT
* * *
11534280 ACTCGCTTTAAATGGTTTTAGAATCTTATAAATGATTCTAAATCGAAATCTTTTTAATTTTTGGT
63 ACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTTTTCATTTTTGGT
* * * ** *
11534345 TAAAGCAAGTCAT-ATGTAGATGATTT-CAATGGGAAACATGAAGT
128 AAAAACAA-TCATAAT-TGGATG-TTTGC-ATCAGAAACATGAAGC
* * * * * * **
11534389 GAATGACATCCATTGCCAAGAAATGTCCATTTATAGTCACGCATGCCATATAAAG-CTTAGTTAC
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTA-TTAC
* * * * * ** *
11534453 TTGGTTTAAATGGTTTTATAATCTTATAAATCATTTTAAATCG-ATTTTTTTTTGTTTTTGGTTA
65 TCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTTTTCATTTTTGGTAA
* * **
11534517 AAACAGATCATAAGTGG-TCGTTCGCAATGGGAAACATGAAGC
130 AAACA-ATCATAATTGGAT-GTTTGC-ATCAGAAACATGAAGC
* * * * * * *
11534559 GAAAGTCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATACCTTCGGAAGCTTTTTTACT
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTATTACT
* ** * * * * *
11534624 TGCTCGAAATGGTTTTACAATCTTATAAATTATTTTTAACCGAAATCTTTTTCATTTTTGGTTCA
66 CGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTTTTCATTTTTGG-TAA
* * * * **
11534689 CACCTATTATAATTGGATGTTTGCATCGAGAAACATGAAAT
130 AAACAATCATAATTGGATGTTTGCATC-AGAAACATGAAGC
* * * * * * * *
11534730 GGATGTCATCCATTAACAAGAAAAGTCTATTTATAGTCACTCATGCCATCTAAACCCTTGTTGCT
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTATTACT
* ** * ** * * * *
11534795 CACTTTAAATATTTTTTATAATGTTATAAAAAATTTTAAATCAAAATGTTTTTCATTTTTTGTTC
66 CGCTTTAAAT-GGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTTTTCA-TTTTTGGTA
* * * * *
11534860 AAACCTATCATAATTGGATGTTTGCATTGAGAAACATGGACC
129 AAAACAATCATAATTGGATGTTTGCA-TCAGAAACATGAAGC
11534902 GGATGCCATCCATTGACAAGAAA
1 GGATGCCATCCATTGACAAGAAA
11534925 TGTCATGACC
Statistics
Matches: 1119, Mismatches: 236, Indels: 73
0.78 0.17 0.05
Matches are distributed among these distances:
169 62 0.06
170 295 0.26
171 512 0.46
172 111 0.10
173 20 0.02
174 116 0.10
175 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (169 bp):
GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTTATTACT
CGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATCGAAATCTTTTTCATTTTTGGTAAA
AACAATCATAATTGGATGTTTGCATCAGAAACATGAAGC
Found at i:11534123 original size:10 final size:10
Alignment explanation
Indices: 11534108--11534150 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
11534098 GCCCAAATAC
11534108 TCATTTTAAA
1 TCATTTTAAA
11534118 TCATTTTATAA
1 TCATTTTA-AA
*
11534129 TC-TTATAAA
1 TCATTTTAAA
*
11534138 TGATTTTAAA
1 TCATTTTAAA
11534148 TCA
1 TCA
11534151 AAATCTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 3 0.11
10 20 0.74
11 4 0.15
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (10 bp):
TCATTTTAAA
Found at i:11534479 original size:685 final size:682
Alignment explanation
Indices: 11533362--11534917 Score: 1593
Period size: 685 Copynumber: 2.3 Consensus size: 682
11533352 AACCTAAAGT
* * * * * * *
11533362 GGATGCCATCCATTGACAAGAAAAGTCCATTTATATTCACTAATGCCTTCGACAGTCTTATTACT
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCCTATTACT
* * * ** ** * *
11533427 CGCTTTAAATGGTTTTATAATTTTATAAATGATTTTAAATGGAAATCTTTTTTGTTTTTTGTTAA
66 CACTTTAAAT-ATTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGTCAA
* * * * *
11533492 AATAGATCATATTTGGACGTTTGGATCGAGAAATGTTAAGCAGATGCCATTCATTGATAACAAAA
130 AACAGATCATATTTCGACGTTTGCATCGAGAAATGTGAAGCAGATGCCATCCATTGATAACAAAA
* * * *
11533557 GTCCATTTATAGTCAGTCATGCCTTCGAAAGCGTAGTTACTCACTTTAAATGGTTTTATAATCTT
195 GTCCATTAATAGTCACTCATGCCTTCGAAAGCCTAGTTACTCACTTTAAATGGTTTTAGAATCTT
* * * *
11533622 AAAATTTATTTTAAATAGAAATCTTTTTAACTTTTGGTTAAAATCAATCATAATTGGATGTTTGC
260 AAAATTGATTCTAAATAGAAATCTTTTTAACTTTTGGTTAAAAGCAATCATAATTAGATGTTTGC
* * * * * ** *
11533687 ATTCGCAAACATGGAGCAGATGCCATCCATTGACGAGAAATGTCCATTTATAGTTACTTATGCCT
325 AATCGCAAACATGAAGCAGATGACATCCATTGACAAGAAATGTCCATTTATAGTCACGCATGCCA
* * *
11533752 TCGAAAGCCTTGTTAATCGCTTTAAATGATTTTATGATCTTATAAATGATTTTAAATAGAAATGT
390 TAGAAAGCCTTGTTAATCGCTTTAAATGATTTTATAATCTTATAAATCATTTTAAATAG-AATGT
* * * *
11533817 TTTTCATTTTTGGTTAAAATCA-ATCATAATTGGAT-GTTTGC-CTCAGAAAACGTAAAGC-ATA
454 TTTTCATTTTTGGTTAAAA-CAGATCATAAGTGG-TCGTTCGCAAT-AGAAAACATAAAGCGA-A
* * *
11533878 TGCCATCTATTTG-CAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAGCCTTATTACTTG
515 AGCCATCCA-TTGACAAGAAAAGTCCATTTATAGTCACTAATACCTTCGAAAGCCTTATTACTTG
* ** ** ** *
11533942 TTTTAAATGGTTTTGTAAT-TTATAAATAATTTGAAATTGAAATCTTTCTT-GTTTTTGG-TAAA
579 CTCGAAATGGTTTTACAATCTTATAAATAATTTGAAACCGAAATCTTT-TTCATTTTTGGTTAAA
* * *
11534004 AACAATTCATATTTGGATGCTTGCATC-AAAAGATATGAAGC
643 AACAATT-ATAATTGGATGCTTGCATCGAAAA-ACATGAAAC
* * *
11534045 GGATGCCATCCATTGACAAGAAAAGTCCA-TTATAGTCATTCATGCCATCAAAAGCCCAAATACT
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCCTATTACT
* **
11534109 CATTTTAAATCATTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGTCCG
66 CACTTTAAAT-ATTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGTCAA
