Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 224 of 311
Found at i:76138899 original size:21 final size:19
Alignment explanation
Indices: 76138841--76138912 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 19
76138831 GTATTAAAAA
*
76138841 TTGTAAATAATTATTAAAT
1 TTGTAAAAAATTATTAAAT
76138860 ATTGTCAAAAAA--ATTAAAT
1 -TTGT-AAAAAATTATTAAAT
76138879 TTGTAAAAAAATTACTTAAAT
1 TTGT-AAAAAATTA-TTAAAT
*
76138900 TTGTTAAAAATTA
1 TTGTAAAAAATTA
76138913 GTAACAAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
18 10 0.22
19 7 0.16
20 13 0.29
21 15 0.33
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (19 bp):
TTGTAAAAAATTATTAAAT
Found at i:76139000 original size:20 final size:19
Alignment explanation
Indices: 76138961--76139075 Score: 99
Period size: 20 Copynumber: 5.8 Consensus size: 19
76138951 CTGATTAAAT
76138961 AATTTTTTTACAATTTTTTA
1 AATTTTTTTACAA-TTTTTA
76138981 ATATTTATTTT-CAATTTTTA
1 A-ATTT-TTTTACAATTTTTA
* *
76139001 AATAATTTTCACAATTTTT-
1 AAT-TTTTTTACAATTTTTA
* *
76139020 AATAATTTTTACAACTTTTA
1 AAT-TTTTTTACAATTTTTA
* * *
76139040 AATTTTTATATAATTTTAA
1 AATTTTTTTACAATTTTTA
76139059 TAATTTTTTTACAATTT
1 -AATTTTTTTACAATTT
76139076 AAAAATATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
19 33 0.42
20 34 0.44
21 7 0.09
22 4 0.05
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (19 bp):
AATTTTTTTACAATTTTTA
Found at i:76139056 original size:11 final size:10
Alignment explanation
Indices: 76138993--76139138 Score: 69
Period size: 10 Copynumber: 15.2 Consensus size: 10
76138983 ATTTATTTTC
76138993 AATTTTTAAAT
1 AATTTTT-AAT
* *
76139004 AA-TTTTCAC
1 AATTTTTAAT
76139013 AATTTTTAAT
1 AATTTTTAAT
*
76139023 AATTTTT-AC
1 AATTTTTAAT
*
76139032 AACTTTT-A-
1 AATTTTTAAT
76139040 AATTTTTATAT
1 AATTTTTA-AT
76139051 AA-TTTTAAT
1 AATTTTTAAT
*
76139060 AATTTTT-TT
1 AATTTTTAAT
* *
76139069 ACA-ATTTAAA
1 A-ATTTTTAAT
*
76139079 AATATTTAAT
1 AATTTTTAAT
* *
76139089 AATTTTTTAC
1 AATTTTTAAT
*
76139099 AATTTCTAAAT
1 AATTT-TTAAT
*
76139110 AA-TTTAAAT
1 AATTTTTAAT
*
76139119 -ATTTTTACT
1 AATTTTTAAT
76139128 -ATTTTTAAT
1 AATTTTTAAT
76139137 AA
1 AA
76139139 ATCTTTTTCA
Statistics
Matches: 103, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
8 7 0.07
9 39 0.38
10 49 0.48
11 8 0.08
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.54
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:76139066 original size:28 final size:28
Alignment explanation
Indices: 76138996--76139138 Score: 123
Period size: 28 Copynumber: 5.0 Consensus size: 28
76138986 TATTTTCAAT
*
76138996 TTTTAAATAATTTTCACAATTTTTAATAA
1 TTTT-AATAATTTTTACAATTTTTAATAA
* * *
76139025 TTTTTACAACTTTTA-AATTTTTATATAA
1 TTTTAATAATTTTTACAATTTTTA-ATAA
*
76139053 TTTTAATAATTTTTTTACAA--TTTAAAAA
1 TTTTAATAA--TTTTTACAATTTTTAATAA
*
76139081 TATTTAATAATTTTTTACAATTTCTAAATAA
1 T-TTTAATAA-TTTTTACAATTT-TTAATAA
* *
76139112 TTTAAAT-ATTTTTACTATTTTTAATAA
1 TTTTAATAATTTTTACAATTTTTAATAA
76139139 ATCTTTTTCA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
27 14 0.15
28 43 0.46
29 17 0.18
30 11 0.12
31 8 0.09
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTTAATAATTTTTACAATTTTTAATAA
Found at i:76139077 original size:19 final size:20
Alignment explanation
Indices: 76138958--76139075 Score: 90
Period size: 19 Copynumber: 6.0 Consensus size: 20
76138948 TTTCTGATTA
76138958 AATAATTTTTTTACAATTTTTT
1 AATAATTTTTTTACAA--TTTT
76138980 AAT-ATTTATTTT-CAATTTTT
1 AATAATTT-TTTTACAA-TTTT
*
76139000 AAATAA--TTTTCACAATTTTT
1 -AATAATTTTTTTACAA-TTTT
76139020 AATAA--TTTTTACAACTTTT
1 AATAATTTTTTTACAA-TTTT
* *
76139039 -A-AATTTTTATATAATTTT
1 AATAATTTTTTTACAATTTT
76139057 AATAATTTTTTTACAATTT
1 AATAATTTTTTTACAATTT
76139076 AAAAATATTT
Statistics
Matches: 81, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.02
18 5 0.06
19 28 0.35
20 28 0.35
21 10 0.12
22 8 0.10
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
AATAATTTTTTTACAATTTT
Found at i:76139103 original size:39 final size:39
Alignment explanation
Indices: 76139025--76139103 Score: 90
Period size: 39 Copynumber: 2.0 Consensus size: 39
76139015 TTTTTAATAA
* * *
76139025 TTTTTACAACTTTTAAATTTTTATATAATTTTAATAATT
1 TTTTTACAACTTTAAAATATTTATATAATTTTAACAATT
*
76139064 TTTTTACAA-TTTAAAAATATTTA-ATAATTTTTTACAATT
1 TTTTTACAACTTT-AAAATATTTATATAA-TTTTAACAATT
76139103 T
1 T
76139104 CTAAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
38 7 0.21
39 27 0.79
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (39 bp):
TTTTTACAACTTTAAAATATTTATATAATTTTAACAATT
Found at i:76139114 original size:29 final size:29
Alignment explanation
Indices: 76139035--76139124 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
76139025 TTTTTACAAC
* *
76139035 TTTTA-AATTTTTATATAATTTTAATAATTT
1 TTTTACAATTTATAAATAA-TTTAATAA-TT
*
76139065 TTTTACAATTTAAAAAT-ATTTAATAATT
1 TTTTACAATTTATAAATAATTTAATAATT
*
76139093 TTTTACAATTTCTAAATAATTTAA-ATATT
1 TTTTACAATTTATAAATAATTTAATA-ATT
76139122 TTT
1 TTT
76139125 ACTATTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
28 18 0.35
29 20 0.38
30 6 0.12
31 8 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTACAATTTATAAATAATTTAATAATT
Found at i:76139152 original size:21 final size:22
Alignment explanation
Indices: 76139114--76139154 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
76139104 CTAAATAATT
*
76139114 TAAATATTTTTACTATTTTTAA
1 TAAATATTTTTACAATTTTTAA
*
76139136 TAAATCTTTTT-CAATTTTT
1 TAAATATTTTTACAATTTTT
76139155 TGGTTTAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (22 bp):
TAAATATTTTTACAATTTTTAA
Found at i:76142486 original size:16 final size:16
Alignment explanation
Indices: 76142460--76142493 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
76142450 TTTAAGGTTG
76142460 AAAGATAAAAAATAGAA
1 AAAGATAAAAAATA-AA
76142477 AAAG-TAAAAAATAAA
1 AAAGATAAAAAATAAA
76142492 AA
1 AA
76142494 TCAATTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAGATAAAAAATAAA
Found at i:76144094 original size:21 final size:21
Alignment explanation
Indices: 76144068--76144108 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
76144058 TATTTGTCGT
76144068 GTTCA-TTAGTTATTTAATTTA
1 GTTCATTTAGTT-TTTAATTTA
76144089 GTTCATTTTAGTTTTTAATT
1 GTTCA-TTTAGTTTTTAATT
76144109 GATAACTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.61
Consensus pattern (21 bp):
GTTCATTTAGTTTTTAATTTA
Found at i:76144835 original size:27 final size:28
Alignment explanation
Indices: 76144803--76144858 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
76144793 TTTGGGGTTC
*
76144803 AAGTTTAGGTT-TAGGGTTCGAG-GTTAT
1 AAGTTTAGGTTAAAGGGTTC-AGTGTTAT
*
76144830 AAGTTTGGGTTAAAGGGTTCAGTGTTAT
1 AAGTTTAGGTTAAAGGGTTCAGTGTTAT
76144858 A
1 A
76144859 TATTACAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.25, C:0.04, G:0.32, T:0.39
Consensus pattern (28 bp):
AAGTTTAGGTTAAAGGGTTCAGTGTTAT
Found at i:76146919 original size:17 final size:17
Alignment explanation
Indices: 76146893--76146934 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
76146883 ACTAAATGAG
*
76146893 TAACTTTTGGACAT-TTA
1 TAACTATTGGA-ATGTTA
76146910 TAACTATTGGAATGTTA
1 TAACTATTGGAATGTTA
*
76146927 TAAATATT
1 TAACTATT
76146935 TTGAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (17 bp):
TAACTATTGGAATGTTA
Found at i:76153112 original size:30 final size:30
Alignment explanation
Indices: 76153076--76153135 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
76153066 TTCCCGAGCC
* *
76153076 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGAAAAAGTT
*
76153106 TAGGGGCAAAAATGTAATTTTGAAAAAGTT
