Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 289 of 318
Found at i:91172792 original size:3 final size:3
Alignment explanation
Indices: 91172784--91172816 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
91172774 AAATATACAC
91172784 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
91172817 AATGCAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:91174657 original size:87 final size:86
Alignment explanation
Indices: 91174511--91175189 Score: 859
Period size: 87 Copynumber: 7.8 Consensus size: 86
91174501 ATCTATAATT
* * * ** * *
91174511 TTCAGCCTGTTACCCTATTACTTTGGGGTTTAAGGCCCATCACCTTCGATTTATTTCCCTACTGC
1 TTCA-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGC
91174576 TTA-GGGGTTAAGATCTTGTAAA
65 TTAGGGGGTTAAGATC-TGTAAA
* *
91174598 TTCAGCATGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGGTCTATTTCCCTACTGC
1 TTCA-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGC
91174663 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * *
91174685 TTCCACCTGTTACCCTACTGTTTAGGGGTTTAAGGTCCATCGCCTTTGATCTAATTCCCTACTGC
1 TT-CACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGC
91174750 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * * * *
91174772 TTGCACCTGTTACCCTACTGCTTAGGGGTGTAAGGTCCATCGCTTTTGATCTGTTTCCCTACTAC
1 TT-CACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGC
91174837 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* *
91174859 -TCTAGCCTGTTACCCTACTGCTTAGGGGTTTGAGGTTCATCGCCTTCGATCTGTTTCCCTACTG
1 TTC-A-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTG
91174923 CTTAGGGGGTTAAGATCTGTAAA
64 CTTAGGGGGTTAAGATCTGTAAA
* * *
91174946 TTCCAACCTGTTACCCTACTGCTTAAGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTATTG
1 TT-C-ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTG
*
91175011 CTTAGGGGGTTAAGAGCTGT-AA
64 CTTAGGGGGTTAAGATCTGTAAA
*
91175033 ---ACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGCT
1 TTCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGCT
*
91175095 TAGGTGGTTAAGATCTGTAAA
66 TAGGGGGTTAAGATCTGTAAA
* * ** * * * ** * * *
91175116 TTTAGCCTGTCATACTACT-ATTTGGGGAGTTAAGGCCCGTCGCTTTCGATCTGTTTCCCTACTG
1 TTCA-CCTGTTACCCTACTGCTTAGGGG-TTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTG
91175180 CTTAGGGGGT
64 CTTAGGGGGT
91175190 CAAATCTTCT
Statistics
Matches: 528, Mismatches: 52, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
82 74 0.14
83 2 0.00
85 1 0.00
86 9 0.02
87 350 0.66
88 90 0.17
89 2 0.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (86 bp):
TTCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGCT
TAGGGGGTTAAGATCTGTAAA
Found at i:91174660 original size:44 final size:44
Alignment explanation
Indices: 91174605--91175103 Score: 291
Period size: 44 Copynumber: 11.5 Consensus size: 44
91174595 AAATTCAGCA
* *
91174605 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGGTC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
* * * ** * *
91174649 TATTTCCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCCACC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCG--CCTTCGATC
* * * *
91174692 TGTTACCCTACTGTTTAGGGGTTTAAGGTCCATCGCCTTTGATC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
** * * ** *
91174736 TAATTCCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT-GCACC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCG--CCTTCG-ATC
* * * * *
91174779 TGTTACCCTACTGCTTAGGGGTGTAAGGTCCATCGCTTTTGATC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
* * * *** * *
91174823 TGTTTCCCTACTACTTAGGGGGTTAA-GATC-T-GTAAATCTAGCC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCG-CCTTCGA-TC
* *
91174866 TGTTACCCTACTGCTTAGGGGTTTGAGGTTCATCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
* * ** * *
91174910 TGTTTCCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATTCCAACC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCG--CCTT-CGATC
* *
91174954 TGTTACCCTACTGCTTAAGGGTTTAAGGTTCATCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
* * ** *
91174998 TGTTTCCCTATTGCTTAGGGGGTTAA-G---A--G-CTGTAAACC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCGCCT-TCGATC
* *
91175036 TATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
*
91175080 TATTTCCCTACTGCTTAGGTGGTT
1 TGTTTCCCTACTGCTTAGG-GGTT
91175104 AAGATCTGTA
Statistics
Matches: 330, Mismatches: 93, Indels: 63
0.68 0.19 0.13
Matches are distributed among these distances:
37 2 0.01
38 26 0.08
39 1 0.00
40 1 0.00
41 4 0.01
42 8 0.02
43 87 0.26
44 178 0.54
45 18 0.05
46 4 0.01
47 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (44 bp):
TGTTTCCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
Found at i:91175346 original size:44 final size:44
Alignment explanation
Indices: 91175281--91175994 Score: 549
Period size: 44 Copynumber: 16.4 Consensus size: 44
91175271 ATAATGTCAG
**
91175281 ATCTGCTATCTTCGATCTGTTCCCTATAAATACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* *
91175325 ATCTGCTATTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * * *
91175367 ATGCTGAAATCTTCGATTTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
91175413 ATCTGCTATATTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
91175457 ATATGCTATTTTC-AACTTGTTCCCTATAAGTACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * ** *
91175499 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTTAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
91175545 ATCTGCTATCTTCGATCTG-----T-T---CACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
91175580 ATTTGTTATTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
91175622 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
* *
91175668 ATCTGTTATCTTCGATCTGTTCCTTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
91175712 ATCTGCTATTTTC-AACTTGTTTCCTATAAGCACAGGGATGCCAT
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * * *
91175756 A-CTGAAATCTTCGATCTGCTTCACTGTAAGTACAGGAATGTCAG
1 ATCTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
91175800 ATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* *
91175844 ATCTGCTATTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
91175886 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCAC-GAGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAG-GGATGCCAA
* * *
91175932 ATCTGCTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
*
91175976 ATCTGCAATCTTCGATCTG
1 ATCTGCTATCTTCGATCTG
91175995 CTCTCCGCCA
Statistics
Matches: 519, Mismatches: 112, Indels: 78
0.73 0.16 0.11
Matches are distributed among these distances:
34 2 0.00
35 22 0.04
38 1 0.00
39 1 0.00
40 1 0.00
41 1 0.00
42 8 0.02
43 57 0.11
44 345 0.66
45 73 0.14
46 8 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:91175427 original size:132 final size:132
Alignment explanation
Indices: 91175190--91175981 Score: 1262
Period size: 132 Copynumber: 6.1 Consensus size: 132
91175180 CTTAGGGGGT
* * ** * *
91175190 CAAATCTTCTATCTTCAACTTGTTCCCTATAAATACCGGGATGCCATGCTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* ** **
91175255 CTTCAATGTAAGCACAATAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAATACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
91175320 GC
131 GC
*
91175322 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATTTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
*
91175387 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATATTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
91175452 GC
131 GC
* *
91175454 CAAATATGCTATTTTCAACTTGTTCCCTATAAGTACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
*
91175519 CTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCTTCGATCTG-----T-T---CACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
91175575 GC
131 GC
* *
91175577 CAAATTTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
91175642 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCTTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
91175707 GC
131 GC
* *
91175709 CAAATCTGCTATTTTCAACTTGTTTCCTATAAGCACAGGGATGCCATACTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
91175774 CTTCACTGTAAGTACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
91175839 GC
131 GC
91175841 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
91175906 CTTCACTGTAAGCAC-GAGAATGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACATAGGGA
66 CTTCACTGTAAGCACAG-GAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGA
91175970 TGC
130 TGC
91175973 CAAATCTGC
1 CAAATCTGC
91175982 AATCTTCGAT
Statistics
Matches: 614, Mismatches: 36, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
123 116 0.19
126 1 0.00
127 1 0.00
128 1 0.00
129 1 0.00
131 1 0.00
132 493 0.80
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
GC
Found at i:91175686 original size:387 final size:387
Alignment explanation
Indices: 91175203--91175953 Score: 1297
Period size: 387 Copynumber: 1.9 Consensus size: 387
91175193 ATCTTCTATC
* *
91175203 TTCAACTTGTTCCCTATAAATACCGGGATGCCATGCTGAAATCTTCAATCTGCTTCAATGTAAGC
1 TTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCAATGTAAGC
* *
91175268 ACAATAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAATACAGGGATGCCAAATCTGCTA
66 ACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTA
* *
91175333 TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATTTGCTTCACTGTAA
131 TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATACTGAAATCTTCGATCTGCTTCACTGTAA
91175398 GCACAGGAATGTCAGATCTGCTATATTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATATGC
196 GCACAGGAATGTCAGATCTGCTATATTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATATGC
*
91175463 TATTTTCAACTTGTTCCCTATAAGTACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
261 TATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
*
91175528 AAGCAC-AGGAATGTTAGATCTGCTATCTTCGATCTGTTCACAGGGATGCCAAATTTGTTATT
326 AAGCACGA-GAATGTCAGATCTGCTATCTTCGATCTGTTCACAGGGATGCCAAATTTGTTATT
* * *
91175590 TTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGC
1 TTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCAATGTAAGC
* * * *
91175655 ACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCTTATAAGCACAGGGATGCCAAATCTGCTA
66 ACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTA
*
91175720 TTTTCAACTTGTTTCCTATAAGCACAGGGATGCCATACTGAAATCTTCGATCTGCTTCACTGTAA
131 TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATACTGAAATCTTCGATCTGCTTCACTGTAA
* * * *
91175785 GTACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGC
196 GCACAGGAATGTCAGATCTGCTATATTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATATGC
91175850 TATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
261 TATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
*
91175915 AAGCACGAGAATGTCAGATCTGCTATCTTTGATCTGTTC
326 AAGCACGAGAATGTCAGATCTGCTATCTTCGATCTGTTC
91175954 CCTATAAACA
Statistics
Matches: 342, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
387 341 1.00
388 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (387 bp):
TTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCAATGTAAGC
ACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTA
TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATACTGAAATCTTCGATCTGCTTCACTGTAA
GCACAGGAATGTCAGATCTGCTATATTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATATGC
TATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
AAGCACGAGAATGTCAGATCTGCTATCTTCGATCTGTTCACAGGGATGCCAAATTTGTTATT
Found at i:91176113 original size:88 final size:88
Alignment explanation
Indices: 91175984--91176213 Score: 392
Period size: 88 Copynumber: 2.6 Consensus size: 88
91175974 AAATCTGCAA
* * *
91175984 TCTTCGATCTGCTCTCCGCC--ACTACAGAGACGCCAAATCATCTTGGATTTGCTTCAATGTAAA
1 TCTTCGATCTGCTCTCCGCCTGA-TACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAA
*
91176047 CACGTGAAAGCCAAATCAGCTATG
65 CAAGTGAAAGCCAAATCAGCTATG
*
91176071 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCTCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
91176136 AAGTGAAAGCCAAATCAGCTATG
66 AAGTGAAAGCCAAATCAGCTATG
91176159 TCTTCGATCTGCTCTCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTT
1 TCTTCGATCTGCTCTCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTT
91176214 TAGGGAAGGT
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
87 19 0.14
88 115 0.85
