Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 104 of 345
Found at i:34351096 original size:41 final size:41
Alignment explanation
Indices: 34351045--34351295 Score: 245
Period size: 41 Copynumber: 6.1 Consensus size: 41
34351035 ACAAAAATGC
* ** *
34351045 ATTCAGGGGTACCGAAGTACAAACAAAGGCTCGTATGTGCA
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * * *
34351086 ATTCAAGGGTACCAAAGTGC-AACAGAGGCACATATGTGCA
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * * * **
34351126 ATTCAAAGGTGCCAAAGTATAAGTAGGGGCACGTATGTGCA
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * *
34351167 ATTTAAGTGTACCGAAGTACAAACAGGGGCATGTATGTGCA
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * * * * **
34351208 ATTTAGGGGTTCTGAAGTACAAATAGGGGCACAAATGTGCA
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
**
34351249 ATTC-AGGGTTATTGAAGTACAAACAGGGGCACGTATGTGCA
1 ATTCAAGGG-TACCGAAGTACAAACAGGGGCACGTATGTGCA
34351290 ATTCAA
1 ATTCAA
34351296 CAATAATATT
Statistics
Matches: 169, Mismatches: 38, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
40 36 0.21
41 132 0.78
42 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
ATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
Found at i:34354954 original size:25 final size:23
Alignment explanation
Indices: 34354911--34354961 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
34354901 TGTAAAGTCT
*
34354911 AATAGATTAAACTAAAAGAAATTGA
1 AATACATTAAACTAAAAG--ATTGA
* *
34354936 AATACATTAAATTAGAAGATTGA
1 AATACATTAAACTAAAAGATTGA
34354959 AAT
1 AAT
34354962 TCCATTACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
25 15 0.65
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (23 bp):
AATACATTAAACTAAAAGATTGA
Found at i:34355141 original size:10 final size:11
Alignment explanation
Indices: 34355124--34355156 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34355114 AAAAAAGTGC
34355124 AGAGAAAACTA
1 AGAGAAAACTA
34355135 A-AGAAAACCTA
1 AGAGAAAA-CTA
34355146 AGAGAAAACTA
1 AGAGAAAACTA
34355157 TTTAAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.30
11 8 0.40
12 6 0.30
ACGTcount: A:0.64, C:0.12, G:0.15, T:0.09
Consensus pattern (11 bp):
AGAGAAAACTA
Found at i:34360500 original size:18 final size:20
Alignment explanation
Indices: 34360461--34360497 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34360451 AAATATTAAG
*
34360461 GTAATATAATCCTACAAAAT
1 GTAATATAATCATACAAAAT
34360481 GTAATATAAT-ATACAAA
1 GTAATATAATCATACAAA
34360498 TGTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (20 bp):
GTAATATAATCATACAAAAT
Found at i:34361732 original size:114 final size:114
Alignment explanation
Indices: 34361532--34361772 Score: 473
Period size: 114 Copynumber: 2.1 Consensus size: 114
34361522 AGCACTCTGG
*
34361532 GACACGCCCGTGTTCCACACCCGTGTAGAATTAATTTCTAATTCACACCTACAGGGGTTTTCACA
1 GACACACCCGTGTTCCACACCCGTGTAGAATTAATTTCTAATTCACACCTACAGGGGTTTTCACA
34361597 CGGCCAAACACACGCCCGTTTCATTGGCCCGTGTCTCTCACACGGCCAC
66 CGGCCAAACACACGCCCGTTTCATTGGCCCGTGTCTCTCACACGGCCAC
34361646 GACACACCCGTGTTCCACACCCGTGTAGAATTAATTTCTAATTCACACCTACAGGGGTTTTCACA
1 GACACACCCGTGTTCCACACCCGTGTAGAATTAATTTCTAATTCACACCTACAGGGGTTTTCACA
34361711 CGGCCAAACACACGCCCGTTTCATTGGCCCGTGTCTCTCACACGGCCAC
66 CGGCCAAACACACGCCCGTTTCATTGGCCCGTGTCTCTCACACGGCCAC
34361760 GACACACCCGTGT
1 GACACACCCGTGT
34361773 GTTAAAAACC
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 126 1.00
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.23
Consensus pattern (114 bp):
GACACACCCGTGTTCCACACCCGTGTAGAATTAATTTCTAATTCACACCTACAGGGGTTTTCACA
CGGCCAAACACACGCCCGTTTCATTGGCCCGTGTCTCTCACACGGCCAC
Found at i:34362771 original size:47 final size:46
Alignment explanation
Indices: 34362700--34362873 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 46
34362690 GTAAGGTGCT
* * *
34362700 GATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCGAAGCC
* *
34362747 GATGCCATGTCCCAGACATAGTCTTACACTAACT-ATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCAT-ATCTCGAAGCC
* * * * *
34362795 GATGCATGTCTCAGACATGTCTTACA-TGGCTTATGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCGAAGCC
*
34362840 GATGCATGTCCTAGACATGTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCA
34362874 CACACAAATG
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 35 0.33
46 17 0.16
47 48 0.45
48 7 0.07
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCGAAGCC
Found at i:34368266 original size:16 final size:16
Alignment explanation
Indices: 34368247--34368283 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
34368237 GCAAAGGCTG
34368247 AAAAGCCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
*
34368263 AAAAGCTGAAAAGCCA
1 AAAAGCCGAAAAGCCA
34368279 AAAAG
1 AAAAG
34368284 TGGGTTGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.19, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:34371685 original size:47 final size:46
Alignment explanation
Indices: 34371576--34371686 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 46
34371566 CCGGGATAAG
* *
34371576 CACATAGTGCTTCATCAGAACAAATCCAGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAG-A
* * *
34371623 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCA-A
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTA-T-AGA
34371670 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
34371687 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 1 0.02
49 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (46 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGA
Found at i:34378956 original size:47 final size:47
Alignment explanation
Indices: 34378847--34378949 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
34378837 CTGGGATAAG
** *
34378847 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCAAAACAAATCCGGAACTTTAACAGTATAGTA
* * * *
34378894 CACAAAGTACTTCATCAAAACAAATCTGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCAAAACAAATCCGGAACTTTAACAGTA-TAGTA
34378941 CACATAGTG
1 CACATAGTG
34378950 TCTCATCGAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
47 44 0.96
48 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCAAAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:34385469 original size:17 final size:17
Alignment explanation
Indices: 34385447--34385488 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
34385437 ACAAAATCTA
34385447 AATTT-ATTTCCCAATTT
1 AATTTAATTT-CCAATTT
*
34385464 AATTTAATTTTCAATTT
1 AATTTAATTTCCAATTT
34385481 AA-TTAATT
1 AATTTAATT
34385489 ATTTATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 13 0.57
18 4 0.17
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTAATTTCCAATTT
Found at i:34395014 original size:26 final size:26
Alignment explanation
Indices: 34394953--34395025 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
34394943 TCTCATCCCT
* **
34394953 ATTTTAACCCTAACAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
34394979 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
* *
34395005 CTTTTGCCCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
34395026 CGAGAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:34418507 original size:45 final size:44
Alignment explanation
Indices: 34418442--34418558 Score: 148
Period size: 45 Copynumber: 2.6 Consensus size: 44
34418432 TATCGTACAG
* *
34418442 TACTAATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACT-ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
34418487 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTA-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
**
34418532 TGA-TATCAAG-CTTCGAGCCTAGCAGGC
1 T-ACTATCGGGCCTTCGAGCCTAGCAGGC
34418559 GAATTAAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 16 0.25
44 4 0.06
45 43 0.67
46 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (44 bp):
TACTATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:34426612 original size:32 final size:32
Alignment explanation
Indices: 34426571--34426636 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
34426561 ATGGTTAATG
34426571 GGAAAGAGGGTGAGGTGTTTTGTCCCACTAGA
1 GGAAAGAGGGTGAGGTGTTTTGTCCCACTAGA
34426603 GGAAAGAGGGTGAGGTGTTTTGTCCCACTAGA
1 GGAAAGAGGGTGAGGTGTTTTGTCCCACTAGA
34426635 GG
1 GG
34426637 CATAAGGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.24
Consensus pattern (32 bp):
GGAAAGAGGGTGAGGTGTTTTGTCCCACTAGA
Found at i:34428940 original size:47 final size:46
Alignment explanation
Indices: 34428876--34429001 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 46
34428866 ATCTCGTAGC
*
34428876 CAATGCATGTCCTAGACATGTCTTACACTAGCACTCGTC-TCAATGT-
1 CAATGCATGTCCCAGACATGTCTTACACTAGCACTC-TCAT-AATGTG
*
34428922 CAATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCTCATAATGTGG
1 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCTCATAATGT-G
*
34428969 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 -CAATGCATGTCCCAGACATGTCTTACACTAGC
34429002 TCACAATAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
45 7 0.10
46 19 0.28
47 29 0.42
48 14 0.20
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CAATGCATGTCCCAGACATGTCTTACACTAGCACTCTCATAATGTG
Found at i:34428946 original size:92 final size:93
Alignment explanation
Indices: 34428832--34429001 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 93
34428822 ATTTATGCCG
* *
34428832 ATGCCATGTCCCAGATACGGTCTTACACTGACACATC-T-CGTAGCCAATGCATGTCCTAGACAT
1 ATGCCATGTCCCAGACACGGTCTTACACTGACAC-TCATACGTAGCCAATGCATGTCCCAGACAT
34428895 GTCTTACACTAGCACTCGTCTCAATGTCA
65 GTCTTACACTAGCACTCGTCTCAATGTCA
* * * * * *
34428924 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACACGGTCTTACACTGACACTCAT-ACGTAGCCAATGCATGTCCCAGACAT
34428989 GTCTTACACTAGC
65 GTCTTACACTAGC
34429002 TCACAATAAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 2 0.03
92 31 0.46
94 34 0.51
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (93 bp):
ATGCCATGTCCCAGACACGGTCTTACACTGACACTCATACGTAGCCAATGCATGTCCCAGACATG
TCTTACACTAGCACTCGTCTCAATGTCA
Found at i:34436454 original size:46 final size:46
