Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 99 of 235
Found at i:34130353 original size:20 final size:20
Alignment explanation
Indices: 34130328--34130370 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
34130318 TTTCGACCTT
34130328 TCTTTACTAAAATTTATTAA
1 TCTTTACTAAAATTTATTAA
34130348 TCTTTACTAAAATTTATTAA
1 TCTTTACTAAAATTTATTAA
34130368 TCT
1 TCT
34130371 CTTAGTACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (20 bp):
TCTTTACTAAAATTTATTAA
Found at i:34131695 original size:75 final size:75
Alignment explanation
Indices: 34131375--34131678 Score: 581
Period size: 75 Copynumber: 4.1 Consensus size: 75
34131365 TGATAAGTAA
* * *
34131375 TCATATAAAATCATACATTAACAAAATATTAGAAACATGATATATCATTGCAACATTTACACATG
1 TCATATAAACTTATACATTAACAAAATATTAAAAACATGATATATCATTGCAACATTTACACATG
34131440 AGCTTACAAT
66 AGCTTACAAT
34131450 TCATATAAACTTATACATTAACAAAATATTAAAAACATGATATATCATTGCAACATTTACACATG
1 TCATATAAACTTATACATTAACAAAATATTAAAAACATGATATATCATTGCAACATTTACACATG
34131515 AGCTTACAAT
66 AGCTTACAAT
34131525 TCATATAAACTTATACATTAACAAAATATTAAAAACATGATATATCATTGCAACATTTACACATG
1 TCATATAAACTTATACATTAACAAAATATTAAAAACATGATATATCATTGCAACATTTACACATG
34131590 AGCTTACAAT
66 AGCTTACAAT
34131600 TCATATAAACTTATACATTAACAAAATATTAAAAACATGATATATCATTGCAACATTTACACATG
1 TCATATAAACTTATACATTAACAAAATATTAAAAACATGATATATCATTGCAACATTTACACATG
34131665 AGCTTACAAT
66 AGCTTACAAT
34131675 TCAT
1 TCAT
34131679 GTAATATTAA
Statistics
Matches: 226, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 226 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (75 bp):
TCATATAAACTTATACATTAACAAAATATTAAAAACATGATATATCATTGCAACATTTACACATG
AGCTTACAAT
Found at i:34137605 original size:22 final size:22
Alignment explanation
Indices: 34137580--34137628 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
34137570 AGTGATTAGT
* *
34137580 AGTAGGCACCA-AAGTGCGAATC
1 AGTAGGAACCATAA-TGCAAATC
34137602 AGTAGGAACCATAATGCAAATC
1 AGTAGGAACCATAATGCAAATC
34137624 AGTAG
1 AGTAG
34137629 ATACTGTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.16
Consensus pattern (22 bp):
AGTAGGAACCATAATGCAAATC
Found at i:34141195 original size:20 final size:19
Alignment explanation
Indices: 34141167--34141284 Score: 85
Period size: 20 Copynumber: 5.9 Consensus size: 19
34141157 ATAGATGCAT
*
34141167 AACAGGGGCACTGAAGTGTA
1 AACA-GGGCACCGAAGTGTA
*
34141187 AACAAGGGCA-CAAATGTGTA
1 AAC-AGGGCACCGAA-GTGTA
* * *
34141207 GACAGGGGCACCGTAGTGCA
1 AACA-GGGCACCGAAGTGTA
*
34141227 AACAGGGATACCGAAGTGTA
1 AACAGGG-CACCGAAGTGTA
* *
34141247 TACAGAGGCACTGAAGTGTA
1 AACAG-GGCACCGAAGTGTA
*
34141267 TACAGAGGCACCGAAGTG
1 AACAG-GGCACCGAAGTG
34141285 CAAATCTCAT
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
19 6 0.08
20 67 0.86
21 5 0.06
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.14
Consensus pattern (19 bp):
AACAGGGCACCGAAGTGTA
Found at i:34144038 original size:96 final size:96
Alignment explanation
Indices: 34143869--34144089 Score: 284
Period size: 96 Copynumber: 2.3 Consensus size: 96
34143859 TGATATGTGT
* *
34143869 GCCAGTGTAAGACCATGTTTGGAACATGGCATCAACAATGTAATGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCAACAATGTAACGAGAGCTAGTGTAAAACCATG
* * *
34143934 TCTGGGACATGGCATCGACCAC-ATTATGAGA
66 TCTAGGACACGGCATCGACCACGA-CATGAGA
* * ** *
34143965 GCCAATGTAAGACCATGTTTGGGACATGGCATCGGCATTG-AGACGAGAGCTAGTGTAAAACCAT
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCAACAATGTA-ACGAGAGCTAGTGTAAAACCAT
* * *
34144029 GTCTAGGACACGGCATCGTCCTCGACATGTGA
65 GTCTAGGACACGGCATCGACCACGACATGAGA
*
34144061 GCCAGTGTAAGACCATGTGTGGAACATGG
1 GCCAGTGTAAGACCATGTTTGGAACATGG
34144090 TATTGGCAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
95 1 0.01
96 105 0.98
97 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCAACAATGTAACGAGAGCTAGTGTAAAACCATG
TCTAGGACACGGCATCGACCACGACATGAGA
Found at i:34144068 original size:48 final size:48
Alignment explanation
Indices: 34143869--34144089 Score: 196
Period size: 48 Copynumber: 4.6 Consensus size: 48
34143859 TGATATGTGT
* * * *
34143869 GCCAGTGTAAGACCATGTTTGGAACATGGCATCAACAAT-GTA-ATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTCG-ACATGAGA
* * *
34143917 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGA-CATGAGA
* * * * * * *
34143965 GCCAATGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGAGA
* * * * * *
34144013 GCTAGTGTAAAACCATGTCTAGGACACGGCATCGTCCTCGACATGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGAGA
* *
34144061 GCCAGTGTAAGACCATGTGTGGAACATGG
1 GCCAGTGTAAGACCATGTCTGGGACATGG
34144090 TATTGGCAAT
Statistics
Matches: 136, Mismatches: 33, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
46 1 0.01
48 134 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGAGA
Found at i:34148463 original size:17 final size:17
Alignment explanation
Indices: 34148432--34148499 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
34148422 AATATATGAT
**
34148432 TATTTTTATTTTTTTAA
1 TATTTTTATAATTTTAA
*
34148449 TATTTTTATAATTTTTA
1 TATTTTTATAATTTTAA
* * *
34148466 TGGTTGTTTAAAATTCTAA
1 T-ATT-TTTATAATTTTAA
*
34148485 TTTTTTTATAATTTT
1 TATTTTTATAATTTT
34148500 TAAAAATTCA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
17 24 0.62
18 4 0.10
19 11 0.28
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (17 bp):
TATTTTTATAATTTTAA
Found at i:34148556 original size:22 final size:21
Alignment explanation
Indices: 34148484--34148557 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 21
34148474 TAAAATTCTA
* *
34148484 ATTTTTTTATAATTTTTAAAA
1 ATTTTTTTATTATTTTTAAAT
34148505 ATTCAATTTTT-TTATTTTTAAAT
1 ATT---TTTTTATTATTTTTAAAT
*
34148528 GAATTTTTTATTATTTTTAATAT
1 -ATTTTTTTATTATTTTTAA-AT
34148551 ATTTTTT
1 ATTTTTT
34148558 ATTTTTATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
21 8 0.19
22 16 0.37
23 12 0.28
24 7 0.16
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (21 bp):
ATTTTTTTATTATTTTTAAAT
Found at i:34148558 original size:21 final size:22
Alignment explanation
Indices: 34148511--34148568 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
34148501 AAAAATTCAA
34148511 TTTTT-TTATTTTTAA-ATGAAT
1 TTTTTATTATTTTTAATAT-AAT
34148532 TTTTTATTATTTTTAATAT-AT
1 TTTTTATTATTTTTAATATAAT
*
34148553 TTTTTATT-TTTATAAT
1 TTTTTATTATTTTTAAT
34148569 CTAAAAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.21
21 15 0.44
22 10 0.29
23 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTTATTATTTTTAATATAAT
Found at i:34149284 original size:7 final size:7
Alignment explanation
Indices: 34149238--34149282 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
34149228 AAGCTAAGCG
34149238 ATTAGCA
1 ATTAGCA
34149245 ATTAGCA
1 ATTAGCA
34149252 ATTAGCA
1 ATTAGCA
34149259 ATTAGCA
1 ATTAGCA
*
34149266 ATTTGCA
1 ATTAGCA
*
34149273 ATTTGCA
1 ATTAGCA
34149280 ATT
1 ATT
34149283 TGTTCAACTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (7 bp):
ATTAGCA
Found at i:34169183 original size:40 final size:40
Alignment explanation
Indices: 34169139--34169249 Score: 113
Period size: 37 Copynumber: 2.8 Consensus size: 40
34169129 TCGGATAATT
*
34169139 CGAAGTAATAATTTGACACCCAGTGTCTCATC-AGCTAAAC
1 CGAAGTAATAA-TTGACACCCAGTGTCTCATCGAACTAAAC
* * * *
34169179 CGAAGT-A-AATTGGCACCCAGTGCCTCA-CGAATTAATC
1 CGAAGTAATAATTGACACCCAGTGTCTCATCGAACTAAAC
* *
34169216 CGAAGTAATAGATTGATACACAGTGTCTCATCGA
1 CGAAGTAATA-ATTGACACCCAGTGTCTCATCGA
34169250 CTCGTAGTCG
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
36 1 0.02
37 27 0.47
38 3 0.05
39 2 0.04
40 21 0.37
41 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (40 bp):
CGAAGTAATAATTGACACCCAGTGTCTCATCGAACTAAAC
Found at i:34170124 original size:22 final size:22
Alignment explanation
Indices: 34170099--34170142 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34170089 AACCTTTGAA
34170099 ACCTTAACTTTTCTCTTTCTTT
1 ACCTTAACTTTTCTCTTTCTTT
34170121 ACCTTAACTTTTCTCTTTCTTT
1 ACCTTAACTTTTCTCTTTCTTT
34170143 CTTTCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.27, G:0.00, T:0.59
Consensus pattern (22 bp):
ACCTTAACTTTTCTCTTTCTTT
Found at i:34170143 original size:4 final size:4
Alignment explanation
Indices: 34170134--34170166 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
34170124 TTAACTTTTC
34170134 TCTT TCTT TCTT TCTCT T-TT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCT-T TCTT TCTT TCTT TCTT T
34170167 TTCCCCCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.07
4 23 0.85
5 2 0.07
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:34170157 original size:16 final size:15
Alignment explanation
Indices: 34170136--34170168 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