* * * * * *
11534174 AACAGATCATATTTCGATGTTTTCTTTGAGAAATGTGAAGCAGATGCCATCCATTGCCT-TCGGG
130 AACAGATCATATTTCGACGTTTGCATCGAGAAATGTGAAGCAGATGCCATCCATTG-ATAAC---
* * *
11534238 AAAAGTCCATTAATAGTCACTGATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTAGAA
191 AAAAGTCCATTAATAGTCACTCATGCCTTCGAAAGCCTAGTTACTCACTTTAAATGGTTTTAGAA
* *
11534303 TCTTATAAA-TGATTCTAAATCGAAATCTTTTTAATTTTTGGTT-AAAGCAAGTCAT-ATGTAGA
256 TCTTA-AAATTGATTCTAAATAGAAATCTTTTTAACTTTTGGTTAAAAGCAA-TCATAAT-TAGA
* * * *
11534365 TGATTT-CAATGGGAAACATGAAG-TGAATGACATCCATTGCCAAGAAATGTCCATTTATAGTCA
318 TG-TTTGCAATCGCAAACATGAAGCAG-ATGACATCCATTGACAAGAAATGTCCATTTATAGTCA
* * * * *
11534428 CGCATGCCATATAAAG-CTTAGTTACTTGGTTTAAATGGTTTTATAATCTTATAAATCATTTTAA
381 CGCATGCCATAGAAAGCCTT-GTTAATCGCTTTAAATGATTTTATAATCTTATAAATCATTTTAA
* * * ** * * *
11534492 ATCGATTTTTTTTTGTTTTTGGTTAAAACAGATCATAAGTGGTCGTTCGCAATGGGAAACATGAA
445 ATAGAATGTTTTTCATTTTTGGTTAAAACAGATCATAAGTGGTCGTTCGCAATAGAAAACATAAA
* * * * *
11534557 GCGAAAGTCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATACCTTCGGAAGCTTTTTTA
510 GCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTAATACCTTCGAAAGCCTTATTA
* **
11534622 CTTGCTCGAAATGGTTTTACAATCTTATAAATTATTTTTAACCGAAATCTTTTTCATTTTTGGTT
575 CTTGCTCGAAATGGTTTTACAATCTTATAAATAATTTGAAACCGAAATCTTTTTCATTTTTGGTT
* * * * * * *
11534687 CACACCTATTATAATTGGATGTTTGCATCGAGAAACATGAAAT
640 AAAAACAATTATAATTGGATGCTTGCATCGAAAAACATGAAAC
* * * * * *
11534730 GGATGTCATCCATTAACAAGAAAAGTCTATTTATAGTCACTCATGCCATCTAAA-CCCTTGTTGC
1 GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCC-TATTAC
* ** * *
11534794 TCACTTTAAATATTTTTTATAATGTTATAAAAAATTTTAAATCAAAATGTTTTTCATTTTTTGTT
65 TCACTTTAAATA--TTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCA-TTTTTGGT
** * * * * ** * * *
11534859 C-AAACCTATCATAATTGGATGTTTGCATTGAGAAACATGGACCGGATGCCATCCATTGA
127 CAAAACAGATCATATTTCGACGTTTGCATCGAGAAATGTGAAGCAGATGCCATCCATTGA
11534918 CAAGAAATGT
Statistics
Matches: 713, Mismatches: 136, Indels: 45
0.80 0.15 0.05
Matches are distributed among these distances:
682 125 0.18
683 36 0.05
684 126 0.18
685 285 0.40
686 50 0.07
687 83 0.12
688 8 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (682 bp):
GGATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCCTATTACT
CACTTTAAATATTTTATAATCTTATAAATGATTTTAAATCAAAATCTTTTTCATTTTTGGTCAAA
ACAGATCATATTTCGACGTTTGCATCGAGAAATGTGAAGCAGATGCCATCCATTGATAACAAAAG
TCCATTAATAGTCACTCATGCCTTCGAAAGCCTAGTTACTCACTTTAAATGGTTTTAGAATCTTA
AAATTGATTCTAAATAGAAATCTTTTTAACTTTTGGTTAAAAGCAATCATAATTAGATGTTTGCA
ATCGCAAACATGAAGCAGATGACATCCATTGACAAGAAATGTCCATTTATAGTCACGCATGCCAT
AGAAAGCCTTGTTAATCGCTTTAAATGATTTTATAATCTTATAAATCATTTTAAATAGAATGTTT
TTCATTTTTGGTTAAAACAGATCATAAGTGGTCGTTCGCAATAGAAAACATAAAGCGAAAGCCAT
CCATTGACAAGAAAAGTCCATTTATAGTCACTAATACCTTCGAAAGCCTTATTACTTGCTCGAAA
TGGTTTTACAATCTTATAAATAATTTGAAACCGAAATCTTTTTCATTTTTGGTTAAAAACAATTA
TAATTGGATGCTTGCATCGAAAAACATGAAAC
Found at i:11534558 original size:514 final size:509
Alignment explanation
Indices: 11533351--11534602 Score: 1350
Period size: 514 Copynumber: 2.4 Consensus size: 509
11533341 TTTATGGTTC
* * * *
11533351 AAACCTAAAGTGGATGCCATCCATTGACAAGAAAAGTCCATTTATATTCACTAATGCCTTCGACA
1 AAACATAAAGTGAATGCCATCCATTG-CAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAA
* * * *
11533416 GTCTTATTACTCGCTTTAAATGGTTTTATAATTTTATAAATGATTTTAAATGGAAATCTTTTTTG
65 GCCTTATTACTTGCTTTAAATGGTTTTATAA-TTTATAAATAATTTTAAATCGAAATCTTTTTTG
* * * * * * * *
11533481 TTTTTTGTTAAAATAGATCATATTTGGACGTTTGGATCGAGAAATGTTAAGCAGATGCCATTCAT
129 TTTTTGGTTAAAACAGATCATATTTGGTCG-TTGCAT-GAGAAATATGAAGCGGATGCCATCCAT
* * * * * ** ** **
11533546 TGATAACAAAAGTCCATTTATAGTCAGTCATGCCTTCGAAAGCGTAGTTACTCACTTTAAATGGT
192 TGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCCAAATACTCACTTTAAATCAT
* *
11533611 TTTATAATCTTAAAATTTATTTTAAATAGAAATCTTTTTAACTTTTGGTTAAAATCAATCATAAT
257 TTTATAATCTTAAAATTGATTTTAAATAGAAATCTTTTTAACTTTTGGTCAAAATCAATCATAAT
* * *
11533676 TGGATGTTTGCATTCGCAAACATGGAGCAGATGCCATCCATTGACGAGAAATGTCCATTTATAGT
322 TCGATGTTTGCATTCGCAAACATGGAGCAGATGCCATCCATTGACGAGAAAAGTCCATTAATAGT
* * *
11533741 TACTTATGCCTTCGAAAGCCTTGTTAATCGCTTTAAATGATTTTATGATCTTATAAATGATTTTA
387 CACTGATGCCTTCGAAAGCCTTGTTAATCGCTTTAAATGATTTTATGATCTTATAAATGATTCTA
* * * * *
11533806 AATAGAAATGTTTTTCATTTTTGGTTAAAATCAATCATAATTGGATGTTTGCCTCAGA
452 AATAGAAATCTTTTTAATTTTTGGTTAAAAGCAATCATAATTAGATGTTTGCATCAGA
* * *
11533864 AAACGTAAAG-CATATGCCATCTATTTGCAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAA
1 AAACATAAAGTGA-ATGCCATCCA-TTGCAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAA
* * * * *
11533928 AGCCTTATTACTTGTTTTAAATGGTTTTGTAATTTATAAATAATTTGAAATTGAAATCTTTCTTG
64 AGCCTTATTACTTGCTTTAAATGGTTTTATAATTTATAAATAATTTTAAATCGAAATCTTTTTTG
* * *
11533993 TTTTTGGTAAAAACA-ATTCATATTTGGAT-GCTTGCATCAAAAGATATGAAGCGGATGCCATCC
129 TTTTTGGTTAAAACAGA-TCATATTTGG-TCG-TTGCATGAGAA-ATATGAAGCGGATGCCATCC