Alignment explanation
Indices: 34436404--34436577 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
34436394 AGATCTCGTA
* *
34436404 GCTGATGCATGTCCCAAACCTGTCTTACACTAGCTTACGTCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAG
* *
34436450 GCTGATGCATGTCCCAGACAT-TCTTACACTAGC--ACCTGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTA-C-GTCTCGAG
* * * * * *
34436495 GCCGATGCCATGTGCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACGT-CTCGAG
34436543 GCTGATGCATGTCCCAGACATGTCTTACACTAGCT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCT
34436578 CACAATAACC
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 24 0.23
46 45 0.43
47 13 0.12
48 18 0.17
49 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAG
Found at i:34442002 original size:26 final size:24
Alignment explanation
Indices: 34441959--34442017 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
34441949 TTATTTCATT
* *
34441959 AAATAAA-AAATTTTAAAATATAA
1 AAATAAATATATTTAAAAATATAA
34441982 TAAATCAAATATATTTAAAAATATAA
1 -AAAT-AAATATATTTAAAAATATAA
34442008 AAATAAATAT
1 AAATAAATAT
34442018 TAAAACAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 7 0.23
26 14 0.45
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAAATATATTTAAAAATATAA
Found at i:34447749 original size:17 final size:17
Alignment explanation
Indices: 34447727--34447759 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34447717 ATGTACCTCA
34447727 CTCATTGCATTTACTCG
1 CTCATTGCATTTACTCG
34447744 CTCATTGCATTTACTC
1 CTCATTGCATTTACTC
34447760 ACTCCAACTA
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:0.18, C:0.30, G:0.09, T:0.42
Consensus pattern (17 bp):
CTCATTGCATTTACTCG
Found at i:34450259 original size:48 final size:48
Alignment explanation
Indices: 34450157--34450473 Score: 344
Period size: 48 Copynumber: 6.6 Consensus size: 48
34450147 TGATGTAAGC
* *
34450157 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---AGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGTATAGAGGTGT
*
34450201 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
34450249 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
* * *
34450297 CAATGTAAGACCATGTCTGGGACATGGAATTGGCACATATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
* * * * *
34450345 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATA-GAG-GTGT
* * * * * * *
34450394 CTAGTGTAACACCATGCCTGGGACATGGCGTCGGCCTCGATTTTGA--TAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATTGG-CACG-TATAGAGGT-GT
*
34450444 TAGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCAT
34450474 CGACTTGATG
Statistics
Matches: 232, Mismatches: 29, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
44 10 0.04
45 17 0.07
46 6 0.03
48 134 0.58
49 29 0.12
50 31 0.13
51 4 0.02
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGTATAGAGGTGT
Found at i:34450419 original size:50 final size:48
Alignment explanation
Indices: 34450063--34450475 Score: 324
Period size: 48 Copynumber: 8.7 Consensus size: 48
34450053 ATTTGTGTGC
* * * * *
34450063 TAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGAGATGATAG-C
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGAGAGTG
* * * *
34450111 TAGTGTAAGA-CATGTCTGGGACAT-GTATTGGCGTCG-TGATGTA-AG-C
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAT-ATG-AGAGTG
* *
34450157 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACG--A-GA-TGTG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGAGAGTG
* *
34450200 TCAGTGTAAGACCATGTCTGGGACATGGCATTGACACG-TAT-AGAGGTG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGAGA-GTG
*
34450248 TCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACG-TAT-AGAGGTG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGAGA-GTG
* * *
34450296 TCAATGTAAGACCATGTCTGGGACATGGAATTGGCAC-ATAT-AGAGGTG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGAGA-GTG
* *
34450344 TTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATATGAGAGTG
* * * * * *
34450394 CTAGTGTAACACCATGCCTGGGACATGGCGTCGGCCTCGATTTTGATAGT-
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGA-TATGAGAGTG
34450444 TAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCG
34450476 ACTTGATGGA
Statistics
Matches: 310, Mismatches: 37, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 10 0.03
45 17 0.05
46 52 0.17
47 14 0.05
48 137 0.44
49 30 0.10
50 37 0.12
51 10 0.03
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGAGAGTG
Found at i:34450495 original size:146 final size:141
Alignment explanation
Indices: 34450058--34450515 Score: 418
Period size: 146 Copynumber: 3.2 Consensus size: 141
34450048 GGGTTATTTG
* * * *
34450058 TGTGCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGAGA-TGATAGCTAGTGTAAGA-
1 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATAGTGAGAGCTAGTGTAAGAC
* * *
34450121 CATGTCTGGGACAT-GTATTGGCGTCGTGA-TG-TAAGCCAGTGTAAGA-CATGTCTGGGACAT-
65 CATGTCTGGGACATGGCATTGGCCTCGT-ATTGAT-AGTCAGTGTAAGACCATGTCTGGGACATG
* *
34450181 GCATCGGCTACGAGA
128 GCATCGACTATG-GA
* * * *
34450196 TGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAGAG-GTG-TCAGTGTAAG
1 TGTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATAGTGAGAGCT-AGTGTAAG
* * *
34450258 ACCATGTCTGGGACATGGCATTGG-CACGTATAGAGGT-GTCAATGTAAGACCATGTCTGGGACA
63 ACCATGTCTGGGACATGGCATTGGCCTCGTATTGA--TAGTCAGTGTAAGACCATGTCTGGGACA
* * *
34450321 TGGAATTGGCACATATAGA
126 TGGCA-TCG-AC-TATGGA
* * *
34450340 GGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGAGCTAGTGTAACA
1 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATA-GTGAGAGCTAGTGTAAGA
* * * * *
34450405 CCATGCCTGGGACATGGCGTCGGCCTCGATTTTGATAGTTAGTGTAAGACCATGTCTGGGACATG
64 CCATGTCTGGGACATGGCATTGGCCTCG-TATTGATAGTCAGTGTAAGACCATGTCTGGGACATG
34450470 GCATCGACTTGATGGA
128 GCATCGAC-T-ATGGA
* *
34450486 TGCGCTAGTGTAAGACCATGTCTAGGACAT
1 TGTGCTAGTGTAAGACCATGTCTGGGACAT
34450516 TGTATCGGTA
Statistics
Matches: 255, Mismatches: 42, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
137 3 0.01
138 48 0.19
139 19 0.07
140 16 0.06
141 14 0.05
142 3 0.01
143 2 0.01
144 43 0.17
145 8 0.03
146 63 0.25
147 32 0.13
148 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (141 bp):
TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAGTGAGAGCTAGTGTAAGACC
ATGTCTGGGACATGGCATTGGCCTCGTATTGATAGTCAGTGTAAGACCATGTCTGGGACATGGCA
TCGACTATGGA
Found at i:34460427 original size:55 final size:55
Alignment explanation
Indices: 34460343--34460596 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 55
34460333 AGGGTTTAAG
*
34460343 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGCAAA
* * * * * * * *
34460398 GAAATCATGGAAGACCATGTCAAGACATGGC-ATTGATAAGCTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT-TTCTAAGGCAAA
* * * * * *
34460453 GGTCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCAGAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTC-TAAGGCAAA
* *
34460506 GATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC-AA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGCAAA
* *
34460555 GATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
34460597 ACCCGCGTAT
Statistics
Matches: 164, Mismatches: 30, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
49 40 0.24
50 2 0.01
52 3 0.02
53 40 0.24
54 13 0.08
55 66 0.40
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (55 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGCAAA
Found at i:34460573 original size:49 final size:50
Alignment explanation
Indices: 34460457--34460594 Score: 172
Period size: 49 Copynumber: 2.7 Consensus size: 50
34460447 GGCAAAGGTC
* * * *
34460457 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCAGAAGGCAAGGATA
1 CCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTCA-AA-G-AAGGATA
*
34460510 CCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA-AAGGATA
1 CCATGTAAGACCATGACAAGACATGGCAATGGTAAG-TTCAAAGAAGGATA
*
34460559 CCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CCATGTAAGACCATGACAAGACATGGCAATGGTAAG
34460595 GTACCCGCGT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
49 41 0.53
52 2 0.03
53 32 0.41
54 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (50 bp):
CCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTCAAAGAAGGATA
Found at i:34460804 original size:16 final size:16
Alignment explanation
Indices: 34460783--34460813 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34460773 ATTAATTTGA
34460783 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
34460799 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
34460814 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:34468020 original size:55 final size:54
Alignment explanation
Indices: 34467912--34468166 Score: 240
Period size: 55 Copynumber: 4.8 Consensus size: 54
34467902 ATTAGGGTTT
* * *
34467912 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * * * *
34467967 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGG-C
* * * *
34468023 AAGG-TCCCATGTAAGACCTTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * *
34468075 AATGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG--CT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTAT-AAGGC
* * *
34468124 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
34468167 GTACCCGCGT
Statistics
Matches: 167, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
49 40 0.24
51 2 0.01
52 5 0.03
53 41 0.25
54 8 0.05
55 67 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:34468272 original size:23 final size:24
Alignment explanation
Indices: 34468235--34468279 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34468225 AAGGTAAGGT
*
34468235 AAGGTAAGACGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTCATACTAAA
*
34468258 AAGGTAAGATAAGTTCATACTA
1 AAGGTAAGACAAGTTCATACTA
34468280 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATACTAAA
Found at i:34468379 original size:16 final size:16
Alignment explanation
Indices: 34468358--34468388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34468348 ATAAATTTGA