34170126 AACTTTTCTC
34170136 TTTCTTTCTTTCTCTT
1 TTTCTTTCTTTCT-TT
34170152 TTTCTTTCTTTCTTT
1 TTTCTTTCTTTCTTT
34170167 TT
1 TT
34170169 CCCCCTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTCTTTCTTT
Found at i:34170159 original size:20 final size:21
Alignment explanation
Indices: 34170106--34170166 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
34170096 GAAACCTTAA
* **
34170106 CTTTTCTCTTTCTTTACCTTAA
1 CTTTTCTCTTTCTTT-CTTTCT
34170128 CTTTTCTCTTTCTTTCTTTCT
1 CTTTTCTCTTTCTTTCTTTCT
34170149 CTTTT-TCTTTCTTTCTTT
1 CTTTTCTCTTTCTTTCTTT
34170167 TTCCCCCTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 13 0.36
21 8 0.22
22 15 0.42
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (21 bp):
CTTTTCTCTTTCTTTCTTTCT
Found at i:34173067 original size:43 final size:43
Alignment explanation
Indices: 34173018--34173140 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
34173008 CTTCGGTTTA
34173018 TCCAATGATGCACTATGAGTGCCAGTATAATTACTTCAACTTG
1 TCCAATGATGCACTATGAGTGCCAGTATAATTACTTCAACTTG
* * * * **
34173061 TCCAATGATGCACTGTGTA-TGCTAATATAATTAATTTGACTTG
1 TCCAATGATGCACTATG-AGTGCCAGTATAATTACTTCAACTTG
* *
34173104 TCCAATGATGCACTATGTGTGCCAGTATAATTGCTTC
1 TCCAATGATGCACTATGAGTGCCAGTATAATTACTTC
34173141 GGTATATCTT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 64 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (43 bp):
TCCAATGATGCACTATGAGTGCCAGTATAATTACTTCAACTTG
Found at i:34180292 original size:64 final size:64
Alignment explanation
Indices: 34180191--34180318 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
34180181 AGAAAAAAGG
*
34180191 AAAGAGTTTTAACCAGAGTTCAAGTTGTTGTGTTGTAGTCTATTGAGAATAATTTGAGAAATTT
1 AAAGAGTTTTAACCAGAGTTCAAGCTGTTGTGTTGTAGTCTATTGAGAATAATTTGAGAAATTT
*
34180255 AAAGAGTTTTAACCAGAGTTGAAGCTGTTGTGTTGTAGTCTATTGAGAATAATTTGAGAAATTT
1 AAAGAGTTTTAACCAGAGTTCAAGCTGTTGTGTTGTAGTCTATTGAGAATAATTTGAGAAATTT
34180319 TTACCACATT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (64 bp):
AAAGAGTTTTAACCAGAGTTCAAGCTGTTGTGTTGTAGTCTATTGAGAATAATTTGAGAAATTT
Found at i:34183078 original size:21 final size:21
Alignment explanation
Indices: 34183040--34183088 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
34183030 CAGTGGTGCT
*
34183040 AACATAATTCAAATTCAAATATA
1 AACATAA-TCAAAATCAAATA-A
34183063 AACATAA-CAAAATCAAATAA
1 AACATAATCAAAATCAAATAA
34183083 AA-ATAA
1 AACATAA
34183089 ATAACATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 11 0.44
23 7 0.28
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.22
Consensus pattern (21 bp):
AACATAATCAAAATCAAATAA
Found at i:34194739 original size:20 final size:20
Alignment explanation
Indices: 34194716--34194779 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
34194706 AGTACTGGCA
*
34194716 GCTTATCTGCATTACTAGTG
1 GCTTATCTGCATTACTGGTG
** *
34194736 GCTTGA-CCACATTACTGGTA
1 GCTT-ATCTGCATTACTGGTG
34194756 GCTTATCTGCATTACTGGTG
1 GCTTATCTGCATTACTGGTG
34194776 GCTT
1 GCTT
34194780 GTCCATAGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
GCTTATCTGCATTACTGGTG
Found at i:34205881 original size:10 final size:10
Alignment explanation
Indices: 34205866--34205915 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
34205856 TAGATTTAGG
34205866 ATTTAT-TTT
1 ATTTATCTTT
34205875 CATTTATCTTT
1 -ATTTATCTTT
*
34205886 AATTATCTTT
1 ATTTATCTTT
34205896 ATTTAT-TTGT
1 ATTTATCTT-T
*
34205906 ATTTCTCTTT
1 ATTTATCTTT
34205916 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:34214814 original size:96 final size:96
Alignment explanation
Indices: 34214644--34214822 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
34214634 TTTTTAAGAA
* * * * *
34214644 TGTGTTGGGCTGAGTAACCAGGGTGAGGTGCTTGACTGTTATCTCTCTTCGCGTCAAAAGGTTCG
1 TGTGTTAGGCTGAGTAACCAGGGTGAGGTGCTTGACTGTCATCTCTCTTCACGTCAAAAGATTCA
*
34214709 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 ATATATTCTTAAGAAAAATAAAAATTAGGAG
* * * *
34214740 TGTGTTAGGCTGAGTAATCTGGGTGGGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGATTCA
1 TGTGTTAGGCTGAGTAACCAGGGTGAGGTGCTTGACTGTCATCTCTCTTCACGTCAAAAGATTCA
34214805 ATATATTCTTAAGAAAAA
66 ATATATTCTTAAGAAAAA
34214823 AATATATATA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (96 bp):
TGTGTTAGGCTGAGTAACCAGGGTGAGGTGCTTGACTGTCATCTCTCTTCACGTCAAAAGATTCA
ATATATTCTTAAGAAAAATAAAAATTAGGAG
Found at i:34215482 original size:10 final size:10
Alignment explanation
Indices: 34215469--34215516 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
34215459 TTATTTTCAT
34215469 TTATCTTTAA
1 TTATCTTTAA
34215479 TTATCTTTAA
1 TTATCTTTAA
*
34215489 TTATCTTTAT
1 TTATCTTTAA
*
34215499 TTAT-TTGTAT
1 TTATCTT-TAA
34215509 TTATCTTT
1 TTATCTTT
34215517 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:34215482 original size:20 final size:19
Alignment explanation
Indices: 34215459--34215516 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
34215449 GATTTAGGAT
34215459 TTATTTTCATTTATCTTTAA
1 TTATTTT-ATTTATCTTTAA
* *
34215479 TTATCTTTAATTATCTTTAT
1 TTAT-TTTATTTATCTTTAA
34215499 TTATTTGTATTTATCTTT
1 TTATTT-TATTTATCTTT
34215517 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTTTATTTATCTTTAA
Found at i:34215501 original size:30 final size:30
Alignment explanation
Indices: 34215459--34215516 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
34215449 GATTTAGGAT
34215459 TTATTTTCATTTATCTT-TAATTATCTTTAA
1 TTATTTTCATTTAT-TTGTAATTATCTTTAA
*
34215489 TTATCTTT-ATTTATTTGTATTTATCTTT
1 TTAT-TTTCATTTATTTGTAATTATCTTT
34215517 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 20 0.80
31 3 0.12
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (30 bp):
TTATTTTCATTTATTTGTAATTATCTTTAA
Found at i:34221557 original size:42 final size:42
Alignment explanation
Indices: 34221498--34221609 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
34221488 CCAAGGCTAT
*
34221498 GTGTAAGACCATATCTGGGATATGGCATC-ATTATAAGA-CTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATAAGATC-CC
* *
34221540 GTGTAAGACCATATCTGGGATATGCCATCGATATGAGATCCC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATAAGATCCC
*
34221582 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
34221610 TGGTGTAGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
42 61 0.97
43 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATAAGATCCC
Found at i:34224596 original size:42 final size:42
Alignment explanation
Indices: 34224475--34224629 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
34224465 TACTACACCA
* *
34224475 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAG-TCTCAAATCG
* * * * * *
34224517 ATGGCAATAACCCAGCTATGGTCTTACACGAAATCTCACATCG
1 AT-GCCATATCCCAGATATGGTCTTACATGAAGTCTCAAATCG
* * *
34224560 ATGCCACATCCCATATATGGTCTTATATGAAGTCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCA-AATCG
* *
34224602 ATACCATATCCCAAATATGGTCTTACAT
1 ATGCCATATCCCAGATATGGTCTTACAT
34224630 AGCCTCGGTA
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 54 0.60
43 36 0.40
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCAAATCG
Found at i:34229150 original size:18 final size:17
Alignment explanation
Indices: 34229127--34229163 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
34229117 ATATGAAATA
*
34229127 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
34229145 AATTATAATATATTAAT
1 AATTATAATATATTAAT
34229162 AA
1 AA
34229164 AATAAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:34232847 original size:6 final size:6
Alignment explanation
Indices: 34232838--34232873 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
34232828 TGAATATGAA
34232838 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
34232874 CCTACGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
TGTTAC
Found at i:34234501 original size:17 final size:17
Alignment explanation
Indices: 34234461--34234503 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
34234451 ATTATGATTT
34234461 AAATCAATA-ATCAACA
1 AAATCAATATATCAACA
* *
34234477 AAAACAATATATCAATA
1 AAATCAATATATCAACA
*
34234494 CAATCAATAT
1 AAATCAATAT
34234504 GTGATTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATCAATATATCAACA
Found at i:34234855 original size:47 final size:47
Alignment explanation
Indices: 34234786--34234882 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
34234776 ATGCAAGGAG
*
34234786 TGATCCCTATGCAATTTCTAATCTAAACGCAATTTTACATGAATGTA
1 TGATCCCTATGCAATTTCTAATCTAAACACAATTTTACATGAATGTA
34234833 TGATCCCTATGCAATTTCTAATCTAAACACAATTTTACATGAATGTA
1 TGATCCCTATGCAATTTCTAATCTAAACACAATTTTACATGAATGTA
34234880 TGA
1 TGA
34234883 ATGAGGGCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (47 bp):
TGATCCCTATGCAATTTCTAATCTAAACACAATTTTACATGAATGTA