89 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTGCTCTCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
AAGTGAAAGCCAAATCAGCTATG
Found at i:91176195 original size:47 final size:47
Alignment explanation
Indices: 91176056--91176199 Score: 142
Period size: 47 Copynumber: 3.2 Consensus size: 47
91176046 ACACGTGAAA
*
91176056 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCTGATACAGAGAT
* ** * * * *
91176103 GCCAAAT---C-A--TCTTGGATCTGCT-TCAACGT-AAACAAGTGAAA
1 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCTGATAC-AGAG-AT
91176144 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCTGATACAGAGAT
91176191 GCCAAATCA
1 GCCAAATCA
91176200 TCTTGGATCT
Statistics
Matches: 72, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
39 3 0.04
40 6 0.08
41 20 0.28
43 1 0.01
44 2 0.03
45 1 0.01
47 29 0.40
48 7 0.10
49 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (47 bp):
GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCTGATACAGAGAT
Found at i:91178101 original size:9 final size:9
Alignment explanation
Indices: 91178078--91178140 Score: 63
Period size: 9 Copynumber: 6.9 Consensus size: 9
91178068 CTTTTTGGCA
*
91178078 TTTTTGTTG
1 TTTTTTTTG
91178087 TTTTTTTTG
1 TTTTTTTTG
*
91178096 TTTTTTTTC
1 TTTTTTTTG
* * *
91178105 TTCTTCTTC
1 TTTTTTTTG
*
91178114 TTTTTTGTG
1 TTTTTTTTG
91178123 TTTTTTTTG
1 TTTTTTTTG
91178132 TTGTTTTTT
1 TT-TTTTTT
91178141 TTAATTTGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
9 38 0.86
10 6 0.14
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:91182508 original size:3 final size:3
Alignment explanation
Indices: 91182502--91182540 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
91182492 ACACTACTAT
91182502 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91182541 TAGAAATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:91182644 original size:3 final size:3
Alignment explanation
Indices: 91182636--91182711 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
91182626 AAATATACAC
91182636 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
91182684 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
91182712 GCAGAAAGTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:91186327 original size:56 final size:56
Alignment explanation
Indices: 91186260--91186372 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
91186250 AATTCGTATG
* *
91186260 CTTCGATGCTCACACATAGCTAAGGTAGTCCACAACATATGCGGAATACTACTAAT
1 CTTCGATGCTCACACAGAGCTAAGGTAGTCCACAACATATGCGGAATACTACCAAT
* ** *
91186316 CTTCGATGCTCACACAGAGCTACGGTAGTCTGCAACTTATGCGGAATACTACCAAT
1 CTTCGATGCTCACACAGAGCTAAGGTAGTCCACAACATATGCGGAATACTACCAAT
91186372 C
1 C
91186373 ACTATACTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (56 bp):
CTTCGATGCTCACACAGAGCTAAGGTAGTCCACAACATATGCGGAATACTACCAAT
Found at i:91202318 original size:15 final size:15
Alignment explanation
Indices: 91202298--91202330 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
91202288 TGGTTAATTG
*
91202298 TAATTAAGGTTTAAT
1 TAATTAAAGTTTAAT
91202313 TAATTAAAGTTTAAT
1 TAATTAAAGTTTAAT
91202328 TAA
1 TAA
91202331 GTGATTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (15 bp):
TAATTAAAGTTTAAT
Found at i:91209989 original size:53 final size:53
Alignment explanation
Indices: 91209909--91210015 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
91209899 CAATTATATA
91209909 AAAAACTTTGTAGTGTCACTGAAATAGAACAATATGCTCGAGCATTTATCCTG
1 AAAAACTTTGTAGTGTCACTGAAATAGAACAATATGCTCGAGCATTTATCCTG
91209962 AAAAACTTTGTAGTGTCACTGAAATAGAACAATATGCTCGAGCATTTATCCTG
1 AAAAACTTTGTAGTGTCACTGAAATAGAACAATATGCTCGAGCATTTATCCTG
91210015 A
1 A
91210016 GGTTAATTGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (53 bp):
AAAAACTTTGTAGTGTCACTGAAATAGAACAATATGCTCGAGCATTTATCCTG
Found at i:91211303 original size:6 final size:6
Alignment explanation
Indices: 91211292--91211322 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
91211282 CGAAGGTATG
*
91211292 AGATGA AGATGA AGATGG AGATGA AGATGA A
1 AGATGA AGATGA AGATGA AGATGA AGATGA A
91211323 AGTGGAGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
AGATGA
Found at i:91211475 original size:27 final size:27
Alignment explanation
Indices: 91211394--91211475 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
91211384 ATTTTCCAGT
* **
91211394 AGGCTTGGTGAGTAGGGGTTTGCCAGA
1 AGGCTTGGTGAGCAGGGGTTTATCAGA
* *
91211421 AGGCTTAGTGAGCAGGGGTTTATTAGA
1 AGGCTTGGTGAGCAGGGGTTTATCAGA
91211448 AGGCTTGGTGAGCAGGGGGTTT-TCAGA
1 AGGCTTGGTGAGCA-GGGGTTTATCAGA
91211475 A
1 A
91211476 AGCCTAGCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 40 0.85
28 7 0.15
ACGTcount: A:0.22, C:0.10, G:0.41, T:0.27
Consensus pattern (27 bp):
AGGCTTGGTGAGCAGGGGTTTATCAGA
Found at i:91213555 original size:19 final size:17
Alignment explanation
Indices: 91213518--91213556 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
91213508 TTACAATGCG
*
91213518 AATATTTGAATTTATTA
1 AATATTTGAATTTAGTA
91213535 AATATTTGAAATTTTAGTA
1 AATATTTG-AA-TTTAGTA
91213554 AAT
1 AAT
91213557 TTTTATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (17 bp):
AATATTTGAATTTAGTA
Found at i:91213597 original size:27 final size:28
Alignment explanation
Indices: 91213567--91213626 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
91213557 TTTTATAGTT
91213567 TTTTTGTAA-TTTTAT-ATTTTTAATATA
1 TTTTTGTAATTTTTATCATTTTTAA-ATA
*
91213594 TTTTTGTAATTTTTTTCATTTTTAAATA
1 TTTTTGTAATTTTTATCATTTTTAAATA
91213622 TTTTT
1 TTTTT
91213627 ATTAGAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 9 0.30
28 13 0.43
29 8 0.27
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTTGTAATTTTTATCATTTTTAAATA
Found at i:91213598 original size:28 final size:29
Alignment explanation
Indices: 91213566--91213626 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
91213556 TTTTTATAGT
91213566 TTTTTTGTAA-TTTTAT-ATTTTT-AATA
1 TTTTTTGTAATTTTTATCATTTTTAAATA
*
91213592 TATTTTTGTAATTTTTTTCATTTTTAAATA
1 T-TTTTTGTAATTTTTATCATTTTTAAATA
91213622 TTTTT
1 TTTTT
91213627 ATTAGAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.03
27 9 0.30
28 5 0.17
29 10 0.33
30 5 0.17
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (29 bp):
TTTTTTGTAATTTTTATCATTTTTAAATA
Found at i:91218488 original size:17 final size:17
Alignment explanation
Indices: 91218468--91218500 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
91218458 ATAAAGAATG
91218468 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
91218485 TTATTAAATTATATTT
1 TTATTAAATTATATTT
91218501 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:91218781 original size:16 final size:16
Alignment explanation
Indices: 91218746--91218784 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
91218736 TGAATTACTT
* *
91218746 ATTACAGCTCTATTTA
1 ATTACAGCCCTATTCA
*
91218762 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
91218778 ATTACAG
1 ATTACAG
91218785 TGAACCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:91221181 original size:75 final size:74
Alignment explanation
Indices: 91221025--91221240 Score: 182
Period size: 74 Copynumber: 2.9 Consensus size: 74
91221015 TGTATTTTAC
* * * *
91221025 ATCAATAATATACTCATTTACAACCTATGAAAAAAACTAAAAAATTGTTTGTATTGTCTTTTATT
1 ATCAATAATATACCCATTTACAACCTACGAAAAAAACTAAAAAATTGTTTGTATTGTATTCTATT
* ***
91221090 GTATTTCAT
66 GCATCGAAT
* * *** * *
91221099 ATCAATAATATACCCATTTACAATCTACGAAAAAAATTAAATTTTTTTTTTGTGTTGTATTCTAT
1 ATCAATAATATACCCATTTACAACCTACGAAAAAAACTAAA-AAATTGTTTGTATTGTATTCTAT
91221164 TGCATCGAAT
65 TGCATCGAAT
*** * * *
91221174 ATCAATAATATAAACTTGTTTACAATCTATGAAAAAGAA-TAAAAAATTTTGTTTATATTGTATT
1 ATCAATAATAT--ACCCATTTACAACCTACGAAAAA-AACTAAAAAA--TTGTTTGTATTGTATT
91221238 CTA
61 CTA
91221241 CTATATATTA
Statistics
Matches: 111, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
74 37 0.33
75 33 0.30
77 23 0.21
78 18 0.16
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (74 bp):
ATCAATAATATACCCATTTACAACCTACGAAAAAAACTAAAAAATTGTTTGTATTGTATTCTATT
GCATCGAAT
Found at i:91222304 original size:27 final size:27
Alignment explanation
Indices: 91222282--91222567 Score: 313
Period size: 27 Copynumber: 10.6 Consensus size: 27
91222272 TTAGTTTACC
* * *
91222282 AAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
91222309 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
91222336 AAATCACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
91222363 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
91222390 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* ** *
91222417 AAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
91222444 AAATTACC-AAATACCCCTGGATTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
*
91222470 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
91222497 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * * *
91222524 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTATA
**
91222551 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
91222568 TCGACCTGTA
Statistics
Matches: 219, Mismatches: 39, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 21 0.10
27 198 0.90
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:91222349 original size:54 final size:54
Alignment explanation
Indices: 91222282--91222542 Score: 380
Period size: 54 Copynumber: 4.8 Consensus size: 54
91222272 TTAGTTTACC
* *
91222282 AAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
91222336 AAATCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
91222390 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
91222444 AAATTACC-AAATACCCCTGGATTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
91222497 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCT
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCCT
91222543 GATTTGTGAA
Statistics
Matches: 181, Mismatches: 24, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
53 45 0.25
54 133 0.73
55 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:91222419 original size:81 final size:80
Alignment explanation
Indices: 91222282--91222640 Score: 344
Period size: 81 Copynumber: 4.5 Consensus size: 80
91222272 TTAGTTTACC
* * * * * *
91222282 AAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
91222347 ATACCACTGGTTTGTA
66 ATACC-CTGGTTTGTA
* ** * *
91222363 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
* * *
91222428 ATACCTTTTGTTTATA
66 ATACC-CTGGTTTGTA
* *
91222444 AAATTACC-AAATACCCCTGGATTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
*
91222508 ATACCCCTAGTTTGTA
66 ATA-CCCTGGTTTGTA
* * * ** *** ***
91222524 AAATTACCAAAATATCCCTGATTTGTGAAATTACTGAAATA-CCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAA
**
91222588 AATACCCTCGACTTGTA
65 AATACCCT-GGTTTGTA
* * * **
91222605 AAATTACCAAAGTACCCTTGATTTACAAAATTACCA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCA
91222641 TTTTACCCTC
Statistics
Matches: 227, Mismatches: 47, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
80 75 0.33
81 152 0.67
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
ATACCCTGGTTTGTA
Found at i:91222513 original size:107 final size:107
Alignment explanation
Indices: 91222275--91222542 Score: 403
Period size: 107 Copynumber: 2.5 Consensus size: 107
91222265 GAATACTTTA
*
91222275 GTTTACCAAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
1 GTTTACAAAATTAC-AAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
* *
91222340 CACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTG
65 CACCAAAATACCACTGGATTGTAAAATTACCAAAATACCCCTG
* *
91222383 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCTTTTGTTTATAAAAT
1 GTTTACAAAATTA-CAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAAT
* *
91222448 TACC-AAATACCCCTGGATTGTAAAATTACCAAAATACCCCTG
65 CACCAAAATACCACTGGATTGTAAAATTACCAAAATACCCCTG
** *
91222490 GTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCT
1 GTTTACAAAATTA-CAAAATACCCCTAGTTTGTAAAATTACTAAAATA-CCCT
91222543 GATTTGTGAA
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
107 79 0.54
108 66 0.45
109 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (107 bp):
GTTTACAAAATTACAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
ACCAAAATACCACTGGATTGTAAAATTACCAAAATACCCCTG
Found at i:91222620 original size:27 final size:27
Alignment explanation
Indices: 91222282--91222676 Score: 286
Period size: 27 Copynumber: 14.7 Consensus size: 27