34468358 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
34468374 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
34468389 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:34479728 original size:36 final size:36
Alignment explanation
Indices: 34479681--34479754 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
34479671 TCTAAACTAT
34479681 TCCTAAGGTTCAACCGGGATTTCAAATGTCGAATCA
1 TCCTAAGGTTCAACCGGGATTTCAAATGTCGAATCA
34479717 TCCTAAGGTTCAACCGGGATTTCAAATGTCGAATCA
1 TCCTAAGGTTCAACCGGGATTTCAAATGTCGAATCA
34479753 TC
1 TC
34479755 GTTTAATCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (36 bp):
TCCTAAGGTTCAACCGGGATTTCAAATGTCGAATCA
Found at i:34484318 original size:30 final size:30
Alignment explanation
Indices: 34484277--34484336 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34484267 TTCCCGAGCC
*
34484277 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
34484307 TAGGGGAAAAAGTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
34484337 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:34485099 original size:19 final size:20
Alignment explanation
Indices: 34485062--34485099 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
34485052 ATAAGGTGGT
34485062 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
34485082 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
34485100 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:34490353 original size:63 final size:63
Alignment explanation
Indices: 34490254--34490379 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
34490244 AATTTCGTAC
* * *
34490254 TTTGGCCTACGTTCTCCGTTTTTTGGTCCGTTTCTCGTTTCTTTCGCTCTCCTATGCTTGCCT
1 TTTGGCCTACGTTCTCCGTTTTTTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTTGCCT
* *
34490317 TTTGGCCTACTTTCTCTGTTTTTTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTTGCCT
1 TTTGGCCTACGTTCTCCGTTTTTTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTTGCCT
34490380 AAGTATAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.04, C:0.31, G:0.16, T:0.49
Consensus pattern (63 bp):
TTTGGCCTACGTTCTCCGTTTTTTGGCCCGTTTCTCGTTCCTTTCACTCTCCTATGCTTGCCT
Found at i:34491094 original size:22 final size:23
Alignment explanation
Indices: 34491061--34491112 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
34491051 GTTTTTTTTA
34491061 AGAA-AAAGTTAAATTACAAAAC
1 AGAATAAAGTTAAATTACAAAAC
34491083 AGAATAAA-TTAAATTACAAAAC
1 AGAATAAAGTTAAATTACAAAAC
34491105 AGAATAAA
1 AGAATAAA
34491113 ACATAGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (23 bp):
AGAATAAAGTTAAATTACAAAAC
Found at i:34500765 original size:18 final size:17
Alignment explanation
Indices: 34500738--34500776 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
34500728 AATTGATGAT
34500738 ATTTTCATTTTTTTATC
1 ATTTTCATTTTTTTATC
*
34500755 ATTTATCATTTTTTTATT
1 ATTT-TCATTTTTTTATC
34500773 ATTT
1 ATTT
34500777 CACTTTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTCATTTTTTTATC
Found at i:34509759 original size:26 final size:26
Alignment explanation
Indices: 34509728--34509812 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
34509718 CAAAAAAGTC
34509728 ATTTTACCTTACAGGGGTATTTCAATA
1 ATTTTACC-TACAGGGGTATTTCAATA
* **
34509755 A-TTTACACTACAAGGGTATTTCGGTA
1 ATTTTAC-CTACAGGGGTATTTCAATA
**
34509781 ATTTTACAAACTAGGGGTATTTCAATA
1 ATTTTACCTAC-AGGGGTATTTCAATA
*
34509808 GTTTT
1 ATTTT
34509813 GCAATCGAGG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
26 23 0.50
27 23 0.50
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (26 bp):
ATTTTACCTACAGGGGTATTTCAATA
Found at i:34509770 original size:27 final size:27
Alignment explanation
Indices: 34509740--34510032 Score: 161
Period size: 27 Copynumber: 11.0 Consensus size: 27
34509730 TTTACCTTAC
*
34509740 AGGGGTATTTCAATAA-TTTACACTACA
1 AGGGGTATTTCAATAATTTTACA-AACA
** *
34509767 A-GGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCAATAATTTTACAAACA
* * * *
34509793 AGGGGTATTTCAATAGTTTTGCAATCG
1 AGGGGTATTTCAATAATTTTACAAACA
* * **
34509820 A-GGGTGTTTCAGTAATTTTACAAATT
1 AGGGGTATTTCAATAATTTTACAAACA
* *** *
34509846 GGGGGTATTTTGGTAATTTTACAATC-
1 AGGGGTATTTCAATAATTTTACAAACA
* *
34509872 CGAGGGTATTTCAGTAATTTTACAAACTA
1 AG-GGGTATTTCAATAATTTTACAAAC-A
** * *
34509901 A-GGGTATTTCGGTAATTTTACAAGCT
1 AGGGGTATTTCAATAATTTTACAAACA
* ** **
34509927 GGGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTCAATAATTTTACAAACA
* * *
34509954 AGGGG-ATTTTAGTAATTTTACAAATCG
1 AGGGGTATTTCAATAATTTTACAAA-CA
* *
34509981 A-GGGTATTTCGATAATTTTACAATCTA
1 AGGGGTATTTCAATAATTTTACAAAC-A
***
34510008 A-GGGTATTTTGGTAATTTTACAAAC
1 AGGGGTATTTCAATAATTTTACAAAC
34510033 TGAGGTCTTA
Statistics
Matches: 209, Mismatches: 47, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
26 55 0.26
27 154 0.74
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCAATAATTTTACAAACA
Found at i:34509824 original size:53 final size:53
Alignment explanation
Indices: 34509740--34510030 Score: 316
Period size: 53 Copynumber: 5.5 Consensus size: 53
34509730 TTTACCTTAC
* * *
34509740 AGGGGTATTTCAATAA-TTTACACTACAAGGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCAGTAATTTTACAAT-CGAGGGTATTTCGGTAATTTTACAAACT
* * * * * *
34509793 AGGGGTATTTCAATAGTTTTGCAATCGAGGGTGTTTCAGTAATTTTACAAATT
1 AGGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAACT
* ** *
34509846 GGGGGTATTTTGGTAATTTTACAATCCGAGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTCAGTAATTTTACAAT-CGAGGGTATTTCGGTAATTTTACAAACT
* * * * *
34509900 AAGGGTATTTCGGTAATTTTACAAGCTGGGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTCAGTAATTTTACAATC-GAGGGTATTTCGGTAATTTTACAAACT
* * *
34509954 AGGGG-ATTTTAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCT
1 AGGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCGGTAATTTTACAAACT
* **
34510007 AAGGGTATTTTGGTAATTTTACAA
1 AGGGGTATTTCAGTAATTTTACAA
34510031 ACTGAGGTCT
Statistics
Matches: 201, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
53 102 0.51
54 99 0.49
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (53 bp):
AGGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAACT
Found at i:34509861 original size:80 final size:79
Alignment explanation
Indices: 34509768--34510033 Score: 304
Period size: 80 Copynumber: 3.3 Consensus size: 79
34509758 TACACTACAA
* * * *
34509768 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCAATAGTTTTGCAATCGAGGGTGTTTCAGT
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAATCGAGGGTATTTC-GT
34509833 AATTTTACAAATTGG
65 AATTTTACAAATTGG
* * * * *
34509848 GGGTATTTTGGTAATTTTACAATC-CGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCG
1 GGGTATTTCGGTAATTTTACAAACTAG-GGGTATTTCAGTAATTTTACAATC-GAGGGTATTTC-
**
34509912 GTAATTTTACAAGCTGG
63 GTAATTTTACAAATTGG
* *
34509929 GGGTATTTCGGTAATTTTACAAATTAGGGG-ATTTTAGTAATTTTACAAATCGAGGGTATTTCGA
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCG-
**
34509993 TAATTTTAC-AATCTAA
64 TAATTTTACAAAT-TGG
*
34510009 GGGTATTTTGGTAATTTTACAAACT
1 GGGTATTTCGGTAATTTTACAAACT
34510034 GAGGTCTTAA
Statistics
Matches: 155, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
79 3 0.02
80 100 0.65
81 51 0.33
82 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (79 bp):
GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGTA
ATTTTACAAATTGG
Found at i:34509963 original size:107 final size:106
Alignment explanation
Indices: 34509767--34510030 Score: 352
Period size: 107 Copynumber: 2.5 Consensus size: 106
34509757 TTACACTACA
* ** * * * *
34509767 AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTCAATAGTTTTGCAATCGAGGGTGTTTCAG
1 AGGGTATTTC-GTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGCGAGGGTATTTCAG
* *
34509832 TAATTTTACAAATTGGGGGTATTTTGGTAATTTTAC-AATCCG
65 TAATTTTACAAATTAGGGGTATTTTAGTAATTTTACAAAT-CG
* *
34509874 AGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGCTGGGGGTATTTCG
1 AGGGTATTTC-GTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGC-GAGGGTATTTCA
34509939 GTAATTTTACAAATTAGGGG-ATTTTAGTAATTTTACAAATCG
64 GTAATTTTACAAATTAGGGGTATTTTAGTAATTTTACAAATCG
* *
34509981 AGGGTATTTCGATAATTTTACAATCTAAGGGTATTTTGGTAATTTTACAA
1 AGGGTATTTCG-TAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAA
34510031 ACTGAGGTCT
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
106 1 0.01
107 108 0.77
108 31 0.22
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (106 bp):
AGGGTATTTCGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAGCGAGGGTATTTCAGT
AATTTTACAAATTAGGGGTATTTTAGTAATTTTACAAATCG
Found at i:34525922 original size:23 final size:21
Alignment explanation
Indices: 34525883--34525929 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
34525873 GTTAGATGGA
*
34525883 TTAGGATGTTTGAAATGGTATGT
1 TTAGGATATTTGAAAT-G-ATGT
34525906 TTAGGTATATTTG-AATGATGT
1 TTAGG-ATATTTGAAATGATGT
34525927 TTA
1 TTA
34525930 AATCTCTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 8 0.36
24 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (21 bp):
TTAGGATATTTGAAATGATGT
Found at i:34532069 original size:19 final size:19
Alignment explanation
Indices: 34532045--34532084 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
34532035 ATGGAGTCTG
*
34532045 GCACTTTCGGCCATATAAC
1 GCACTTTCAGCCATATAAC
34532064 GCACTTTCAGCCATATAAC
1 GCACTTTCAGCCATATAAC
34532083 GC
1 GC
34532085 CTCATAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (19 bp):
GCACTTTCAGCCATATAAC
Found at i:34539271 original size:23 final size:23
Alignment explanation
Indices: 34539238--34539286 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
34539228 TGGAAGAATC
* *
34539238 TATGAAGGTGCAATACCCGAACA
1 TATGAAAGTGCAATACCCAAACA
34539261 TATGAAAGTGCAATACCCAAACA
1 TATGAAAGTGCAATACCCAAACA
34539284 TAT
1 TAT
34539287 TCTCTTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (23 bp):
TATGAAAGTGCAATACCCAAACA
Found at i:34542625 original size:33 final size:32
Alignment explanation
Indices: 34542588--34542682 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 32
34542578 GGTGCACACT