Found at i:34237451 original size:3 final size:3
Alignment explanation
Indices: 34237443--34237479 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
34237433 AAAATGGTTC
* *
34237443 AAT AAT AAT AAT AAC AAT AAT AAT ATT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34237480 CAAGTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34239319 original size:143 final size:142
Alignment explanation
Indices: 34239161--34239580 Score: 597
Period size: 143 Copynumber: 2.9 Consensus size: 142
34239151 GGTTTGTGAC
* * *
34239161 TTGTAGCTTTAATCTGTTCCTCTGTAACTTCAGGGAAATAAGATTCGCTGTCTTTAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * *
34239226 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCCACTGTAACTTCATGAAGATAA
66 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA-GAAGATAA
34239291 GATTCGCCATAAT
130 GATTCGCCATAAT
* ** *
34239304 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAAAGAGATAAGATTCGCTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
* * * * **
34239369 GCTACAACTTCAGAGAGATGATGCTGGTGGCTTCAATCTGCTCCGTTGCAACTTCAAGAAGATAA
66 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC-AGAAGATAA
*
34239434 GATCCGCCATAAT
130 GATTCGCCATAAT
* * * * * *
34239447 TTGTAGCTTTAATATATTCCACTGCAACGTCAGGGAAGTAAGATTCGTTGTCTTCAGTTTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
*
34239512 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATGA
66 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG-AAGATAA
34239577 GATT
130 GATT
34239581 TATGGATTCA
Statistics
Matches: 240, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
142 2 0.01
143 237 0.99
144 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (142 bp):
TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCC
GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAGATAAG
ATTCGCCATAAT
Found at i:34239379 original size:45 final size:46
Alignment explanation
Indices: 34239309--34239436 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 46
34239299 ATAATTTGTA
* * *
34239309 GCTTCAATCTGTTCCACTGCAACTTCAAAGAGATAAGATTC-GCTG
1 GCTTCAATCTGCTCCGCTGCAACTTCAAAGAGATAAGATGCTGCTG
* * * * *
34239354 TCTTCAGTCTGCTCCGCTACAACTTCAGAGAGAT--GATGCTGGTG
1 GCTTCAATCTGCTCCGCTGCAACTTCAAAGAGATAAGATGCTGCTG
*
34239398 GCTTCAATCTGCTCCGTTGCAACTTC-AAGAAGATAAGAT
1 GCTTCAATCTGCTCCGCTGCAACTTCAAAG-AGATAAGAT
34239437 CCGCCATAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
43 6 0.09
44 29 0.44
45 28 0.42
46 3 0.05
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (46 bp):
GCTTCAATCTGCTCCGCTGCAACTTCAAAGAGATAAGATGCTGCTG
Found at i:34239413 original size:44 final size:44
Alignment explanation
Indices: 34239309--34239425 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 44
34239299 ATAATTTGTA
* * *
34239309 GCTTCAATCTGTTCCACTGCAACTTCAAAGAGATAAGATTCGCTG
1 GCTTCAATCTGCTCCGCTGCAACTTCAAAGAGAT-AGATGCGCTG
* * * * *
34239354 TCTTCAGTCTGCTCCGCTACAACTTCAGAGAGAT-GATGCTGGTG
1 GCTTCAATCTGCTCCGCTGCAACTTCAAAGAGATAGATGC-GCTG
*
34239398 GCTTCAATCTGCTCCGTTGCAACTTCAA
1 GCTTCAATCTGCTCCGCTGCAACTTCAA
34239426 GAAGATAAGA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
43 4 0.07
44 26 0.45
45 28 0.48
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTTCAATCTGCTCCGCTGCAACTTCAAAGAGATAGATGCGCTG
Found at i:34240072 original size:46 final size:46
Alignment explanation
Indices: 34239939--34240078 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
34239929 GTTTCTTCCG
* *
34239939 TCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCATCTTCAA
1 TCCATCCCACTGTAACTCAAGGGTATAGGATTTGTATCTTCTTCAA
* *
34239985 TCCATCCCACTGTAACTCAGGGGTATAAGATTTGTATCTTCTTCAA
1 TCCATCCCACTGTAACTCAAGGGTATAGGATTTGTATCTTCTTCAA
* * **
34240031 TCCATCCTACTGTAGCTCAAGGGTATAGGATTTGTGGCTTCTTCAA
1 TCCATCCCACTGTAACTCAAGGGTATAGGATTTGTATCTTCTTCAA
34240077 TC
1 TC
34240079 AATTGATCTG
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (46 bp):
TCCATCCCACTGTAACTCAAGGGTATAGGATTTGTATCTTCTTCAA
Found at i:34240538 original size:52 final size:53
Alignment explanation
Indices: 34240462--34240564 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 53
34240452 GGGAGCATAG
34240462 CTCGAAATGAATAAATTAATCAAAGAT-GACAAATGCAATAAAAAGGAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATAG-CAAATGCAATAAAAAGGAAATTAA
* * *
34240515 CTCGAAATG-ATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAAAAGGAAATT
34240565 GATTGGGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
52 36 0.78
53 10 0.22
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAATAAAAAGGAAATTAA
Found at i:34250514 original size:52 final size:52
Alignment explanation
Indices: 34250446--34250554 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
34250436 GGGAAAAAGA
* * *
34250446 GAAAAGCCGCGATAAGGGAAGGGATAAGGATTCTGATCGACATAGGGACAGG
1 GAAAGGCCGCGATAAGGGAAGGGATAAGGATTCCGATCGACATAGGGACAAG
34250498 GAAAGGCCGCGATAAGGGAAGGGATAAGGATTCCGATCGACATAGGGACAAG
1 GAAAGGCCGCGATAAGGGAAGGGATAAGGATTCCGATCGACATAGGGACAAG
34250550 GAAAG
1 GAAAG
34250555 AGACAAGGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.38, C:0.14, G:0.37, T:0.12
Consensus pattern (52 bp):
GAAAGGCCGCGATAAGGGAAGGGATAAGGATTCCGATCGACATAGGGACAAG
Found at i:34254788 original size:15 final size:15
Alignment explanation
Indices: 34254770--34254805 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
34254760 CACCTCCAAT
34254770 GCCGCTGCCTCCTCC
1 GCCGCTGCCTCCTCC
34254785 GCCGCTGCCTCCTCC
1 GCCGCTGCCTCCTCC
34254800 GCCGCT
1 GCCGCT
34254806 TACTCCTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.58, G:0.22, T:0.19
Consensus pattern (15 bp):
GCCGCTGCCTCCTCC
Found at i:34254811 original size:15 final size:15
Alignment explanation
Indices: 34254770--34254814 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
34254760 CACCTCCAAT
*
34254770 GCCGCTGCCTCCTCC
1 GCCGCTGACTCCTCC
*
34254785 GCCGCTGCCTCCTCC
1 GCCGCTGACTCCTCC
*
34254800 GCCGCTTACTCCTCC
1 GCCGCTGACTCCTCC
34254815 ATTTCGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.02, C:0.58, G:0.18, T:0.22
Consensus pattern (15 bp):
GCCGCTGACTCCTCC
Found at i:34258041 original size:26 final size:26
Alignment explanation
Indices: 34258010--34258059 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
34258000 GCATGTTAAG
*
34258010 GAATGAACTGTAGCAGCAGTTAAGCA
1 GAATGAACTATAGCAGCAGTTAAGCA
*
34258036 GAATGAACTATTGCAGCAGTTAAG
1 GAATGAACTATAGCAGCAGTTAAG
34258060 TTGGTTCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (26 bp):
GAATGAACTATAGCAGCAGTTAAGCA
Found at i:34260951 original size:27 final size:27
Alignment explanation
Indices: 34260921--34261000 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
34260911 TCCTGTTCAC
*
34260921 GAGGCAATCCGTCAGTCCTCTGTTTGT
1 GAGGCAATCCGTCAGTCCTCTGTTCGT
* * *
34260948 GAGGCAATCTGCCAGTCAC-CTATTCGT
1 GAGGCAATCCGTCAGTC-CTCTGTTCGT
34260975 GAGGCAA-CC-TACCAGTCCTCTGTTCG
1 GAGGCAATCCGT--CAGTCCTCTGTTCG
34261001 CGAGACAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
26 2 0.05
27 39 0.93
28 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.28
Consensus pattern (27 bp):
GAGGCAATCCGTCAGTCCTCTGTTCGT
Found at i:34261016 original size:27 final size:28
Alignment explanation
Indices: 34260933--34261064 Score: 85
Period size: 27 Copynumber: 4.9 Consensus size: 28
34260923 GGCAATCCGT
* * * *
34260933 CAGTC-CTCTGTTTGTGAGGCAATCTGC
1 CAGTCACTCTGTTCGCGAGACAGTCTGC
* * * ** *
34260960 CAGTCAC-CTATTCGTGAGGCAACCTAC
1 CAGTCACTCTGTTCGCGAGACAGTCTGC
34260987 CAGTC-CTCTGTTCGCGAGACAGTCTGC
1 CAGTCACTCTGTTCGCGAGACAGTCTGC
* * *
34261014 CAGTCACT-TGTTTGCGAGCCAGTCCGC
1 CAGTCACTCTGTTCGCGAGACAGTCTGC
* * *
34261041 CAATCAC-CTGTTCGCTAGATAGTC
1 CAGTCACTCTGTTCGCGAGACAGTC
34261065 CACCAACCGA
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
26 1 0.01
27 79 0.95
28 3 0.04
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (28 bp):
CAGTCACTCTGTTCGCGAGACAGTCTGC
Found at i:34266531 original size:16 final size:16
Alignment explanation
Indices: 34266510--34266541 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34266500 TACATGCCAT
34266510 TGATTTCCAAAATAAA
1 TGATTTCCAAAATAAA
34266526 TGATTTCCAAAATAAA
1 TGATTTCCAAAATAAA
34266542 GTCTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
TGATTTCCAAAATAAA
Found at i:34277270 original size:20 final size:20
Alignment explanation
Indices: 34277234--34277273 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34277224 TTGTAAGGGA
*
34277234 TTGCACTTCAGTTCCTCTGT
1 TTGCACTTCAGTGCCTCTGT
34277254 TTGCACTTC-GATGCCTCTGT
1 TTGCACTTCAG-TGCCTCTGT
34277274 ATTTGAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.10, C:0.30, G:0.17, T:0.42