1 TAGGGGCAAAAATGTAATTATGAAAAAGTT
76153136 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:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGAAAAAGTT
Found at i:76154369 original size:15 final size:15
Alignment explanation
Indices: 76154349--76154379 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
76154339 GTCCATGAAA
76154349 ATCCTTAGTAAAGTG
1 ATCCTTAGTAAAGTG
*
76154364 ATCCTTAGTACAGTG
1 ATCCTTAGTAAAGTG
76154379 A
1 A
76154380 AATTTGCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (15 bp):
ATCCTTAGTAAAGTG
Found at i:76157260 original size:26 final size:26
Alignment explanation
Indices: 76157185--76157260 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
76157175 TGATGTTGAT
* *
76157185 GATATTTTATAATTATTAATTAGATAA
1 GATATTTTATTATTATTTATTA-ATAA
76157212 -ATATTATT-TTATTAATATT-TTAATAA
1 GATATT-TTATTATT-AT-TTATTAATAA
76157238 GATATTTTATTATTATTTATTAA
1 GATATTTTATTATTATTTATTAA
76157261 GTATAAAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
25 2 0.05
26 21 0.51
27 17 0.41
28 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
GATATTTTATTATTATTTATTAATAA
Found at i:76164270 original size:46 final size:45
Alignment explanation
Indices: 76164157--76164303 Score: 170
Period size: 46 Copynumber: 3.2 Consensus size: 45
76164147 CTTAGATACG
* * **
76164157 GTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACAT
1 GTCTTACACTGGCTTACATCTTGAGTCGATG-CATGTCCCAGACAT
*
76164203 GGTCTTACACTGGC-TATCATCTTGTAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCTTA-CATCTTG-AGTCGATGCATGTCCCAGACAT
* * *
76164250 GTCTTACACTGGCTTACATCTCGAGGTCGATGCATATCCCAAACAT
1 GTCTTACACTGGCTTACATCTTGA-GTCGATGCATGTCCCAGACAT
76164296 GTCTTACA
1 GTCTTACA
76164304 ATAGCCCTCG
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 46 0.53
47 33 0.38
48 7 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
GTCTTACACTGGCTTACATCTTGAGTCGATGCATGTCCCAGACAT
Found at i:76166593 original size:21 final size:19
Alignment explanation
Indices: 76166569--76166629 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 19
76166559 AGAGAAGGCC
76166569 AAGAAGGAAAGGAAGAAAGAA
1 AAGAAGG-AA-GAAGAAAGAA
76166590 AAGAAGG-AGAAGAAAGAGA
1 AAGAAGGAAGAAGAAAGA-A
* *
76166609 AAAAATGAGAGAAGAAAGAA
1 AAGAAGGA-AGAAGAAAGAA
76166629 A
1 A
76166630 GAGATAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 9 0.26
19 7 0.20
20 2 0.06
21 17 0.49
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (19 bp):
AAGAAGGAAGAAGAAAGAA
Found at i:76171438 original size:15 final size:16
Alignment explanation
Indices: 76171401--76171438 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
76171391 TGTGTGTTGG
*
76171401 ATTAAATTGAATATGA
1 ATTAAATTAAATATGA
76171417 ATTAAATTAAAT-TGA
1 ATTAAATTAAATATGA
*
76171432 GTTAAAT
1 ATTAAAT
76171439 CATTTGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (16 bp):
ATTAAATTAAATATGA
Found at i:76171776 original size:25 final size:25
Alignment explanation
Indices: 76171756--76171816 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
76171746 GTTCTCTTGC
*
76171756 GCTTCCTGATACTTGGCTCTCATGA
1 GCTTCCTGATAATTGGCTCTCATGA
* *
76171781 GCTTCCTGATAATTGGCTCGCAAGA
1 GCTTCCTGATAATTGGCTCTCATGA
*
76171806 GCTTCCCGATA
1 GCTTCCTGATA
76171817 CAAAGCTCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (25 bp):
GCTTCCTGATAATTGGCTCTCATGA
Found at i:76171824 original size:25 final size:25
Alignment explanation
Indices: 76171796--76171890 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
76171786 CTGATAATTG
*
76171796 GCTCGCAAGAGCTTCCCGATACAAA
1 GCTCGCAAGAGCTTCCCGTTACAAA
* * *
76171821 GCTCGTATGAGCTTCCCGTTACTTAA
1 GCTCGCAAGAGCTTCCCGTTAC-AAA
* * * *
76171847 -CTCACATGAGCTTCCCGTTATATA
1 GCTCGCAAGAGCTTCCCGTTACAAA
* *
76171871 GCTAGGAAGAGCTTCCCGTT
1 GCTCGCAAGAGCTTCCCGTT
76171891 TACATGCTTG
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.95
26 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (25 bp):
GCTCGCAAGAGCTTCCCGTTACAAA
Found at i:76178996 original size:15 final size:16
Alignment explanation
Indices: 76178959--76178997 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
76178949 TGTGTGTTCG
*
76178959 ATTAAATTGAATATGA
1 ATTAAATTAAATATGA
76178975 ATTAAATTAAAT-TGA
1 ATTAAATTAAATATGA
*
76178990 GTTAAATT
1 ATTAAATT
76178998 CATTCGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (16 bp):
ATTAAATTAAATATGA
Found at i:76194664 original size:36 final size:37
Alignment explanation
Indices: 76194589--76194669 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
76194579 ATAAGCATAT
** *
76194589 ATGTACTCTTTAATCATTTGAAGGTATTTCATTATAG
1 ATGTACTCTTTAATCATTTGAAGGTATTTCAACACAG
*
76194626 ATGTACTCTTTAATCATTTGGAGG-ATTTCAACACAG
1 ATGTACTCTTTAATCATTTGAAGGTATTTCAACACAG
76194662 ATGTACTC
1 ATGTACTC
76194670 ATCATATCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 17 0.43
37 23 0.57
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (37 bp):
ATGTACTCTTTAATCATTTGAAGGTATTTCAACACAG
Found at i:76198418 original size:69 final size:68
Alignment explanation
Indices: 76198211--76198428 Score: 236
Period size: 68 Copynumber: 3.1 Consensus size: 68
76198201 CAGTTGATTT
*
76198211 TTTTTTGAAAG-AAAAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTTTGAAAGCAAAAATTGAAATTA-CTCAGC-TGTCTGAGGCTCAACTCA--TCTCGCAATAT
76198275 GAGTTGA
62 GAGTTGA
*
76198282 TTTTTTGAAAGCAAAAATTGAAAAACTTGCTCAGCTGT-T---GCTCTAACTCATCTCGCAATAT
1 TTTTTTGAAAGCAAAAATTG--AAA-TTACTCAGCTGTCTGAGGCTC-AACTCATCTCGCAATAT
76198343 GAGTTGA
62 GAGTTGA
* *
76198350 TTTTTT-TAA-CAGAAA-TGAAATTACTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTTTTGAAAGCAAAAATTGAAATTACTCAGC-TGT-CTGAGGCTCAACTCA--TCTCGCAATAT
76198412 GAGTTGA
62 GAGTTGA
76198419 TTTTTTGAAA
1 TTTTTTGAAA
76198429 AATATAAATT
Statistics
Matches: 127, Mismatches: 6, Indels: 29
0.78 0.04 0.18
Matches are distributed among these distances:
62 8 0.06
63 6 0.05
65 3 0.02
66 5 0.04
67 8 0.06
68 28 0.22
69 28 0.22
70 8 0.06
71 11 0.09
72 9 0.07
73 3 0.02
74 9 0.07
75 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (68 bp):
TTTTTTGAAAGCAAAAATTGAAATTACTCAGCTGTCTGAGGCTCAACTCATCTCGCAATATGAGT
TGA
Found at i:76198585 original size:70 final size:72
Alignment explanation
Indices: 76198439--76198597 Score: 229
Period size: 70 Copynumber: 2.2 Consensus size: 72
76198429 AATATAAATT
76198439 AAAAGCAGAAATTAAAATTACCTCAGCGTGCCTGAGGCTCAACTACCTCTCGCAATATGAGTTGA
1 AAAAGCAGAAATTAAAA-TACCTCA-CGTGCCTGAGGCTCAACTACCTCTCGCAATATGAGTTGA
76198504 TTTTTTTTG
64 TTTTTTTTG
* *
76198513 AAAAGCAGAAATTGAAA-ACCTCA-GTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AAAAGCAGAAATTAAAATACCTCACGTGCCTGAGGCTCAACT-ACCTCTCGCAATATGAGTTGAT
76198575 TTTTTTTG
65 TTTTTTTG
*
76198583 -AAA-CAGAAATAAAAA
1 AAAAGCAGAAATTAAAA
76198598 CATCAAAATA
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
68 10 0.12
69 3 0.04
70 24 0.30
71 21 0.26
72 6 0.08
74 16 0.20
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (72 bp):
AAAAGCAGAAATTAAAATACCTCACGTGCCTGAGGCTCAACTACCTCTCGCAATATGAGTTGATT
TTTTTTG
Found at i:76206791 original size:12 final size:12
Alignment explanation
Indices: 76206774--76206804 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
76206764 TATGCAATAA
*
76206774 ATGAATGGATGC
1 ATGAATGAATGC
76206786 ATGAATGAATGC
1 ATGAATGAATGC
76206798 ATGAATG
1 ATGAATG
76206805 TCAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (12 bp):
ATGAATGAATGC
Found at i:76208559 original size:3 final size:3
Alignment explanation
Indices: 76208553--76208581 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