*
34542588 CCCTTTTCAAGTGGTACACATGAAGTGTACATA
1 CCCTTTTCAAGT-GTACACATAAAGTGTACATA
* *
34542621 CCCTTTTCAATTTGTACACACAAAGTGTACATA
1 CCCTTTTCAA-GTGTACACATAAAGTGTACATA
*
34542654 ACCTTTTCAAGTGTACACATATAA-TGTAC
1 CCCTTTTCAAGTGTACACATA-AAGTGTAC
34542683 TTTTCCTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
32 14 0.26
33 39 0.72
34 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (32 bp):
CCCTTTTCAAGTGTACACATAAAGTGTACATA
Found at i:34542738 original size:33 final size:33
Alignment explanation
Indices: 34542698--34542760 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
34542688 CTTTATTAAG
**
34542698 TGGTATACACAAAGTATACCTTTCCTTTTCGTA
1 TGGTATACACAAAGTATACCTAACCTTTTCGTA
34542731 TGGTATACACAAAGTATACCTAACCTTTTC
1 TGGTATACACAAAGTATACCTAACCTTTTC
34542761 AAATTGTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTAACCTTTTCGTA
Found at i:34547545 original size:46 final size:46
Alignment explanation
Indices: 34547489--34547660 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
34547479 TATGTGTGCT
*
34547489 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATTAGAGCC
* *
34547535 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-A-ATA-TTAGAGCC
* * * * * *
34547583 AGTGTAAGACATGTTTGGGACATGTATC-GGCATCGAGATTAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAATATTAGAGCC
*
34547629 AATGTAAGACATGTCTGGGACATGCATCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC
34547661 TCGCGGTAGA
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.03
46 62 0.58
47 5 0.05
48 34 0.32
49 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATTAGAGCC
Found at i:34547602 original size:48 final size:48
Alignment explanation
Indices: 34547489--34547700 Score: 229
Period size: 48 Copynumber: 4.5 Consensus size: 48
34547479 TATGTGTGCT
* *
34547489 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-A-ATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTAGAGCC
*
34547535 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA-TTAGAGCC
* * * * *
34547583 AGTGTAAGACATGTTTGGGACATGTATCGGCATCGAG--ATTAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTAGAGCC
* * * * * *
34547629 AATGTAAGACATGTCTGGGACATGCATCAGCCTCGCGGTA-GACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTA-GAGCC
*
34547677 AGTGTAAGACTTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
34547701 GCTTCGGCTT
Statistics
Matches: 142, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
45 3 0.02
46 67 0.47
47 2 0.01
48 68 0.48
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTAGAGCC
Found at i:34547638 original size:94 final size:94
Alignment explanation
Indices: 34547489--34547700 Score: 264
Period size: 94 Copynumber: 2.3 Consensus size: 94
34547479 TATGTGTGCT
* *
34547489 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACATGTCTGGG
* ***
34547554 ACATGCATCGGCCTCGAGATATTTAAGCC
66 ACATGCATCAGCCTCGAGATAGACAAGCC
* * * * * *
34547583 AGTGTAAGACATGTTTGGGACATGTATC-GGCATCGAGATTAGAGCTAATGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAAGATGAGAGCCAATGTAAGACATGTCTGG
* * *
34547647 GACATGCATCAGCCTCGCGGTAGACAAGCT
65 GACATGCATCAGCCTCGAGATAGACAAGCC
*
34547677 AGTGTAAGACTTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
34547701 GCTTCGGCTT
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 3 0.03
94 97 0.97
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGAGAGCCAATGTAAGACATGTCTGGG
ACATGCATCAGCCTCGAGATAGACAAGCC
Found at i:34554602 original size:18 final size:18
Alignment explanation
Indices: 34554579--34554658 Score: 99
Period size: 18 Copynumber: 4.4 Consensus size: 18
34554569 CAAGGTCACG
*
34554579 ATCAATAGT-GTCACTATC
1 ATCAATA-TCGTCACTAGC
*
34554597 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTAGC
34554615 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
* * *
34554633 ATCAATATCATCACCATC
1 ATCAATATCGTCACTAGC
34554651 ATCAATAT
1 ATCAATAT
34554659 TGATATCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:34554619 original size:36 final size:35
Alignment explanation
Indices: 34554579--34554672 Score: 102
Period size: 36 Copynumber: 2.7 Consensus size: 35
34554569 CAAGGTCACG
* *
34554579 ATCAATAGTGTCACTATCATCAATAGCGTCACTAGC
1 ATCAATA-TGTCACTATCATCAATAGCATCACCAGC
* * *
34554615 ATCAATATCGTCACTAGCATCAATATCATCACCATC
1 ATCAATAT-GTCACTATCATCAATAGCATCACCAGC
*
34554651 ATCAATAT-TGA-TATCATCAATA
1 ATCAATATGTCACTATCATCAATA
34554673 AGAAAACCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 10 0.20
34 2 0.04
35 1 0.02
36 37 0.74
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (35 bp):
ATCAATATGTCACTATCATCAATAGCATCACCAGC
Found at i:34554623 original size:27 final size:27
Alignment explanation
Indices: 34554579--34554657 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
34554569 CAAGGTCACG
** *
34554579 ATCAATAGTGTCACTATCATCAATAGC
1 ATCAATAGCATCAATATCATCAATAGC
* * * *
34554606 GTCACTAGCATCAATATCGTCACTAGC
1 ATCAATAGCATCAATATCATCAATAGC
* **
34554633 ATCAATATCATCACCATCATCAATA
1 ATCAATAGCATCAATATCATCAATA
34554658 TTGATATCAT
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.28
Consensus pattern (27 bp):
ATCAATAGCATCAATATCATCAATAGC
Found at i:34556777 original size:29 final size:29
Alignment explanation
Indices: 34556735--34556792 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
34556725 TATCTTCTAT
* *
34556735 TAGGAATAGTGTTTTGATATGATAATAAA
1 TAGGAATAGCGTTTCGATATGATAATAAA
34556764 TAGGAATAGCGTTTCGATATGATAATAAA
1 TAGGAATAGCGTTTCGATATGATAATAAA
34556793 AATGGGTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (29 bp):
TAGGAATAGCGTTTCGATATGATAATAAA
Found at i:34565004 original size:40 final size:41
Alignment explanation
Indices: 34564869--34565054 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
34564859 TACTCGAATG
*
34564869 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
34564910 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
34564951 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
34564991 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
34565031 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
34565055 CTTGTGCGAG
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.47
41 69 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:34565011 original size:81 final size:82
Alignment explanation
Indices: 34564871--34565024 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
34564861 CTCGAATGAT
* * *
34564871 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
34564936 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
34564953 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
34565016 TTTATGCTA
65 TTTATGCTA
34565025 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:34567538 original size:78 final size:78
Alignment explanation
Indices: 34567409--34567567 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 78
34567399 GACCATGTGT
34567409 ATGTAACTCATGTGCTTTGATATAAGTAGAGGCTTATGTTATAAATATGATTGAGCCCATAGCCG
1 ATGTAACTCATGTGCTTTGATATAAGTAGAGGCTTATGTTATAAATATGATTGAGCCCATAGCCG
34567474 ATATGTTAGGTAC
66 ATATGTTAGGTAC
* *
34567487 ATGTAACTCATGTTCTTTGATATAAGTAGAGGCTTATGTTCTAAATATGATTGAGCCCATAGCCG
1 ATGTAACTCATGTGCTTTGATATAAGTAGAGGCTTATGTTATAAATATGATTGAGCCCATAGCCG
34567552 ATATGTTAGGTAC
66 ATATGTTAGGTAC
34567565 ATG
1 ATG
34567568 ACTTGTTTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (78 bp):
ATGTAACTCATGTGCTTTGATATAAGTAGAGGCTTATGTTATAAATATGATTGAGCCCATAGCCG
ATATGTTAGGTAC
Found at i:34568821 original size:61 final size:58
Alignment explanation
Indices: 34568756--34568871 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 58
34568746 ACATATTATC
* *
34568756 TTAATATTAAATTAAATTTAATACTTATCTT-ATAGATATATATTTTATTAATTTAATAGAT
1 TTAATATTAAATTAAATCTAATACTTATCTTGAT--A-AT-TATTATATTAATTTAATAGAT
* *
34568817 TTAATATTAAATTTAATCTAATATTTATCTTGATAATTATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATACTTATCTTGATAATTATTATATTAATTTAATA
34568872 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 17 0.34
59 2 0.04
60 1 0.02
61 28 0.56
62 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (58 bp):
TTAATATTAAATTAAATCTAATACTTATCTTGATAATTATTATATTAATTTAATAGAT
Found at i:34572430 original size:4 final size:4
Alignment explanation
Indices: 34572421--34572450 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
34572411 CAAATAAAAC
34572421 AAAT AAAT AAAT AAAT AAGAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT A
34572451 GAACAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:34572461 original size:12 final size:13
Alignment explanation
Indices: 34572421--34572450 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34572411 CAAATAAAAC
34572421 AAATAA-ATAAAT
1 AAATAAGATAAAT
34572433 AAATAAGATAAAT
1 AAATAAGATAAAT
34572446 AAATA
1 AAATA
34572451 GAACAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATAAGATAAAT
Found at i:34579761 original size:26 final size:28
Alignment explanation
Indices: 34579697--34579762 Score: 73
Period size: 33 Copynumber: 2.2 Consensus size: 28
34579687 AAAAACAGAA
34579697 AATTATGTTCAATTTTAAGTAGTGATAATAGTG
1 AATTATGTTCAATTTTAAGTAGTG-----AGTG
34579730 AATTATGTTCAATTTTAAGTAGTG-GTG
1 AATTATGTTCAATTTTAAGTAGTGAGTG
34579757 -ATTATG
1 AATTATG
34579763 GTGGTGGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
26 6 0.18
27 3 0.09
33 24 0.73
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (28 bp):
AATTATGTTCAATTTTAAGTAGTGAGTG
Found at i:34582535 original size:27 final size:26
Alignment explanation
Indices: 34582505--34582586 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
34582495 GATCCACTTA
34582505 AAATTTTGACCCCAATAATTTAAATTT
1 AAATTTTGA-CCCAATAATTTAAATTT
* ** *
34582532 AAA-TTCGATGCAATTATTTAAATTT
1 AAATTTTGACCCAATAATTTAAATTT
* *
34582557 AAATTTTCATCCCATTAATTTAAATTT
1 AAATTTTGA-CCCAATAATTTAAATTT
34582584 AAA
1 AAA
34582587 ATAAATTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 17 0.40
26 7 0.16
27 19 0.44
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (26 bp):