91222272 TTAGTTTACC
* *
91222282 AAATTACTAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
91222309 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
91222336 AAATCACCAAAATACCACT-GGTTTGTA
1 AAATTACCAAAATACC-CTCGATTTGTA
* * **
91222363 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
91222390 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
91222417 AAATTACTAAAATACCTTTTG-TTTATA
1 AAATTACCAAAATACC-CTCGATTTGTA
*
91222444 AAATTACC-AAATACCCCTGGA-TTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
*
91222470 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
91222497 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
91222524 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
** **
91222551 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
91222578 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
91222605 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * **
91222632 AAATTACCATTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
91222659 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
91222677 TGTAGGGTAG
Statistics
Matches: 297, Mismatches: 56, Indels: 30
0.78 0.15 0.08
Matches are distributed among these distances:
26 29 0.10
27 262 0.88
28 6 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:91222693 original size:27 final size:27
Alignment explanation
Indices: 91222660--91222809 Score: 237
Period size: 27 Copynumber: 5.6 Consensus size: 27
91222650 CAATTTACAA
*
91222660 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
91222687 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
91222714 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
91222741 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
91222768 AATTACCGAAATACCCCTGTAGGATGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
91222795 AATTACCGAGATACC
1 AATTACCGAAATACC
91222810 TTGTGGGGTA
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:91223306 original size:22 final size:22
Alignment explanation
Indices: 91223254--91223318 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
91223244 TTAAAGCCTT
* *
91223254 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
91223276 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
91223298 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
91223319 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:91223507 original size:27 final size:27
Alignment explanation
Indices: 91223477--91223578 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
91223467 ATTCTGTTAA
* * *
91223477 GTGGCTTTGCCATATTATCTGTTTCTG
1 GTGGCTATGCCAAAATATCTGTTTCTG
*
91223504 GTGGCTATGCCACAAATATCTG-TTCTA
1 GTGGCTATGCCA-AAATATCTGTTTCTG
* * *
91223531 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCAAAATATCTGTTTCTG
* * * *
91223558 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCAAAATATCTG
91223579 ATAACTGAGA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.13
27 48 0.76
28 7 0.11
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCAAAATATCTGTTTCTG
Found at i:91223534 original size:54 final size:53
Alignment explanation
Indices: 91223476--91223578 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 53
91223466 TATTCTGTTA
* * * * *
91223476 AGTGGCTTTGCCATATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTGTTCT
* *
91223530 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTG
91223579 ATAACTGAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.19
54 34 0.81
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (53 bp):
AGTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTGTTCT
Found at i:91225496 original size:19 final size:20
Alignment explanation
Indices: 91225474--91225512 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
91225464 TGTGTATATA
91225474 TACCTT-TGTAAAGTATCGG
1 TACCTTATGTAAAGTATCGG
91225493 TACCTTGATGTAAAGTATCG
1 TACCTT-ATGTAAAGTATCG
91225513 ATACTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (20 bp):
TACCTTATGTAAAGTATCGG
Found at i:91226626 original size:22 final size:22
Alignment explanation
Indices: 91226601--91226645 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
91226591 ACATAAATCT
* *
91226601 TAAGCAAAGAGTACTGAAGTGC
1 TAAGCAAAGAGAACCGAAGTGC
*
91226623 TAAGCAGAGAGAACCGAAGTGC
1 TAAGCAAAGAGAACCGAAGTGC
91226645 T
1 T
91226646 GAATAGAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.16
Consensus pattern (22 bp):
TAAGCAAAGAGAACCGAAGTGC
Found at i:91226653 original size:22 final size:22
Alignment explanation
Indices: 91226628--91226670 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
91226618 AGTGCTAAGC
* *
91226628 AGAGAGAACCGAAGTGCTGAAT
1 AGAGAGAACCAAAGTACTGAAT
*
91226650 AGAGAGTACCAAAGTACTGAA
1 AGAGAGAACCAAAGTACTGAA
91226671 AAGAAAGCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.14, G:0.28, T:0.14
Consensus pattern (22 bp):
AGAGAGAACCAAAGTACTGAAT
Found at i:91228471 original size:57 final size:58
Alignment explanation
Indices: 91228407--91228526 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 58
91228397 TTTTTCAGGT
*
91228407 CATTTTCATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTT-C-ATTTCAC
1 CATTTTCATTTTCATTTTGGAAAAAACCACAATCATTTCCAAATG-TTTCCTATTTCAC
* ** *
91228464 CATTTTCATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTTTCCTATTTCTC
1 CATTTTCATTTTCATTTTGGAAAAAACCACAATCATTTCCAAATGTTTCCTATTTCAC
91228522 CATTT
1 CATTT
91228527 CACCAATTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
56 3 0.05
57 42 0.75
58 11 0.20
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (58 bp):
CATTTTCATTTTCATTTTGGAAAAAACCACAATCATTTCCAAATGTTTCCTATTTCAC
Found at i:91228553 original size:10 final size:10
Alignment explanation
Indices: 91228538--91228564 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
91228528 ACCAATTCTA
91228538 TTCATTTTTG
1 TTCATTTTTG
91228548 TTCATTTTTG
1 TTCATTTTTG
91228558 TTCATTT
1 TTCATTT
91228565 GATTCAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.70
Consensus pattern (10 bp):
TTCATTTTTG
Found at i:91232722 original size:42 final size:42
Alignment explanation
Indices: 91232674--91232785 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
91232664 TGAGATTATG
* *
91232674 TGTAAGACCATATTTGGGATATGGCATCGATATAAGACTT-CA
1 TGTAAGACCATATATGGGATATGGCATCGATACAAGA-TTACA
* * * *
91232716 TGTAAGACCATAGATGGGCTATTGGCATCGATACGAGATTATA
1 TGTAAGACCATATATGGGATA-TGGCATCGATACAAGATTACA
* *
91232759 TATAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATATGGGATATGGCAT
91232786 TAGTACGGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATATGGGATATGGCATCGATACAAGATTACA
Found at i:91235304 original size:49 final size:49
Alignment explanation
Indices: 91235244--91235403 Score: 270
Period size: 49 Copynumber: 3.3 Consensus size: 49
91235234 GTATGAGATA
91235244 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
91235293 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
91235342 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
91235389 TATAAATGTGATAAG
1 TATATATGTGATAAG
91235404 TCCCGAAGAG
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
47 17 0.16
49 89 0.84
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:91237658 original size:38 final size:38
Alignment explanation
Indices: 91237590--91237664 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
91237580 AACCCGAGTT
*
91237590 TAAAGACCCGCTGACTATATGAAGAAATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAAATTATGTCCGGG
* * *
91237628 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAAATTATGTCCGG
91237665 ATTAAAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAAATTATGTCCGGG
Found at i:91237777 original size:40 final size:40
Alignment explanation
Indices: 91237718--91237878 Score: 252
Period size: 40 Copynumber: 4.0 Consensus size: 40
91237708 AGGTCTCGAC
91237718 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
91237757 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
91237797 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
91237837 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
91237877 GA
1 GA
91237879 CGTGTATTCG
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 4 0.04
40 107 0.96
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:91241666 original size:49 final size:49
Alignment explanation
Indices: 91241606--91241863 Score: 457
Period size: 49 Copynumber: 5.3 Consensus size: 49
91241596 GTATGAGATA
91241606 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
91241655 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
91241704 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
91241753 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
91241802 TATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
91241849 TATAAATGTGATAAG
1 TATATATGTGATAAG
91241864 TCCCGAAGAG
Statistics
Matches: 202, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 16 0.08
49 186 0.92
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:91248761 original size:22 final size:21
Alignment explanation
Indices: 91248729--91248771 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
91248719 CCCCTATCAT
*
91248729 CCCACCCCCTCCTACCCCAAA
1 CCCACCCCCTCCCACCCCAAA
*
91248750 CCCACCCCCCTCCCCCCCCAAA
1 CCCA-CCCCCTCCCACCCCAAA
91248772 TTTTTTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.21, C:0.72, G:0.00, T:0.07
Consensus pattern (21 bp):
CCCACCCCCTCCCACCCCAAA
Found at i:91250201 original size:49 final size:49
Alignment explanation
Indices: 91250148--91250253 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
91250138 GAGTTCAGTG
* * *
91250148 TGGTTAT-ACATTCACGGGTTTAAGTATAACT-AGAGCTCCTAGTTGACGA
1 TGGTTATGACA-TCACGGGTTGAAGTATAACTCAG-GCCCCAAGTTGACGA
** *
91250197 TGGTTATGTGATCACGGGTTGAAGTATAACTCAGGCCCCAAGTTGACGG
1 TGGTTATGACATCACGGGTTGAAGTATAACTCAGGCCCCAAGTTGACGA
91250246 TGGTTATG
1 TGGTTATG
91250254 CGTCACAGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 46 0.94
50 3 0.06
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (49 bp):
TGGTTATGACATCACGGGTTGAAGTATAACTCAGGCCCCAAGTTGACGA
Found at i:91259785 original size:11 final size:11
Alignment explanation
Indices: 91259733--91259795 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
91259723 TTTGAGTCCA
*
91259733 TTTATTTTTAC
1 TTTATTTTTAT
91259744 TTTATTTTGT-T
1 TTTATTTT-TAT
*
91259755 TTTCCTTTTGT-T
1 TTT-ATTTT-TAT
91259767 TTTA-TTTTAT
1 TTTATTTTTAT
91259777 TTTATTTTTAT
1 TTTATTTTTAT
91259788 TTCTATTT
1 TT-TATTT
91259796 CCAGTTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
9 1 0.02
10 8 0.18
11 19 0.43
12 16 0.36
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:91263866 original size:27 final size:27
Alignment explanation
Indices: 91263836--91263888 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
91263826 ATAATTAAAG
91263836 ACAAATGAAA-TAAAATAATATAAAAAA
1 ACAAATGAAAGT-AAATAATATAAAAAA
* *
91263863 ACAATTTAAAGTAAATAATATAAAAA
1 ACAAATGAAAGTAAATAATATAAAAA
91263889 TGTTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (27 bp):
ACAAATGAAAGTAAATAATATAAAAAA
Found at i:91263994 original size:107 final size:108
Alignment explanation
Indices: 91263876--91264125 Score: 268
Period size: 106 Copynumber: 2.3 Consensus size: 108
91263866 ATTTAAAGTA
91263876 AATAATATAAAAATGTTTAAAATAAATAATATATAAAAAAAATTTAAAATCAATA-ATACAAAAA
1 AATAATATAAAAATGTTTAAAATAAATAATATATAAAAAAAATTTAAAAT-AA-ACA-ACAAAAA
* * *
91263940 AAT-GGTTCAAAATAAACAATATATGAAAAAAAAAT-TAACA-AAAT
63 AATCAGTTCAAAAGAAACAATATATG-AAAAAAAATCTAAAATAAAT
** * *
91263984 -ATAATAT-AAAATAGTTTAAAATAAATAAT-T-T-AAAGCAATTTAAAATAAACAACACATAAA
1 AATAATATAAAAAT-GTTTAAAATAAATAATATATAAAAAAAATTTAAAATAAACAACAAAAAAA
* * *
91264044 TCAGTTTAAAAGAAATAATATGTGAAAAAAAATCTAAAATAAAT
65 TCAGTTCAAAAGAAACAATATATGAAAAAAAATCTAAAATAAAT
*
91264088 AATATATATAATACA-GTTTAAAATAAATAATATATAAA
1 AATA-ATATAA-AAATGTTTAAAATAAATAATATATAAA
91264126 GCAATTCAAA
Statistics
Matches: 119, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
102 18 0.15
103 24 0.20
104 17 0.14
105 4 0.03
106 26 0.22
107 25 0.21
108 3 0.03
109 2 0.02
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (108 bp):
AATAATATAAAAATGTTTAAAATAAATAATATATAAAAAAAATTTAAAATAAACAACAAAAAAAT
CAGTTCAAAAGAAACAATATATGAAAAAAAATCTAAAATAAAT
Found at i:91264012 original size:158 final size:154
Alignment explanation