* *
11534056 ATTGACAAGAAAAGTCCA-TTATAGTCATTCATGCCATCAAAAGCCCAAATACTCATTTTAAATC
190 ATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCCAAATACTCACTTTAAATC
* * **
11534120 ATTTTATAATCTTATAAA-TGATTTTAAATCA-AAATCTTTTTCATTTTTGGTCCGAA-CAGATC
255 ATTTTATAATCTTA-AAATTGATTTTAAAT-AGAAATCTTTTTAACTTTTGGTCAAAATCA-ATC
* * * * *
11534182 ATATTTCGATGTTTTC-TTTG-AGAA-ATGTGAAGCAGATGCCATCCATTGCCTTCGGGAAAAGT
317 ATAATTCGATGTTTGCATTCGCA-AACATG-G-AGCAGATGCCATCCATTG---ACGAGAAAAGT
* *
11534244 CCATTAATAGTCACTGATGCCTTCGAAAGCCTTGTTACTCGCTTTAAATGGTTTTA-GAATCTTA
376 CCATTAATAGTCACTGATGCCTTCGAAAGCCTTGTTAATCGCTTTAAATGATTTTATG-ATCTTA
*
11534308 TAAATGATTCTAAATCGAAATCTTTTTAATTTTTGGTT-AAAGCAAGTCAT-ATGTAGATGATTT
440 TAAATGATTCTAAATAGAAATCTTTTTAATTTTTGGTTAAAAGCAA-TCATAAT-TAGATG-TTT
* *
11534371 -CAAT-GGG
502 GC-ATCAGA
* * * ** * **
11534378 AAACATGAAGTGAATGACATCCATTGCCAAGAAATGTCCATTTATAGTCACGCATGCCATATAAA
1 AAACATAAAGTGAATGCCATCCATTG-CAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAA
* * * *
11534443 G-CTTAGTTACTTGGTTTAAATGGTTTTATAATCTTATAAATCATTTTAAATCG-ATTTTTTTTT
65 GCCTTA-TTACTTGCTTTAAATGGTTTTATAAT-TTATAAATAATTTTAAATCGAAATCTTTTTT
** * * * * *
11534506 GTTTTTGGTTAAAACAGATCATAAGTGGTCGTTCGCAATGGGAAACATGAAGCGAAAGTCATCCA
128 GTTTTTGGTTAAAACAGATCATATTTGGTCGTT-GC-ATGAGAAATATGAAGCGGATGCCATCCA
11534571 TTGACAAGAAAAGTCCATTTATAGTCACTCAT
191 TTGACAAGAAAAGTCCATTTATAGTCACTCAT
11534603 ACCTTCGGAA
Statistics
Matches: 616, Mismatches: 95, Indels: 54
0.81 0.12 0.07
Matches are distributed among these distances:
509 4 0.01
510 8 0.01
511 118 0.19
512 93 0.15
513 100 0.16
514 253 0.41
515 40 0.06
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (509 bp):
AAACATAAAGTGAATGCCATCCATTGCAAGAAAAGTCCATTTATAGTCACTAATGCCTTCGAAAG
CCTTATTACTTGCTTTAAATGGTTTTATAATTTATAAATAATTTTAAATCGAAATCTTTTTTGTT
TTTGGTTAAAACAGATCATATTTGGTCGTTGCATGAGAAATATGAAGCGGATGCCATCCATTGAC
AAGAAAAGTCCATTTATAGTCACTCATGCCATCAAAAGCCCAAATACTCACTTTAAATCATTTTA
TAATCTTAAAATTGATTTTAAATAGAAATCTTTTTAACTTTTGGTCAAAATCAATCATAATTCGA
TGTTTGCATTCGCAAACATGGAGCAGATGCCATCCATTGACGAGAAAAGTCCATTAATAGTCACT
GATGCCTTCGAAAGCCTTGTTAATCGCTTTAAATGATTTTATGATCTTATAAATGATTCTAAATA
GAAATCTTTTTAATTTTTGGTTAAAAGCAATCATAATTAGATGTTTGCATCAGA
Found at i:11537151 original size:22 final size:22
Alignment explanation
Indices: 11537126--11537173 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11537116 GTGAGAAGGG
11537126 TGGAAGAAAAAAGAAG-AGCTGC
1 TGGAA-AAAAAAGAAGAAGCTGC
**
11537148 TGGAAAAATGAGAAGAAGCTGC
1 TGGAAAAAAAAGAAGAAGCTGC
11537170 TGGA
1 TGGA
11537174 GAGTTAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.46, C:0.08, G:0.33, T:0.12
Consensus pattern (22 bp):
TGGAAAAAAAAGAAGAAGCTGC
Found at i:11537155 original size:19 final size:21
Alignment explanation
Indices: 11537131--11537173 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
11537121 AAGGGTGGAA
11537131 GAAAAA-AGAAG-AGCTGCTG
1 GAAAAAGAGAAGAAGCTGCTG
11537150 GAAAAATGAGAAGAAGCTGCTG
1 GAAAAA-GAGAAGAAGCTGCTG
11537172 GA
1 GA
11537174 GAGTTAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.47, C:0.09, G:0.33, T:0.12
Consensus pattern (21 bp):
GAAAAAGAGAAGAAGCTGCTG
Found at i:11537629 original size:43 final size:43
Alignment explanation
Indices: 11537581--11537720 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 43
11537571 CACAAACATA
*
11537581 CTCAATCCACTTTACATCAAAATCATGGGAATGAGGAGACCTT
1 CTCAATCCACTTTACATCAAAATCATGGGAATGTGGAGACCTT
* ** *
11537624 CTCAATCCACATTTCAACATC--CATCATGGGAA-GTGGAGAAATA
1 CTCAATCCAC-TTT--ACATCAAAATCATGGGAATGTGGAGACCTT
** *
11537667 CTCAATCCACTACACAACAAAATCATGGGAATGTGGAGACCTT
1 CTCAATCCACTTTACATCAAAATCATGGGAATGTGGAGACCTT
*
11537710 TTCAATCCACT
1 CTCAATCCACT
11537721 GTCACAGTAC
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
40 4 0.05
42 11 0.14
43 45 0.58
44 13 0.17
46 5 0.06
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (43 bp):
CTCAATCCACTTTACATCAAAATCATGGGAATGTGGAGACCTT
Found at i:11543896 original size:2 final size:2
Alignment explanation
Indices: 11543889--11543930 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11543879 TATGACATAG
11543889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11543931 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11547965 original size:23 final size:24
Alignment explanation
Indices: 11547902--11547970 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 24
11547892 GGAGCTTGCT
* *
11547902 AAATTTTATTAATTTGATTCGAAA
1 AAATTTTATTATTTTGATACGAAA
11547926 ATAATTATTAATATATTTTGATACG-AA
1 A-AATT-TT-AT-TATTTTGATACGAAA
11547953 AAATTTTATTATTTTGAT
1 AAATTTTATTATTTTGAT
11547971 TATTTATACT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 9 0.23
24 3 0.08
25 6 0.15
26 6 0.15
27 5 0.13
28 10 0.26
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (24 bp):
AAATTTTATTATTTTGATACGAAA
Found at i:11549077 original size:19 final size:18
Alignment explanation