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTGT
Found at i:34291581 original size:87 final size:86
Alignment explanation
Indices: 34291457--34291616 Score: 250
Period size: 87 Copynumber: 1.8 Consensus size: 86
34291447 TGCATAAAGA
*
34291457 TGAGTTTTTACTTCTAATGAATTCATAGCCCAAATTTTGGGTAGTCCTATTGAGACAGACTTGAT
1 TGAGTTTTTACTTCTAATGAATTCATAGCCCAAATTTTGGGTAGTCCTATTAAGACAGACTTGAT
34291522 GAATTCACCAACTTGAGAGGT
66 GAATTCACCAACTTGAGAGGT
* * * *
34291543 TGAGTTTATTAC-TCTTAATGAGTTCATATCCCACATTTTGGGTAGTCCTATTAAGACGGACTTG
1 TGAGTTT-TTACTTC-TAATGAATTCATAGCCCAAATTTTGGGTAGTCCTATTAAGACAGACTTG
34291607 ATGAATTCAC
64 ATGAATTCAC
34291617 TGAACTTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
86 9 0.13
87 58 0.87
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (86 bp):
TGAGTTTTTACTTCTAATGAATTCATAGCCCAAATTTTGGGTAGTCCTATTAAGACAGACTTGAT
GAATTCACCAACTTGAGAGGT
Found at i:34293276 original size:44 final size:46
Alignment explanation
Indices: 34293212--34293340 Score: 147
Period size: 44 Copynumber: 2.7 Consensus size: 46
34293202 ATTGAGACAA
*
34293212 GAGCTAGTGTAAAACATGTCTGGGACATGCATCAACTACG-AGATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAAC-ACGAAGATGT
* * *
34293258 G-TC-AGTGTAAGACATGTCTGGGACATGACATCGACACGAATATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATG-CATCAACACGAAGATGT
34293303 GAAAGCTAGTGTAAGACCATGTCTGGGACATAGCATCA
1 G--AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCA
34293341 GCATTCTACC
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
44 26 0.38
45 13 0.19
46 1 0.01
48 1 0.01
49 9 0.13
50 18 0.26
51 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACACGAAGATGT
Found at i:34298059 original size:54 final size:53
Alignment explanation
Indices: 34297992--34298098 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 53
34297982 ATCAAAAGAT
*
34297992 AGGGAAAGCAGTTATCCGATTTATCCTGATTGTTTTAACTGCTACTGTGGGTG
1 AGGGAAAGAAGTTATCCGATTTATCCTGATTGTTTTAACTGCTACTGTGGGTG
34298045 NAGGGAAAGAAGTTATCCGATTTATCCTGATTGTTTTAACTGCTACTGTGGGTG
1 -AGGGAAAGAAGTTATCCGATTTATCCTGATTGTTTTAACTGCTACTGTGGGTG
34298099 TTTCCTCCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.36
Consensus pattern (53 bp):
AGGGAAAGAAGTTATCCGATTTATCCTGATTGTTTTAACTGCTACTGTGGGTG
Found at i:34308788 original size:25 final size:25
Alignment explanation
Indices: 34308750--34308816 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
34308740 TCCTGTACAT
*
34308750 GTATGCTCAT-ACGAGCTATGAA-CTG
1 GTATGCTC-TCACGAGCTAAGAATC-G
34308775 GTATGCTCTCACGAGCTAAGAATCG
1 GTATGCTCTCACGAGCTAAGAATCG
*
34308800 GTAAGCTCTCACGAGCT
1 GTATGCTCTCACGAGCT
34308817 GCAATCGGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTAAGAATCG
Found at i:34308827 original size:24 final size:24
Alignment explanation
Indices: 34308760--34308827 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
34308750 GTATGCTCAT
*
34308760 ACGAGCTATGAA-CTGGTATGCTCTC
1 ACGAGCTA-GAATC-GGTAAGCTCTC
34308785 ACGAGCTAAGAATCGGTAAGCTCTC
1 ACGAGCT-AGAATCGGTAAGCTCTC
34308810 ACGAGCT-GCAATCGGTAA
1 ACGAGCTAG-AATCGGTAA
34308828 TCCCTAATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 1 0.03
24 9 0.23
25 27 0.69
26 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (24 bp):
ACGAGCTAGAATCGGTAAGCTCTC
Found at i:34313466 original size:20 final size:19
Alignment explanation
Indices: 34313441--34313478 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
34313431 GGATGCGAAT
34313441 GTCCGAGCTCGTTGAGTTGA
1 GTCCGAGCTCG-TGAGTTGA
*
34313461 GTCCGAGTTCGTGAGTTG
1 GTCCGAGCTCGTGAGTTG
34313479 TAACTAGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.13, C:0.18, G:0.37, T:0.32
Consensus pattern (19 bp):
GTCCGAGCTCGTGAGTTGA
Found at i:34313551 original size:93 final size:93
Alignment explanation
Indices: 34313392--34313564 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
34313382 AGGATATTTG
* * * * *
34313392 GGCATCCGAGCTTATTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
*
34313457 TTGAGTCCGAGTTCGTGAGTTGTAACTA
66 TTGAGTCCAAGTTCGTGAGTTGTAACTA
*
34313485 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
34313550 TTGAGTCCAAGTTCG
66 TTGAGTCCAAGTTCG
34313565 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCAAGTTCGTGAGTTGTAACTA
Found at i:34313557 original size:46 final size:46
Alignment explanation
Indices: 34313397--34313571 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
34313387 ATTTGGGCAT
** * * * *
34313397 CCGAGCTTATTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
34313443 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GTTG-TAACTAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
34313488 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
34313536 CCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34313572 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 3 0.03
46 59 0.56
47 28 0.27
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:34318846 original size:28 final size:28
Alignment explanation
Indices: 34318806--34318871 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
34318796 AGCTGCGAGA
* *
34318806 TGAATTGTGAAATGACACCATGAAGTGG
1 TGAACTGTGAAATGACACCACGAAGTGG
**
34318834 TGAACTGTGAAATGACACTGCGAAGTGG
1 TGAACTGTGAAATGACACCACGAAGTGG
34318862 TGAACTGTGA
1 TGAACTGTGA
34318872 GATGTCTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (28 bp):
TGAACTGTGAAATGACACCACGAAGTGG
Found at i:34319305 original size:14 final size:14
Alignment explanation
Indices: 34319286--34319313 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34319276 AAGAAAGAAA
34319286 GAATTTGTCTTGCT
1 GAATTTGTCTTGCT
34319300 GAATTTGTCTTGCT
1 GAATTTGTCTTGCT
34319314 TCTTCATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (14 bp):
GAATTTGTCTTGCT
Found at i:34321292 original size:28 final size:28
Alignment explanation
Indices: 34321258--34321317 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
34321248 AGTTACGAGA
* *
34321258 TGAATTGCGAAACGACATCGCGAAGTGG
1 TGAATTGCGAAACGACACCACGAAGTGG
*
34321286 TGAATTGCGAAATGACACCACGAAGTGG
1 TGAATTGCGAAACGACACCACGAAGTGG
34321314 TGAA
1 TGAA
34321318 GTGTGAGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (28 bp):
TGAATTGCGAAACGACACCACGAAGTGG
Found at i:34321331 original size:28 final size:28
Alignment explanation
Indices: 34321258--34321347 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 28
34321248 AGTTACGAGA
* * * *
34321258 TGAATTGCGAAACGACATCGCGAAGTGG
1 TGAAGTGCGAAATGACACCACGAAGTGG
*
34321286 TGAATTGCGAAATGACACCACGAAGTGG
1 TGAAGTGCGAAATGACACCACGAAGTGG
* * * * *
34321314 TGAAGTGTGAGATTACACCACAAAATGG
1 TGAAGTGCGAAATGACACCACGAAGTGG
34321342 TGAAGT
1 TGAAGT
34321348 ACAAGATGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.20
Consensus pattern (28 bp):
TGAAGTGCGAAATGACACCACGAAGTGG
Found at i:34321354 original size:28 final size:28
Alignment explanation
Indices: 34321300--34321354 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
34321290 TTGCGAAATG
* * ***
34321300 ACACCACGAAGTGGTGAAGTGTGAGATT
1 ACACCACAAAATGGTGAAGTACAAGATT
34321328 ACACCACAAAATGGTGAAGTACAAGAT
1 ACACCACAAAATGGTGAAGTACAAGAT
34321355 GTCTTTGCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.18
Consensus pattern (28 bp):
ACACCACAAAATGGTGAAGTACAAGATT
Found at i:34327730 original size:13 final size:13
Alignment explanation
Indices: 34327712--34327747 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
34327702 GCCCATTCGT
34327712 CGAAATTTTCGAA
1 CGAAATTTTCGAA
34327725 CGAAATTTTCGAA
1 CGAAATTTTCGAA
*
34327738 TGAAATTTTC
1 CGAAATTTTC
34327748 ATGAAGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (13 bp):
CGAAATTTTCGAA
Found at i:34339232 original size:17 final size:17
Alignment explanation
Indices: 34339212--34339269 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
34339202 GATTTCTTCA
34339212 AAAAATATTAATTAATT
1 AAAAATATTAATTAATT
*
34339229 AAAAACA-TAATATAATT
1 AAAAATATTAAT-TAATT
34339246 ACAAAATATTCAATT--TT
1 A-AAAATATT-AATTAATT
34339263 AAAAATA
1 AAAAATA
34339270 ATACAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 10 0.29
17 15 0.43
18 5 0.14
19 2 0.06
20 3 0.09
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATATTAATTAATT
Found at i:34341661 original size:3 final size:3
Alignment explanation
Indices: 34341655--34341685 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34341645 AAAGAAAAAA
34341655 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
34341686 GAGACTGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34346376 original size:162 final size:163
Alignment explanation
Indices: 34346085--34346388 Score: 407
Period size: 162 Copynumber: 1.9 Consensus size: 163