AAATTTTGACCCAATAATTTAAATTT
Found at i:34585328 original size:18 final size:18
Alignment explanation
Indices: 34585307--34585361 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
34585297 TAAATTTTGT
34585307 AATAATTATATATTTAAA
1 AATAATTATATATTTAAA
34585325 AATAATTATA-ATTTAATTA
1 AATAATTATATATTTAA--A
*
34585344 AA-AATTAT-TACTTAAA
1 AATAATTATATATTTAAA
34585360 AA
1 AA
34585362 AGTTTTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
18 21 0.64
19 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATTATATATTTAAA
Found at i:34592054 original size:17 final size:17
Alignment explanation
Indices: 34592032--34592064 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34592022 AAGGAGAACA
34592032 AATGAAGCTTAAAAACG
1 AATGAAGCTTAAAAACG
*
34592049 AATGAATCTTAAAAAC
1 AATGAAGCTTAAAAAC
34592065 TTAATAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (17 bp):
AATGAAGCTTAAAAACG
Found at i:34595412 original size:22 final size:21
Alignment explanation
Indices: 34595362--34595417 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
34595352 TGCTAAGAGA
*
34595362 AAGAAAAAGTAAATTAATTAGT
1 AAGAAAAA-TAAATTAATTAGC
* *
34595384 AATAAAATTAAATTAAATT-GC
1 AAGAAAAATAAATT-AATTAGC
34595405 AAGAAAAATAAAT
1 AAGAAAAATAAAT
34595418 GGCTAAAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (21 bp):
AAGAAAAATAAATTAATTAGC
Found at i:34596545 original size:15 final size:13
Alignment explanation
Indices: 34596514--34596550 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
34596504 CTCGGCGGGG
34596514 ACACGCCCGTGAC
1 ACACGCCCGTGAC
34596527 ACACGCCCGTGAC
1 ACACGCCCGTGAC
*
34596540 ACACACCCGTG
1 ACACGCCCGTG
34596551 TTCAATTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.24, C:0.46, G:0.22, T:0.08
Consensus pattern (13 bp):
ACACGCCCGTGAC
Found at i:34602884 original size:37 final size:37
Alignment explanation
Indices: 34602834--34602912 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
34602824 TTATTACGAA
* * * *
34602834 GTCTTACCCGGACATAATCTCCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
34602871 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
34602908 GTCTT
1 GTCTT
34602913 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:34603106 original size:49 final size:49
Alignment explanation
Indices: 34603029--34603301 Score: 446
Period size: 49 Copynumber: 5.6 Consensus size: 49
34603019 GCCCTTCGGG
*
34603029 ACTTATCACATTCATCACATCGACCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
34603079 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
34603128 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
* *
34603177 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATACATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
** * *
34603224 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCGC--ATACATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
34603271 ACTTTCACATTCATCACATCGGCCATTAGGC
1 ACTTTCACATTCATCACATCGGCCATTAGGC
34603302 ACATCGGCCA
Statistics
Matches: 218, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
47 83 0.38
49 131 0.60
50 4 0.02
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (49 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
Found at i:34603239 original size:25 final size:25
Alignment explanation
Indices: 34603211--34603289 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
34603201 ATTAGGCCTT
34603211 ATCACATACATACACTTTCACATTC
1 ATCACATACATACACTTTCACATTC
*** ***
34603236 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATACATACACTTTCACATTC
*
34603258 ATCGCATACATACACTTTCACATTC
1 ATCACATACATACACTTTCACATTC
34603283 ATCACAT
1 ATCACAT
34603290 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 6 0.16
23 9 0.24
24 9 0.24
25 13 0.35
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (25 bp):
ATCACATACATACACTTTCACATTC
Found at i:34603304 original size:16 final size:16
Alignment explanation
Indices: 34603285--34603317 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34603275 TCACATTCAT
34603285 CACATCGGCCATTAGG
1 CACATCGGCCATTAGG
34603301 CACATCGGCCATTAGG
1 CACATCGGCCATTAGG
34603317 C
1 C
34603318 CTTATCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (16 bp):
CACATCGGCCATTAGG
Found at i:34603315 original size:63 final size:63
Alignment explanation
Indices: 34603238--34603364 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
34603228 TCACATTCAT
*
34603238 CACATCGGCCATTAGGCATTATCGCATACATACACTTTCACATTCATCACATCGGCCATTAGG
1 CACATCGGCCATTAGGCATTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGG
* *
34603301 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 CACATCGGCCATTAGGCATTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGG
34603364 C
1 C
34603365 CATACTATCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (63 bp):
CACATCGGCCATTAGGCATTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGG
Found at i:34611481 original size:42 final size:42
Alignment explanation
Indices: 34611428--34611613 Score: 282
Period size: 42 Copynumber: 4.4 Consensus size: 42
34611418 CAGCTACCGA
* *
34611428 GATTCCGTATAAGACCATATATGGGATATGGAATCGATATGT
1 GATTCCGTATAAGACCATATATGGGATATGGCATCGGTATGT
**
34611470 GATTTTGTATAAGACCATATATGGGATATGGCATCGGTATGT
1 GATTCCGTATAAGACCATATATGGGATATGGCATCGGTATGT
*
34611512 GATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGT
1 GATTCCGTATAAGACCATATATGGGATATGGCATCGGTATGT
** * *
34611554 GATTCTATATAAGACCATATCTGAGATATGGCATCGGTATGT
1 GATTCCGTATAAGACCATATATGGGATATGGCATCGGTATGT
*
34611596 GATTTCGTATAAGACCAT
1 GATTCCGTATAAGACCAT
34611614 GTCAGGGACA
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 131 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (42 bp):
GATTCCGTATAAGACCATATATGGGATATGGCATCGGTATGT
Found at i:34611627 original size:42 final size:42
Alignment explanation
Indices: 34611428--34611671 Score: 264
Period size: 42 Copynumber: 5.8 Consensus size: 42
34611418 CAGCTACCGA
* * *
34611428 GATTCCGTATAAGACCATAT-ATGGGATATGGAATCGATATGT
1 GATTTCGTATAAGACCATATCA-GGGATATGGCATCGGTATGT
*
34611470 GATTTTGTATAAGACCATAT-ATGGGATATGGCATCGGTATGT
1 GATTTCGTATAAGACCATATCA-GGGATATGGCATCGGTATGT
* *
34611512 GATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGT
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGGTATGT
* * *
34611554 GA-TTCTATATAAGACCATATCTGAGATATGGCATCGGTATGT
1 GATTTC-GTATAAGACCATATCAGGGATATGGCATCGGTATGT
* * * *
34611596 GATTTCGTATAAGACCATGTCAGGGACATGGCGTCGATATGAT
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGGTATG-T
* * *
34611639 -ATTTCATGTAAGACCATATCCA-AGATATGGCAT
1 GATTTCGTATAAGACCATAT-CAGGGATATGGCAT
34611672 TGATATGGTA
Statistics
Matches: 174, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.01
42 166 0.95
43 6 0.03
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
GATTTCGTATAAGACCATATCAGGGATATGGCATCGGTATGT
Found at i:34611627 original size:84 final size:83
Alignment explanation
Indices: 34611428--34611671 Score: 312
Period size: 84 Copynumber: 2.9 Consensus size: 83
34611418 CAGCTACCGA
* * *
34611428 GATTCCGTATAAGACCATAT-ATGGGATATGGAATCGATATGTGATTTTGTATAAGACCATATAT
1 GATTCCGTATAAGACCATATCA-GGGATATGGCATCGATATGTGA-TTTATATAAGACCATATCT
*
34611492 GGGATATGGCATCGGTATGT
64 GAGATATGGCATCGGTATGT
* *
34611512 GATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTGATTCTATATAAGACCATATCTG
1 GATTCCGTATAAGACCATATCAGGGATATGGCATCGATATGTGATT-TATATAAGACCATATCTG
34611577 AGATATGGCATCGGTATGT
65 AGATATGGCATCGGTATGT
* * * * * *
34611596 GATTTCGTATAAGACCATGTCAGGGACATGGCGTCGATATGAT-ATTTCATGTAAGACCATATCC
1 GATTCCGTATAAGACCATATCAGGGATATGGCATCGATATG-TGATTT-ATATAAGACCATATCT
*
34611660 AAGATATGGCAT
64 GAGATATGGCAT
34611672 TGATATGGTA
Statistics
Matches: 141, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
83 3 0.02
84 137 0.97
85 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (83 bp):
GATTCCGTATAAGACCATATCAGGGATATGGCATCGATATGTGATTTATATAAGACCATATCTGA
GATATGGCATCGGTATGT
Found at i:34611666 original size:126 final size:126
Alignment explanation
Indices: 34611435--34611671 Score: 307
Period size: 126 Copynumber: 1.9 Consensus size: 126
34611425 CGAGATTCCG
* * *
34611435 TATAAGACCATATATGGGATATGGAATCGATATGTGATTTTGTATAAGACCATATATGGGATATG
1 TATAAGACCATATATGAGATATGGAATCGATATGTGATTTCGTATAAGACCATATATGGGACATG
* * ***
34611500 GCATCGGTATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTGATTCTA
66 GCATCGATATGTGATTCCATATAAGACCATATCCAAGATATGGCATCGGTATGTGATTCTA
* * * *
34611561 TATAAGACCATATCTGAGATATGGCATCGGTATGTGATTTCGTATAAGACCATGTCA-GGGACAT
1 TATAAGACCATATATGAGATATGGAATCGATATGTGATTTCGTATAAGACCATAT-ATGGGACAT
* * *
34611625 GGCGTCGATATGAT-ATTTCATGTAAGACCATATCCAAGATATGGCAT
65 GGCATCGATATG-TGATTCCATATAAGACCATATCCAAGATATGGCAT
34611672 TGATATGGTA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
126 92 0.98
127 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (126 bp):
TATAAGACCATATATGAGATATGGAATCGATATGTGATTTCGTATAAGACCATATATGGGACATG
GCATCGATATGTGATTCCATATAAGACCATATCCAAGATATGGCATCGGTATGTGATTCTA
Found at i:34614224 original size:15 final size:16
Alignment explanation
Indices: 34614189--34614241 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
34614179 AGCCTAAATA
34614189 TTTTTAAGGTATCCAG
1 TTTTTAAGGTATCCAG
34614205 TTTTTAAGGTATCCAG
1 TTTTTAAGGTATCCAG
** *
34614221 TTTTTTGGGTATACAG
1 TTTTTAAGGTATCCAG
34614237 TTTTT
1 TTTTT
34614242 TGGGTTTAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTTTAAGGTATCCAG
Found at i:34629958 original size:22 final size:23
Alignment explanation
Indices: 34629930--34629975 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
34629920 AATGATATAC
*
34629930 TATGTTA-GATGCTTGAATTGGT
1 TATGTTATAATGCTTGAATTGGT
34629952 TATGTTATAATGCTTGAATTGGT
1 TATGTTATAATGCTTGAATTGGT
34629975 T
1 T
34629976 GGTATTTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (23 bp):
TATGTTATAATGCTTGAATTGGT
Found at i:34634134 original size:42 final size:41
Alignment explanation
Indices: 34634058--34634204 Score: 118
Period size: 42 Copynumber: 3.6 Consensus size: 41