Indices: 11549053--11549088 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
11549043 TAATATTTTA
11549053 ATATTATTTTATTACTAAT
1 ATATTATTTTATT-CTAAT
11549072 ATATTATTTTATTCTAA
1 ATATTATTTTATTCTAA
11549089 AAAATTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATTATTTTATTCTAAT
Found at i:11565603 original size:2 final size:2
Alignment explanation
Indices: 11565596--11565622 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11565586 TAGACATTTT
11565596 AG 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 AG A
11565623 CATTCCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11567909 original size:61 final size:61
Alignment explanation
Indices: 11567809--11568094 Score: 394
Period size: 61 Copynumber: 4.7 Consensus size: 61
11567799 AGCTCATGTA
* * * *
11567809 CATCATCACTGGCATGTGCACTGCCCACTCCGCAAATGCATGATTATAATTATCACGACAG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGATTATAATTATCACGACAG
* * * * *
11567870 CATCATTACAGGCATGTGCACTGCCCACTCTGCACATGCACGATTGTAATTATCATGACAT
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGATTATAATTATCACGACAG
* * *
11567931 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGAACGGTTATAATTATCACGATAG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGATTATAATTATCACGACAG
* * * * *
11567992 CATCATTATCGGCATGTGCACTACCCATTCCGCACATGCAC-AGTTGTAATTATCATGACAG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGA-TTATAATTATCACGACAG
*
11568053 CATCATTACCGGCATGTGCACTACCCACTCCGCACATGCACG
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACG
11568095 GTTTCATTTT
Statistics
Matches: 197, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
61 197 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (61 bp):
CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGATTATAATTATCACGACAG
Found at i:11568096 original size:122 final size:122
Alignment explanation
Indices: 11567809--11568097 Score: 438
Period size: 122 Copynumber: 2.4 Consensus size: 122
11567799 AGCTCATGTA
* * * * *
11567809 CATCATCACTGGCATGTGCACTGCCCACTCCGCAAATGCATGATTATAATTATCACGACAGCATC
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTATAATTATCACGACAGCATC
* * *
11567874 ATTACAGGCATGTGCACTGCCCACTCTGCACATGCACGATTGTAATTATCATGACAT
66 ATTACAGGCATGTGCACTACCCACTCCGCACATGCACGATTGTAATTATCATGACAG
* *
11567931 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGAACGGTTATAATTATCACGATAGCATC
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTATAATTATCACGACAGCATC
*
11567996 ATTATC-GGCATGTGCACTACCCATTCCGCACATGCAC-AGTTGTAATTATCATGACAG
66 ATTA-CAGGCATGTGCACTACCCACTCCGCACATGCACGA-TTGTAATTATCATGACAG
*
11568053 CATCATTACCGGCATGTGCACTACCCACTCCGCACATGCACGGTT
1 CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTT
11568098 TCATTTTTCA
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
121 1 0.01
122 150 0.99
123 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (122 bp):
CATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTATAATTATCACGACAGCATC
ATTACAGGCATGTGCACTACCCACTCCGCACATGCACGATTGTAATTATCATGACAG
Found at i:11568140 original size:2 final size:2
Alignment explanation
Indices: 11568133--11568172 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
11568123 TATGACATAG
11568133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
11568173 GAAACATATG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11570234 original size:38 final size:40
Alignment explanation
Indices: 11570148--11570250 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 40
11570138 ACCTGACTCA
*
11570148 TGTATATCCCCCCACATCGTGCACATAGCTAGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCTAGCACCATCG
* * **
11570188 TGTGCATCCCCCCACATCGTGCACA-ATC-AGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCTAGCACCATCG
**
11570226 TGTACATCCCCTTACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
11570251 CGGGCACTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 30 0.55
39 2 0.04
40 23 0.42
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.23
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCTAGCACCATCG
Found at i:11572625 original size:19 final size:19
Alignment explanation
Indices: 11572586--11572626 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11572576 TTAATATTTT
*
11572586 AATATTATTTTATTAATAA
1 AATATTATTTTATTAAAAA
11572605 AATATTATTTTA-TACAAAA
1 AATATTATTTTATTA-AAAA
11572624 AAT
1 AAT
11572627 TTCCTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATTATTTTATTAAAAA
Found at i:11580670 original size:42 final size:41
Alignment explanation
Indices: 11580540--11580693 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 41
11580530 GTAATGATAT
* *
11580540 TGACCCGGCTATGTGCTAGTAGGAGTGTGCATAAGCCGATGC
1 TGACCCGGCTATGTGCTAGTAGGAGTGCGCATAAG-TGATGC
*
11580582 TAACCCGGCTATGTGCTAGTTA-GAGTGCGCATAAGCTGATGC
1 TGACCCGGCTATGTGCTAG-TAGGAGTGCGCATAAG-TGATGC
* * * *
11580624 TGACCCGACTATGTGCGAGTAGGAGTGCACATAAGTAGATGT