34346075 TTCAGTATTA
* * *
34346085 ATTGACAGGTGCACTTGAGTTGAGAACAGCTTCCTGTTATTGAGAAACCTAGTGATATCCATATT
1 ATTGACAGGTGCACTTGAATTAAGAACAGCTTCCTGTTATTGAGAAACCTAGTGATATCCATACT
** * * *
34346150 TATAGTTTTATAATGTTTGGACTTTTAGGCTATTGAGTTCTATTTAAAATATGTATCATAGTCAC
66 TATAGTTTTATAACATTTGGACTTTTAAGCTATTGAGTTCTATTTAAAATATGAACCATAGTCAC
34346215 TTAAAAGAAAAAAGGGGGGGGGGTTCGGAATTT
131 TTAAAAGAAAAAAGGGGGGGGGGTTCGGAATTT
* * * * *
34346248 ATTGACAGGTGTATTTGAATTAAGAACAGCTTTCTGTTATT-A-ACAATCTAGT-ATAATCCGTA
1 ATTGACAGGTGCACTTGAATTAAGAACAGCTTCCTGTTATTGAGA-AACCTAGTGAT-ATCCATA
* * * * *
34346310 CTTCTAGTTTTATAACATTTGGACTTTTAAGCTATTTAGTTTTATTTAGAATATGAACCTTAGTC
64 CTTATAGTTTTATAACATTTGGACTTTTAAGCTATTGAGTTCTATTTAAAATATGAACCATAGTC
34346375 ACTTAAAAGAAAAA
129 ACTTAAAAGAAAAA
34346389 GGTAGTTTAG
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
161 3 0.02
162 82 0.68
163 36 0.30
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (163 bp):
ATTGACAGGTGCACTTGAATTAAGAACAGCTTCCTGTTATTGAGAAACCTAGTGATATCCATACT
TATAGTTTTATAACATTTGGACTTTTAAGCTATTGAGTTCTATTTAAAATATGAACCATAGTCAC
TTAAAAGAAAAAAGGGGGGGGGGTTCGGAATTT
Found at i:34351808 original size:45 final size:44
Alignment explanation
Indices: 34351723--34351808 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
34351713 TATGTAATTT
* *
34351723 GAACTTATTGAGTTGTGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCC
* *
34351767 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATGTATGACA
1 GAACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGACA
34351809 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCC
Found at i:34358658 original size:13 final size:13
Alignment explanation
Indices: 34358640--34358679 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
34358630 GAAGTAATCG
34358640 CACACGGGCGTGT
1 CACACGGGCGTGT
34358653 CACACGGGCGTGT
1 CACACGGGCGTGT
*
34358666 CACACGGGCATGT
1 CACACGGGCGTGT
34358679 C
1 C
34358680 CCTGTCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:34368336 original size:21 final size:20
Alignment explanation
Indices: 34368299--34368337 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34368289 TTAAAAATTA
**
34368299 ATTTAATTTTTTGAATTATT
1 ATTTAATTGATTGAATTATT
34368319 ATTTAATTGATTGTAATTA
1 ATTTAATTGATTG-AATTA
34368338 AACAATTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
ATTTAATTGATTGAATTATT
Found at i:34370244 original size:17 final size:17
Alignment explanation
Indices: 34370222--34370257 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
34370212 TCATAAACAC
*
34370222 ACAATTGATCAAATTGA
1 ACAATTCATCAAATTGA
34370239 ACAATTCATCAAATTGA
1 ACAATTCATCAAATTGA
34370256 AC
1 AC
34370258 TTGTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (17 bp):
ACAATTCATCAAATTGA
Found at i:34370526 original size:40 final size:40
Alignment explanation
Indices: 34370435--34370614 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
34370425 ATTCTCGCAA
**
34370435 ACTAAGTGCCAATACATAGCCGAAGCTAT-TTTAATCTCACAC
1 ACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA--TCACAC
* *
34370477 ACTAAGTGCCATACATAGCCGAAGCTTTCTTGAATCACAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCACAC
* ** * **
34370517 GCTAAGTGCCATACATAATCGAAGCTATCTCCAATCGTAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCACAC
* *
34370557 ACTATGTGCCATACATAGCTGAAGCTATCTCGAATCACAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCACAC
34370597 ACTAAGTGCCATACATAG
1 ACTAAGTGCCATACATAG
34370615 TCGGATTGTC
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 87 0.74
41 17 0.14
42 14 0.12
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (40 bp):
ACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCACAC
Found at i:34374507 original size:28 final size:28
Alignment explanation
Indices: 34374443--34374508 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
34374433 AAAGAGTTTA
* * *
34374443 CCACAAGGCACTATTTTAACAGAGATGG
1 CCACAAAGCACTATTTTAACAAAGATAG
*
34374471 CAACAAAAGCA-TATTTTTAACAAAGATAG
1 CCAC-AAAGCACTA-TTTTAACAAAGATAG
34374500 CCACAAAGC
1 CCACAAAGC
34374509 CATCCTCTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (28 bp):
CCACAAAGCACTATTTTAACAAAGATAG
Found at i:34374548 original size:29 final size:29
Alignment explanation
Indices: 34374494--34374557 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
34374484 TTTTTAACAA
* *
34374494 AGATAGCCACAAAGCCATCCTCTT-AATAG
1 AGATAGCCACAAAGACATCATCTTAAAT-G
*
34374523 AGATAGCCATAAAGACATTCAT-TTAAATG
1 AGATAGCCACAAAGACA-TCATCTTAAATG
34374552 AGATAG
1 AGATAG
34374558 TGTAACACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (29 bp):
AGATAGCCACAAAGACATCATCTTAAATG
Found at i:34376066 original size:48 final size:48
Alignment explanation
Indices: 34376008--34376194 Score: 171
Period size: 48 Copynumber: 3.9 Consensus size: 48
34375998 GTGAATTATC
* * *
34376008 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCA
1 GATGCCATGTCCCAAACATGGTCCTACACTAGCACACATATCAAGGCA
* * * * * * *
34376056 GATGCTATGT-CCAAGACATGGTCCCACACTAGCCCTCGTCTCAATGCCA
1 GATGCCATGTCCCAA-ACATGGTCCTACACTAGCACACATATCAA-GGCA
* * * * * *
34376105 -ATGCCATGTCCCAGACATGGTCTTACACTATCGCACATATCAATGCC
1 GATGCCATGTCCCAAACATGGTCCTACACTAGCACACATATCAAGGCA
* * *
34376152 GATGCCATGTTCCAGACATGGTCCTACACTGGCACACATATCA
1 GATGCCATGTCCCAAACATGGTCCTACACTAGCACACATATCA
34376195 CCCAAATGTC
Statistics
Matches: 109, Mismatches: 26, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
47 5 0.05
48 98 0.90
49 6 0.06
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCCTACACTAGCACACATATCAAGGCA
Found at i:34382895 original size:30 final size:32
Alignment explanation
Indices: 34382833--34382895 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
34382823 GCACCAACCT
* *
34382833 ACACAATATCAACCAAAACCAATCTAAGCATA
1 ACACAATATCAACCAAAACCAACCTAACCATA
34382865 ACAC-ATAT-AACCAAAA-CAACCATAACCATA
1 ACACAATATCAACCAAAACCAACC-TAACCATA
34382895 A
1 A
34382896 GAAATCTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.14
30 16 0.57
31 4 0.14
32 4 0.14
ACGTcount: A:0.56, C:0.29, G:0.02, T:0.14
Consensus pattern (32 bp):
ACACAATATCAACCAAAACCAACCTAACCATA
Found at i:34383640 original size:47 final size:48
Alignment explanation
Indices: 34383579--34383701 Score: 173
Period size: 47 Copynumber: 2.6 Consensus size: 48
34383569 TGTCGAGGCA
* *
34383579 GATGCCATGTCCCAGACATGGTCCTACACTAGCTCTCGTC-TCA-AT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-T--TCATAATATGGCC
34383627 -ATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATAATATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATAATATGGCC
34383674 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
34383702 TTGGCACACA
Statistics
Matches: 69, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
44 2 0.03
45 2 0.03
46 3 0.04
47 35 0.51
48 27 0.39
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATAATATGGCC
Found at i:34384941 original size:29 final size:29
Alignment explanation
Indices: 34384909--34384970 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
34384899 GGGGTGTTAC
* *
34384909 AGATAGCCACAAAGGAATCCTTTTAGCAG
1 AGATAGCCACAAAGGAATCCTTATAACAG
* * **
34384938 AGATTGCCATAAAGGCTTCCTTATAACAG
1 AGATAGCCACAAAGGAATCCTTATAACAG
34384967 AGAT
1 AGAT
34384971 GATCATAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (29 bp):
AGATAGCCACAAAGGAATCCTTATAACAG
Found at i:34391268 original size:30 final size:29
Alignment explanation
Indices: 34391232--34391289 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
34391222 AATCGAAAGT
34391232 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
34391262 TTTGGCACTAAGTGTGCGATTTAACTAG
1 TTTGGCACTAAGTGTGCGATTTAACTAG
34391290 TTTCGACTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:34395696 original size:68 final size:68
Alignment explanation
Indices: 34395624--34395799 Score: 184
Period size: 68 Copynumber: 2.6 Consensus size: 68
34395614 CATCATGTGT
** * * *
34395624 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGATA-TAAAT-GTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
34395686 ATGTAG
63 ATGTAG
* *
34395692 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCACATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGATATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
34395757 ATGTAG
63 ATGTAG
*
34395763 ACAAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATG
34395800 GGTGGTACTA
Statistics
Matches: 94, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
66 14 0.15
67 6 0.06
68 34 0.36
69 7 0.07
70 6 0.06
71 27 0.29
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:34408776 original size:31 final size:31
Alignment explanation