34634048 AGATGCCAAT
* * * * *
34634058 GCCATGTCCCAGACATGGTCTTACATGGAATCTCAGATCGAT
1 GCCATATCCCAGACATGGTCTTATA-CGAATCTCATATCGAC
* * * *
34634100 GCCATATCCTAGATATGGTCTTATACGAATTCTCATTTTGAC
1 GCCATATCCCAGACATGGTCTTATACGAA-TCTCATATCGAC
* * * *
34634142 GCC-TGTCCTAGACATGGTC-TATACGAAATCTAATATCAAC
1 GCCATATCCCAGACATGGTCTTATACG-AATCTCATATCGAC
* *
34634182 ACCATATCCCAGATATGGTCTTA
1 GCCATATCCCAGACATGGTCTTA
34634205 CATGATAACT
Statistics
Matches: 82, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
40 16 0.20
41 32 0.39
42 34 0.41
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (41 bp):
GCCATATCCCAGACATGGTCTTATACGAATCTCATATCGAC
Found at i:34634200 original size:41 final size:41
Alignment explanation
Indices: 34634101--34634202 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 41
34634091 CAGATCGATG
* * * ** *
34634101 CCATATCCTAGATATGGTCTTATACGAATTCTCATTTTGACG
1 CCATATCCTAGATATGGTC-TATACGAAATCTAATATCAACA
* *
34634143 CC-TGTCCTAGACATGGTCTATACGAAATCTAATATCAACA
1 CCATATCCTAGATATGGTCTATACGAAATCTAATATCAACA
*
34634183 CCATATCCCAGATATGGTCT
1 CCATATCCTAGATATGGTCT
34634203 TACATGATAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
40 18 0.38
41 28 0.58
42 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (41 bp):
CCATATCCTAGATATGGTCTATACGAAATCTAATATCAACA
Found at i:34635553 original size:16 final size:16
Alignment explanation
Indices: 34635532--34635563 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34635522 AATCGTAAAA
*
34635532 AATATTTTAAAATATT
1 AATATTTAAAAATATT
34635548 AATATTTAAAAATATT
1 AATATTTAAAAATATT
34635564 TAAAACTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTTAAAAATATT
Found at i:34635726 original size:20 final size:19
Alignment explanation
Indices: 34635620--34635727 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 19
34635610 TTATTATTTT
*
34635620 AAAATTGTTAAAAAAGTTATTT
1 AAAATTG-T-AAAAA-TTATTA
*
34635642 AAAATTATAAAACATTATTTA
1 AAAATTGTAAAA-ATTA-TTA
*
34635663 AAATTTGTAAAAATTATTA
1 AAAATTGTAAAAATTATTA
* * *
34635682 AAATTTGTGAAAGTTATTAA
1 AAAATTGTAAAAATTATT-A
*
34635702 AAAATTGCAAATAATTATTA
1 AAAATTGTAAA-AATTATTA
34635722 AAAATT
1 AAAATT
34635728 TGTGAACCAA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
19 19 0.26
20 27 0.38
21 20 0.28
22 6 0.08
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (19 bp):
AAAATTGTAAAAATTATTA
Found at i:34635727 original size:10 final size:10
Alignment explanation
Indices: 34635620--34635727 Score: 57
Period size: 10 Copynumber: 10.6 Consensus size: 10
34635610 TTATTATTTT
*
34635620 AAAATTGTTAA
1 AAAATTATT-A
*
34635631 AAAAGTTATTT
1 AAAA-TTATTA
34635642 AAAATTA-TA
1 AAAATTATTA
*
34635651 AAACATTATTT
1 AAA-ATTATTA
34635662 AAAATT-TGTA
1 AAAATTAT-TA
34635672 AAAATTATT-
1 AAAATTATTA
*
34635681 AAAATT-TGTG
1 AAAATTAT-TA
*
34635691 AAAGTTATTA
1 AAAATTATTA
34635701 AAAA--ATTGCA
1 AAAATTATT--A
34635711 AATAATTATTA
1 AA-AATTATTA
34635722 AAAATT
1 AAAATT
34635728 TGTGAACCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 27
0.68 0.07 0.24
Matches are distributed among these distances:
8 4 0.05
9 12 0.16
10 34 0.45
11 19 0.25
12 4 0.05
13 3 0.04
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (10 bp):
AAAATTATTA
Found at i:34636129 original size:5 final size:5
Alignment explanation
Indices: 34636088--34636113 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34636078 TTCTATATAG
34636088 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
34636114 CCACTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:34641914 original size:33 final size:34
Alignment explanation
Indices: 34641870--34641951 Score: 121
Period size: 33 Copynumber: 2.4 Consensus size: 34
34641860 ACCATACAAT
*
34641870 CATGTAACCCTTCCACACGGTCTGGCCACAC-TC
1 CATGTAACCCTTCCACACGGTCTGGCCACACGGC
* * *
34641903 CGTGTAACCCTTCTACATGGTCTGGCCACACGGC
1 CATGTAACCCTTCCACACGGTCTGGCCACACGGC
34641937 CATGTAACCCTTCCA
1 CATGTAACCCTTCCA
34641952 TATGGCCCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 28 0.67
34 14 0.33
ACGTcount: A:0.21, C:0.39, G:0.17, T:0.23
Consensus pattern (34 bp):
CATGTAACCCTTCCACACGGTCTGGCCACACGGC
Found at i:34642494 original size:44 final size:45
Alignment explanation
Indices: 34642428--34642562 Score: 128
Period size: 47 Copynumber: 2.9 Consensus size: 45
34642418 AAAGAAGCAG
* * ***
34642428 TCGACAATTCATCTGCTTGACCAGTGGCTTA-ACAGTGTATTCTAA
1 TCGAC-ATTCATCTGCTCGACCAATGGCTTATACAACATATTCTAA
* *
34642473 TCGACATTCATCTGCTCGACCAATGGTTTATTCACAACATATTCTAG
1 TCGACATTCATCTGCTCGACCAATGGCTTA-T-ACAACATATTCTAA
* * *
34642520 TCGGCATTCATCTGCTCGACCATTGGTTTATTGACAACATATT
1 TCGACATTCATCTGCTCGACCAATGGCTTA-T-ACAACATATT
34642563 AGTAGCTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
44 22 0.29
45 5 0.06
47 50 0.65
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (45 bp):
TCGACATTCATCTGCTCGACCAATGGCTTATACAACATATTCTAA
Found at i:34642532 original size:47 final size:47
Alignment explanation
Indices: 34642465--34642562 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
34642455 CTTAACAGTG
34642465 TATTCTAATCGACATTCATCTGCTCGACCAATGGTTTATTCACAACA
1 TATTCTAATCGACATTCATCTGCTCGACCAATGGTTTATTCACAACA
* * * *
34642512 TATTCTAGTCGGCATTCATCTGCTCGACCATTGGTTTATTGACAACA
1 TATTCTAATCGACATTCATCTGCTCGACCAATGGTTTATTCACAACA
34642559 TATT
1 TATT
34642563 AGTAGCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (47 bp):
TATTCTAATCGACATTCATCTGCTCGACCAATGGTTTATTCACAACA
Found at i:34642610 original size:91 final size:91
Alignment explanation
Indices: 34642512--34642695 Score: 235
Period size: 91 Copynumber: 2.0 Consensus size: 91
34642502 ATTCACAACA
* * * * * *
34642512 TATTCTAGTCGGCATTCATCTGCTCGACCATTGGTTTAT-TGACAACATATTAGTAGCTTTTATA
1 TATTCTAGTAGACAGTCATCTGCTCAACCAATGGTTTATCT-ACAACATATTAGCAGCTTTTATA
* *
34642576 TGCACAAATGGATAGTTCATCCACCAG
65 TACACAAATAGATAGTTCATCCACCAG
* * *
34642603 TATTCTAGTAGACAGTCATCTGTTCAACCAATGGTTTATCTACAACGTATTAGCAGCTTTTATCT
1 TATTCTAGTAGACAGTCATCTGCTCAACCAATGGTTTATCTACAACATATTAGCAGCTTTTATAT
* *
34642668 ACACAGATAGATGGTTCATCCACCAG
66 ACACAAATAGATAGTTCATCCACCAG
34642694 TA
1 TA
34642696 AATTTATCAT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 78 0.99
92 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (91 bp):
TATTCTAGTAGACAGTCATCTGCTCAACCAATGGTTTATCTACAACATATTAGCAGCTTTTATAT
ACACAAATAGATAGTTCATCCACCAG
Found at i:34643710 original size:18 final size:18
Alignment explanation
Indices: 34643665--34643717 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
34643655 TCAATATCTC
34643665 TTTAACAAT-TTTAAAATATT
1 TTTAACAATATTT--AAT-TT
34643685 TTTAACAATATTTAATTT
1 TTTAACAATATTTAATTT
* *
34643703 TTTTACAATTTTTAA
1 TTTAACAATATTTAA
34643718 ATATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.50
19 3 0.10
20 9 0.30
21 3 0.10
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAACAATATTTAATTT
Found at i:34643739 original size:39 final size:39
Alignment explanation
Indices: 34643665--34643755 Score: 114
Period size: 38 Copynumber: 2.3 Consensus size: 39
34643655 TCAATATCTC
*
34643665 TTTAACAATTTTAAAATATTTTTAACAATATTTAAT-TT
1 TTTAACAATTTTTAAATATTTTTAACAATATTTAATATT
* * *
34643703 TTTTACAATTTTTAAATATTTTTTTACGAT-TATTAATATT
1 TTTAACAATTTTTAAATA-TTTTTAACAATAT-TTAATATT
34643743 TTTAACAATTTTT
1 TTTAACAATTTTT
34643756 TGGTCTGGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 17 0.38
39 14 0.31
40 14 0.31
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (39 bp):
TTTAACAATTTTTAAATATTTTTAACAATATTTAATATT
Found at i:34651063 original size:48 final size:48
Alignment explanation
Indices: 34650994--34651158 Score: 222
Period size: 48 Copynumber: 3.4 Consensus size: 48
34650984 TAGGGTTATG
* * *
34650994 TGTGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCAATA
1 TGTGATACCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
34651042 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATACCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
34651090 TTTGATACCATGTAATACCATATCTGGGATATGGCATTAGCATCGATA
1 TGTGATACCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
34651138 TGAGAAATCATGTAAGACCAT
1 TGTGATACCATGTAAGACCAT
34651159 AGCTAGTCTA
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 104 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (48 bp):
TGTGATACCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:34656212 original size:48 final size:48
Alignment explanation
Indices: 34656136--34656241 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
34656126 AGTATTCAGA
* ** * ** *
34656136 CACTATTACTCATTATTTGTGTACGTTTAACCCTGACAGGTAACCATG
1 CACTATTATTCATTATTCATATACGTTTAACCCAAACAGGTAACCAAG
* * *
34656184 GACTATTATTCATTATTCATATAGGTTTAACCCAAACGGGTAACCAAG
1 CACTATTATTCATTATTCATATACGTTTAACCCAAACAGGTAACCAAG
34656232 CACTATTATT
1 CACTATTATT
34656242 TTCACCTGTG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (48 bp):
CACTATTATTCATTATTCATATACGTTTAACCCAAACAGGTAACCAAG
Found at i:34658864 original size:26 final size:26
Alignment explanation
Indices: 34658819--34658893 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
34658809 CATATTTTCT
* *
34658819 CAAAATTTTACTAGGGGTAAAATCGC
1 CAAAATTTTACTAGAGGTAAAATCAC
* * *
34658845 CAAAATTTTATTAGATGTAAAATCAT
1 CAAAATTTTACTAGAGGTAAAATCAC
* *
34658871 CAAAATTTTACTGGGGGTAAAAT
1 CAAAATTTTACTAGAGGTAAAAT
34658894 AGGGATAAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (26 bp):
CAAAATTTTACTAGAGGTAAAATCAC
Found at i:34668312 original size:28 final size:27
Alignment explanation
Indices: 34668250--34668591 Score: 142
Period size: 27 Copynumber: 12.6 Consensus size: 27
34668240 CTCGATTTAC
*
34668250 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
34668277 AAAATTACTAAAATACCCCATGATTTGT
1 AAAATTACTAAAATACCCC-TGATTTGT
* *
34668305 AAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * *
34668332 AAAAATTACCAAAGTA-CCCTCGATTTAT
1 -AAAATTACTAAAATACCCCT-GATTTGT
* **** *
34668360 AGAATTACTGTTTTA-CCCTCGATTTAT
1 AAAATTACTAAAATACCCCT-GATTTGT
* *** **