Indices: 91263860--91264293 Score: 388
Period size: 158 Copynumber: 2.8 Consensus size: 154
91263850 ATAATATAAA
* *
91263860 AAAACAATTTAAAGTAAATAATATAAAAATGTTTAAAATAAATAATATATAAAAAAAATTTAAAA
1 AAAACAATTTAAAATAAATAATATAAAAATGTTTAAAATAAATAATATATAAAAAAAATCTAAAA
* **
91263925 TCAATAATACA-AAAAAATGGTTCAAAATAAACAATATATGAAAAAAAAATTAACAAAAT-ATAA
66 TAAATAATACATAAAAAACAGTTCAAAATAAACAATATAT---AAAAAAATT--CAAAATAATAA
* *
91263988 TATA-AAATAGTTTAAAATAAATAAT-TT
126 TATAGAAACAATTTAAAATAAATAATATT
* * * * * * *
91264015 AAAGCAATTTAAAATAAACAACACATAAATCAGTTTAAAAGAAATAATATGTGAAAAAAAATCTA
1 AAAACAATTTAAAATAAATAATATAAAAAT--GTTTAAAATAAATAATATAT-AAAAAAAATCTA
* * * * * **
91264080 AAATAAATAATATATATAATACAGTTTAAAATAAATAATATATAAAGCAATTCAAAATAAATAAT
63 AAATAAATAATACATAAAAAACAGTTCAAAATAAACAATATATAAAAAAATTCAAAAT-AATAAT
91264145 ATATGAAACAATTTAAAATAAATAATATCT
127 ATA-GAAACAATTTAAAATAAATAATAT-T
* * *
91264175 AAAACAATTTAAAATAGATAATATAAAACA-GTTTAATATAAAT-A-ATAT--AAAAAATTTAAA
1 AAAACAATTTAAAATAAATAATATAAAA-ATGTTTAAAATAAATAATATATAAAAAAAATCTAAA
* * * * * * *
91264235 ATAAATAA-A-ATATAAAACCA-TTAAAAATAAATAGTATATAAAAAATTTAAAAAGAATAA
65 ATAAATAATACATA-AAAAACAGTTCAAAATAAACAATATATAAAAAAATTCAAAATAATAA
91264294 GTAAATAACA
Statistics
Matches: 226, Mismatches: 41, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
150 5 0.02
151 30 0.13
152 5 0.02
153 19 0.08
154 6 0.03
155 24 0.11
156 18 0.08
157 19 0.08
158 53 0.23
159 23 0.10
160 23 0.10
161 1 0.00
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (154 bp):
AAAACAATTTAAAATAAATAATATAAAAATGTTTAAAATAAATAATATATAAAAAAAATCTAAAA
TAAATAATACATAAAAAACAGTTCAAAATAAACAATATATAAAAAAATTCAAAATAATAATATAG
AAACAATTTAAAATAAATAATATT
Found at i:91264050 original size:50 final size:52
Alignment explanation
Indices: 91263843--91264286 Score: 371
Period size: 54 Copynumber: 8.6 Consensus size: 52
91263833 AAGACAAATG
* * *
91263843 AAATAAAATAATATAAAAAAACAATTTAAAGTAAATAATATAAAAAT--GTTTA
1 AAAT-AAATAATAT-ATAAAACAATTTAAAATAAATAATATATAAATCAGTTTA
* * * * * *
91263895 AAATAAATAATATATAAAAAAAATTTAAAATCAATAATACAAAAAAAT-GGTTCA
1 AAATAAATAATATAT-AAAACAATTTAAAATAAATAAT--ATATAAATCAGTTTA
* * *
91263949 AAATAAACAATATATGAAAAAAAAATTAACAA-AATATAATATA-AAAT-AGTTTA
1 AAATAAATAATATAT--AAAACAATTTAA-AATAA-ATAATATATAAATCAGTTTA
* * * *
91264002 AAATAAATAAT-T-TAAAGCAATTTAAAATAAACAACACATAAATCAGTTTA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAATCAGTTTA
* * * *
91264052 AAAGAAATAATATGTGAAAAAAAATCTAAAATAAATAATATATATAATACAGTTTA
1 AAATAAATAATATAT--AAAACAATTTAAAATAAATAATATATA-AAT-CAGTTTA
* * *
91264108 AAATAAATAATATATAAAGCAATTCAAAATAAATAATATATGAAA-CAATTTA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATAT-AAATCAGTTTA
* *
91264160 AAATAAATAATATCTAAAACAATTTAAAATAGATAATATA-AAA-CAGTTTA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAATCAGTTTA
* * * *
91264210 ATATAAAT-A-ATATAAAA-AATTTAAAATAAATAAAATATAAAACCA-TTAA
1 AAATAAATAATATATAAAACAATTTAAAATAAATAATATAT-AAATCAGTTTA
*
91264259 AAATAAATAGTATATAAAA-AATTTAAAA
1 AAATAAATAATATATAAAACAATTTAAAA
91264287 AGAATAAGTA
Statistics
Matches: 325, Mismatches: 45, Indels: 45
0.78 0.11 0.11
Matches are distributed among these distances:
47 18 0.06
48 14 0.04
49 29 0.09
50 35 0.11
51 47 0.14
52 48 0.15
53 25 0.08
54 65 0.20
55 17 0.05
56 27 0.08
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (52 bp):
AAATAAATAATATATAAAACAATTTAAAATAAATAATATATAAATCAGTTTA
Found at i:91264087 original size:28 final size:27
Alignment explanation
Indices: 91263843--91264286 Score: 313
Period size: 26 Copynumber: 17.1 Consensus size: 27
91263833 AAGACAAATG
*
91263843 AAATAAAATAATATAAAAAAACAATTTA
1 AAAT-AAATAATATATAAAAACAATTTA
* **
91263871 AAGTAAAT-A-ATATAAAAA-TGTTTA
1 AAATAAATAATATATAAAAACAATTTA
*
91263895 AAATAAATAATATATAAAAAAAATTTA
1 AAATAAATAATATATAAAAACAATTTA
* * * *** *
91263922 AAATCAATAATACAAAAAAATGGTTCA
1 AAATAAATAATATATAAAAACAATTTA
* * *
91263949 AAATAAACAATATATGAAAAAAAAATTA
1 AAATAAATAATATAT-AAAAACAATTTA
* * *
91263977 ACA-AAAT-ATA-ATATAAAATAGTTTA
1 AAATAAATAATATATA-AAAACAATTTA
*
91264002 AAATAAATAAT-T-T-AAAGCAATTTA
1 AAATAAATAATATATAAAAACAATTTA
* * * * *
91264026 AAATAAACAACACAT-AAATCAGTTTA
1 AAATAAATAATATATAAAAACAATTTA
* * * *
91264052 AAAGAAATAATATGTGAAAAAAAATCTA
1 AAATAAATAATATAT-AAAAACAATTTA
* *
91264080 AAATAAATAATATATATAATACAGTTTA
1 AAATAAATAATATATA-AAAACAATTTA
* *
91264108 AAATAAATAATATAT-AAAGCAATTCA
1 AAATAAATAATATATAAAAACAATTTA
*
91264134 AAATAAATAATATAT-GAAACAATTTA
1 AAATAAATAATATATAAAAACAATTTA
*
91264160 AAATAAATAATATCT-AAAACAATTTA
1 AAATAAATAATATATAAAAACAATTTA
* *
91264186 AAATAGAT-A-ATAT-AAAACAGTTTA
1 AAATAAATAATATATAAAAACAATTTA
*
91264210 ATATAAAT-A-ATAT-AAAA-AATTTA
1 AAATAAATAATATATAAAAACAATTTA
* * *
91264233 AAATAAATAAAATAT-AAAACCATTAA
1 AAATAAATAATATATAAAAACAATTTA
*
91264259 AAATAAATAGTATAT-AAAA-AATTTA
1 AAATAAATAATATATAAAAACAATTTA
91264284 AAA
1 AAA
91264287 AGAATAAGTA
Statistics
Matches: 326, Mismatches: 74, Indels: 35
0.75 0.17 0.08
Matches are distributed among these distances:
23 12 0.04
24 58 0.18
25 37 0.11
26 120 0.37
27 45 0.14
28 54 0.17
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATAAATAATATATAAAAACAATTTA
Found at i:91264109 original size:82 final size:78
Alignment explanation
Indices: 91264000--91264265 Score: 222
Period size: 82 Copynumber: 3.4 Consensus size: 78
91263990 TAAAATAGTT
* * * *
91264000 TAAAATAAATAAT-T-TAAAGCAATTTAAAATAAACAACACATAAATCAGTTTAAAAGAAATAAT
1 TAAAATAAATAATATATAAAACAATTTAAAATAAACAACACATAAAGCAATTCAAAAGAAATAAT
*
91264063 ATGTGAAAAAAAATC
66 ATATG--AAAAAATC
* * * * *
91264078 TAAAATAAATAATATATATAATACAGTTTAAAATAAATAATATATAAAGCAATTCAAAATAAATA
1 TAAAATAAATAATATATA-AA-ACAATTTAAAATAAACAACACATAAAGCAATTCAAAAGAAATA
* *
91264143 ATATATGAAACAATT
64 ATATATGAAAAAATC
* * * * * * * * *
91264158 TAAAATAAATAATATCTAAAACAATTTAAAATAGA-TA-ATATAAAACAGTTTAATATAAAT-A-
1 TAAAATAAATAATATATAAAACAATTTAAAATAAACAACACATAAAGCAATTCAAAAGAAATAAT
*
91264219 ATAT-AAAAAATT
66 ATATGAAAAAATC
* * *
91264231 TAAAATAAATAAAATATAAAACCATTAAAAATAAA
1 TAAAATAAATAATATATAAAACAATTTAAAATAAA
91264266 TAGTATATAA
Statistics
Matches: 158, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
73 37 0.23
74 4 0.03
75 1 0.01
76 19 0.12
77 1 0.01
78 26 0.16
79 3 0.02
80 25 0.16
81 2 0.01
82 40 0.25
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (78 bp):
TAAAATAAATAATATATAAAACAATTTAAAATAAACAACACATAAAGCAATTCAAAAGAAATAAT
ATATGAAAAAATC
Found at i:91265771 original size:44 final size:44
Alignment explanation
Indices: 91265581--91265795 Score: 180
Period size: 44 Copynumber: 4.9 Consensus size: 44
91265571 GAATTGTAAT
** * *
91265581 TTCAATCTATTCCACTACAACTTCAAGGAGATAAGATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAAC
* * * * **
91265625 CTCGATCTGCTTCACTGCAACTTC-AGGTAGATATGATTTATGCC
1 TTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTATAAC
* * * * ** *
91265669 TTCAATCTGCTCTACTGCAACTTTAAAGAGATGAGAATTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG-ATTTATAAC
* * **
91265714 TTCAATCTGCTCCACTGCAGCTTCAAGGAGATAAGATTAATGGC
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAAC
* * * *
91265758 TTCAATCTTCTCCACTGTAGCTTCAGGGAGATAAGATT
1 TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
91265796 CACCATGGTA
Statistics
Matches: 134, Mismatches: 34, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
43 3 0.02
44 94 0.70
45 37 0.28
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAAC
Found at i:91265966 original size:44 final size:44
Alignment explanation
Indices: 91265877--91266028 Score: 164
Period size: 44 Copynumber: 3.4 Consensus size: 44
91265867 ATTCCACTAT
* * *
91265877 AACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCTCCACTGC
* *
91265922 AACTTCAGGGAGATAAGATTTGTAACTTCAACCTGGTCCACTGC
1 AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
* * * ** *
91265966 AAATTCAGGGGGATAAGGTTTGTGGCCTT-AATCTGCTCTC-CTTC
1 AACTTCAGGGAGATAAGATTTGT-AACTTCAATCTGCTC-CACTGC
91266010 AACTTCAGGGAGATAAGAT
1 AACTTCAGGGAGATAAGAT
91266029 CCGCCATGAT
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
44 65 0.73
45 24 0.27
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCTCCACTGC
Found at i:91270462 original size:36 final size:37
Alignment explanation
Indices: 91270388--91270498 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
91270378 ATCCATATGA
*
91270388 TTGGTTATGAATGAAATGGAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
91270425 TTGGTTATGAATGAAATGAAAAGAAT-AAAGAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
*
91270461 TTAGTTATGAATGAAATGAAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
91270498 T
1 T
91270499 GCTCAGAATG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
36 35 0.49
37 36 0.51
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (37 bp):
TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
Found at i:91277893 original size:24 final size:24
Alignment explanation
Indices: 91277854--91277914 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 24
91277844 AAATGAATTA
*
91277854 AAATAATATACAAAAACAATTT-AAAGT
1 AAATAATAT--AAAAA-GATTTGAAA-T
*
91277881 AAATAATATAAAAAGGTTTGAAAT
1 AAATAATATAAAAAGATTTGAAAT
91277905 AAATAATATA
1 AAATAATATA
91277915 TGAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 14 0.45
25 8 0.26
27 9 0.29
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (24 bp):
AAATAATATAAAAAGATTTGAAAT
Found at i:91278016 original size:26 final size:26
Alignment explanation
Indices: 91277854--91278264 Score: 285
Period size: 26 Copynumber: 16.0 Consensus size: 26
91277844 AAATGAATTA
* *
91277854 AAATAATATACAAAAACAATTTAAAGT
1 AAATAATATA-TAAAACAATTTAAAAT
** *
91277881 AAATAATATA-AAAA-GGTTTGAAAT
1 AAATAATATATAAAACAATTTAAAAT
*****
91277905 AAATAATATATGAATTTTTTTTTAAAAT
1 AAATAATATAT-AA-AACAATTTAAAAT
* * *
91277933 AAATAATACAAAAAAAAATAGTTCAAAAT
1 AAATAATATATAAAACAAT--TT-AAAAT
* * * *
91277962 AAACAATATATGAAAAAAAATTAACAT
1 AAATAATATAT-AAAACAATTTAAAAT
* * *
91277989 AAATAAAATATAAAACAGTTTGAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
91278015 AAAT-AT-T-TAAAGCAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* * * *
91278038 AAACAATACATAAAACAGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
91278064 AAAATAATATA-AAAAGCAATTCAAAAT
1 -AAATAATATATAAAA-CAATTTAAAAT
*
91278091 AAATAATATATGAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
91278117 AAATAATATCTAAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* * *
91278143 AGAT-A-ATATAAAACAGTTTAATAT
1 AAATAATATATAAAACAATTTAAAAT
91278167 AAATAATATAT-AAA-AATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* ** *
91278191 AAATAAAATATAAAACCGTTAAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
91278217 AAATAGTATATAAAA-AA-TTAAAA-
1 AAATAATATATAAAACAATTTAAAAT
*
91278240 AGAATAA-ATA-AATAACAAATTAAAA
1 A-AATAATATATAA-AACAATTTAAAA
91278265 GGTTAAAATC
Statistics
Matches: 300, Mismatches: 62, Indels: 46
0.74 0.15 0.11
Matches are distributed among these distances:
22 2 0.01
23 22 0.07
24 67 0.22
25 19 0.06
26 105 0.35
27 45 0.15
28 20 0.07
29 13 0.04
30 7 0.02
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATAATATATAAAACAATTTAAAAT
Found at i:91278020 original size:50 final size:50
Alignment explanation
Indices: 91277969--91278247 Score: 251
Period size: 50 Copynumber: 5.5 Consensus size: 50
91277959 AATAAACAAT
* *
91277969 ATATGAAAAAAAATTAACATAAATAAAATATAAAACAGTTTGAAATAAAT-
1 ATAT-AAAAAAAATTAAAATAAATAAAATATAAAACAGTTTAAAATAAATA
* ** * * * * *
91278019 ATTTAAAGCAATTTAAAATAAACAATACATAAAACAGTTAAAAATAAAATA
1 ATATAAAAAAAATTAAAATAAATAAAATATAAAACAGTTTAAAAT-AAATA
* * * *
91278070 ATATAAAAAGCAATTCAAAATAAATAATATATGAAACAATTTAAAATAAATA
1 ATATAAAAA-AAATT-AAAATAAATAAAATATAAAACAGTTTAAAATAAATA
* * * *
91278122 ATATCTAAAACAATTTAAAATAGAT--AATATAAAACAGTTTAATATAAATA
1 ATA--TAAAAAAAATTAAAATAAATAAAATATAAAACAGTTTAAAATAAATA
* * * *
91278172 ATATATAAAAATTTAAAATAAATAAAATATAAAACCGTTAAAAATAAATA
1 ATATAAAAAAAATTAAAATAAATAAAATATAAAACAGTTTAAAATAAATA
* *
91278222 GTATATAAAAAATTAAAA-AGAATAAA
1 ATATAAAAAAAATTAAAATA-AATAAA
91278248 TAAATAACAA
Statistics
Matches: 184, Mismatches: 36, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
48 17 0.09
49 33 0.18
50 75 0.41
51 6 0.03
52 19 0.10
53 29 0.16
54 5 0.03
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.27
Consensus pattern (50 bp):