76208543 TAAAAGTATG
76208553 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
76208582 TCTACAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:76208657 original size:13 final size:15
Alignment explanation
Indices: 76208611--76208652 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
76208601 TTAAGAAACG
76208611 TACATAAAAAATATA
1 TACATAAAAAATATA
76208626 TACATAAAAAATATA
1 TACATAAAAAATATA
76208641 TACATAAAAAAT
1 TACATAAAAAAT
76208653 TTACAACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (15 bp):
TACATAAAAAATATA
Found at i:76208851 original size:33 final size:33
Alignment explanation
Indices: 76208789--76208851 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
76208779 ACACAATATG
* * *
76208789 GTATTTAAAATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATAAGTAAATATAATA
76208822 GTATTTAAGAATATATACATAAG-AAATATA
1 GTATTTAA-AATATATACATAAGTAAATATA
76208852 TAACTAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (33 bp):
GTATTTAAAATATATACATAAGTAAATATAATA
Found at i:76213959 original size:12 final size:12
Alignment explanation
Indices: 76213942--76213967 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
76213932 GAAATTAAGC
76213942 TTTTAGTGGCGT
1 TTTTAGTGGCGT
76213954 TTTTAGTGGCGT
1 TTTTAGTGGCGT
76213966 TT
1 TT
76213968 GGACTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.31, T:0.54
Consensus pattern (12 bp):
TTTTAGTGGCGT
Found at i:76235073 original size:37 final size:37
Alignment explanation
Indices: 76235023--76235104 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
76235013 TAAGGTTTAT
76235023 AAGTATGTAAATGGTTGATAATATTATGGCATGAATG
1 AAGTATGTAAATGGTTGATAATATTATGGCATGAATG
76235060 AAGTATGTAAATGGTTGATAATATTATGGCATGAATG
1 AAGTATGTAAATGGTTGATAATATTATGGCATGAATG
76235097 AAGTATGT
1 AAGTATGT
76235105 TTTATCTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.35
Consensus pattern (37 bp):
AAGTATGTAAATGGTTGATAATATTATGGCATGAATG
Found at i:76242432 original size:50 final size:49
Alignment explanation
Indices: 76242313--76242543 Score: 252
Period size: 50 Copynumber: 4.7 Consensus size: 49
76242303 TTGGTACGCA
* *
76242313 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCT-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGA-AACACG
* **
76242362 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAAACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGAAACACG
* * * *
76242412 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTAGCA--
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATC-TGAAACACG
* * * * ** *
76242462 TAGTAGTCTGCACTTAGTACTTCAAATGCGACCAATTATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGAAACACG
76242511 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
76242544 TCACAGTAGA
Statistics
Matches: 150, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
47 3 0.02
48 5 0.03
49 63 0.42
50 70 0.47
51 5 0.03
52 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGAAACACG
Found at i:76242503 original size:99 final size:98
Alignment explanation
Indices: 76242313--76242543 Score: 286
Period size: 99 Copynumber: 2.3 Consensus size: 98
76242303 TTGGTACGCA
* *
76242313 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGAGTACAC-TAGTAGCCTGCACTTA
* *
76242378 GTACTACACACGTGACCTAACCATCTGAAACACG
65 GTACTACAAACGCGACCTAACCATCTGAAACACG
* * *
76242412 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTAGCA-TAGTAGTCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCGAGTA-CACTAGTAGCCTGCACT
* * ** ** *
76242476 TAGTACTTCAAATGCGACC-AATTATCTGGTACATG
63 TAGTACTACAAACGCGACCTAACCATCTGAAACACG
76242511 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
76242544 TCACAGTAGA
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 1 0.01
99 72 0.63
100 31 0.27
101 8 0.07
102 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCGAGTACACTAGTAGCCTGCACTTAG
TACTACAAACGCGACCTAACCATCTGAAACACG
Found at i:76244633 original size:26 final size:26
Alignment explanation
Indices: 76244604--76244660 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
76244594 GCCTGTAGGA
76244604 GATAGTTCTTGAGTATGACTGAGGGT
1 GATAGTTCTTGAGTATGACTGAGGGT
*
76244630 GATAGTTCTTGAGTTTGACTGAGGGT
1 GATAGTTCTTGAGTATGACTGAGGGT
76244656 GATAG
1 GATAG
76244661 ATTAATGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.23, C:0.07, G:0.35, T:0.35
Consensus pattern (26 bp):
GATAGTTCTTGAGTATGACTGAGGGT
Found at i:76255154 original size:47 final size:47
Alignment explanation
Indices: 76255100--76255192 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
76255090 TGAGAATTAG
76255100 TTGTAAGTGAATAATTAGATGAACGAAATCATTTTTAGGCAAAAATT
1 TTGTAAGTGAATAATTAGATGAACGAAATCATTTTTAGGCAAAAATT
*
76255147 TTGTAAGTGAATAATTAGATGAACGAAATCATTTTTTGGCAAAAAT
1 TTGTAAGTGAATAATTAGATGAACGAAATCATTTTTAGGCAAAAAT
76255193 ATTAAGTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.34
Consensus pattern (47 bp):
TTGTAAGTGAATAATTAGATGAACGAAATCATTTTTAGGCAAAAATT
Found at i:76257132 original size:26 final size:26
Alignment explanation
Indices: 76257102--76257154 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
76257092 ATTGTGAATG
76257102 AATGGTGAACTTTACTTATTAACTAT
1 AATGGTGAACTTTACTTATTAACTAT
*
76257128 AATGGTGAGCTTTACTTATTAACTAT
1 AATGGTGAACTTTACTTATTAACTAT
76257154 A
1 A
76257155 CGAGGTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (26 bp):
AATGGTGAACTTTACTTATTAACTAT
Found at i:76278475 original size:14 final size:13
Alignment explanation
Indices: 76278456--76278488 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
76278446 ATAATGCAAT
76278456 TTACCATAATCTCA
1 TTACCATAAT-TCA
76278470 TTACCATAATTCA
1 TTACCATAATTCA
76278483 TT-CCAT
1 TTACCAT
76278489 CACAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 5 0.26
14 10 0.53
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (13 bp):
TTACCATAATTCA
Found at i:76289860 original size:30 final size:30
Alignment explanation
Indices: 76289817--76289873 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
76289807 TGTGCCCTTC
* * *
76289817 CACACAGGTTGGACACATGCCCATGTGAGG
1 CACACAGGCTGGACACACGACCATGTGAGG
*
76289847 CACACGGGCTGGACACACGACCATGTG
1 CACACAGGCTGGACACACGACCATGTG
76289874 CCAGCTTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (30 bp):
CACACAGGCTGGACACACGACCATGTGAGG
Found at i:76311587 original size:21 final size:21
Alignment explanation
Indices: 76311561--76311602 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
76311551 AATAAAAAAG
76311561 AATAAATTTTAATTCATTCAT
1 AATAAATTTTAATTCATTCAT
76311582 AATAAATTTTAATTCATTCAT
1 AATAAATTTTAATTCATTCAT
76311603 CTTCATTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
AATAAATTTTAATTCATTCAT
Found at i:76312376 original size:40 final size:40
Alignment explanation
Indices: 76312332--76312480 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 40
76312322 CGACGACAAA
* *
76312332 TCAGCTATATATGGCACTTAGTGCGCGATTCGACATAGCT
1 TCAGCTATATATGGCACTTAGTGCGCGATTCGAGATAACT
* * *
76312372 TCAGCTATATATGGCACTTAGTGCGCGAGATCAAGATACCT
1 TCAGCTATATATGGCACTTAGTGCGCGA-TTCGAGATAACT
* * * *
76312413 TCGGCTATATATGGCACTTAGTGTGTGATTTGAGATAACT
1 TCAGCTATATATGGCACTTAGTGCGCGATTCGAGATAACT
* * * * *
76312453 TCGGCTATGTACGGCATTTAGTGTGCGA
1 TCAGCTATATATGGCACTTAGTGCGCGA
76312481 GATATCGAGT
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 60 0.65
41 33 0.35
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (40 bp):
TCAGCTATATATGGCACTTAGTGCGCGATTCGAGATAACT
Found at i:76312431 original size:81 final size:81