34668387 AGAATTACTATTTTACCCCTGATTTAC
1 AAAATTACTAAAATACCCCTGATTTGT
*****
34668414 AAAATTACCGTTTTA-CCCTCGA-TTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * * * * **
34668440 GAAATTACTGACATACTCGT-ATAGGGT
1 AAAATTACTAAAATACCCCTGAT-TTGT
* * *
34668467 AGAATTACCAAAACACCCCT-AGTTTGT
1 AAAATTACTAAAATACCCCTGA-TTTGT
* * *
34668494 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* ** * *
34668521 GAAATTACCGAAATA-TCCTCAATTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* **
34668548 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCCCTGATTTGT
*
34668575 AAAATTACAAAAATACC
1 AAAATTACTAAAATACC
34668592 GGTATTTCGG
Statistics
Matches: 246, Mismatches: 57, Indels: 24
0.75 0.17 0.07
Matches are distributed among these distances:
25 1 0.00
26 19 0.08
27 175 0.71
28 51 0.21
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTGT
Found at i:34668395 original size:27 final size:27
Alignment explanation
Indices: 34668155--34668437 Score: 180
Period size: 27 Copynumber: 10.4 Consensus size: 27
34668145 ATTACCAAAG
* * *
34668155 TACCCCCGATTTATAGAATTACCATTC
1 TACCCTCGATTTATAAAATTACCATTT
*
34668182 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* *
34668209 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* * * ***
34668236 TATCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCATTT
* * * ***
34668263 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCATTT
* * **
34668290 TACCC-CATGATTTGTAAAATTACTGA-AA
1 TACCCTC--GATTTATAAAATTAC-CATTT
***
34668318 TACCCTCGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TATAAAATTACCATTT
* **
34668346 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* *
34668373 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTT
* *
34668400 TACCC-CTGATTTACAAAATTACCGTTT
1 TACCCTC-GATTTATAAAATTACCATTT
34668427 TACCCTCGATT
1 TACCCTCGATT
34668438 GTGAAATTAC
Statistics
Matches: 215, Mismatches: 31, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
26 4 0.02
27 165 0.77
28 43 0.20
29 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCATTT
Found at i:34668431 original size:137 final size:135
Alignment explanation
Indices: 34668209--34668455 Score: 307
Period size: 137 Copynumber: 1.8 Consensus size: 135
34668199 ATTACCATTT
* *
34668209 TACCCTCGATTTATAGAATTACCGTTTTATCCTCGATTTACAAAATTACTAAAATACCCCTGGTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGATT
** *
34668274 TGTAAAATTACTAAAATACCC-CATGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAAT
66 TACAAAATTACCAAAATACCCTC--GA-TTGTAAAATTACTGAAATACCCTCGACTTGTAAAAAT
34668338 TACCAAAG
128 TACCAAAG
* * * ***
34668346 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCCTGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGATT
**** * *
34668411 TACAAAATTACCGTTTTACCCTCGATTGTGAAATTACTGACATAC
66 TACAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATAC
34668456 TCGTATAGGG
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
135 18 0.20
136 2 0.02
137 71 0.77
138 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.36
Consensus pattern (135 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGATT
TACAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTAC
CAAAG
Found at i:34669037 original size:25 final size:25
Alignment explanation
Indices: 34669009--34669068 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
34668999 CCTTATAGTA
34669009 TGAAAATGACTGTTTTGCCCCTAGG
1 TGAAAATGACTGTTTTGCCCCTAGG
34669034 TGAAAATGACTGTTTTGCCCCTAGG
1 TGAAAATGACTGTTTTGCCCCTAGG
*
34669059 TAAAAATGAC
1 TGAAAATGAC
34669069 CATTATACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (25 bp):
TGAAAATGACTGTTTTGCCCCTAGG
Found at i:34669079 original size:25 final size:25
Alignment explanation
Indices: 34669026--34669083 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
34669016 GACTGTTTTG
* ** * *
34669026 CCCCTAGGTGAAAATGACTGTTTTG
1 CCCCTAGGTAAAAATGACCATTATA
34669051 CCCCTAGGTAAAAATGACCATTATA
1 CCCCTAGGTAAAAATGACCATTATA
34669076 CCCCTAGG
1 CCCCTAGG
34669084 GTTTAATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (25 bp):
CCCCTAGGTAAAAATGACCATTATA
Found at i:34669188 original size:19 final size:20
Alignment explanation
Indices: 34669119--34669204 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
34669109 GATATGATAT
*
34669119 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
34669139 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
34669159 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
34669179 ACAT-ATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
34669198 ACATGAT
1 ACATGAT
34669205 GTATTCATAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
19 19 0.31
20 40 0.66
21 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:34669198 original size:39 final size:40
Alignment explanation
Indices: 34669119--34669204 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
34669109 GATATGATAT
*
34669119 ACATGATTGATATGATATGCACATGATATGTATAAAATGC
1 ACATGATTGATATGAAATGCACATGATATGTATAAAATGC
*
34669159 ACATGATATG-TATGAAATGCACAT-ATATGTATGAAATGC
1 ACATGAT-TGATATGAAATGCACATGATATGTATAAAATGC
34669198 ACATGAT
1 ACATGAT
34669205 GTATTCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 21 0.49
40 20 0.47
41 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (40 bp):
ACATGATTGATATGAAATGCACATGATATGTATAAAATGC
Found at i:34669339 original size:52 final size:51
Alignment explanation
Indices: 34669254--34669401 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
34669244 GAGGAAGTGC
34669254 AAAAGGGCTTATGCCCCAGTTTATT-GAATAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGGAA-AGGGCTT-TGCCCCAGTTTACCG
*
34669306 AAAAGGGCTTATGCCCCAGTTTATTGGAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGGAAAGGGCTTTGCCCCAGTTTACCG
** *
34669357 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTATTGGAAAGGGCTTTGCCCCAGTT
34669402 ATTAAAAGAG
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
50 31 0.34
51 24 0.27
52 32 0.36
53 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGGAAAGGGCTTTGCCCCAGTTTACCG
Found at i:34669351 original size:25 final size:26
Alignment explanation
Indices: 34669254--34669401 Score: 212
Period size: 25 Copynumber: 5.8 Consensus size: 26
34669244 GAGGAAGTGC
**
34669254 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
34669280 AATAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
34669306 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
34669332 GAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
34669357 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
34669382 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
34669402 ATTAAAAGAG
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 55 0.50
26 55 0.50
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:34669606 original size:42 final size:42
Alignment explanation
Indices: 34669547--34669638 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
34669537 TAGTCTCCCC
* * ** *
34669547 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTACATACATCCATTGACATTACATATGATATTG
*
34669589 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTACATACATCCATTGACATTACATATGATATTG
34669631 AAATGGGC
1 AAATGGGC
34669639 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTACATACATCCATTGACATTACATATGATATTG
Found at i:34669699 original size:31 final size:31
Alignment explanation
Indices: 34669653--34669740 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 31
34669643 GGGCCATACC
*
34669653 ATTTACAGTAAAGGCTTCGGCCCAGTGAAATG
1 ATTTACA-AAAAGGCTTCGGCCCAGTGAAATG
*
34669685 ATTTACAAAAAGGCTTCGGCCCAGTGATATG
1 ATTTACAAAAAGGCTTCGGCCCAGTGAAATG
** *
34669716 ATTTATGAAAAGGCTCCGGCCCAGT
1 ATTTACAAAAAGGCTTCGGCCCAGT
34669741 AACCGTTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 44 0.86
32 7 0.14
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (31 bp):
ATTTACAAAAAGGCTTCGGCCCAGTGAAATG
Found at i:34678433 original size:40 final size:40
Alignment explanation
Indices: 34678373--34678509 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
34678363 TCGAGAATAT
* *
34678373 AAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCTC
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
* ** * *
34678413 AAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAATTT
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
* * ** *
34678453 AAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACTT
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
* *
34678493 AAGGCGGATAGGATTTG
1 AAAGTGGATAGGATTTG
34678510 ACCTGAAAAG
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
Found at i:34678564 original size:78 final size:78
Alignment explanation
Indices: 34678474--34678703 Score: 388
Period size: 78 Copynumber: 2.9 Consensus size: 78
34678464 GATTTATTCC
*
34678474 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCATGATTCGCTACA
1 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
*
34678539 ATTACATGATATA
66 GTTACATGATATA
34678552 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
1 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
34678617 GTTACATGATATA
66 GTTACATGATATA
* * * * * *
34678630 TGATTCATTATGGTAACCTAAGGTGGATAGGATCTGACTTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
34678695 GTTACATGA
66 GTTACATGA
34678704 GATGTGACTC
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 144 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (78 bp):
TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
GTTACATGATATA
Found at i:34680899 original size:24 final size:24
Alignment explanation
Indices: 34680867--34680938 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
34680857 AAAATCCAAT
* * *
34680867 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
34680891 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
34680915 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
34680939 CGGTTGATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 39 0.89
25 5 0.11