Indices: 34408727--34408796 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
34408717 AACCCTTCCT
* * *
34408727 GCATTAAATCCAACCAAAAATAGCAAATATA
1 GCATGAAATCCAACCAAAAACAACAAATATA
** *
34408758 GCATGAAATCCATTCAAAAACAACAAATGTA
1 GCATGAAATCCAACCAAAAACAACAAATATA
34408789 GCATGAAA
1 GCATGAAA
34408797 AATAAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.19, G:0.10, T:0.19
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAACAAATATA
Found at i:34409073 original size:21 final size:21
Alignment explanation
Indices: 34409049--34409098 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
34409039 GCTGTTGCCT
*
34409049 CTGCTTCCCTCGCTGCTACCG
1 CTGCCTCCCTCGCTGCTACCG
* *
34409070 CTGCCTCCTTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTACCG
34409091 CTGCCTCC
1 CTGCCTCC
34409099 GCTCTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTACCG
Found at i:34414643 original size:34 final size:34
Alignment explanation
Indices: 34414598--34414672 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
34414588 TATAATTAAG
* * *
34414598 TTATGTCAGTTATG-ATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAATGATATA-AGTTATGTA
* *
34414632 TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAATGATATAAGTTATGTA
34414666 TTATGTA
1 TTATGTA
34414673 CGATATAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 28 0.80
35 7 0.20
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAATGATATAAGTTATGTA
Found at i:34414646 original size:9 final size:9
Alignment explanation
Indices: 34414594--34414665 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 9
34414584 ATAGTATAAT
34414594 TAAGTTATG
1 TAAGTTATG
*
34414603 TCAGTTATG
1 TAAGTTATG
* * *
34414612 ATATGATATA
1 -TAAGTTATG
*
34414622 T-ATTTATG
1 TAAGTTATG
34414630 T-A-TTATG
1 TAAGTTATG
34414637 TAAGTTATG
1 TAAGTTATG
*
34414646 TAAATTATG
1 TAAGTTATG
34414655 TAAGTTATG
1 TAAGTTATG
34414664 TA
1 TA
34414666 TTATGTACGA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 32 0.65
10 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:34414654 original size:18 final size:18
Alignment explanation
Indices: 34414631--34414665 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
34414621 ATATTTATGT
34414631 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
34414649 ATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
34414666 TTATGTACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:34414812 original size:9 final size:9
Alignment explanation
Indices: 34414793--34414940 Score: 92
Period size: 9 Copynumber: 16.1 Consensus size: 9
34414783 CCATGTGTGT
34414793 TAAATTTATG
1 TAAA-TTATG
34414803 TAAATTATG
1 TAAATTATG
*
34414812 TAAGTTATG
1 TAAATTATG
*
34414821 -AAATTTGATCTT
1 TAAA-TT-A--TG
34414833 TAAATTATG
1 TAAATTATG
* *
34414842 TAAGTCATG
1 TAAATTATG
34414851 T--ATTATG
1 TAAATTATG
34414858 TAAATTATG
1 TAAATTATG
*
34414867 AAAATTATG
1 TAAATTATG
*
34414876 TAAGTTATG
1 TAAATTATG
*
34414885 -AAATTCGAACTT
1 TAAATT---A-TG
*
34414897 TAAATTATA
1 TAAATTATG
*
34414906 TAAGTTATG
1 TAAATTATG
34414915 T--ATTATG
1 TAAATTATG
34414922 TAAATTATG
1 TAAATTATG
34414931 TAAATTATG
1 TAAATTATG
34414940 T
1 T
34414941 TAGTTGCTGG
Statistics
Matches: 107, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
7 11 0.10
8 6 0.06
9 70 0.65
10 6 0.06
11 2 0.02
12 4 0.04
13 8 0.07
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.45
Consensus pattern (9 bp):
TAAATTATG
Found at i:34414838 original size:30 final size:30
Alignment explanation
Indices: 34414803--34414914 Score: 118
Period size: 30 Copynumber: 3.6 Consensus size: 30
34414793 TAAATTTATG
*
34414803 TAAATTATGTAAGTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAAATTTGAACTT
* * *
34414833 TAAATTATGTAAGTCATG-TATTATGTAAATT
1 TAAATTATGTAAGTTATGAAATT-TG-AACTT
*
34414864 ATGAAAATTATGTAAGTTATGAAATTCGAACTT
1 -T--AAATTATGTAAGTTATGAAATTTGAACTT
*
34414897 TAAATTATATAAGTTATG
1 TAAATTATGTAAGTTATG
34414915 TATTATGTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
29 3 0.04
30 35 0.52
31 3 0.04
32 2 0.03
33 4 0.06
34 17 0.25
35 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTGAACTT
Found at i:34414872 original size:64 final size:64
Alignment explanation
Indices: 34414793--34414945 Score: 243
Period size: 64 Copynumber: 2.4 Consensus size: 64
34414783 CCATGTGTGT
* * *
34414793 TAAATTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTATTATG
1 TAAA-TTATGTAAATTATGTAAGTTATGAAATTCGAACTTTAAATTATATAAGTCATGTATTATG
* *
34414858 TAAATTATGAAAATTATGTAAGTTATGAAATTCGAACTTTAAATTATATAAGTTATGTATTATG
1 TAAATTATGTAAATTATGTAAGTTATGAAATTCGAACTTTAAATTATATAAGTCATGTATTATG
*
34414922 TAAATTATGTAAATTATGTTAGTT
1 TAAATTATGTAAATTATGTAAGTT
34414946 GCTGGTGAAC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
64 77 0.95
65 4 0.05
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (64 bp):
TAAATTATGTAAATTATGTAAGTTATGAAATTCGAACTTTAAATTATATAAGTCATGTATTATG
Found at i:34415523 original size:99 final size:99
Alignment explanation
Indices: 34415039--34415508 Score: 829
Period size: 99 Copynumber: 4.8 Consensus size: 99
34415029 AATTAAAGTG
34415039 AAATAAAAT-AGAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAA
1 AAATAAAATGA-AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAA
* *
34415103 ATAAAATAAAATATTGAAATTATTTTTCCTGATTC
65 ATAAAATAAAATATTAAAATTATTTTTCGTGATTC
*
34415138 AAAAAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
34415203 TAAAATAAAATATTAAAATTATTTTTCGTGATTC
66 TAAAATAAAATATTAAAATTATTTTTCGTGATTC
*
34415237 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
34415302 TAAAATAAAATATTAAAATTATTTTTCGTGATTC
66 TAAAATAAAATATTAAAATTATTTTTCGTGATTC
*
34415336 AAATTAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
34415401 TAAAATAAAATATTAAAATTATTTTTCGTGATTC
66 TAAAATAAAATATTAAAATTATTTTTCGTGATTC
* * *
34415435 AAA-AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAT-TTGAAA
1 AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTT-AAA
34415498 ATAAAATAAAA
65 ATAAAATAAAA
34415509 GAGAACAAAA
Statistics
Matches: 360, Mismatches: 9, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
97 2 0.01
98 64 0.18
99 293 0.81
100 1 0.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (99 bp):
AAATAAAATGAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAA
TAAAATAAAATATTAAAATTATTTTTCGTGATTC
Found at i:34418839 original size:21 final size:20
Alignment explanation
Indices: 34418748--34418839 Score: 58
Period size: 21 Copynumber: 4.2 Consensus size: 20
34418738 CCTAAACCCG
*
34418748 AAAACTTAAACCCTAAACTT
1 AAAACTTAAACCCCAAACTT
* *
34418768 AAAATCCTAAACCCTAAACTCT
1 AAAA-CTTAAACCCCAAACT-T
* **
34418790 AAACACTAGATAAACCTCAAACAC
1 AAA-ACT---TAAACCCCAAACTT
*
34418814 CAAACTTAAAACCCCAAACTT
1 AAAACTT-AAACCCCAAACTT
34418835 AAAAC
1 AAAAC
34418840 CAACCATAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
20 5 0.09
21 28 0.52
22 5 0.09
23 4 0.07
24 2 0.04
25 10 0.19
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.18
Consensus pattern (20 bp):
AAAACTTAAACCCCAAACTT
Found at i:34418840 original size:14 final size:14
Alignment explanation
Indices: 34418808--34418840 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
34418798 GATAAACCTC
*
34418808 AAACACCAAACTTA
1 AAACCCCAAACTTA
34418822 AAACCCCAAACTTA
1 AAACCCCAAACTTA
34418836 AAACC
1 AAACC
34418841 AACCATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (14 bp):
AAACCCCAAACTTA
Found at i:34418859 original size:18 final size:18
Alignment explanation
Indices: 34418838--34418877 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
34418828 CAAACTTAAA
34418838 ACCAACCATAAATCCTAG
1 ACCAACCATAAATCCTAG
34418856 ACCAACCATAAATCCTAG
1 ACCAACCATAAATCCTAG
34418874 ACCA
1 ACCA
34418878 TAAAGCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.35, G:0.05, T:0.15
Consensus pattern (18 bp):
ACCAACCATAAATCCTAG
Found at i:34419443 original size:21 final size:21
Alignment explanation
Indices: 34419419--34419462 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
34419409 CCCGAAAACT
*
34419419 TAAACCCTAAACTTAAAATCC
1 TAAACCCTAAACTTAAAACCC
*
34419440 TAAACCCTAAACTTTAAACCC
1 TAAACCCTAAACTTAAAACCC
34419461 TA
1 TA
34419463 GATAAACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACTTAAAACCC
Found at i:34427689 original size:20 final size:22
Alignment explanation
Indices: 34427644--34427691 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
34427634 TCTATTCTCT
**
34427644 ATGTTGCAACATCAGACTTCGT
1 ATGTTGCAACATCAGACTTCCA
34427666 ATGTTGCAACAT-AG-CTTCCA
1 ATGTTGCAACATCAGACTTCCA
34427686 ATGTTG
1 ATGTTG
34427692 GCCTAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 2 0.08