Alignment explanation
Indices: 76312335--76312483 Score: 208
Period size: 81 Copynumber: 1.8 Consensus size: 81
76312325 CGACAAATCA
* *
76312335 GCTATATATGGCACTTAGTGCGCGATTCGACATAGCTTCAGCTATATATGGCACTTAGTGCGCGA
1 GCTATATATGGCACTTAGTGCGCGATTCGACATAACTTCAGCTATATACGGCACTTAGTGCGCGA
76312400 GATCAAGATACCTTCG
66 GATCAAGATACCTTCG
* * * * * * * *
76312416 GCTATATATGGCACTTAGTGTGTGATTTGAGATAACTTCGGCTATGTACGGCATTTAGTGTGCGA
1 GCTATATATGGCACTTAGTGCGCGATTCGACATAACTTCAGCTATATACGGCACTTAGTGCGCGA
76312481 GAT
66 GAT
76312484 ATCGAGTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (81 bp):
GCTATATATGGCACTTAGTGCGCGATTCGACATAACTTCAGCTATATACGGCACTTAGTGCGCGA
GATCAAGATACCTTCG
Found at i:76312432 original size:41 final size:40
Alignment explanation
Indices: 76312332--76312435 Score: 154
Period size: 41 Copynumber: 2.6 Consensus size: 40
76312322 CGACGACAAA
* * *
76312332 TCAGCTATATATGGCACTTAGTGCGCGATTCGACATAGCT
1 TCAGCTATATATGGCACTTAGTGCGCGAATCAACATACCT
*
76312372 TCAGCTATATATGGCACTTAGTGCGCGAGATCAAGATACCT
1 TCAGCTATATATGGCACTTAGTGCGCGA-ATCAACATACCT
*
76312413 TCGGCTATATATGGCACTTAGTG
1 TCAGCTATATATGGCACTTAGTG
76312436 TGTGATTTGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
40 28 0.48
41 30 0.52
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TCAGCTATATATGGCACTTAGTGCGCGAATCAACATACCT
Found at i:76315736 original size:158 final size:158
Alignment explanation
Indices: 76315448--76315756 Score: 537
Period size: 158 Copynumber: 2.0 Consensus size: 158
76315438 CAGGAATGCA
*
76315448 ATTCCTTTAAAAAGACCAACTGATGACCCCTTAACATTAACTGAAACAAACATATAGTAAAGAAT
1 ATTCCTTTAAAAAGACCAACTAATGACCCCTTAACATTAACTGAAACAAACATATAGTAAAGAAT
* * * * *
76315513 TAATAAATAAATACTGCTAAATAATGGAAACATACTTGTGAGACGCAACTTTCTACGCTACACAA
66 TAATAAATAAATACTACTAAATAATGAAAACATACTTGTGAAAAGCAACTTTCTACGCCACACAA
76315578 CTATATATAAAGGTGTGTATTTGAGTGC
131 CTATATATAAAGGTGTGTATTTGAGTGC
* * *
76315606 ATTCCTTTAAAAAGACCAACTAATGACCCCTTACCATTAACTGAGACAAACATATAGTAACGAAT
1 ATTCCTTTAAAAAGACCAACTAATGACCCCTTAACATTAACTGAAACAAACATATAGTAAAGAAT
76315671 TAATAAATAAATACTACTAAATAATGAAAACATACTTGTGAAAAGCAACTTTCTACGCCACACAA
66 TAATAAATAAATACTACTAAATAATGAAAACATACTTGTGAAAAGCAACTTTCTACGCCACACAA
76315736 CTATATATAAAGGTGTGTATT
131 CTATATATAAAGGTGTGTATT
76315757 CGAAAATAAA
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
158 142 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.28
Consensus pattern (158 bp):
ATTCCTTTAAAAAGACCAACTAATGACCCCTTAACATTAACTGAAACAAACATATAGTAAAGAAT
TAATAAATAAATACTACTAAATAATGAAAACATACTTGTGAAAAGCAACTTTCTACGCCACACAA
CTATATATAAAGGTGTGTATTTGAGTGC
Found at i:76326917 original size:60 final size:60
Alignment explanation
Indices: 76326824--76326943 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
76326814 AAAAGAAAGG
76326824 TGACTGTATTGAAAGAAGGGTGTCCTTTGGAAGGATTGGGTGTTTATTCTTAATATGTTC
1 TGACTGTATTGAAAGAAGGGTGTCCTTTGGAAGGATTGGGTGTTTATTCTTAATATGTTC
*
76326884 TGACTGTATTGAAAGAAGGGTGTCCTTTGGAAGGATTGTGTGTTTATTCTTAATATGTTC
1 TGACTGTATTGAAAGAAGGGTGTCCTTTGGAAGGATTGGGTGTTTATTCTTAATATGTTC
76326944 ATTGTACTCC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (60 bp):
TGACTGTATTGAAAGAAGGGTGTCCTTTGGAAGGATTGGGTGTTTATTCTTAATATGTTC
Found at i:76328923 original size:22 final size:23
Alignment explanation
Indices: 76328883--76328929 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
76328873 CACGTTAGCG
76328883 AACAAATATATAAAAAT-AAATA
1 AACAAATATATAAAAATAAAATA
* * *
76328905 AACAAATATTTATATATAAAATA
1 AACAAATATATAAAAATAAAATA
76328928 AA
1 AA
76328930 ATATAAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AACAAATATATAAAAATAAAATA
Found at i:76330632 original size:31 final size:31
Alignment explanation
Indices: 76330566--76330634 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
76330556 TAAAAAGTGT
**
76330566 TAATTAAGCTTAAGTTTAATTAATTATAAGT
1 TAATTAAGCTTAAGTTTAATTAATTATAAAC
76330597 TAATTAAG-TTAA-TTATAATTAATTAATAAAC
1 TAATTAAGCTTAAGTT-TAATTAATT-ATAAAC
76330628 TAATTAA
1 TAATTAA
76330635 AATGTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 2 0.06
30 13 0.38
31 19 0.56
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (31 bp):
TAATTAAGCTTAAGTTTAATTAATTATAAAC
Found at i:76331976 original size:24 final size:24
Alignment explanation
Indices: 76331949--76332000 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
76331939 TTCGTAGGTC
* *
76331949 AAATAGATCATGCTAATAAATGCT
1 AAATAGATCATACTAATAAATACT
* *
76331973 AAATATATTATACTAATAAATACT
1 AAATAGATCATACTAATAAATACT
76331997 AAAT
1 AAAT
76332001 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAGATCATACTAATAAATACT
Found at i:76340432 original size:43 final size:43
Alignment explanation
Indices: 76340367--76340533 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
76340357 AGCTCGTACA
* * *
76340367 ATGCC-ATGTCCCAGATATGGTCTTACATGTTATTACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTACATATCG
* * * * *
76340409 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATTGA-TTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATT-ACATATCG
* * *
76340452 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTACATAT-CG
* * *
76340495 ATGCCAATGTCCTAGACATGGTCCTACATGTAATTACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTACAT
76340534 CTCGGTAACC
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 7 0.07
43 93 0.92
44 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATTACATATCG
Found at i:76354353 original size:5 final size:5
Alignment explanation
Indices: 76354325--76354369 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
76354315 CACTTTGACT
* * * *
76354325 ATTGA ATTGA TTTAA ATTTA ATTGA ATTGG ATTGA ATTGA ATTGA
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA
76354370 TCTATATATA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (5 bp):
ATTGA
Found at i:76356928 original size:2 final size:2
Alignment explanation
Indices: 76356915--76356945 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
76356905 TATATGTCTA
*
76356915 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
76356946 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:76361539 original size:16 final size:14
Alignment explanation
Indices: 76361517--76361560 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
76361507 TTGTGTTAAA
76361517 AAAATTATTTAATT
1 AAAATTATTTAATT
*
76361531 AGGAAATTAATTAATT
1 A--AAATTATTTAATT
76361547 AAAATTAATTTAAT
1 AAAATT-ATTTAAT
76361561 ATATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.24
15 6 0.24
16 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (14 bp):
AAAATTATTTAATT
Found at i:76363895 original size:24 final size:24
Alignment explanation
Indices: 76363868--76363913 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
76363858 TTTATATATT
*
76363868 ATTTTGTTTTATTTTTTTAAATAC
1 ATTTTGTTTTATTTTTTAAAATAC
76363892 ATTTTGTTTTATTTTTTAAAAT
1 ATTTTGTTTTATTTTTTAAAAT
76363914 TTTCTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTTGTTTTATTTTTTAAAATAC
Found at i:76364953 original size:23 final size:23
Alignment explanation
Indices: 76364923--76364968 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
76364913 TCTTTGGACG
76364923 TAGTGAGGATGCTAACCCTTCCT
1 TAGTGAGGATGCTAACCCTTCCT
*
76364946 TAGTGAGGGTGCTAACCCTTCCT
1 TAGTGAGGATGCTAACCCTTCCT
76364969 CATACGTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (23 bp):
TAGTGAGGATGCTAACCCTTCCT
Found at i:76367686 original size:9 final size:9
Alignment explanation
Indices: 76367662--76367731 Score: 59
Period size: 9 Copynumber: 7.2 Consensus size: 9