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:34687277 original size:40 final size:40
Alignment explanation
Indices: 34687216--34687353 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
34687206 CTCGAGAATA
* ** *
34687216 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
34687256 CAAAGTGGATAGGATTTGTTCCTAATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
34687296 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
*
34687336 TAAGGTGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
34687354 ACCTGAAAAG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:34687409 original size:78 final size:78
Alignment explanation
Indices: 34687318--34687547 Score: 415
Period size: 78 Copynumber: 2.9 Consensus size: 78
34687308 GATTTATTCC
* *
34687318 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCTTGATTCGCTACA
1 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
34687383 GTTACATGATATA
66 GTTACATGATATA
*
34687396 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
34687461 GTTACATGATATA
66 GTTACATGATATA
* *
34687474 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
34687539 GTTACATGA
66 GTTACATGA
34687548 GATGTGACTC
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 146 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCACTATGGTAACTTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:34688935 original size:22 final size:22
Alignment explanation
Indices: 34688910--34688954 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
34688900 TGTTTGACAC
34688910 ATCAAAATTTAAAAATAACATA
1 ATCAAAATTTAAAAATAACATA
34688932 ATCAAAATTTAAAAATAACATA
1 ATCAAAATTTAAAAATAACATA
34688954 A
1 A
34688955 CTTAATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (22 bp):
ATCAAAATTTAAAAATAACATA
Found at i:34690495 original size:6 final size:6
Alignment explanation
Indices: 34690478--34690515 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
34690468 AAATAATTTA
*
34690478 ATAAAT AAAAAT ATAAAT ATAAAT ATAAA- A-AAAT ATAA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAA
34690516 TTTTATACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
4 3 0.11
5 2 0.07
6 23 0.82
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
ATAAAT
Found at i:34690592 original size:9 final size:9
Alignment explanation
Indices: 34690527--34690594 Score: 75
Period size: 9 Copynumber: 7.6 Consensus size: 9
34690517 TTTATACAAA
*
34690527 TAATTCAGT
1 TAATTCGGT
*
34690536 TTATTCGGT
1 TAATTCGGT
* *
34690545 TAATTTGGG
1 TAATTCGGT
34690554 TAATTCGAG-
1 TAATTCG-GT
34690563 TAATTCGGT
1 TAATTCGGT
*
34690572 TAATTCGAT
1 TAATTCGGT
34690581 TAATTCGGT
1 TAATTCGGT
34690590 TAATT
1 TAATT
34690595 TTATACTTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 1 0.02
9 47 0.96
10 1 0.02
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:34696654 original size:88 final size:88
Alignment explanation
Indices: 34696539--34696700 Score: 220
Period size: 88 Copynumber: 1.8 Consensus size: 88
34696529 TTGTGATACT
* *
34696539 TGAACTATCAATTTATGTAGTATTTGGT-ACTTGTACCTTCATAAAATATTCAATGTGGTA-TCT
1 TGAACTATCAATTTATGTAGTATTTGGTAAATT-TACCTTCATAAAATATCCAATGTGGTACT-T
34696602 ATACTTCGAAATTTCCAGTGGTACA
64 ATACTTCGAAATTTCCAGTGGTACA
* * ** *
34696627 TGAACTATCAATTTGTGTATTATTTGGTAAATTTATTTTCATAAAATGTCCAATGTGGTACTTAT
1 TGAACTATCAATTTATGTAGTATTTGGTAAATTTACCTTCATAAAATATCCAATGTGGTACTTAT
*
34696692 ACTTTGAAA
66 ACTTCGAAA
34696701 GTATTTAATG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
88 60 0.94
89 4 0.06
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (88 bp):
TGAACTATCAATTTATGTAGTATTTGGTAAATTTACCTTCATAAAATATCCAATGTGGTACTTAT
ACTTCGAAATTTCCAGTGGTACA
Found at i:34700709 original size:39 final size:39
Alignment explanation
Indices: 34700651--34700836 Score: 345
Period size: 39 Copynumber: 4.8 Consensus size: 39
34700641 GGCTTATGCT
34700651 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
*
34700690 CTAAACGGAAGCCCAAAGGCTAACTGAAGCACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
* *
34700729 CCAAACGGAAGCCCGAAGGCTAACTGAAGTACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
34700768 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
34700807 CTAAACGGAAGCCCGAAGGCTAACTGAAGC
1 CTAAACGGAAGCCCGAAGGCTAACTGAAGC
34700837 TGATCAGAGC
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 141 1.00
ACGTcount: A:0.39, C:0.26, G:0.25, T:0.10
Consensus pattern (39 bp):
CTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTG
Found at i:34700908 original size:20 final size:20
Alignment explanation
Indices: 34700867--34700908 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34700857 CCCCAAAAGG
*
34700867 GTTAACTAAAACTCATATGA
1 GTTAACTAAAACTCATAAGA
*
34700887 GTTAAC-AAAAGCTCGTAAGA
1 GTTAACTAAAA-CTCATAAGA
34700907 GT
1 GT
34700909 GAAACGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (20 bp):
GTTAACTAAAACTCATAAGA
Found at i:34703022 original size:28 final size:28
Alignment explanation
Indices: 34702973--34703029 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
34702963 ATTAAAGTGA
*
34702973 TTATCTTAATATTAATTTAATTTAATAT
1 TTATCTTAATATTAATTAAATTTAATAT
*
34703001 TTATCTT-GTATTAGATTAAATTTAATAT
1 TTATCTTAATATTA-ATTAAATTTAATAT
34703029 T
1 T
34703030 AAAGTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (28 bp):
TTATCTTAATATTAATTAAATTTAATAT
Found at i:34705766 original size:16 final size:16
Alignment explanation
Indices: 34705745--34705776 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34705735 TCCATGACAA
34705745 GTGATATATGTAATAT
1 GTGATATATGTAATAT
*
34705761 GTGATATATGTTATAT
1 GTGATATATGTAATAT
34705777 AAATTCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (16 bp):
GTGATATATGTAATAT
Found at i:34709793 original size:8 final size:8
Alignment explanation
Indices: 34709780--34709804 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34709770 GATTGCTAAC
34709780 GTTTATTG
1 GTTTATTG
34709788 GTTTATTG
1 GTTTATTG
34709796 GTTTATTG
1 GTTTATTG
34709804 G
1 G
34709805 GGATAGCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (8 bp):
GTTTATTG
Found at i:34711247 original size:86 final size:87
Alignment explanation
Indices: 34711097--34711265 Score: 277
Period size: 86 Copynumber: 2.0 Consensus size: 87
34711087 CGAAATAAAA
* * *
34711097 ACATAGTAACACAAAGAAAAGGGAGAGATTATCAATTCTTTTTTTTCTTTCTCTTCCCTGTTAAA
1 ACATAGTAACACAAAGAAAAGGGAGAGACTATCAATTCTTTTTTTACTTTCTCTTCCCTATTAAA
*
34711162 ACATGTTATCCATATGAATCCT
66 ACATGTTATCCAAATGAATCCT
*
34711184 ACATAGTAACACAAAG-AAAGGGAGAGACTATTAATTCTTTTTTTACTTTCTCTTCCCTATTAAA
1 ACATAGTAACACAAAGAAAAGGGAGAGACTATCAATTCTTTTTTTACTTTCTCTTCCCTATTAAA
*
34711248 ACGTGTTATCCAAATGAA
66 ACATGTTATCCAAATGAA
34711266 CCATTCTCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 60 0.79
87 16 0.21
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (87 bp):
ACATAGTAACACAAAGAAAAGGGAGAGACTATCAATTCTTTTTTTACTTTCTCTTCCCTATTAAA
ACATGTTATCCAAATGAATCCT
Found at i:34711758 original size:21 final size:21
Alignment explanation
Indices: 34711732--34711777 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
34711722 TATGTATATG
34711732 TATATATATAAATTACGTATA
1 TATATATATAAATTACGTATA
*
34711753 TATATATATAAATTACGTATG
1 TATATATATAAATTACGTATA
34711774 TATA
1 TATA
34711778 AAGATTGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (21 bp):
TATATATATAAATTACGTATA
Found at i:34716391 original size:24 final size:26
Alignment explanation
Indices: 34716357--34716417 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
34716347 TTTACTATTT
* * *
34716357 TTAATATAAAATAT-TTATTTTTATA
1 TTAATAAAAAATATATTAATTATATA
34716382 -TAATAAAAAATATATTAATTATATA
1 TTAATAAAAAATATATTAATTATATA
34716407 TTAAATAAAAA
1 TT-AATAAAAA
34716418 TAAAATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 12 0.40
25 9 0.30
26 1 0.03
27 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TTAATAAAAAATATATTAATTATATA
Found at i:34716397 original size:22 final size:22
Alignment explanation
Indices: 34716352--34716411 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
34716342 TTATTTTTAC
* *
34716352 TATTTTTA-AT-ATAAAATATT
1 TATTTTTATATAATAAAAAATA
34716372 TATTTTTATATAATAAAAAATA
1 TATTTTTATATAATAAAAAATA
* *
34716394 TATTAATTATATATTAAA
1 TATT-TTTATATAATAAA
34716412 TAAAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 8 0.24
21 2 0.06
22 12 0.36
23 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTATATAATAAAAAATA
Found at i:34717004 original size:26 final size:29
Alignment explanation
Indices: 34716965--34717018 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
34716955 TTAATATAAC
*
34716965 TTTTAGTCTCACTTTGATA-TTTATATTT
1 TTTTAGTCTCACTTTGATACTTAATATTT
34716993 TTTTA-TCT-ACTTTGATACTTAATATT
1 TTTTAGTCTCACTTTGATACTTAATATT
34717019 GGTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 10 0.42
28 5 0.21
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (29 bp):
TTTTAGTCTCACTTTGATACTTAATATTT
Found at i:34724183 original size:12 final size:12
Alignment explanation
Indices: 34724166--34724201 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
34724156 GGACTAAAAC
34724166 ACCAAAGTTAGG
1 ACCAAAGTTAGG
**
34724178 ACCAAAGTTAAC
1 ACCAAAGTTAGG
34724190 ACCAAAGTTAGG
1 ACCAAAGTTAGG
34724202 TCGTGTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (12 bp):
ACCAAAGTTAGG
Found at i:34729982 original size:76 final size:76
Alignment explanation
Indices: 34729856--34730002 Score: 294
Period size: 76 Copynumber: 1.9 Consensus size: 76
34729846 GGTTCAGTTT
34729856 CTGGTGAATGCTGTAATGCACACCAACCAAGGCATATATCAGTTATCAGAGGACTTTGTCTTTAA
1 CTGGTGAATGCTGTAATGCACACCAACCAAGGCATATATCAGTTATCAGAGGACTTTGTCTTTAA
34729921 CCTGCTTCAGA
66 CCTGCTTCAGA
34729932 CTGGTGAATGCTGTAATGCACACCAACCAAGGCATATATCAGTTATCAGAGGACTTTGTCTTTAA
1 CTGGTGAATGCTGTAATGCACACCAACCAAGGCATATATCAGTTATCAGAGGACTTTGTCTTTAA
34729997 CCTGCT
66 CCTGCT
34730003 GAGACACATC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (76 bp):
CTGGTGAATGCTGTAATGCACACCAACCAAGGCATATATCAGTTATCAGAGGACTTTGTCTTTAA
CCTGCTTCAGA
Done.