1 TGACCCGGCTATGTGCTAGTAGGAGTGCGCATAAGT-GATGC
* * * *
11580666 TGACCAGGCCATATGCTAGTGGGAGTGC
1 TGACCCGGCTATGTGCTAGTAGGAGTGC
11580694 ATATGAGCTG
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.03
42 90 0.95
43 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (41 bp):
TGACCCGGCTATGTGCTAGTAGGAGTGCGCATAAGTGATGC
Found at i:11580692 original size:84 final size:84
Alignment explanation
Indices: 11580540--11580693 Score: 191
Period size: 84 Copynumber: 1.8 Consensus size: 84
11580530 GTAATGATAT
* * ** * * * * *
11580540 TGACCCGGCTATGTGCTAGTAGGAGTGTGCATAAGCCGATGCTAACCCGGCTATGTGCTAGTTAG
1 TGACCCGACTATGTGCGAGTAGGAGTGCACATAAGCAGATGCTAACCAGGCCATATGCTAGTGAG
11580605 AGTGCGCATAAGCTGATGC
66 AGTGCGCATAAGCTGATGC
* * * *
11580624 TGACCCGACTATGTGCGAGTAGGAGTGCACATAAGTAGATGTTGACCAGGCCATATGCTAGTGGG
1 TGACCCGACTATGTGCGAGTAGGAGTGCACATAAGCAGATGCTAACCAGGCCATATGCTAGTGAG
11580689 AGTGC
66 AGTGC
11580694 ATATGAGCTG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 57 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (84 bp):
TGACCCGACTATGTGCGAGTAGGAGTGCACATAAGCAGATGCTAACCAGGCCATATGCTAGTGAG
AGTGCGCATAAGCTGATGC
Found at i:11583293 original size:2 final size:2
Alignment explanation
Indices: 11583256--11583285 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11583246 TATCATGTTG
11583256 AT 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 AT
11583286 GAATATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11583376 original size:42 final size:42
Alignment explanation
Indices: 11583329--11583441 Score: 172
Period size: 42 Copynumber: 2.7 Consensus size: 42
11583319 GTAATGATAT
* *
11583329 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCTGATGC
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGA
11583371 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGA
1 TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGA
* * *
11583413 TGACCCAGCCATGTGCTAGTGGGGAGTGC
1 TGACCCGGCTATGTGCGAGT-GGGAGTGC
11583442 ATATGAGCTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 57 0.88
43 8 0.12
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.20
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGA
Found at i:11587940 original size:19 final size:18
Alignment explanation
Indices: 11587898--11587940 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
11587888 GAGTGAGAAA
11587898 AATATTTTAGAATAAAAT
1 AATATTTTAGAATAAAAT
** *
11587916 TTTATTTTATGAATCAAAT
1 AATATTTTA-GAATAAAAT
11587935 AATATT
1 AATATT
11587941 AAAATATTAA
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (18 bp):
AATATTTTAGAATAAAAT
Found at i:11588314 original size:2 final size:2
Alignment explanation
Indices: 11588309--11588367 Score: 77
Period size: 2 Copynumber: 30.5 Consensus size: 2
11588299 ATAAAAAATT
* *
11588309 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
11588351 TA -A TA -A TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA T
11588368 GGGAAGAAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:11588334 original size:20 final size:20
Alignment explanation
Indices: 11588309--11588366 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
11588299 ATAAAAAATT
11588309 TATATATATATATATATAAA
1 TATATATATATATATATAAA
11588329 TATATATATATATATATAAA
1 TATATATATATATATATAAA
*
11588349 TATA-ATAATATAAATATA
1 TATATAT-ATATATATATA
11588367 TGGGAAGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 2 0.06
20 34 0.94
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATATATATATATATATAAA
Found at i:11592173 original size:35 final size:36
Alignment explanation
Indices: 11592112--11592179 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
11592102 GTGCACACAC
11592112 TGATGATATATGCCATGTGCGATGTGGGAGTGCGCA
1 TGATGATATATGCCATGTGCGATGTGGGAGTGCGCA
* *
11592148 TGATGATAT-TGCCTTGTGCGGTGTGGGAGTGC
1 TGATGATATATGCCATGTGCGATGTGGGAGTGC
11592180 ATAGGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 21 0.70
36 9 0.30
ACGTcount: A:0.18, C:0.13, G:0.38, T:0.31
Consensus pattern (36 bp):
TGATGATATATGCCATGTGCGATGTGGGAGTGCGCA
Found at i:11596178 original size:179 final size:179
Alignment explanation
Indices: 11595971--11596432 Score: 456
Period size: 179 Copynumber: 2.6 Consensus size: 179
11595961 GTTTTGAATT
* *** * *
11595971 TTTTTTGACAGCCAAAAACGTTTCCTAAAATCCTGAAAAATTACTATGGAATTGTTCCATAAGTT
1 TTTTTTGAAAGCCAAAAACACCTCCTAAAATCCT-AAAAATTACTATGGAATAGGTCCATAAGTT
* * * *
11596036 -TCCTATCAAGGA-AAATTTAATTGGGAATTAAATTCCTGA-TTTTATGCCACCAAATAGCTTCA
65 AT-CTATC-AGGATAAATTTAATTAGGAATTAAATTCCTAAGTTTTA-GCCA-CAAAGAACTTCA
* *
11596098 AAAGAAGGAC-AAAACCAAAACTGCCTC-TGCAGATAAAGGTCAC-G-GTTTGAA
126 AAAG-AGCACAAAAACCAAAACGGCCTCGTGCAGATAAAGGTCACTGTGTTTGAA
* * * *
11596149 GTTTTTTGAAAGCCAAAAACACCTCCTAAAATCCTAAAAATTTAGTCTGGAATAGGTCCGTGAGT
1 -TTTTTTGAAAGCCAAAAACACCTCCTAAAATCCTAAAAA-TTACTATGGAATAGGTCCATAAGT
* * *
11596214 TATCTATCAGGATAAATTTTATTAGGAATTAAATTCCTAAGTTTTAGTCACAAAGAATTTCAAAA