76367652 ATAAATTATT
76367662 TTTTTATAA
1 TTTTTATAA
* *
76367671 ATATTATAA
1 TTTTTATAA
*
76367680 TTTTTATGA
1 TTTTTATAA
76367689 TTTTTAATTAA
1 TTTTT-A-TAA
76367700 TTTTTAATAA
1 TTTTT-ATAA
76367710 TTTTTTTATAA
1 --TTTTTATAA
*
76367721 ATTTTATAA
1 TTTTTATAA
76367730 TT
1 TT
76367732 CTTTTTGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 27 0.55
10 4 0.08
11 13 0.27
12 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:76367704 original size:11 final size:10
Alignment explanation
Indices: 76367676--76367714 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
76367666 TATAAATATT
76367676 ATAATTTTT-
1 ATAATTTTTA
*
76367685 ATGATTTTTA
1 ATAATTTTTA
76367695 ATTAATTTTTA
1 A-TAATTTTTA
76367706 ATAATTTTT
1 ATAATTTTT
76367715 TTATAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:76367729 original size:20 final size:20
Alignment explanation
Indices: 76367674--76367737 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
76367664 TTTATAAATA
*
76367674 TTATAATTTTTATGA-TTTT
1 TTATAATTTTTATAATTTTT
*
76367693 TAATTAATTTTTAATAATTTTT
1 TTA-TAATTTTT-ATAATTTTT
*
76367715 TTATAAATTTTATAATTCTTT
1 TTATAATTTTTATAATT-TTT
76367736 TT
1 TT
76367738 GTGCTTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 2 0.05
20 14 0.38
21 15 0.41
22 6 0.16
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATAATTTTTATAATTTTT
Found at i:76367736 original size:11 final size:10
Alignment explanation
Indices: 76367661--76367736 Score: 50
Period size: 11 Copynumber: 7.6 Consensus size: 10
76367651 AATAAATTAT
76367661 TTTTTTATAA
1 TTTTTTATAA
* *
76367671 -ATATTATAA
1 TTTTTTATAA
*
76367680 -TTTTTATGA
1 TTTTTTATAA
*
76367689 TTTTTAATTAA
1 TTTTTTA-TAA
*
76367700 TTTTTAATAA
1 TTTTTTATAA
76367710 TTTTTTTATAA
1 -TTTTTTATAA
*
76367721 -ATTTTATAA
1 TTTTTTATAA
76367730 TTCTTTT
1 TT-TTTT
76367737 TGTGCTTTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
9 21 0.41
10 8 0.16
11 22 0.43
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:76372913 original size:126 final size:126
Alignment explanation
Indices: 76372685--76373106 Score: 571
Period size: 126 Copynumber: 3.4 Consensus size: 126
76372675 TAATTAAATT
* * *
76372685 AGGATGCACTATCAGCAAAATTACTAAAAAAAACTCCCACGTTGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTATAAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCTTTTGCTACAGTAGT
*
76372750 ATCTGAAAAAATAATTTTGAGAAGACA-TTTCTAAACAAATAGTGTCCAAAACGCTTCAAGC
66 ATCTGAAAAAATAATTTTGAGAAGA-AGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
* * * ** * * * *
76372811 ATGATGCACTGTAAGCAAAATTATTGAAAAAAGTTCCCACATGGACGCTCTTTTGCTAGAATAAT
1 AGGATGCACTATAAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCTTTTGCTACAGTAGT
* *
76372876 ATCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTATCCAAAACACTTCAAGC
66 ATCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
*
76372937 AGGATGCACTATCAA-CAAAATTACTGAAAAAAACTCCCACGTGGATGCTCTTTTGCTACAGTAG
1 AGGATGCACTAT-AAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCTTTTGCTACAGTAG
* * * * *
76373001 TATCTGAAAAAGTAATTTTGAGAAGACGTTTTTGAACAAATATTGTCCAAAAAGCTTCAAGC
65 TATCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
* * * * *
76373063 AGGATGCACTGTCAGTAAAATTAC-GTAAAAAGCTCCCACGTGGA
1 AGGATGCACTATAAGCAAAATTACTGAAAAAAACTCCCACGTGGA
76373107 TCCACTTCAA
Statistics
Matches: 256, Mismatches: 37, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
125 20 0.08
126 234 0.91
127 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (126 bp):
AGGATGCACTATAAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCTTTTGCTACAGTAGT
ATCTGAAAAAATAATTTTGAGAAGAAGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
Found at i:76375738 original size:24 final size:24
Alignment explanation
Indices: 76375692--76375738 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
76375682 ATGAATGCAG
* *
76375692 AGGTGTTTGTATCACCTATGGCGA
1 AGGTGTTTGAATCACCTAAGGCGA
76375716 AGGTGTTTGAATC-CCATAAGGCG
1 AGGTGTTTGAATCACC-TAAGGCG
76375739 GTGGGGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (24 bp):
AGGTGTTTGAATCACCTAAGGCGA
Found at i:76377735 original size:9 final size:10
Alignment explanation
Indices: 76377698--76377748 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 10
76377688 TAAAGAAAGC
*
76377698 TTTGAGAAAA
1 TTTGAGAGAA
*
76377708 TATGAGAGAAA
1 TTTGAGAG-AA
76377719 TTTGAGAGAA
1 TTTGAGAGAA
76377729 TTTAGAGAGAA
1 TTT-GAGAGAA
76377740 TTATGAGAG
1 TT-TGAGAG
76377749 GACTTTCGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 11 0.31
11 23 0.66
12 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:76377739 original size:22 final size:20
Alignment explanation
Indices: 76377698--76377748 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
76377688 TAAAGAAAGC
*
76377698 TTTGAGAAAATATGAGAGAAA
1 TTTGAGAGAATATGAGAG-AA
*
76377719 TTTGAGAGAATTTAGAGAGAA
1 TTTGAGAGAATAT-GAGAGAA
76377740 TTATGAGAG
1 TT-TGAGAG
76377749 GACTTTCGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (20 bp):
TTTGAGAGAATATGAGAGAA
Found at i:76380932 original size:27 final size:30
Alignment explanation
Indices: 76380902--76380965 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 30
76380892 ATAATTTTTT
*
76380902 AATAATTTTAATGATTTTT-AA-TTT-AAA
1 AATAATTTTAATAATTTTTAAATTTTAAAA
* *
76380929 AATAGTTTTTATAATTTTTAAATTTTAAAA
1 AATAATTTTAATAATTTTTAAATTTTAAAA
76380959 AATAATT
1 AATAATT
76380966 AAATGCTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 16 0.53
28 2 0.07
29 3 0.10
30 9 0.30
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (30 bp):
AATAATTTTAATAATTTTTAAATTTTAAAA
Found at i:76384765 original size:15 final size:15
Alignment explanation
Indices: 76384725--76384769 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
76384715 TATTAATATT
*
76384725 ATTAAATTTATATAAA
1 ATTAAATTTATA-ATA
76384741 ATTAAA--TATAATA
1 ATTAAATTTATAATA
76384754 ATTAAATTTATAATA
1 ATTAAATTTATAATA
76384769 A
1 A
76384770 ACTTTTTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 8 0.31
14 4 0.15
15 8 0.31
16 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAAATTTATAATA
Found at i:76386187 original size:46 final size:46
Alignment explanation
Indices: 76386112--76386341 Score: 370
Period size: 46 Copynumber: 5.0 Consensus size: 46
76386102 TTTGACATGA
* *
76386112 TGCCATAGTGTCTTTCAACTACATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAAC--CATGGTCTTACACATTTCATATCAGGT
*
76386160 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
76386206 TGCCATGGTATCTTCCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
76386252 TGCTATGGTATCTTTCAACCATGGTGTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
76386298 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
76386342 AGAGCACACT
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 154 0.91
48 16 0.09
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:76389326 original size:29 final size:30
Alignment explanation
Indices: 76389269--76389336 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
76389259 CAGCCTTAAA
* * *
76389269 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
* *
76389299 ATATTTACACT-TTAATCTTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
76389328 AGTATTTAC
1 A-TATTTAC
76389337 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:76389724 original size:17 final size:18
Alignment explanation
Indices: 76389692--76389727 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
76389682 AATTCATCCC
76389692 TCATCACTCATCTCTCAT
1 TCATCACTCATCTCTCAT
*
76389710 TCATCATTC-TCTCTCAT