ATATAAAAAAAATTAAAATAAATAAAATATAAAACAGTTTAAAATAAATA
Found at i:91278041 original size:76 final size:75
Alignment explanation
Indices: 91277957--91278205 Score: 233
Period size: 76 Copynumber: 3.3 Consensus size: 75
91277947 AAAATAGTTC
*
91277957 AAAATAAACAATATATGAAAAAAAATTAACATAAATAAAATATAAAACAGTTTGAAATAAAT-AT
1 AAAATAAACAATATAT-AAAAAAAATTAAAATAAAT-AAATATAAAACAGTTT-AAATAAATAAT
91278021 -T-TAAAGCAATTT
63 ATATAAA-CAATTT
* * * * *
91278033 AAAATAAACAATACAT-AAAACAGTTAAAAATAAA-ATAATATAAAAAGCAATTCAAAATAAATA
1 AAAATAAACAATATATAAAAAAAATT-AAAATAAATA-AATAT-AAAA-CAGTT-TAAATAAATA
91278096 ATATATGAAACAATTT
61 ATATAT-AAACAATTT
* * * * *
91278112 AAAATAAATAATATCTAAAACAATTTAAAATAGAT-AATATAAAACAGTTTAATATAAATAATAT
1 AAAATAAACAATATATAAAAAAAATTAAAATAAATAAATATAAAACAGTTTAA-ATAAATAATAT
91278176 ATAAA-AATTT
65 ATAAACAATTT
* *
91278186 AAAATAAATAAAATATAAAA
1 AAAATAAACAATATATAAAA
91278206 CCGTTAAAAA
Statistics
Matches: 144, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
73 1 0.01
74 35 0.24
75 16 0.11
76 44 0.31
77 6 0.04
78 6 0.04
79 27 0.19
80 9 0.06
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (75 bp):
AAAATAAACAATATATAAAAAAAATTAAAATAAATAAATATAAAACAGTTTAAATAAATAATATA
TAAACAATTT
Found at i:91278216 original size:74 final size:74
Alignment explanation
Indices: 91277995--91278231 Score: 266
Period size: 74 Copynumber: 3.1 Consensus size: 74
91277985 ACATAAATAA
* *
91277995 AATATAAAACAGTTTGAAATAAAT-AT-T-TAAAGCAATTTAAAATAAACAATACATAAAACAGT
1 AATATAAAACAGTTT-AAATAAATAATATATAAA-CAATTTAAAATAAATAATATATAAAACAGT
91278057 TAAAAATAAAAT
64 TAAAAAT-AAAT
* * *
91278069 AATATAAAAAGCAATTCAAAATAAATAATATATGAAACAATTTAAAATAAATAATATCTAAAACA
1 AATAT-AAAA-CAGTT-TAAATAAATAATATAT-AAACAATTTAAAATAAATAATATATAAAACA
* * *
91278134 ATTTAAAATAGAT
62 GTTAAAAATAAAT
* *
91278147 AATATAAAACAGTTTAATATAAATAATATATAAA-AATTTAAAATAAATAAAATATAAAACCGTT
1 AATATAAAACAGTTTAA-ATAAATAATATATAAACAATTTAAAATAAATAATATATAAAACAGTT
91278211 AAAAATAAAT
65 AAAAATAAAT
91278221 AGTATATAAAA
1 A--ATATAAAA
91278232 AATTAAAAAG
Statistics
Matches: 137, Mismatches: 16, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
74 40 0.29
75 9 0.07
76 37 0.27
77 6 0.04
78 9 0.07
79 33 0.24
80 3 0.02
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.28
Consensus pattern (74 bp):
AATATAAAACAGTTTAAATAAATAATATATAAACAATTTAAAATAAATAATATATAAAACAGTTA
AAAATAAAT
Found at i:91278885 original size:20 final size:19
Alignment explanation
Indices: 91278861--91278906 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
91278851 AGATTTGTAA
91278861 AAAAAAAAAACAAGAAACAAG
1 AAAAAAAAAA-AA-AAACAAG
91278882 AAAACAAAAAAAAAAACAAG
1 AAAA-AAAAAAAAAAACAAG
*
91278902 GAAAA
1 AAAAA
91278907 GATCAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 10 0.43
21 6 0.26
22 6 0.26
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAACAAG
Found at i:91280856 original size:2 final size:2
Alignment explanation
Indices: 91280788--91280837 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
91280778 CATTACATAA
*
91280788 AT AT AT ACT -T AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91280830 AT AT AT AT
1 AT AT AT AT
91280838 TAAAGATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91281264 original size:3 final size:3
Alignment explanation
Indices: 91281245--91281302 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
91281235 GTATATGCAT
* *
91281245 ATA ATA A-A AT- ATT ATA ATA AGA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91281291 ATA ATA ATA ATA
1 ATA ATA ATA ATA
91281303 TGAAAATACA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:91281807 original size:14 final size:16
Alignment explanation
Indices: 91281781--91281815 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
91281771 AAAAAAAGGA
91281781 GAGAAAGGGAGA-GGG
1 GAGAAAGGGAGAGGGG
91281796 GAGAAA-GGAGAGGGG
1 GAGAAAGGGAGAGGGG
91281811 GAGAA
1 GAGAA
91281816 GAGAAGGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (16 bp):
GAGAAAGGGAGAGGGG
Found at i:91283249 original size:14 final size:14
Alignment explanation
Indices: 91283225--91283277 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
91283215 TTAAAAATAT
*
91283225 AAATTGAAAAAACAG
1 AAATTG-AAAAGCAG
91283240 AAATTGAAAAGCAG
1 AAATTGAAAAGCAG
*
91283254 AAATT-AAGAGCAG
1 AAATTGAAAAGCAG
*
91283267 AATTTGAAAAG
1 AAATTGAAAAG
91283278 TAGATTTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.33
14 16 0.48
15 6 0.18
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.17
Consensus pattern (14 bp):
AAATTGAAAAGCAG
Found at i:91283616 original size:70 final size:70
Alignment explanation
Indices: 91283501--91283965 Score: 423
Period size: 70 Copynumber: 6.5 Consensus size: 70
91283491 AGAAGTTAAA
* * * * * ** * *
91283501 AGGCTTAACTCATCTTTCGCAAGATGAGTCAATTTTCTAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGGAACATAAATTAAAAATACCTCAACGTG
* *
91283566 CCCCG
66 TCCTG
* ** * * *
91283571 AGGCTCAATTCATTTCTCGCAATATGAGTCGATTTTGGAATATAAATTGAAATTACCTCAACGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGGAACATAAATTAAAAATACCTCAACGTG
*
91283636 TCTTG
66 TCCTG
* *
91283641 AGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTTGGAACATAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTC-GATTTTGGAACATAAATTAAAAATACCTCAACGT
*
91283705 GTCTTG
65 GTCCTG
* * * *
91283711 AGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTTTGAAACAACAGGAATTAAAAACATCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTC-GA-TTTTGGAAC-ATA--AATTAAAAATACCTCA
* *
91283775 GCGTGACCTG
61 ACGTGTCCTG
** ** * * *
91283785 AGGCTTGACTCACCTCTCGCAATATGAGTTAAAATTCTTGAAACATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAG-T-CGATT-TTGGAACATAAATTAAAAATACCTCAAC
91283850 GTGTGACCTG
63 GTGT--CCTG
** * * * * *
91283860 AGGCTCAACTCATTTCTCGCAATATGAATTGATTTTTGAACATAAATTGAAATTACCTCAACGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGGAACATAAATTAAAAATACCTCAACGTG
*
91283925 TCTTG
66 TCCTG
91283930 AGGCTCAACTCACCTCTCGCAATATGAG-CTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTC-GATTTT
91283966 CTTGGAAAAC
Statistics
Matches: 327, Mismatches: 56, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
69 1 0.00
70 184 0.56
71 8 0.02
72 28 0.09
73 21 0.06
74 46 0.14
75 31 0.09
76 8 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTGGAACATAAATTAAAAATACCTCAACGTG
TCCTG
Found at i:91302586 original size:2 final size:2
Alignment explanation
Indices: 91302524--91302567 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
91302514 CATTACATAA
*
91302524 AT AT AT ACT -T AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91302566 AT
1 AT
91302568 TAAAGATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.95
3 1 0.03
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91302993 original size:3 final size:3
Alignment explanation
Indices: 91302975--91303058 Score: 152
Period size: 3 Copynumber: 28.0 Consensus size: 3
91302965 GTATATGCAT
91302975 ATA ATA A-A ATA TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91303020 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91303059 TGAAAATACA
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 74 0.94
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:91303562 original size:14 final size:16
Alignment explanation
Indices: 91303536--91303570 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
91303526 AAAAAAAGGA
91303536 GAGAAAGGGAGA-GGG
1 GAGAAAGGGAGAGGGG
91303551 GAGAAA-GGAGAGGGG
1 GAGAAAGGGAGAGGGG
91303566 GAGAA
1 GAGAA
91303571 GAGAAGGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (16 bp):
GAGAAAGGGAGAGGGG
Found at i:91304956 original size:15 final size:15
Alignment explanation
Indices: 91304936--91304966 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
91304926 AAATATGAAA
91304936 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
91304951 GATATGTTTTGTATT
1 GATATGTTTTGGATT
91304966 G
1 G
91304967 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:91305578 original size:45 final size:45
Alignment explanation
Indices: 91305516--91305732 Score: 234
Period size: 45 Copynumber: 5.0 Consensus size: 45
91305506 TTTTGCTATG
*
91305516 TGTTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGATATATA
1 TGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATA
* * *
91305561 TGTTTTCGTGTAAGACCACGTCTGAGCCGTTGGCATTGATATATA
1 TGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATA
* *
91305606 TGTTTTCGTGTAAGACCACGTCTGGGACGTTGACATCG--ATATG
1 TGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATA
* * * * * *
91305649 TGGTTACGAGTAAGACCATGTCTGGGACATCGGCATCG-TAT-T-
1 TGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATA
* *
91305691 TGATTT-GTGTAAGACC-CTATCTGGGACAG-TGGCATCGATATA
1 TGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATA
91305733 GCATGTAAGA
Statistics
Matches: 144, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
41 24 0.17
42 7 0.05
43 36 0.25
44 2 0.01
45 75 0.52
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (45 bp):
TGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATA
Found at i:91305752 original size:38 final size:41
Alignment explanation
Indices: 91305658--91305754 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
91305648 GTGGTTACGA
* ***
91305658 GTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTGT
1 GTAAGACCATGTCTGGGACATCGGCATCGTATATGATGCAT
* *
91305699 GTAAGACCCTATCTGGGACAGT-GGCATCG-ATAT-A-GCAT
1 GTAAGACCATGTCTGGGACA-TCGGCATCGTATATGATGCAT
91305737 GTAAGACCATGTCTGGGA
1 GTAAGACCATGTCTGGGA
91305755 TGTTGGTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
38 17 0.36
39 1 0.02
40 3 0.06
41 25 0.53
42 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
GTAAGACCATGTCTGGGACATCGGCATCGTATATGATGCAT
Found at i:91306823 original size:14 final size:14
Alignment explanation
Indices: 91306801--91306834 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
91306791 GGTTGATGAA
91306801 TATAAATATTGAGT
1 TATAAATATTGAGT
*
91306815 TATATATATTGAGT
1 TATAAATATTGAGT
91306829 TGATAA
1 T-ATAA
91306835 TGTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
TATAAATATTGAGT
Found at i:91310023 original size:3 final size:3
Alignment explanation
Indices: 91310017--91310047 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
91310007 TTTTTTTTTT
*
91310017 TTG TTG TTG TTG TTA TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
91310048 GTTTTTGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:91313161 original size:14 final size:15
Alignment explanation
Indices: 91313142--91313170 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91313132 CGAGAATAGT
91313142 AAAAAAATA-TAAAA
1 AAAAAAATAGTAAAA
91313156 AAAAAAATAGTAAAA
1 AAAAAAATAGTAAAA
91313171 TCTTGATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAAAATAGTAAAA
Found at i:91321673 original size:18 final size:19
Alignment explanation
Indices: 91321637--91321681 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
91321627 AATAGAGTTC
*
91321637 AAAATATAAAGACAAAATA
1 AAAATAAAAAGACAAAATA
*
91321656 AACATAAAAAGA-AAAATA
1 AAAATAAAAAGACAAAATA
91321674 AAAATAAA
1 AAAATAAA
91321682 TCTAAAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAATAAAAAGACAAAATA
Found at i:91327319 original size:23 final size:21
Alignment explanation
Indices: 91327282--91327336 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
91327272 TGCTAGAAGC
*
91327282 AAACAAAAAGTAAATTAAAGTAA
1 AAACAAAAA-TAAATGAAA-TAA
*
91327305 AAACAAAAATAAAATGCAATAA
1 AAACAAAAAT-AAATGAAATAA
*
91327327 AAATAAAAAT
1 AAACAAAAAT
91327337 GGCTAAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (21 bp):
AAACAAAAATAAATGAAATAA
Found at i:91328437 original size:30 final size:30
Alignment explanation
Indices: 91328397--91328468 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
91328387 GGCATGTGGC
*
91328397 CAGCCTGTGTGGTTCACACGGGCGTGTACT
1 CAGCCCGTGTGGTTCACACGGGCGTGTACT
* *
91328427 CAGCCCGTGTGGTTCACACGGGTGTGTGCT
1 CAGCCCGTGTGGTTCACACGGGCGTGTACT
*
91328457 TAGCCCGTGTGG
1 CAGCCCGTGTGG
91328469 GATTGGCTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.11, C:0.26, G:0.36, T:0.26
Consensus pattern (30 bp):
CAGCCCGTGTGGTTCACACGGGCGTGTACT
Found at i:91329159 original size:25 final size:25
Alignment explanation
Indices: 91329131--91329191 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