22 12 0.50
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (22 bp):
ATGTTGCAACATCAGACTTCCA
Found at i:34428657 original size:20 final size:19
Alignment explanation
Indices: 34428632--34428672 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
34428622 TAACTTATAG
34428632 TTCCTATATCACACTAATTT
1 TTCCTATATCACACT-ATTT
* *
34428652 TTCCTATTTCACTCTATTT
1 TTCCTATATCACACTATTT
34428671 TT
1 TT
34428673 ACAAAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (19 bp):
TTCCTATATCACACTATTT
Found at i:34431963 original size:24 final size:25
Alignment explanation
Indices: 34431933--34431982 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
34431923 AGCATTTAAA
*
34431933 GTAAAATTTTCTCCTGCATTAATTT
1 GTAAATTTTTCTCCTGCATTAATTT
34431958 GTAAATTTTTCTCCTGCATTAATTT
1 GTAAATTTTTCTCCTGCATTAATTT
34431983 TCTTACTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.50
Consensus pattern (25 bp):
GTAAATTTTTCTCCTGCATTAATTT
Found at i:34432792 original size:19 final size:19
Alignment explanation
Indices: 34432768--34432806 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34432758 CAGTTGGATT
34432768 GCTAATATAGTGGAAGAGC
1 GCTAATATAGTGGAAGAGC
34432787 GCTAATATAGTGGAAGAGC
1 GCTAATATAGTGGAAGAGC
34432806 G
1 G
34432807 GTTTGACTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (19 bp):
GCTAATATAGTGGAAGAGC
Found at i:34437278 original size:25 final size:25
Alignment explanation
Indices: 34437249--34437296 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
34437239 AACCTCCACC
34437249 TTTAGCCACCCAATTGTCGCACCCT
1 TTTAGCCACCCAATTGTCGCACCCT
* *
34437274 TTTAGCCACCTAGTTGTCGCACC
1 TTTAGCCACCCAATTGTCGCACC
34437297 TAACTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.15, T:0.29
Consensus pattern (25 bp):
TTTAGCCACCCAATTGTCGCACCCT
Found at i:34444279 original size:29 final size:29
Alignment explanation
Indices: 34444246--34444306 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
34444236 AAAATGTGTA
34444246 CTTTGGTGTTTGAAGATGAAATATGAAAG
1 CTTTGGTGTTTGAAGATGAAATATGAAAG
34444275 CTTTGGTGTTTGAAGATGAAATATGAAAG
1 CTTTGGTGTTTGAAGATGAAATATGAAAG
34444304 CTT
1 CTT
34444307 GATGATAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (29 bp):
CTTTGGTGTTTGAAGATGAAATATGAAAG
Found at i:34446007 original size:21 final size:21
Alignment explanation
Indices: 34445952--34446007 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
34445942 TACGGCCTAG
*
34445952 CACACGAGCGTGTAACTTAGA
1 CACACGAGCGTGTGACTTAGA
*
34445973 CACACGAGCGTGTGACTTAGT
1 CACACGAGCGTGTGACTTAGA
*
34445994 CACACGAGTGTGTG
1 CACACGAGCGTGTG
34446008 TTCACCCGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (21 bp):
CACACGAGCGTGTGACTTAGA
Found at i:34454910 original size:42 final size:43
Alignment explanation
Indices: 34454862--34454949 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
34454852 TAGCCCAACT
*
34454862 ATGATCTTACA-AAAATCAAACAATGATACCAATGTCCCAGTC
1 ATGATCTTACACAAAATCAAACAATGATACCAATGTCCCAGAC
** * *
34454904 ATGATCTTACACGTAATCACATAATGATACCAATGTCCCAGAC
1 ATGATCTTACACAAAATCAAACAATGATACCAATGTCCCAGAC
34454947 ATG
1 ATG
34454950 GTCCAACACA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 11 0.28
43 29 0.73
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (43 bp):
ATGATCTTACACAAAATCAAACAATGATACCAATGTCCCAGAC
Found at i:34454931 original size:43 final size:43
Alignment explanation
Indices: 34454883--34454968 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
34454873 AAAATCAAAC
* ** *
34454883 AATGATACCAATGTCCCAGTCATGATCTTACACGTAATCACAT
1 AATGATACCAATGTCCCAGACATGATCCAACACATAATCACAT
*
34454926 AATGATACCAATGTCCCAGACATGGTCCAACACATAATCACAT
1 AATGATACCAATGTCCCAGACATGATCCAACACATAATCACAT
34454969 CTCGTTAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (43 bp):
AATGATACCAATGTCCCAGACATGATCCAACACATAATCACAT
Found at i:34457613 original size:22 final size:22
Alignment explanation
Indices: 34457588--34457629 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34457578 ATATTAGAAA
*
34457588 TGGTTTGTAAATGTATATGTTT
1 TGGTTTGTAAATATATATGTTT
*
34457610 TGGTTTGTATATATATATGT
1 TGGTTTGTAAATATATATGT
34457630 ATATATATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (22 bp):
TGGTTTGTAAATATATATGTTT
Found at i:34459463 original size:24 final size:24
Alignment explanation
Indices: 34459431--34459481 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
34459421 TAATGGGGGA
34459431 CTATTTTGCAAAATGGTTGAGAGT
1 CTATTTTGCAAAATGGTTGAGAGT
34459455 CTATTTTGCAAAATGGTTGAGAGT
1 CTATTTTGCAAAATGGTTGAGAGT
34459479 CTA
1 CTA
34459482 GGGTTTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (24 bp):
CTATTTTGCAAAATGGTTGAGAGT
Found at i:34460175 original size:48 final size:47
Alignment explanation
Indices: 34460103--34460389 Score: 268
Period size: 48 Copynumber: 6.0 Consensus size: 47
34460093 TGACATTCGG
* * *
34460103 TGATATGTGTGCCAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCA
1 TGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA
* * * * **
34460151 CGATATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGTAA
1 TGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCA
* * * * **
34460199 TGTTATGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCATTGGTGT
1 TGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA
* * * *
34460247 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGACATCGGCA
1 TGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
* * * * * * * *
34460294 TTGAGACGAGAGCTAGTATAAGACCATGTCTGAGACAAGACATCGGCA
1 -TGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
* *
34460342 TCGACATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCA
1 T-GATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
34460390 ATTTAGCCTC
Statistics
Matches: 191, Mismatches: 44, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
47 2 0.01
48 188 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
TGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
Found at i:34461972 original size:18 final size:18
Alignment explanation
Indices: 34461939--34461974 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
34461929 TTTGAGCTCA
34461939 GTTTTTGATAGTTTATAT
1 GTTTTTGATAGTTTATAT
34461957 GTTTTGTGATAG-TTATAT
1 GTTTT-TGATAGTTTATAT
34461975 CAAGTACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.58
Consensus pattern (18 bp):
GTTTTTGATAGTTTATAT
Found at i:34485952 original size:39 final size:40
Alignment explanation
Indices: 34485851--34486035 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
34485841 TTGAATGATG
* * * *
34485851 TCCGGGCTAATTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
34485890 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
34485931 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
34485970 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
34486009 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
34486036 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:34486057 original size:79 final size:79
Alignment explanation
Indices: 34485904--34486068 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
34485894 GGACTAAGAT
* ** *
34485904 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
34485969 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
34485983 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
34486046 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34486062 CCGAAGG
1 CCGAAGG
34486069 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34493926 original size:40 final size:41
Alignment explanation
Indices: 34493830--34493934 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
34493820 CGAATGATGT
*
34493830 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
34493870 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
34493910 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34493935 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:34508628 original size:38 final size:38
Alignment explanation
Indices: 34508580--34508655 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
34508570 CTAAAATGAT
34508580 AAAATTCACTACTTTAAATCATCACATTAACCAATATA
1 AAAATTCACTACTTTAAATCATCACATTAACCAATATA
34508618 AAAATTCACTACTTTAAATCATCACATTAACCAATATA
1 AAAATTCACTACTTTAAATCATCACATTAACCAATATA
34508656 TTCCATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (38 bp):
AAAATTCACTACTTTAAATCATCACATTAACCAATATA
Found at i:34509057 original size:8 final size:9
Alignment explanation
Indices: 34509033--34509057 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34509023 CTTCAAGGAT
34509033 ATCAAAAAC
1 ATCAAAAAC
34509042 ATCAAAAAC
1 ATCAAAAAC