1 TCATCACTCATCTCTCAT
76389727 T
1 T
76389728 TCCCTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.44
Consensus pattern (18 bp):
TCATCACTCATCTCTCAT
Found at i:76394343 original size:16 final size:15
Alignment explanation
Indices: 76394318--76394365 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
76394308 CTATTTTAAG
76394318 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
76394333 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
76394350 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
76394365 T
1 T
76394366 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:76401211 original size:20 final size:19
Alignment explanation
Indices: 76401155--76401211 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
76401145 CCCACATATA
* * *
76401155 CCAAAACCCAAAATCAAAC
1 CCAATACCCAAAACCTAAC
*
76401174 CCAATACCCAAATCCTAAC
1 CCAATACCCAAAACCTAAC
* *
76401193 CCATTTACCCAAAAGCTAA
1 CCA-ATACCCAAAACCTAA
76401212 AATAACCCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.14
Consensus pattern (19 bp):
CCAATACCCAAAACCTAAC
Found at i:76404624 original size:16 final size:15
Alignment explanation
Indices: 76404599--76404646 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
76404589 CTATTTTAAG
76404599 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
76404614 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
76404631 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
76404646 T
1 T
76404647 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:76405584 original size:19 final size:19
Alignment explanation
Indices: 76405537--76405576 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
76405527 TATTTTGTTA
76405537 TTTATTTTTATTTAATCTT
1 TTTATTTTTATTTAATCTT
*
76405556 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTAATCTT
76405575 TT
1 TT
76405577 ACTTTTTACT
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:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTAATCTT
Found at i:76429206 original size:40 final size:39
Alignment explanation
Indices: 76429129--76429237 Score: 107
Period size: 40 Copynumber: 2.7 Consensus size: 39
76429119 CAATAAACCG
76429129 AAGCTATTT-CAGTATCGCACACTTAGTGCCTCATATAGCTA
1 AAGCTATTTCCA--ATCGCACACTTAGTG-CTCATATAGCTA
* *
76429170 AAGTTA-TTCCAATTCGCACACTTAGTGCT-ATTTATAGCTG
1 AAGCTATTTCCAA-TCGCACACTTAGTGCTCA--TATAGCTA
* *
76429210 AAGCTATTTCGAATCGTACACTTAGTGC
1 AAGCTATTTCCAATCGCACACTTAGTGC
76429238 CGAACATAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 42 0.72
41 12 0.21
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (39 bp):
AAGCTATTTCCAATCGCACACTTAGTGCTCATATAGCTA
Found at i:76432001 original size:17 final size:19
Alignment explanation
Indices: 76431979--76432019 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
76431969 TAGCAAAACT
76431979 TAACTC-TT-GAACCTATC
1 TAACTCATTAGAACCTATC
76431996 TAACTCATTAGGAACCTATC
1 TAACTCATTA-GAACCTATC
76432016 TAAC
1 TAAC
76432020 CTATCTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
20 13 0.62
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (19 bp):
TAACTCATTAGAACCTATC
Found at i:76437868 original size:126 final size:126
Alignment explanation
Indices: 76437709--76438003 Score: 459
Period size: 126 Copynumber: 2.3 Consensus size: 126
76437699 TTAGGGTACA
* *
76437709 ATTTCTCGGATTTCCAAACATAGAACATTGCCTTATTTTGAAGTTTTGAAAACAC-AGACGAAAT
1 ATTTCTCGAATTTCCAAACATAGAACATTGCCTTGTTTTGAAGTTTTGAAAACACGA-ACGAAAT
*
76437773 TTTAAAGGGATAATTGGTTATTTGGACAAACAGAAAATTGAATCCCAGCAAGTTAAGGCACG
65 TTTAAAGGGATAATTGATTATTTGGACAAACAGAAAATTGAATCCCAGCAAGTTAAGGCACG
* *
76437835 ATTTCTCGAATTTCTAAACATAGAACATTGCCTTGTTTTAAAGTTTTGAAAACACGAACGAAATT
1 ATTTCTCGAATTTCCAAACATAGAACATTGCCTTGTTTTGAAGTTTTGAAAACACGAACGAAATT
* * * *
76437900 TTAAAGGGGTATTTGATTATTTGGACAAACAGAAAATTGAATCCCAGCACGTTAGGGCACG
66 TTAAAGGGATAATTGATTATTTGGACAAACAGAAAATTGAATCCCAGCAAGTTAAGGCACG
*
76437961 ATTTCTTGAATTTCCAAACATCA-AACATTGCCTTTGTTTTGAA
1 ATTTCTCGAATTTCCAAACAT-AGAACATTGCC-TTGTTTTGAA
76438004 AAATTTTCGA
Statistics
Matches: 154, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
126 143 0.93
127 11 0.07
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (126 bp):
ATTTCTCGAATTTCCAAACATAGAACATTGCCTTGTTTTGAAGTTTTGAAAACACGAACGAAATT
TTAAAGGGATAATTGATTATTTGGACAAACAGAAAATTGAATCCCAGCAAGTTAAGGCACG
Found at i:76443251 original size:36 final size:36
Alignment explanation
Indices: 76443204--76443277 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
76443194 TTAAAAAGAG
76443204 TTAGGATTTTTGGTCATTTGACTACTTTCGCTTATT
1 TTAGGATTTTTGGTCATTTGACTACTTTCGCTTATT
76443240 TTAGGATTTTTGGTCATTTGACTACTTTCGCTTATT
1 TTAGGATTTTTGGTCATTTGACTACTTTCGCTTATT
76443276 TT
1 TT
76443278 GCTTTCTTTC
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:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (36 bp):
TTAGGATTTTTGGTCATTTGACTACTTTCGCTTATT
Found at i:76443276 original size:18 final size:18
Alignment explanation
Indices: 76443219--76443276 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
76443209 ATTTTTGGTC
76443219 ATTTGACTACTTTCGCTT
1 ATTTGACTACTTTCGCTT
* ** * * * *
76443237 ATTTTAGGATTTTTGGTC
1 ATTTGACTACTTTCGCTT
76443255 ATTTGACTACTTTCGCTT
1 ATTTGACTACTTTCGCTT
76443273 ATTT
1 ATTT
76443277 TGCTTTCTTT
Statistics
Matches: 26, Mismatches: 14, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.53
Consensus pattern (18 bp):
ATTTGACTACTTTCGCTT
Found at i:76448882 original size:42 final size:42
Alignment explanation
Indices: 76448802--76448885 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
76448792 CCGACAACAA
*
76448802 GTAAAAATTTCTCCTAACGAATACTGTTGGATCCGAACTCGG
1 GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
76448844 GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
1 GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
76448886 AACCAGATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (42 bp):
GTAAAAATTTCTCCTAACGAATACAGTTGGATCCGAACTCGG
Found at i:76450172 original size:18 final size:18
Alignment explanation
Indices: 76450140--76450185 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
76450130 GTATTAAGCG
*
76450140 TTCAATTTAA-ATTAGTT
1 TTCAATTTAATTTTAGTT
*
76450157 TTTAATTTAATTTTAGTT
1 TTCAATTTAATTTTAGTT
76450175 TTCAATTTAAT
1 TTCAATTTAAT
76450186 AAAAAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
TTCAATTTAATTTTAGTT
Found at i:76450792 original size:27 final size:30
Alignment explanation
Indices: 76450740--76450815 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 30
76450730 CGATATACTA
* * *
76450740 AATTCATATATTACTAATACATAAAA-AAT
1 AATTAATATATAACTATTACATAAAATAAT
76450769 -A-TAATATATAACTATTAC-TGAAAATAAT
1 AATTAATATATAACTATTACAT-AAAATAAT
* *
76450797 AATTCACATATAACTATTA
1 AATTAATATATAACTATTA
76450816 TTATAACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 18 0.47
28 4 0.11
29 1 0.03
30 14 0.37
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.36
Consensus pattern (30 bp):
AATTAATATATAACTATTACATAAAATAAT
Found at i:76451625 original size:24 final size:26
Alignment explanation
Indices: 76451571--76451626 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
76451561 ATTTTCATCG
*
76451571 TATAAAAATAAAATGACTTATTACAT
1 TATAAAAATAAAATGACTTATAACAT
*
76451597 T-TAAAAATAAAAT-ATTTATAAC-T
1 TATAAAAATAAAATGACTTATAACAT
76451620 TATAAAA
1 TATAAAA
76451627 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 12 0.44
25 12 0.44
26 1 0.04
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAAAATAAAATGACTTATAACAT
Found at i:76453574 original size:29 final size:30
Alignment explanation
Indices: 76453542--76453658 Score: 87
Period size: 29 Copynumber: 3.9 Consensus size: 30
76453532 TTACACGTTT
*
76453542 AAAATTTAATCCTTTTACT-TTTAATTCTA
1 AAAATTTAATACTTTTACTATTTAATTCTA
* *
76453571 AAAATTTAATATTTTTACTAATTT-ATTTTA
1 AAAATTTAATACTTTTACT-ATTTAATTCTA
** * * ** *
76453601 ATGATTAAAGTCCAATTGCT-TTTAATTCTA
1 AAAATTTAA-TACTTTTACTATTTAATTCTA
*
76453631 AAAATTTAATATTTTTACTAATTTAATT
1 AAAATTTAATACTTTTACT-ATTTAATT
76453659 TAATGATTAA
Statistics
Matches: 62, Mismatches: 20, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
29 25 0.40
30 22 0.35
31 15 0.24
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (30 bp):
AAAATTTAATACTTTTACTATTTAATTCTA
Found at i:76453632 original size:60 final size:60
Alignment explanation
Indices: 76453559--76453678 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
76453549 AATCCTTTTA
*
76453559 CTTTTAATTCTAAAAATTTAATATTTTTACTAATTTATTTTAATGATTAAAGTCCAATTG
1 CTTTTAATTCTAAAAATTTAATATTTTTACTAATTTAATTTAATGATTAAAGTCCAATTG
76453619 CTTTTAATTCTAAAAATTTAATATTTTTACTAATTTAATTTAATGATTAAAGTCCAATTG
1 CTTTTAATTCTAAAAATTTAATATTTTTACTAATTTAATTTAATGATTAAAGTCCAATTG
76453679 ATAATGTTGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (60 bp):
CTTTTAATTCTAAAAATTTAATATTTTTACTAATTTAATTTAATGATTAAAGTCCAATTG
Found at i:76458289 original size:2 final size:2
Alignment explanation
Indices: 76458282--76458306 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
76458272 TCATGGTACT
76458282 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
76458307 GAGATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:76459167 original size:20 final size:21
Alignment explanation
Indices: 76459142--76459187 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
76459132 TGTCAAATTC
76459142 ACAAATGAAAAAAAT-ATATA
1 ACAAATGAAAAAAATAATATA
* *
76459162 ACAAATTAAAAAATTAATATA
1 ACAAATGAAAAAAATAATATA
76459183 ACAAA
1 ACAAA
76459188 CAAAAAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.22
Consensus pattern (21 bp):
ACAAATGAAAAAAATAATATA
Found at i:76459193 original size:21 final size:19
Alignment explanation
Indices: 76459149--76459193 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
76459139 TTCACAAATG
*
76459149 AAAAAAATATATAACAAATT
1 AAAAAAATATATAACAAA-C
*
76459169 AAAAAATTAATATAACAAAC
1 AAAAAAAT-ATATAACAAAC
76459189 AAAAA
1 AAAAA
76459194 GTGGTTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAAAATATATAACAAAC
Found at i:76461228 original size:13 final size:14
Alignment explanation
Indices: 76461212--76461247 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
76461202 CAATCTCATA
76461212 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
76461225 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
76461238 TCTC-ATTTCA
1 TCTCAATTTCA
76461248 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:76461237 original size:18 final size:19
Alignment explanation
Indices: 76461199--76461239 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
76461189 TGGTTCATGT
76461199 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
76461218 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
76461236 TTTC
1 TTTC
76461240 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:76461429 original size:39 final size:38
Alignment explanation
Indices: 76461362--76461496 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
76461352 ACCAATATGG
* * *
76461362 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
76461401 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
76461439 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
76461480 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
76461497 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:76461762 original size:18 final size:19
Alignment explanation
Indices: 76461736--76461774 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
76461726 TTTCAATTCA
76461736 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
76461755 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
76461773 AT
1 AT
76461775 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:76463104 original size:5 final size:5
Alignment explanation
Indices: 76463094--76463150 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
76463084 TTACTTATTT
* *
76463094 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
76463142 ATAT- ATATA
1 ATATA ATATA
76463151 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:76463110 original size:12 final size:12
Alignment explanation
Indices: 76463093--76463148 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
76463083 TTTACTTATT
76463093 TATATAATATAA
1 TATATAATATAA
76463105 TATATAATATAATA
1 TATATAATAT-A-A
76463119 TACTATAATATAA
1 TA-TATAATATAA
*
76463132 TA-ATAATTTAA
1 TATATAATATAA
76463143 TATATA
1 TATATA
76463149 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:76463163 original size:26 final size:26
Alignment explanation
Indices: 76463095--76463150 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
76463085 TACTTATTTA
*
76463095 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
76463122 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
76463147 TATA
1 TATA
76463151 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:76466300 original size:24 final size:24
Alignment explanation
Indices: 76466268--76466319 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
76466258 TTTAGGAACA
76466268 CTTTTGTAATGCTTGCATGTCCTC
1 CTTTTGTAATGCTTGCATGTCCTC
76466292 CTTTTGTAATGCTTGCATGTCCTC
1 CTTTTGTAATGCTTGCATGTCCTC
76466316 CTTT
1 CTTT
76466320 CCACCCTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.25, G:0.15, T:0.48
Consensus pattern (24 bp):
CTTTTGTAATGCTTGCATGTCCTC
Found at i:76473053 original size:16 final size:17
Alignment explanation
Indices: 76473032--76473064 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
76473022 CTAATTTGAA
76473032 AACAAAAA-GTGCACAT
1 AACAAAAATGTGCACAT
76473048 AACAAAAATGTGCACAT
1 AACAAAAATGTGCACAT
76473065 GTTCATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.15
Consensus pattern (17 bp):
AACAAAAATGTGCACAT
Found at i:76475020 original size:19 final size:19
Alignment explanation
Indices: 76474998--76475056 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
76474988 TAAAAAATTG
76474998 AAAATTATATAAAGTATAT
1 AAAATTATATAAAGTATAT
*
76475017 AAAATTATAAAAAG-AT-T
1 AAAATTATATAAAGTATAT
*
76475034 ATAAATATATATATA-TATAT
1 A-AAAT-TATATAAAGTATAT
76475054 AAA
1 AAA
76475057 TACATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 2 0.06
18 6 0.18
19 23 0.70
20 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAATTATATAAAGTATAT
Found at i:76478252 original size:9 final size:9
Alignment explanation
Indices: 76478238--76478264 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
76478228 TAGATTTGAG
76478238 GCGAGGGGA
1 GCGAGGGGA
76478247 GCGAGGGGA
1 GCGAGGGGA
76478256 GCGAGGGGA
1 GCGAGGGGA
76478265 TTAAAAGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.67, T:0.00
Consensus pattern (9 bp):
GCGAGGGGA
Found at i:76479131 original size:28 final size:27
Alignment explanation
Indices: 76479083--76479161 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
76479073 ATTTATTCTT
* *
76479083 TTTAAACG-GTTTTGTATATTATTTAG
1 TTTAAACGTTTTTTATATATTATTTAG
* * *
76479109 TTTAGACTTCTTTTTATATATTATTTAT
1 TTTAAACGT-TTTTTATATATTATTTAG
*
76479137 TTTAAACGTTTTTCATATATTATTT
1 TTTAAACGTTTTTTATATATTATTT
76479162 TAAGTTGTCT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