64 TATCTATCAGGATAAATTTAATTAGGAATTAAATTCCTAAGTTTTAGCCACAAAGAACTTCAAAA
** * ** *
11596279 GTTCTCAAAAACCAATTCGGCCTCGTGCAGATAAAGGTCACTGTTTTTGAA
129 GAGCACAAAAACCAAAACGGCCTCGTGCAGATAAAGGTCACTGTGTTTGAA
* * * * *
11596330 TTTTTTGAATAGCC-AAATCACCTCCTAAAATTCTAAAAATTTATTCTGGAATAGGTCCATGAGT
1 TTTTTTGAA-AGCCAAAAACACCTCCTAAAATCCTAAAAA-TTACTATGGAATAGGTCCATAAGT
* * * * *
11596394 TATCTGTGAGAATAAATTTTATT-GGAATTAAATTTCTAA
64 TATCTATCAGGATAAATTTAATTAGGAATTAAATTCCTAA
11596433 AGATACAGCA
Statistics
Matches: 241, Mismatches: 33, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
177 1 0.00
178 36 0.15
179 112 0.46
180 82 0.34
181 10 0.04
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (179 bp):
TTTTTTGAAAGCCAAAAACACCTCCTAAAATCCTAAAAATTACTATGGAATAGGTCCATAAGTTA
TCTATCAGGATAAATTTAATTAGGAATTAAATTCCTAAGTTTTAGCCACAAAGAACTTCAAAAGA
GCACAAAAACCAAAACGGCCTCGTGCAGATAAAGGTCACTGTGTTTGAA
Found at i:11597779 original size:58 final size:58
Alignment explanation
Indices: 11597682--11597793 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
11597672 TAATCATCCA
* * * *
11597682 AAAGTAGTTTGCATGTGATAGATTTATTTTGTGCAATTTAATAAATGCTATGCAATGC
1 AAAGTAGTATGCAGGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGCAATGC
*
11597740 AAAGTAGTATGCAGGTGATAGATTTATTTTATGCGATTTAATAAATGCCATGCA
1 AAAGTAGTATGCAGGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGCA
11597794 TACAAAGATG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (58 bp):
AAAGTAGTATGCAGGTGATAGATTTATTTTATGCAATTTAATAAATGCCATGCAATGC
Found at i:11602940 original size:101 final size:101
Alignment explanation
Indices: 11602765--11602968 Score: 372
Period size: 101 Copynumber: 2.0 Consensus size: 101
11602755 ATGATAAGAG
*
11602765 AAAGAACAATAATAAAGGGTACTGTGGTTCTGACTCAAAGATGACAATAGAGATAAGCTACATAC
1 AAAGAACAATAATAAAGGGTACCGTGGTTCTGACTCAAAGATGACAATAGAGATAAGCTACATAC
*
11602830 CCTGACCTTGTAACGTGTTTTAGTTGAACGGAAGGT
66 CCTGACCTTGTAACGTGTTTTAGTTGAACAGAAGGT
* *
11602866 AAAGAACAATAATGAAGGGTACCGTGGTTCTGACTCAAAGATGACAATAGAGATAAGCTACATTC
1 AAAGAACAATAATAAAGGGTACCGTGGTTCTGACTCAAAGATGACAATAGAGATAAGCTACATAC
11602931 CCTGACCTTGTAACGTGTTTTAGTTGAACAGAAGGT
66 CCTGACCTTGTAACGTGTTTTAGTTGAACAGAAGGT
11602967 AA
1 AA
11602969 CTAAGTGCAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (101 bp):
AAAGAACAATAATAAAGGGTACCGTGGTTCTGACTCAAAGATGACAATAGAGATAAGCTACATAC
CCTGACCTTGTAACGTGTTTTAGTTGAACAGAAGGT
Found at i:11608337 original size:68 final size:68
Alignment explanation
Indices: 11608199--11608460 Score: 303
Period size: 68 Copynumber: 3.9 Consensus size: 68
11608189 ACATGCCTAC
* * * * **
11608199 TCATCTCATAAGGTATATGGAAAATACATCATATACATAATCTCATGGCATTCGTCATTC-TTTT
1 TCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACT
11608263 TCAA
66 T-AA
* *
11608267 TCATCTCATGTAGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACT
1 TCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACT
11608332 TAA
66 TAA
* * * * * * *
11608335 TCACCTCATATGGTATATGGAATTTACATCTTATAC-TCAATCTTATAGTATACATCATGCATAC
1 TCATCTCATATGGTATATGGAATATACATCATATACAT-AATCTCATGGCATTCATCATGCATAC
11608399 TTAA
65 TTAA
* * * * * *
11608403 TCATCTCATATGGTATATAGAATTTACATCATATACCTAATCTTAAGTCATTCATCAT
1 TCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCAT
11608461 ACCTAACATG
Statistics
Matches: 166, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
67 1 0.01
68 161 0.97
69 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.37
Consensus pattern (68 bp):
TCATCTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACT
TAA
Found at i:11612084 original size:21 final size:22
Alignment explanation
Indices: 11612059--11612099 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11612049 CCTAGGTGGA
*
11612059 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
11612080 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
11612100 AAAAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:11612100 original size:20 final size:21
Alignment explanation
Indices: 11612059--11612103 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
11612049 CCTAGGTGGA
*
11612059 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
11612080 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
11612100 AAAA
1 AAAA
11612104 AAAGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:11612104 original size:21 final size:20
Alignment explanation
Indices: 11612057--11612104 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
11612047 ATCCTAGGTG
*
11612057 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
11612077 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
11612099 GAAAAA
1 GAAAAA
11612105 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:11617099 original size:52 final size:52
Alignment explanation
Indices: 11617025--11617133 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 52
11617015 TAATGGTCGT
* * * *