34509051 ATCAAAA
1 ATCAAAA
34509058 GCCAACACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.12
Consensus pattern (9 bp):
ATCAAAAAC
Found at i:34511856 original size:108 final size:110
Alignment explanation
Indices: 34511678--34511878 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
34511668 TTTAAGGATA
34511678 CCATGTAAGACCATGCCAAGGCATAGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATAGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* *
34511743 CCATGTCAATACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
** *
34511788 CCATGTAAGACCATGCCAAGGCAT-GGCATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATAGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
34511850 ATCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
34511879 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 8 0.10
110 24 0.29
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATAGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:34511866 original size:53 final size:53
Alignment explanation
Indices: 34511671--34511925 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
34511661 ATTAGGGTTT
* **
34511671 AAGGATACCATGTAAGACCATGCCAAGGCATAGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GGCATTGGTAA-G-TTCATAAGGC
* * *
34511726 AAGGATACCATGTAAGACCATGTCAATACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
34511781 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
34511834 AAGGATACCATGTAAGATCATGTCGAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
34511883 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
34511926 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 24, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
49 38 0.22
51 1 0.01
52 8 0.05
53 42 0.25
54 9 0.05
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:34513464 original size:39 final size:39
Alignment explanation
Indices: 34513410--34513491 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
34513400 CAATGCTAAT
34513410 TTAAACTTCAGCTACCTTAGAAGAATAAACATGCATTGA
1 TTAAACTTCAGCTACCTTAGAAGAATAAACATGCATTGA
*
34513449 TTAAACTTCATCTACCTTAGAAGAATAAACATGCATTGA
1 TTAAACTTCAGCTACCTTAGAAGAATAAACATGCATTGA
34513488 TTAA
1 TTAA
34513492 GTACTGTGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (39 bp):
TTAAACTTCAGCTACCTTAGAAGAATAAACATGCATTGA
Found at i:34515126 original size:36 final size:36
Alignment explanation
Indices: 34515086--34515160 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
34515076 GGTTTAGGGG
*
34515086 TAGGTAGAAGATAGATAATTTTTAGGCTAAAAACCC
1 TAGGTAGAAGATAAATAATTTTTAGGCTAAAAACCC
34515122 TAGGTAGAAGATAAATAATTTTTAGGCTAAAAACCC
1 TAGGTAGAAGATAAATAATTTTTAGGCTAAAAACCC
34515158 TAG
1 TAG
34515161 ACTTTGCTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (36 bp):
TAGGTAGAAGATAAATAATTTTTAGGCTAAAAACCC
Found at i:34515284 original size:15 final size:15
Alignment explanation
Indices: 34515264--34515293 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34515254 TCATGCTCTT
34515264 TTTTCTTTTCTTTTA
1 TTTTCTTTTCTTTTA
34515279 TTTTCTTTTCTTTTA
1 TTTTCTTTTCTTTTA
34515294 AATCGAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTCTTTTA
Found at i:34518103 original size:22 final size:20
Alignment explanation
Indices: 34518064--34518110 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
34518054 TATACAGTTG
34518064 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
34518083 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
34518106 ATAAT
1 ATAAT
34518111 TATCATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:34525457 original size:14 final size:14
Alignment explanation
Indices: 34525438--34525465 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34525428 AACTACTTTT
34525438 TCATAATTTATTAA
1 TCATAATTTATTAA
34525452 TCATAATTTATTAA
1 TCATAATTTATTAA
34525466 CCAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TCATAATTTATTAA
Found at i:34525881 original size:17 final size:17
Alignment explanation
Indices: 34525859--34525892 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34525849 AATACACAGG
34525859 CCCATGTTCTAGGCCGT
1 CCCATGTTCTAGGCCGT
34525876 CCCATGTTCTAGGCCGT
1 CCCATGTTCTAGGCCGT
34525893 ATGGCACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.24, T:0.29
Consensus pattern (17 bp):
CCCATGTTCTAGGCCGT
Found at i:34532032 original size:6 final size:6
Alignment explanation
Indices: 34532021--34532063 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
34532011 TGCAAATGGA
* *
34532021 TCATTT TCATTT TCATTT TCATTT TCACTT CCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
34532064 TTTAAACCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (6 bp):
TCATTT
Found at i:34533364 original size:52 final size:52
Alignment explanation
Indices: 34533286--34533443 Score: 163
Period size: 52 Copynumber: 3.0 Consensus size: 52
34533276 GGAATGGTAT
* * ** * *
34533286 ATGAACTATCTTGCAATATAATGTTTATGCGAACTGTCATTACATCGATTGC
1 ATGAACTATCATACAAGGTAATGTTTATGCGAACTGTCATTACATTGAATGC
* ** * * *
34533338 ATGAACTGTCATGTAAGGTAATGTTTATGCAAAATGTCATTGCATTGAATGC
1 ATGAACTATCATACAAGGTAATGTTTATGCGAACTGTCATTACATTGAATGC
* * * * *
34533390 ATGAACTATCTTACAATGTAATGTTTATGTGAACTATCTTTACATTGAATGC
1 ATGAACTATCATACAAGGTAATGTTTATGCGAACTGTCATTACATTGAATGC
34533442 AT
1 AT
34533444 ATACTTTTTT
Statistics
Matches: 85, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
52 85 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (52 bp):
ATGAACTATCATACAAGGTAATGTTTATGCGAACTGTCATTACATTGAATGC
Found at i:34533512 original size:105 final size:104
Alignment explanation
Indices: 34533286--34533518 Score: 272
Period size: 105 Copynumber: 2.2 Consensus size: 104
34533276 GGAATGGTAT
* * *
34533286 ATGAACTATCTTGCAATATAATGTTTATGCGAACTGTCATTACATCGATTGCATGAACTGTCATG
1 ATGAACTATCTTGCAATGTAATGTTTATGCGAACTATCATTACATCGAATGCATGAACTGTCATG
* * *
34533351 TAAGGTAATGTTTATGCAAAATGTCATTGCATTGAATGC
66 TAAGATAATGTTTATGCAAAACGTCATTGCATTAAATGC
* * * * * **
34533390 ATGAACTATCTTACAATGTAATGTTTATGTGAACTATCTTTACATTGAATGCAT-ATACTTTTTT
1 ATGAACTATCTTGCAATGTAATGTTTATGCGAACTATCATTACATCGAATGCATGA-AC-TGTCA
* *
34533454 TGTAATATAATTTTTATGC-AAACGATCATTGCATTAAATGC
64 TGTAAGATAATGTTTATGCAAAACG-TCATTGCATTAAATGC
* *
34533495 ATGAATTGTCTTGCAATGTAATGT
1 ATGAACTATCTTGCAATGTAATGT
34533519 GCTTACGATC
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
103 1 0.01
104 53 0.49
105 54 0.50
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (104 bp):
ATGAACTATCTTGCAATGTAATGTTTATGCGAACTATCATTACATCGAATGCATGAACTGTCATG
TAAGATAATGTTTATGCAAAACGTCATTGCATTAAATGC
Found at i:34533796 original size:16 final size:15
Alignment explanation
Indices: 34533772--34533886 Score: 54
Period size: 15 Copynumber: 7.4 Consensus size: 15
34533762 TGTAATAGAA
*
34533772 CGAGTTGTGTAATATG
1 CGAGCTGTGT-ATATG
34533788 CGAGCTGTGTATATG
1 CGAGCTGTGTATATG
* *
34533803 TGAGCTCTAGT-TATG
1 CGAGCTGT-GTATATG
* *
34533818 TCTGAGCTATGTATGTG
1 -C-GAGCTGTGTATATG
* *
34533835 TGAGCTATGTAATATG
1 CGAGCTGTGT-ATATG
* * * *
34533851 CAACCTCTATATAT-
1 CGAGCTGTGTATATG
*
34533865 CTGACCTGTGTATATG
1 C-GAGCTGTGTATATG
34533881 CGAGCT
1 CGAGCT
34533887 CTAGTTTTGT
Statistics
Matches: 75, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
14 1 0.01
15 42 0.56
16 23 0.31
17 9 0.12
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (15 bp):
CGAGCTGTGTATATG
Found at i:34533807 original size:15 final size:15
Alignment explanation
Indices: 34533783--34533850 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
34533773 GAGTTGTGTA
* *
34533783 ATATGCGAGCTGTGT
1 ATATGTGAGCTATGT
*
34533798 ATATGTGAGCTCTAGT
1 ATATGTGAGCTAT-GT
34533814 -TATGTCTGAGCTATGT
1 ATATG--TGAGCTATGT
*
34533830 ATGTGTGAGCTATGT
1 ATATGTGAGCTATGT
34533845 AATATG
1 -ATATG
34533851 CAACCTCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 25 0.58
16 8 0.19
17 10 0.23
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.38
Consensus pattern (15 bp):
ATATGTGAGCTATGT
Found at i:34542579 original size:5 final size:5
Alignment explanation
Indices: 34542571--34542607 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
34542561 TTTTATTTTA
34542571 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
34542608 TTCTTTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:34546167 original size:8 final size:8
Alignment explanation
Indices: 34546156--34546185 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
34546146 AATAGGCAAA
34546156 TAAATTAT
1 TAAATTAT
34546164 TAAATTAT
1 TAAATTAT
34546172 TAAATTA-
1 TAAATTAT
34546179 TAAATTA
1 TAAATTA
34546186 AATAATGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TAAATTAT
Done.