91329121 AAACGATAAC
*
91329131 AATGCTCACACAAGCTGGGA-TAGTA
1 AATGCTCACACAAGCTAGGACT-GTA
*
91329156 AATGCTCACACAAGCTATGACTGTA
1 AATGCTCACACAAGCTAGGACTGTA
91329181 AATGCTCACAC
1 AATGCTCACAC
91329192 GAGTTGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (25 bp):
AATGCTCACACAAGCTAGGACTGTA
Found at i:91331515 original size:20 final size:21
Alignment explanation
Indices: 91331475--91331521 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
91331465 TTATAATGTA
*
91331475 TTAAAATTATCAAATTAAATT
1 TTAAAATTATAAAATTAAATT
* *
91331496 TTAAATTTATAAAATTAATTT
1 TTAAAATTATAAAATTAAATT
91331517 TTAAA
1 TTAAA
91331522 GTTTTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAATTATAAAATTAAATT
Found at i:91332741 original size:12 final size:13
Alignment explanation
Indices: 91332723--91332757 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
91332713 TCGATATCTC
91332723 AATTTCAATTCAT
1 AATTTCAATTCAT
91332736 -ATTTCAATTCAT
1 AATTTCAATTCAT
91332748 AATTTCAATT
1 AATTTCAATT
91332758 TCTCATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:91333097 original size:47 final size:47
Alignment explanation
Indices: 91333037--91333137 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
91333027 ACCAAAACAC
* * * **
91333037 CAGTATGGCACTCAGTGCCTCATCGGCTT-TGCCGAAGTAAACAGTAA
1 CAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGT-AACAGTAA
* *
91333084 CAGTACGGTACTCATTACCTCATCGGATTAAACCGAAGTAACAGTAA
1 CAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGTAACAGTAA
91333131 CAGTACG
1 CAGTACG
91333138 ACACACAAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
47 39 0.85
48 7 0.15
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (47 bp):
CAGTACGGCACTCAGTACCTCATCGGATTAAACCGAAGTAACAGTAA
Found at i:91334363 original size:24 final size:23
Alignment explanation
Indices: 91334336--91334400 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 23
91334326 ATCTCTAATT
91334336 TTTCCTTTTTCTTTTCTTTCTGTC
1 TTTCCTTTTTCTTTTCTTTCT-TC
91334360 TTTCCTTTCAATCTCTTTTCTTTCTTC
1 TTTCCTTT---T-TCTTTTCTTTCTTC
*
91334387 TTT-ATTTTTCTTTT
1 TTTCCTTTTTCTTTT
91334401 GTTTTATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 6 0.17
23 1 0.03
24 8 0.22
26 3 0.08
27 6 0.17
28 12 0.33
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTCCTTTTTCTTTTCTTTCTTC
Found at i:91334914 original size:3 final size:3
Alignment explanation
Indices: 91334906--91334948 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
91334896 TGTATCATTT
91334906 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
91334949 TAAATCTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:91335909 original size:38 final size:36
Alignment explanation
Indices: 91335856--91335932 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 36
91335846 ACCTTACAAT
* *
91335856 CTCCCTTAATATTTCTACCCCAAACCTTAAGATTGCAA
1 CTCCCTTAAGATTTCTA-CCAAAACCTTAAGATT-CAA
*
91335894 CTCCCTTAAGGTTTCTACCAAAACCTTAAGATTCAA
1 CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
91335930 CTC
1 CTC
91335933 TTTCAAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 6 0.17
37 15 0.42
38 15 0.42
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (36 bp):
CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
Found at i:91353161 original size:22 final size:21
Alignment explanation
Indices: 91353128--91353184 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 21
91353118 GCAAGTGAGA
*
91353128 AGATTCGTTTTCCCAATCTAG
1 AGATTCATTTTCCCAATCTAG
91353149 AGATTTCATTTTCCCAATCTAG
1 AGA-TTCATTTTCCCAATCTAG
91353171 AGATTCATTATTCC
1 AGATTCATT-TTCC
91353185 GCACTTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (21 bp):
AGATTCATTTTCCCAATCTAG
Found at i:91356113 original size:11 final size:11
Alignment explanation
Indices: 91356097--91356128 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
91356087 GGGTTAAAAT
91356097 GATTTTTTGGA
1 GATTTTTTGGA
91356108 GATTTTTTGGA
1 GATTTTTTGGA
91356119 GATTTTTTGG
1 GATTTTTTGG
91356129 CATTTATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (11 bp):
GATTTTTTGGA
Found at i:91360323 original size:19 final size:19
Alignment explanation
Indices: 91360284--91360325 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
91360274 CCTATTTTTA
*
91360284 CATTCATTGCATGCATTTG
1 CATTCATTGCATGCATATG
91360303 CATTGCATTGCAT-CATATG
1 CATT-CATTGCATGCATATG
91360322 CATT
1 CATT
91360326 AAATTTCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (19 bp):
CATTCATTGCATGCATATG
Found at i:91361023 original size:15 final size:15
Alignment explanation
Indices: 91360999--91361028 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91360989 CTAGTGCTCC
91360999 CTCCAAAGTTTAAAA
1 CTCCAAAGTTTAAAA
*
91361014 CTCCAGAGTTTAAAA
1 CTCCAAAGTTTAAAA
91361029 AGTATAATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (15 bp):
CTCCAAAGTTTAAAA
Found at i:91374521 original size:50 final size:50
Alignment explanation
Indices: 91374444--91374540 Score: 169
Period size: 50 Copynumber: 1.9 Consensus size: 50
91374434 ATTTAAACAT
91374444 CTAAGGAGGCTCTAAGAAAAGAAGGGAGACGCAGAGTAGGAAGCAAGGAC
1 CTAAGGAGGCTCTAAGAAAAGAAGGGAGACGCAGAGTAGGAAGCAAGGAC
*
91374494 CTAAGGAGGCTCTGAAG-AAAGAGGGGAGACGCAGAGTAGGAAGCAAG
1 CTAAGGAGGCTCT-AAGAAAAGAAGGGAGACGCAGAGTAGGAAGCAAG
91374541 AAATTACTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 42 0.93
51 3 0.07
ACGTcount: A:0.40, C:0.13, G:0.38, T:0.08
Consensus pattern (50 bp):
CTAAGGAGGCTCTAAGAAAAGAAGGGAGACGCAGAGTAGGAAGCAAGGAC
Found at i:91378350 original size:144 final size:145
Alignment explanation
Indices: 91378087--91378426 Score: 526
Period size: 144 Copynumber: 2.4 Consensus size: 145
91378077 GAAGCCACTT
* ** *
91378087 ATCTTATCTCCCTAAAGTTGTAGTGGAGCAAATTGAAGATAGCAAATCTTA-TTTCTCTAATTGC
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCTCTAATTGC
*
91378151 AGTGGAATGAATTAAAGCTACAAGTCACAAATCCTATACCTCTAAAGTTGTAGTAGGTTGGATCA
66 AGTGGAATGAATTAAAGCTACAAGTCACAAATCCTATACCTCTAAAGTTGCAGTAGGTTGGATCA
*
91378216 AATCTACCATGGT-GA
131 AATCTACCAT-GTCCA
* * * *
91378231 ATCTTATCTCCCTGAAGTTCCAATGGAGCAGATTGAAGATAGCGAATCTTATTTTC-CTAGTTGC
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCTCTAATTGC
*
91378295 AGTGGAAT-AGATTAAAGCTACAAGTCACAAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATC
66 AGTGGAATGA-ATTAAAGCTACAAGTCACAAATCCTATACCTCTAAAGTTGCAGTAGGTTGGATC
91378359 AAATCTACCATGTCCA
130 AAATCTACCATGTCCA
*
91378375 ATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAAATCTTAT
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTAT
91378427 CTCCCTAAAG
Statistics
Matches: 179, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
143 3 0.02
144 172 0.96
145 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (145 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATCTTATTTTCTCTAATTGC
AGTGGAATGAATTAAAGCTACAAGTCACAAATCCTATACCTCTAAAGTTGCAGTAGGTTGGATCA
AATCTACCATGTCCA
Found at i:91378520 original size:44 final size:45
Alignment explanation
Indices: 91378374--91378856 Score: 411
Period size: 45 Copynumber: 10.7 Consensus size: 45
91378364 TACCATGTCC
* * *
91378374 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
91378419 AATCTTATCTCCCTAAAGTAGTAGTGGAGCAGATTGAAA-ATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGATAGCA
* * * **
91378464 AATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * *
91378508 AATCTTATCTCTCTGAAGTTGCAGTGCAACAGATTGAAGAT-GCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * *
91378552 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--A-TAG-CA
* * **
91378601 TGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * * * **
91378648 AATCTCATCTCCATGAAGTTGCAGTGGAGTAAAGTCAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * *
91378692 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * *
91378737 AATCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
* * * * * * *
91378781 AACCTTATCTCTCT-AGAGTTGTAGTGGGGCAGGTTAAATATAACA
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGATAGCA
* * *
91378826 AATCCTATCTCCCTAAAGTTGCAGTAGAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
91378857 CTGGGTTGGA
Statistics
Matches: 349, Mismatches: 75, Indels: 28
0.77 0.17 0.06
Matches are distributed among these distances:
43 1 0.00
44 141 0.40
45 163 0.47
46 4 0.01
47 1 0.00
48 3 0.01
49 1 0.00
51 35 0.10
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCA
Found at i:91378543 original size:89 final size:89
Alignment explanation
Indices: 91378374--91378850 Score: 447
Period size: 89 Copynumber: 5.3 Consensus size: 89
91378364 TACCATGTCC
* * ** *
91378374 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCCCTAAAGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA-CAAATCTTATCTCCCTAAAGTT
* *
91378439 GTAGTGGAGCAGATTGAAAATAGAA
65 GCAGTGGAGCAGATTGAAAATAGCA
* * * * * *
91378464 AATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTG
* * * *
91378529 CAGTGCAACAGATTGAAGAT-GCG
66 CAGTGGAGCAGATTGAAAATAGCA
* ** *
91378552 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATGAATCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGC--C-A--CA--AATCTTATCTCCCT
* * * **
91378617 GAAGTTGTAGTGGAGCAGATTGAAGATAGTG
59 AAAGTTGCAGTGGAGCAGATTGAAAATAGCA
* * * * * *
91378648 AATCTCATCTCCATGAAGTTGCAGTGGAGTAAAGTCAAGCCACAAATCTTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTG
*
91378713 CAGTGGAGTAGATT-AAAGATAGCA
66 CAGTGGAGCAGATTGAAA-ATAGCA
* * * * *
91378737 AATCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTACAAACCTTATCTCTCTAGAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTG
* * * *
91378802 TAGTGGGGCAGGTT-AAATATAACA
66 CAGTGGAGCAGATTGAAA-ATAGCA
* *
91378826 AATCCTATCTCCCTAAAGTTGCAGT
1 AATCTTATCTCCCTGAAGTTGCAGT
91378851 AGAGCACTGG
Statistics
Matches: 314, Mismatches: 64, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
88 38 0.12
89 165 0.53
90 35 0.11
91 2 0.01
93 2 0.01
94 1 0.00
95 37 0.12
96 34 0.11
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTAAAGTTG
CAGTGGAGCAGATTGAAAATAGCA
Found at i:91378609 original size:184 final size:185
Alignment explanation
Indices: 91378419--91378781 Score: 487
Period size: 184 Copynumber: 2.0 Consensus size: 185
91378409 GAAGATAGCA
* *
91378419 AATCTTATCTCCCTAAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATTTTATCTCTC-TGAAGT
1 AATCTTATCTCCCTAAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTC-CATGAAGT
* * * * * *
91378483 TGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCTCTGAAGTTGCAGTGCAACAGATTGAAGA
65 TGCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGA
* * *
91378548 T-GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATG
130 TAGCAAATCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTATG
* * * **
91378603 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTGAATCTCATCTCCATGAAGTT
1 AATCTTATCTCCCTAAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTCCATGAAGTT
* * * * **
91378668 GCAGTGGAGTAAAGTCAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
66 GCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGAT
**
91378733 AGCAAATCTTATCTCCCTGAAGTTGAAGTGGAGTAGATTAAAGCTACAA
131 AGCAAATCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAA
91378782 ACCTTATCTC
Statistics
Matches: 153, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
183 1 0.01
184 109 0.71
185 43 0.28
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (185 bp):
AATCTTATCTCCCTAAAGTAGTAGTGGAGCAGATTGAAAATAGAAAATCTCATCTCCATGAAGTT
GCAGTAGAGCAAAGTAAAGCCACAAATCTTATCTCCCTAAAGTTACAGTGCAACAGATTAAAGAT
AGCAAATCTTATCTCCCTGAAGTTGAAGTGGAACAGATTAAAGCTACAAGTTATG
Found at i:91388076 original size:31 final size:31
Alignment explanation
Indices: 91388038--91388100 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
91388028 CCTAAGTAAG
91388038 AATGTTTGATGATGCCATATGAGATAGTCGT
1 AATGTTTGATGATGCCATATGAGATAGTCGT
91388069 AATGTTTGATGATGCCATATGAGATAGTCGT
1 AATGTTTGATGATGCCATATGAGATAGTCGT
91388100 A
1 A
91388101 CAAACATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (31 bp):
AATGTTTGATGATGCCATATGAGATAGTCGT
Found at i:91390889 original size:13 final size:13
Alignment explanation
Indices: 91390871--91390896 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91390861 TTTATTTTTT
91390871 GTTATTTAGTTTA
1 GTTATTTAGTTTA
91390884 GTTATTTAGTTTA
1 GTTATTTAGTTTA