11617025 GATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGTTGATGACCAGTGGGG
1 GATTCCAGCCATGTGCGATGTGGGAGTGCACATGAGCTAATGACCAGTGGGG
* * *
11617077 GATTCCAGCCGTGTGTGATGTGGGAGTGCACATGAGCTAATGACCGGTGGGG
1 GATTCCAGCCATGTGCGATGTGGGAGTGCACATGAGCTAATGACCAGTGGGG
11617129 GATTC
1 GATTC
11617134 TGTCACAACC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.19, C:0.17, G:0.39, T:0.25
Consensus pattern (52 bp):
GATTCCAGCCATGTGCGATGTGGGAGTGCACATGAGCTAATGACCAGTGGGG
Found at i:11618337 original size:2 final size:2
Alignment explanation
Indices: 11618332--11618364 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11618322 TATAACACAC
*
11618332 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11618365 CCCATCATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11618458 original size:43 final size:43
Alignment explanation
Indices: 11618410--11618519 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
11618400 TCACCAGCTC
***** *
11618410 ATGCGCACTCCCTACTCGCACATGGTTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CTCGGCTT
11618453 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
11618496 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
11618520 GCCGAGTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
Found at i:11619349 original size:19 final size:20
Alignment explanation
Indices: 11619315--11619352 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
11619305 GAAGAAGACT
11619315 AGCTGCTGGAAAATTCAAGA
1 AGCTGCTGGAAAATTCAAGA
11619335 AGCTGCTGG-AAATTCAAG
1 AGCTGCTGGAAAATTCAAG
11619353 GTATTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
AGCTGCTGGAAAATTCAAGA
Found at i:11629938 original size:28 final size:28
Alignment explanation
Indices: 11629906--11630016 Score: 114
Period size: 28 Copynumber: 3.9 Consensus size: 28
11629896 GGCAGCTTTG
11629906 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
* * *
11629934 ACATGTTTGCCTTAACTTAAGATAAGAAAA
1 ACATGTTTGTCTTAA-TTTAGACAAG-AAA
* * *
11629964 ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACA-TGTTTGTCTTAATTTAGACAAGAAA
* * *
11629993 ACATATTTGTCTCAATTTGGACAA
1 ACATGTTTGTCTTAATTTAGACAA
11630017 CATAAAATAT
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
28 31 0.47
29 13 0.20
30 12 0.18
31 10 0.15
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:11629999 original size:31 final size:31
Alignment explanation
Indices: 11629911--11630000 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
11629901 CTTTGACATG
* *
11629911 TTTGTCTTAATTTAGACAAGAAAAC--A-TG
1 TTTGTCTTAATTTAGTCAAGAAAACATATTT
* *
11629939 TTTGCCTTAACTTAAGAT-AAGAAAA-ATATTT
1 TTTGTCTTAA-TTTAG-TCAAGAAAACATATTT
11629970 TTTGTCTTAATTTAGTCAAGAAAACATATTT
1 TTTGTCTTAATTTAGTCAAGAAAACATATTT
11630001 GTCTCAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
28 9 0.18
29 12 0.24
30 12 0.24
31 16 0.33
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (31 bp):
TTTGTCTTAATTTAGTCAAGAAAACATATTT
Found at i:11630024 original size:59 final size:60
Alignment explanation
Indices: 11629911--11630041 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 60
11629901 CTTTGACATG
* * * *
11629911 TTTGTCTTAATTTAGACAAGAAAACATGTTTGCCTTAACTTAAGATAAGAAAAATA-TTT
1 TTTGTCTTAATTTAGACAAGAAAACATATTTGCCTCAACTTAAGACAACAAAAATATTTT
* * **
11629970 TTTGTCTTAATTTAGTCAAGAAAACATATTTGTCTCAA-TTTGGACAACATAAAATATTTT
1 TTTGTCTTAATTTAGACAAGAAAACATATTTGCCTCAACTTAAGACAACA-AAAATATTTT
*
11630030 TTTATCTTAATT
1 TTTGTCTTAATT
11630042 ACAAACAAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 7 0.11
59 40 0.66
60 14 0.23
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (60 bp):
TTTGTCTTAATTTAGACAAGAAAACATATTTGCCTCAACTTAAGACAACAAAAATATTTT
Found at i:11656050 original size:2 final size:2
Alignment explanation
Indices: 11656043--11656069 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11656033 AAGGAATAAA
11656043 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 A
11656070 ATTGAATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11656162 original size:16 final size:18
Alignment explanation
Indices: 11656131--11656169 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
11656121 AGGGAGAGTA
11656131 AAAGAGAAACGAAAGAAC
1 AAAGAGAAACGAAAGAAC
*
11656149 AAAG-GAAA-GAAAGAAG
1 AAAGAGAAACGAAAGAAC
11656165 AAAGA
1 AAAGA
11656170 AGTAGCCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 11 0.58
17 4 0.21
18 4 0.21
ACGTcount: A:0.69, C:0.05, G:0.26, T:0.00
Consensus pattern (18 bp):
AAAGAGAAACGAAAGAAC
Found at i:11656671 original size:5 final size:5
Alignment explanation
Indices: 11656661--11656687 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11656651 ACGGTGGAAG
11656661 AAAGA AAAGA AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AA
11656688 GTAACAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:11658894 original size:21 final size:22
Alignment explanation
Indices: 11658860--11658902 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
11658850 TTAAGGTGGT
11658860 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
11658882 ATCAGAG-TTTTGGTTTTAAAG
1 ATCAGAGCTTTTGGTTTTAAAG
11658903 TTGTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (22 bp):
ATCAGAGCTTTTGGTTTTAAAG
Found at i:11669798 original size:20 final size:20
Alignment explanation
Indices: 11669773--11669818 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11669763 TTTTGACCCC
11669773 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
11669793 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
11669813 ATTTGA
1 ATTTGA
11669819 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:11673775 original size:19 final size:20
Alignment explanation
Indices: 11673751--11673790 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11673741 TTTGGGCAGC
*
11673751 CATGAATTCT-CCATGAAAA
1 CATGAAATCTACCATGAAAA
11673770 CATGAAATCTAACCATGAAAA
1 CATGAAATCT-ACCATGAAAA
11673791 ATAAGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (20 bp):
CATGAAATCTACCATGAAAA
Found at i:11677356 original size:27 final size:29
Alignment explanation
Indices: 11677306--11677363 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
11677296 ATGACAAGTG
*
11677306 TTGGGTGGTGTAAAATTACAATTTTGCCC
1 TTGGGTGGTGTAAAATGACAATTTTGCCC
*
11677335 TTGGGT-G-GTAAAATGACCATTTTGCCC
1 TTGGGTGGTGTAAAATGACAATTTTGCCC
11677362 TT
1 TT
11677364 AGGTCATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 20 0.74
28 1 0.04
29 6 0.22
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (29 bp):
TTGGGTGGTGTAAAATGACAATTTTGCCC
Found at i:11682048 original size:27 final size:28
Alignment explanation
Indices: 11682003--11682060 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
11681993 TTTTTAGCGT
*
11682003 AAGGGCAAAATAGTCATTTT-ACCACCC
1 AAGGGCAAAATAGTAATTTTAACCACCC
**
11682030 AAGGGCAAAATTTTAATTTTACACCACCC
1 AAGGGCAAAATAGTAATTTTA-ACCACCC
11682059 AA
1 AA
11682061 CACTTGTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 17 0.65
29 9 0.35
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (28 bp):
AAGGGCAAAATAGTAATTTTAACCACCC
Found at i:11693338 original size:20 final size:19
Alignment explanation
Indices: 11693313--11693352 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
11693303 CGCGAATTCC
11693313 CCTTTGAATTTTCTACTTTT
1 CCTTTGAATTTTCT-CTTTT
**
11693333 CCTTTGGTTTTTCTCTTTT
1 CCTTTGAATTTTCTCTTTT
11693352 C
1 C
11693353 TTCCTTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.62
Consensus pattern (19 bp):
CCTTTGAATTTTCTCTTTT
Found at i:11694418 original size:22 final size:21
Alignment explanation
Indices: 11694379--11694419 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11694369 CATAGGTGGA
**
11694379 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGAAAAAAGTGTG
11694400 AAAATTCAAGAAAACAAGTG
1 AAAATTCAAGAAAA-AAGTG
11694420 AAAAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (21 bp):
AAAATTCAAGAAAAAAGTGTG
Found at i:11694424 original size:21 final size:20
Alignment explanation
Indices: 11694377--11694424 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
11694367 ATCATAGGTG
**
11694377 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGAAAAAAGT
*
11694397 GTGAAAATTCAAGAAAACAAGT
1 G-AAAAATTCAAGAAAA-AAGT
11694419 GAAAAA
1 GAAAAA
11694425 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGAAAAAAGT
Found at i:11697407 original size:36 final size:35
Alignment explanation
Indices: 11697360--11697503 Score: 159
Period size: 36 Copynumber: 4.1 Consensus size: 35
11697350 GTGCACACGC
*
11697360 TGATGATATATGCCATGT-CTAGTGTGGGAGTGCACA
1 TGATGATAT-TGCCATGTGC-GGTGTGGGAGTGCACA
* *
11697396 TGATGATATATGCCATGTGCGGTGTGGTAATGCACA
1 TGATGATAT-TGCCATGTGCGGTGTGGGAGTGCACA
* *
11697432 TGAT-A-CTTGCCATGTGCGGTGTGGGAGCGCACA
1 TGATGATATTGCCATGTGCGGTGTGGGAGTGCACA
* * *
11697465 TGAGGATATTAGCTATGTGTGGTGTGGGAGTGCACA
1 TGATGATATT-GCCATGTGCGGTGTGGGAGTGCACA
11697501 TGA
1 TGA
11697504 GTTGAGTTGA
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
33 26 0.28
34 2 0.02
35 3 0.03
36 60 0.65
37 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (35 bp):
TGATGATATTGCCATGTGCGGTGTGGGAGTGCACA
Found at i:11699922 original size:2 final size:2
Alignment explanation
Indices: 11699910--11700033 Score: 153
Period size: 2 Copynumber: 61.0 Consensus size: 2
11699900 CTATCAATAC
* * * *
11699910 AT AT CAT AT AT AT TT AG AT AT AT AT AT AT AT AT TT AG AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
11699953 AT AT AT AT AT AT AT AT AT AT CNT AT AT AT AT -T AGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT A-T AT AT AT AT
11699996 AT AT AT AT -T AGT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
11700034 CAACATAACA
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
1 2 0.02
2 97 0.92
3 7 0.07
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Done.