91390897 TGATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
GTTATTTAGTTTA
Found at i:91391712 original size:214 final size:214
Alignment explanation
Indices: 91391288--91391932 Score: 1031
Period size: 214 Copynumber: 3.0 Consensus size: 214
91391278 AACCAATCTT
* * * *
91391288 CTAATAACTTGATAGCCACCGGTTGATCCATACTCTTCTCTATTAAAAAATGGATTTTCTCTAAT
1 CTAATAACTTGATAGTCACCGATTGATCCATACTCTTCTCTATTAAAAAATGGATTCTCTCTAAG
*
91391353 AAGGTAATCAATGGGATACCTTCTATTGTCTC-GTATAAACATTGCCCTCCAATAATTCAATATC
66 AAGGTAATCAATGGGATACCTTCTATTGTCTCAGTATAAACACTGCCCTCCAATAATTCAATATC
* * *
91391417 TTCCTCAGTTAATGCCTTCATTGAACGGTTTGCTTCCATCGGAAATCCCATCAACATGTCCTAGA
131 TTCCTCAGTTAATGCCTTCATTGAACGATTTGCTTCCATCGAAAATCCCATCAACATGTCCAAGA
*
91391482 AAGAGACTTGGGTTCCTCC
196 AAGAGACTCGGGTTCCTCC
* * * * *
91391501 CTAATAACTTGATAGTCACCAATTGATCCATACTCTTCTTTACTGAAAAATGGCTTCTCTCTAAG
1 CTAATAACTTGATAGTCACCGATTGATCCATACTCTTCTCTATTAAAAAATGGATTCTCTCTAAG
* * *
91391566 AAGGTAATCAATGGGATACCTTCTATTGTCTCAGTATAGACACTGCCCTCAAAGAATTCAATATC
66 AAGGTAATCAATGGGATACCTTCTATTGTCTCAGTATAAACACTGCCCTCCAATAATTCAATATC
* *
91391631 TTCCTCAATTAATGCCTTCATTGAACGATTTGTTTCCATCGAAAATCCCATCAACATGTCCAAGA
131 TTCCTCAGTTAATGCCTTCATTGAACGATTTGCTTCCATCGAAAATCCCATCAACATGTCCAAGA
*
91391696 AAAAGACTCGGGTTCCTCC
196 AAGAGACTCGGGTTCCTCC
*
91391715 CTAGTAACTTGATAGTCACCGATTGATCCATACTCTTCTCTATTAAAAAATGGATTCTCTCTAAG
1 CTAATAACTTGATAGTCACCGATTGATCCATACTCTTCTCTATTAAAAAATGGATTCTCTCTAAG
* *
91391780 AAAGTAATCAATGGGATACCTTCTATTGTCTCAGTATAAACACTCCCCTCCAATAATTCAATATC
66 AAGGTAATCAATGGGATACCTTCTATTGTCTCAGTATAAACACTGCCCTCCAATAATTCAATATC
* * *
91391845 TTCCTCAGTTAATGCCTTCGTTGAACTATTTGCTTCCATCGAAAATCCCATCAACATGTCCCAGA
131 TTCCTCAGTTAATGCCTTCATTGAACGATTTGCTTCCATCGAAAATCCCATCAACATGTCCAAGA
91391910 AAGAGACTCGGGCCTTCCTCC
196 AAGAGACTCGGG--TTCCTCC
91391931 CT
1 CT
91391933 TCAGCGCACC
Statistics
Matches: 392, Mismatches: 37, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
213 88 0.22
214 295 0.75
216 9 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (214 bp):
CTAATAACTTGATAGTCACCGATTGATCCATACTCTTCTCTATTAAAAAATGGATTCTCTCTAAG
AAGGTAATCAATGGGATACCTTCTATTGTCTCAGTATAAACACTGCCCTCCAATAATTCAATATC
TTCCTCAGTTAATGCCTTCATTGAACGATTTGCTTCCATCGAAAATCCCATCAACATGTCCAAGA
AAGAGACTCGGGTTCCTCC
Found at i:91396197 original size:137 final size:137
Alignment explanation
Indices: 91395951--91396234 Score: 523
Period size: 137 Copynumber: 2.1 Consensus size: 137
91395941 CATTGGGCCT
*
91395951 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGAGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGAGCCTT
* *
91396016 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
91396081 CATATGC
131 CATATGC
* *
91396088 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCTTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGAGCCTT
91396153 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
91396218 CATATGC
131 CATATGC
91396225 AAGCCCATTT
1 AAGCCCATTT
91396235 GGGGAGACTA
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGAGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:91397904 original size:12 final size:12
Alignment explanation
Indices: 91397887--91397912 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91397877 AAAATAGGGC
91397887 TTTAGCGGCGTT
1 TTTAGCGGCGTT
91397899 TTTAGCGGCGTT
1 TTTAGCGGCGTT
91397911 TT
1 TT
91397913 ATGATAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:91398014 original size:41 final size:41
Alignment explanation
Indices: 91397937--91398172 Score: 381
Period size: 41 Copynumber: 5.8 Consensus size: 41
91397927 CAAAAATTTT
* *
91397937 AAAACACAGAGCAATAGCGGCG-TTTT--T-GAACGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
91397975 AAAACCATAGCATTAGTGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
91398016 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCTCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
91398057 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
91398098 AAAACCAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
91398139 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAAC
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAAC
91398173 ACTAATCTAT
Statistics
Matches: 184, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
37 13 0.07
38 9 0.05
40 1 0.01
41 161 0.88
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:91398309 original size:7 final size:7
Alignment explanation
Indices: 91398294--91398377 Score: 51
Period size: 7 Copynumber: 11.4 Consensus size: 7
91398284 TTAATTATCA
*
91398294 TTATAGT
1 TTATGGT
91398301 TTATGGT
1 TTATGGT
91398308 TTATGGT
1 TTATGGT
* *
91398315 TTAAGAT
1 TTATGGT
*
91398322 ATATGGT
1 TTATGGT
*
91398329 TTAGGGT
1 TTATGGT
* *
91398336 TTAAGAT
1 TTATGGT
91398343 TTATGAGTT
1 TTATG-G-T
91398352 AATTATGGT
1 --TTATGGT
*
91398361 TTAGGGT
1 TTATGGT
*
91398368 TTAAGGT
1 TTATGGT
91398375 TTA
1 TTA
91398378 GGAGTTAACT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
7 51 0.86
9 2 0.03
10 1 0.02
11 5 0.08
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:91398326 original size:21 final size:21
Alignment explanation
Indices: 91398302--91398347 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
91398292 CATTATAGTT
*
91398302 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
*
91398323 TATGGTTTAGGGTTTAAGATT
1 TATGGTTTAGGGTTTAAGATA
91398344 TATG
1 TATG
91398348 AGTTAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:91398364 original size:32 final size:32
Alignment explanation
Indices: 91398323--91398385 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
91398313 GTTTAAGATA
*
91398323 TATGGTTTAGGGTTTAAGATTTATGAGTTAAT
1 TATGGTTTAGGGTTTAAGATTTAGGAGTTAAT
*
91398355 TATGGTTTAGGGTTTAAGGTTTAGGAGTTAA
1 TATGGTTTAGGGTTTAAGATTTAGGAGTTAA
91398386 CTAGTATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (32 bp):
TATGGTTTAGGGTTTAAGATTTAGGAGTTAAT
Found at i:91399491 original size:37 final size:37
Alignment explanation
Indices: 91399426--91399534 Score: 148
Period size: 37 Copynumber: 2.9 Consensus size: 37
91399416 TGATCAGAAA
* *
91399426 AACCCATCTCCTCCGTCGCCTTCTCCCCGTGCATCGC
1 AACCCATCTCCTCCATCGCCTTCACCCCGTGCATCGC
* *
91399463 AACTCAT-TCCCTCCATCGTCTTCACCCCGTGCATCGC
1 AACCCATCT-CCTCCATCGCCTTCACCCCGTGCATCGC
* *
91399500 AACCCATCTCCTCCATCGCCTTCGCCCTGTGCATC
1 AACCCATCTCCTCCATCGCCTTCACCCCGTGCATC
91399535 TGCTGCATAG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.02
37 60 0.97
38 1 0.02
ACGTcount: A:0.14, C:0.49, G:0.12, T:0.26
Consensus pattern (37 bp):
AACCCATCTCCTCCATCGCCTTCACCCCGTGCATCGC
Found at i:91402984 original size:19 final size:19
Alignment explanation
Indices: 91402962--91403002 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
91402952 TTTATTGATA
91402962 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
91402980 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
91402999 TTTT
1 TTTT
91403003 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:91403312 original size:43 final size:42
Alignment explanation
Indices: 91403251--91403358 Score: 180
Period size: 43 Copynumber: 2.5 Consensus size: 42
91403241 TTTTGAATTT
*
91403251 CATGACATTTAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTTTG-GAAAAGCGCCGCTAAAGGC
91403294 CATGACCTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTT-TTGGAAAAGCGCCGCTAAAGGC
*
91403337 CATGATCTTTAGCGGCGTTTTT
1 CATGACCTTTAGCGGCGTTTTT
91403359 TTTAGATAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
42 2 0.03
43 57 0.92
44 3 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (42 bp):
CATGACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAGGC
Found at i:91403713 original size:26 final size:26
Alignment explanation
Indices: 91403677--91403786 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
91403667 CATGAAATTC
91403677 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
91403703 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91403729 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
91403755 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91403781 TTATCA
1 TTATCA
91403787 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91405155 original size:2 final size:2
Alignment explanation
Indices: 91405144--91405183 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
91405134 TTTTGTCCCT
91405144 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91405184 GTTTACAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91405922 original size:13 final size:12
Alignment explanation
Indices: 91405893--91405922 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
91405883 AGCAAAACAG
*
91405893 GTTTTTAGCGGC
1 GTTTTTAGCAGC
91405905 GTTTTTAGCAGC
1 GTTTTTAGCAGC
91405917 GTTTTT
1 GTTTTT
91405923 CAGAAAGCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.13, G:0.27, T:0.50
Consensus pattern (12 bp):
GTTTTTAGCAGC
Found at i:91409383 original size:23 final size:23
Alignment explanation
Indices: 91409350--91409448 Score: 137
Period size: 23 Copynumber: 4.3 Consensus size: 23
91409340 AAATATTGTT
* *
91409350 AATTGAGGTG-TTAAACTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
* *
91409373 AACTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
91409396 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
91409419 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
91409442 AATTGAA
1 AATTGAA
91409449 ATACTGCAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
23 65 0.94
24 4 0.06
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGTA
Found at i:91409508 original size:23 final size:23
Alignment explanation
Indices: 91409450--91409493 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
91409440 TAAATTGAAA
91409450 TACTGCAAATTGAAGTGTTTAAG
1 TACTGCAAATTGAAGTGTTTAAG
91409473 TACTGCAAATTGAAGTGTTTA
1 TACTGCAAATTGAAGTGTTTA
91409494 GTTGCTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (23 bp):
TACTGCAAATTGAAGTGTTTAAG
Found at i:91409525 original size:84 final size:83
Alignment explanation
Indices: 91409368--91409530 Score: 181
Period size: 84 Copynumber: 2.0 Consensus size: 83
91409358 TGTTAAACTG
* * *
91409368 CTGCAAACTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTA
1 CTGCAAACTGAAGTGTTTGAATACTGCAAATTGAAGTGTTTGAATGCTGGAAATTGAAGTGTTTA
*
91409433 AATGCTGTAAATTGAAATA
66 AATACTGT-AATTGAAATA
* * *
91409452 CTGCAAATTGAAGTGTTT-AAGTACTGCAAATTGAAGTGTTT-AGTTGCTGGATATTG-AGATGT
1 CTGCAAACTGAAGTGTTTGAA-TACTGCAAATTGAAGTGTTTGA-ATGCTGGAAATTGAAG-TGT
*
91409514 TT-TATCACTGTAATTGA
63 TTAAAT-ACTGTAATTGA
91409531 GGTGCATAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
83 13 0.19
84 54 0.81
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (83 bp):
CTGCAAACTGAAGTGTTTGAATACTGCAAATTGAAGTGTTTGAATGCTGGAAATTGAAGTGTTTA
AATACTGTAATTGAAATA
Found at i:91409572 original size:31 final size:31
Alignment explanation
Indices: 91409532--91409598 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
91409522 TGTAATTGAG
* * *
91409532 GTGCATAAATGTTGTTAATTG-AGATGTTAAA
1 GTGCTTAAATGCTGTAAATTGAAG-TGTTAAA
91409563 GTGCTTAAATGCTGTAAATTGAAGTGTTAAA
1 GTGCTTAAATGCTGTAAATTGAAGTGTTAAA
91409594 GTGCT
1 GTGCT
91409599 GCAAATTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (31 bp):
GTGCTTAAATGCTGTAAATTGAAGTGTTAAA
Found at i:91409587 original size:23 final size:23
Alignment explanation
Indices: 91409561--91410438 Score: 674
Period size: 23 Copynumber: 38.3 Consensus size: 23
91409551 TGAGATGTTA
* *
91409561 AAGTGCTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
91409584 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGCTGCAAATTG
* **
91409607 AAGTGTTTGAATGCTATAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* *
91409630 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* *
91409653 AAGTGCTTAAATGTTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
** *
91409676 AAGTGTTTAGTTGCTAG-ACATTG
1 AAGTGTTTAAATGCT-GCAAATTG
* *
91409699 -AGATGTTT-TATCGCTG-TAATTG
1 AAG-TGTTTAAAT-GCTGCAAATTG
* * * **
91409721 AGGTGTATAAATGTTGTTAATT-
1 AAGTGTTTAAATGCTGCAAATTG
*
91409743 AAGATG-CTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGCAAATTG
* *
91409767 AAGTGCTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
91409790 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGCTGCAAATTG
* * *
91409813 AAGTGTTTGAATGCTGTAAGTTG
1 AAGTGTTTAAATGCTGCAAATTG
*
91409836 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* * *
91409859 ATGTGCTTAAATGTTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* *
91409882 AAGTGTTTAAGTACTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
** * *
91409905 AAGTGTTTAGTTGCTGGACATTG
1 AAGTGTTTAAATGCTGCAAATTG
* *
91409928 -AGATGTTT-TATCGCTG-TAATTG
1 AAG-TGTTTAAAT-GCTGCAAATTG
* * * **
91409950 AGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGCAAATTG
*
91409973 -AGATG-TAAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGCAAATTG
* *
91409996 AAGTGCTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
91410019 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGCTGCAAATTG
*
91410042 AAGTGTTTGAATGCTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* *
91410065 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* *
91410088 AAGTGCTTAAATGTTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* *
91410111 AAGTGTTTAAGTACTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
** * *
91410134 AAGTGTTTAGTTGCTGGACATTG
1 AAGTGTTTAAATGCTGCAAATTG
*
91410157 -AGATGTTT-TAT-C-GCTATAATTG
1 AAG-TGTTTAAATGCTGC-A-AATTG
* * **
91410179 AGGTGTTTAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGCAAATTG
91410202 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGCAAATTG
*
91410225 AAGTGTTTGAATGCTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
*
91410248 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* *
91410271 AAGTGCTTAAATGTTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
* **
91410294 AAGTGTTTAAGTATTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
** * *
91410317 AAGTGTTTAGTTGCTGGACATTG
1 AAGTGTTTAAATGCTGCAAATTG
*
91410340 -AGATGTTT-TAT-C-GCTATAATTG
1 AAG-TGTTTAAATGCTGC-A-AATTG
* * **
91410362 AGGTGTTTAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGCAAATTG
91410385 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGCAAATTG
*
91410408 AAGTGTTTGAATGCTGCAAATTG
1 AAGTGTTTAAATGCTGCAAATTG
91410431 AAGTGTTT
1 AAGTGTTT
91410439 CTATTTTGGG
Statistics
Matches: 685, Mismatches: 123, Indels: 94
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.00
21 4 0.01
22 90 0.13
23 549 0.80
24 38 0.06
25 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (23 bp):
AAGTGTTTAAATGCTGCAAATTG
Found at i:91409773 original size:206 final size:198
Alignment explanation
Indices: 91409350--91410438 Score: 840
Period size: 206 Copynumber: 5.3 Consensus size: 198
91409340 AAATATTGTT
* * * * *
91409350 AATTGAGGTG-TTAAACTGCTGCAAACTGAAGTGTTTGAA-TGCTGTAAATTGAAGTGTTTGAAT
1 AATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAAT
* **
91409413 GCTGTAAATTGAAGTGTTTAAATGCTGTAAA-T----TG---AAATACTGCAAATTGAAGTGTTT
64 GCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTT
* * ** * *
91409470 AAGTACTGCAAATTGAA-GTGTTTAGTTGCTGGATATTGAGATGTTTTATCACTGTAATTGAGGT
129 -AGT--TGCAAATTGAATGT-TTTAG-TGCT-GAAATTGAGGTGTTAAAT-GCTGTAATTGAGAT
* *
91409534 GCATAAATGTTGTTAA
187 G--TAAATGCTG--CA
*
91409550 TTGAGATGTTAAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT
1 ---A-A--TTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT
** *
91409615 GAATGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGT
60 GAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGT
* * *
91409680 GTTTAGTTGCTAGACATTGAGATGTTTTA-TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTA
125 GTTTAGTTGC-A-A-ATTGA-ATGTTTTAGT-GCTGAAATTGAGGTGT-TAAATGCTG-TAATTG
91409744 AGATGCTAAAGTGCTGCA
183 AGATG-TAAA-TGCTGCA
91409762 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
* * *
91409827 TGTAAGTTGAAGTGTTTAAATGCTGTAAATTGATGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
66 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTT-A
* * ** *
91409892 GTACTGCAAATTGAA-GTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGT
130 GT--TGCAAATTGAATGT-TTTAG-TGCT-GAAATTGAGGTGTTAAAT-GCTGTAATTGAGATG-
* **
91409956 ATAAATGTTGTT
188 -TAAATGCTGCA
* * * *
91409968 AATTG-AGATG-TAAAAGTGCTGCAAATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTG-TTAAA
1 AATTGAAG-TGCTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAA
* * * *
91410029 GTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGC
63 -TGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTG-
* * * * ** *
91410094 TTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAG
126 TT-TA-GTTGCAAATTGAA-TGTTTTAGTGCTG-AAATTGAGGTG-TTAAATGCTGTA-ATTGAG
**
91410159 ATGTTTTAT-C-GCTA
185 ATG-TAAATGCTGC-A
* * * *
91410173 TAATTGAGGTGTTTAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAAT
1 -AATTGAAGTGCTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTGAAT
91410237 GCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTT
64 GCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTT
* * ** * *
91410302 AAGTATTGCAAATTGAA-GTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTATAATTGAGGT
129 -AG--TTGCAAATTGAATGT-TTTAG-TGCT-GAAATTGAGGTGTTAAAT-GCTGTAATTGAGAT
* **
91410366 GTTTAAATGTTGTT
187 G--TAAATGCTGCA
* *
91410380 AATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTTTGAA-TGCTGCAAATTGAAGTGTTT
1 AATTGAAG-TGCTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTT
91410439 CTATTTTGGG
Statistics
Matches: 722, Mismatches: 100, Indels: 125
0.76 0.11 0.13
Matches are distributed among these distances:
203 1 0.00
204 7 0.01
205 51 0.07
206 505 0.70
207 67 0.09
208 7 0.01
209 4 0.01
211 5 0.01
212 2 0.00
213 21 0.03
214 45 0.06
215 5 0.01
216 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (198 bp):
AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAG
TTGCAAATTGAATGTTTTAGTGCTGAAATTGAGGTGTTAAATGCTGTAATTGAGATGTAAATGCT
GCA
Found at i:91410191 original size:183 final size:183
Alignment explanation
Indices: 91409991--91410438 Score: 826
Period size: 183 Copynumber: 2.4 Consensus size: 183
91409981 AAGTGCTGCA
* * * *
91409991 AATTGAAGTGCTTAAATGCTGTAAATTGA-AGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATG
1 AATTGAGGTGTTTAAATGTTGTTAATTGAGA-TGTTAAAGTGCTGCAAATTGAAGTGTTTGAATG
*
91410055 CTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTA
65 CTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTA
91410120 AGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
130 AGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
91410174 AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
1 AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
91410239 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
66 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
*
91410304 GTATTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
131 GTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
91410357 AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
1 AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
91410422 TGCAAATTGAAGTGTTT
66 TGCAAATTGAAGTGTTT
91410439 CTATTTTGGG
Statistics
Matches: 258, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
183 257 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (183 bp):
AATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGC
TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
GTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTAT
Found at i:91410317 original size:229 final size:229
Alignment explanation
Indices: 91409561--91410321 Score: 1177
Period size: 229 Copynumber: 3.3 Consensus size: 229
91409551 TGAGATGTTA
* * ** *
91409561 AAGTGCTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTAT
1 AAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATATTGT
* * * * **
91409624 AAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAGTTG
64 AAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTG
* * *
91409689 CTAGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTAAGATGCTAAA
129 CTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAA
91409754 GTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTG
194 GTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTG
* * * **
91409790 AAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAGTTGAAGTGTTTAAATGCTGTAA
1 AAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATATTGTAA
*
91409855 ATTGATGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCT
66 ATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCT
*
91409920 GGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGT
131 GGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGT
91409985 GCTGCAAATTGAAGTGCTTAAATGCTGTAAATTG
196 GCTGCAAATTGAAGTGCTTAAATGCTGTAAATTG
* *
91410019 AAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGTTGTAA
1 AAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATATTGTAA
91410084 ATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCT
66 ATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCT
* *
91410149 GGACATTGAGATGTTTTATCGCTATAATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGT
131 GGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGT
* * *
91410214 GCTGCAAATTGAAGTGTTTGAATGCTGCAAATTG
196 GCTGCAAATTGAAGTGCTTAAATGCTGTAAATTG
* * * * *
91410248 AAGTGTTTAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTATTGCA
1 AAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATATTGTA
91410312 AATTGAAGTG
65 AATTGAAGTG
91410322 TTTAGTTGCT
Statistics
Matches: 495, Mismatches: 34, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
228 5 0.01
229 481 0.97
230 9 0.02
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (229 bp):
AAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATATTGTAA
ATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCT
GGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGT
GCTGCAAATTGAAGTGCTTAAATGCTGTAAATTG
Found at i:91411317 original size:43 final size:43
Alignment explanation
Indices: 91411265--91411487 Score: 292
Period size: 43 Copynumber: 5.2 Consensus size: 43
91411255 GCTAAAGGTT
* * ** * *
91411265 ATGATTTTTAGCGGCGTTTTTTTCACAAACGCCGCTTAAAGCC
1 ATGACTTTTAGCGGCGTCTTTCCCACAGACGCCGCTAAAAGCC
* *
91411308 ATGACTTTTAGCGGCG-CTTTCCCACAAACGCCACTAAAAGCC
1 ATGACTTTTAGCGGCGTCTTTCCCACAGACGCCGCTAAAAGCC
* * *
91411350 GTGACTTTTAACGGC-TCTTTCCCTATAGACGCCGCTAAAAGCC
1 ATGACTTTTAGCGGCGTCTTTCCC-ACAGACGCCGCTAAAAGCC
91411393 ATGACTTTTAGCGGCG-CTTTCCCAACAGACGCCGCTAAAAGCC
1 ATGACTTTTAGCGGCGTCTTTCCC-ACAGACGCCGCTAAAAGCC
91411436 ATGACTTTTAGCGGCGT-TTTCCCCACAGACGCCGCTAAAAGCC
1 ATGACTTTTAGCGGCGTCTTT-CCCACAGACGCCGCTAAAAGCC
91411479 ATGACTTTT
1 ATGACTTTT
91411488 TTTTGGCTTT
Statistics
Matches: 160, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
42 41 0.26
43 116 0.73
44 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGACTTTTAGCGGCGTCTTTCCCACAGACGCCGCTAAAAGCC
Found at i:91411962 original size:13 final size:13
Alignment explanation
Indices: 91411946--91411975 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
91411936 TGTTGTTGAG
91411946 AAGTACTTCTGAA
1 AAGTACTTCTGAA
*
91411959 AAGTACTTTTGAA
1 AAGTACTTCTGAA
91411972 AAGT
1 AAGT
91411976 TTGGTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AAGTACTTCTGAA
Found at i:91412823 original size:22 final size:22
Alignment explanation
Indices: 91412797--91412841 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
91412787 TTAGTCATAT
91412797 AATA-AAT-TATTAATATAATA
1 AATATAATCTATTAATATAATA
* *
91412817 AATATAATCTATTATTTTAATA
1 AATATAATCTATTAATATAATA
91412839 AAT
1 AAT
91412842 TATTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 14 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATAATCTATTAATATAATA
Found at i:91412877 original size:13 final size:14
Alignment explanation
Indices: 91412861--91412902 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
91412851 TTTCAATTTT
91412861 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
91412874 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
91412889 ATTTTAAATAATAT
1 ATTTT-AATAATAT
91412903 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:91412887 original size:16 final size:16
Alignment explanation
Indices: 91412865--91412901 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
91412855 AATTTTATTT
91412865 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
91412882 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
91412897 TAATA
1 TAATA
91412902 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Done.