26 6 0.14
27 15 0.35
28 22 0.51
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (27 bp):
TTTAAACGTTTTTTATATATTATTTAG
Found at i:76479205 original size:26 final size:26
Alignment explanation
Indices: 76479082--76479282 Score: 130
Period size: 26 Copynumber: 7.9 Consensus size: 26
76479072 CATTTATTCT
** *
76479082 TTTTAAACGGTTTTGTATATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* * *
76479108 GTTTAGACTTCTTTTTATATATTATTTA
1 TTTTA-AATT-GTTTTATATATTATTTA
*
76479136 TTTTAAA-CGTTTT-TCATA-TA-TTA
1 TTTTAAATTGTTTTAT-ATATTATTTA
* * * *
76479159 TTTTAAGTTGTCTTATGTATTATTTG
1 TTTTAAATTGTTTTATATATTATTTA
* *
76479185 TTTTAAATTGCTTTGTATATTATTCT-
1 TTTTAAATTGTTTTATATATTATT-TA
* *
76479211 TCTT-AATTGTTTTACATATTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* *
76479236 TCTTAAATTG-TTT-TATACTATTTA
1 TTTTAAATTGTTTTATATATTATTTA
* * *
76479260 CTTCAAACTGTTTTATATATTAT
1 TTTTAAATTGTTTTATATATTAT
76479283 GTTGTTTTGC
Statistics
Matches: 132, Mismatches: 31, Indels: 24
0.71 0.17 0.13
Matches are distributed among these distances:
23 9 0.07
24 25 0.19
25 36 0.27
26 40 0.30
27 3 0.02
28 19 0.14
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTTAAATTGTTTTATATATTATTTA
Found at i:76479271 original size:24 final size:23
Alignment explanation
Indices: 76479230--76479280 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
76479220 TTTTACATAT
*
76479230 TATTTATCTTAAATTGTTTTATA
1 TATTTATCTTAAACTGTTTTATA
76479253 CTATTTA-CTTCAAACTGTTTTATA
1 -TATTTATCTT-AAACTGTTTTATA
76479277 TATT
1 TATT
76479281 ATGTTGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTTATCTTAAACTGTTTTATA
Found at i:76483308 original size:12 final size:12
Alignment explanation
Indices: 76483293--76483326 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
76483283 ATGCATAAGG
76483293 AGATGCAAGAAC
1 AGATGCAAGAAC
*
76483305 AGATGCAAGCAC
1 AGATGCAAGAAC
*
76483317 AAATGCAAGA
1 AGATGCAAGA
76483327 GCAATTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:76491334 original size:44 final size:43
Alignment explanation
Indices: 76491286--76491406 Score: 109
Period size: 45 Copynumber: 2.7 Consensus size: 43
76491276 CTTACCTACT
*
76491286 TGAAGTTGCAGTAGAGCAGATTGAAGCCACAAGTCTTATCCCCC
1 TGAAGTTGCAGTAGAGCAGATTAAAGCCACAA-TCTTATCCCCC
* * * * **
76491330 TGAAGTTACAG-CGAAGCAGACTAAAGACAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTAG-AGCAGATTAAAGCCA-C-AATCTTATCCCCC
* * *
76491375 TGAAGTTGCAGTGGAACAGATTAAAGCTACAA
1 TGAAGTTGCAGTAGAGCAGATTAAAGCCACAA
76491407 ATTATGGCGA
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
43 3 0.05
44 23 0.38
45 31 0.52
46 3 0.05
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (43 bp):
TGAAGTTGCAGTAGAGCAGATTAAAGCCACAATCTTATCCCCC
Found at i:76491644 original size:140 final size:140
Alignment explanation
Indices: 76491272--76491692 Score: 393
Period size: 143 Copynumber: 3.0 Consensus size: 140
76491262 TCATCATGGT
* * * * * * *
76491272 GAATCTTACCTACTTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAGTCTTATCCCCCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTT
* * * * * * * * * * *
76491337 ACAGCGAAGCAGACTAAAGACAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGC
66 GCAGCGGAGCAGATTAAA-ATACCAAATCTTATCTCCTTGAAGTTACAGTTGAACAGATTGAAGC
*
76491402 TACAAATTATGGC
130 TACAAATCA--GC
* * *
76491415 GAATCTTATCTTCCTAAAGTTGCAGT-GAAGCAGATTGAAGCCACCAGCCTTATCT-TCCTGAAA
1 GAATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTGAAGCCACCAGCCTTATCTCT-CTGAAG
* * * * *
76491478 TTGCAGCGGAGTAGACTGAAGATACCAAATCTCATGTCCTTGAAGTTACAGTTGAACAGATTGAA
64 TTGCAGCGGAGCAGA-TTAAAATACCAAATCTTATCTCCTTGAAGTTACAGTTGAACAGATTGAA
*
76491543 GCTACAAGTCA-C
128 GCTACAAATCAGC
* *
76491555 -AATCATTGTCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCCACCAGCCTTATCTCTCTGAAGT
1 GAATC-TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGT
* * * * * * *
76491619 TGCAGTGGAGCAGGTTAAAATTACCAATTTTTATCTCCTCGAAGTTCCAG-TGAAGTAGATTGAA
65 TGCAGCGGAGCAGATTAAAA-TACCAAATCTTATCTCCTTGAAGTTACAGTTGAA-CAGATTGAA
76491683 GCTACAAATC
128 GCTACAAATC
76491693 TCTTCTCCCT
Statistics
Matches: 226, Mismatches: 44, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
139 12 0.05
140 102 0.45
141 2 0.01
142 1 0.00
143 107 0.47
144 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (140 bp):
GAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCTCTGAAGTT
GCAGCGGAGCAGATTAAAATACCAAATCTTATCTCCTTGAAGTTACAGTTGAACAGATTGAAGCT
ACAAATCAGC
Found at i:76493162 original size:25 final size:24
Alignment explanation
Indices: 76493049--76493166 Score: 60
Period size: 25 Copynumber: 4.7 Consensus size: 24
76493039 TTTTCTCGTG
* * *
76493049 TATTATTCATTTCAAATTGTTTCA
1 TATTATTTATTTTAAAATGTTTCA
* * *
76493073 TTATTGTTTATTTT-AAGTTTTTCACA
1 -TATTATTTATTTTAAAATGTTT--CA
* * **
76493099 TATTATGTATTTTAAATTAATTCA
1 TATTATTTATTTTAAAATGTTTCA
*
76493123 AATTATTATCCATTTTAAAATGTTTACA
1 TATTATT-T--ATTTTAAAATGTTT-CA
76493151 TATTATTTA-TTTAAAA
1 TATTATTTATTTTAAAA
76493167 CTACTACATA
Statistics
Matches: 70, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
24 20 0.29
25 23 0.33
26 7 0.10
27 12 0.17
28 8 0.11
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (24 bp):
TATTATTTATTTTAAAATGTTTCA
Found at i:76493273 original size:28 final size:27
Alignment explanation
Indices: 76493225--76493303 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
76493215 ATTTATTATT
* *
76493225 TTTAAAC-TATTTTGTATATTATTTAG
1 TTTAAACATTTTTTATATATTATTTAG
* * *
76493251 TTTAGACTTCTTTTTATATATTATTTAT
1 TTTAAACAT-TTTTTATATATTATTTAG
*
76493279 TTTAAACATTTTTCATATATTATTT
1 TTTAAACATTTTTTATATATTATTT
76493304 TAAGTTGTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.14
27 16 0.36
28 22 0.50
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTAAACATTTTTTATATATTATTTAG
Found at i:76493401 original size:24 final size:23
Alignment explanation
Indices: 76493372--76493422 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
76493362 TTTTACATAT
76493372 TATTTATCTT-AAACCGTTTTATA
1 TATTTA-CTTCAAACCGTTTTATA
*
76493395 CTATTTACTTCAAACTGTTTTATA
1 -TATTTACTTCAAACCGTTTTATA
76493419 TATT
1 TATT
76493423 ATGTTGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.29, C:0.14, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTTACTTCAAACCGTTTTATA
Found at i:76494737 original size:28 final size:28
Alignment explanation
Indices: 76494697--76494752 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
76494687 CAATCACTCA
76494697 ACTTTCGAAAAGTGACAAAACAGTCATT
1 ACTTTCGAAAAGTGACAAAACAGTCATT
76494725 ACTTTCGAAAAGTGACAAAACAGTCATT
1 ACTTTCGAAAAGTGACAAAACAGTCATT
76494753 TTTATCGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (28 bp):
ACTTTCGAAAAGTGACAAAACAGTCATT
Found at i:76496074 original size:18 final size:18
Alignment explanation
Indices: 76496028--76496076 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
76496018 AACTTGTTGA
**
76496028 TAAGTTGGGGCAGTTTGT
1 TAAGTTGGGGCAGCCTGT
76496046 TACTGAGTTGGGGCAGCCTGT
1 TA---AGTTGGGGCAGCCTGT
76496067 TAAGTTGGGG
1 TAAGTTGGGG
76496077 TATTTTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.38
21 16 0.62
ACGTcount: A:0.16, C:0.10, G:0.41, T:0.33
Consensus pattern (18 bp):
TAAGTTGGGGCAGCCTGT
Found at i:76496964 original size:27 final size:26
Alignment explanation
Indices: 76496934--76496992 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
76496924 ACACACATCT
*
76496934 AAAAAATAGCCACTGCATGCATATTA
1 AAAAAATAGCCACTACATGCATATTA
* * *
76496960 AAAAAATAGACAACAACATGTATATTA
1 AAAAAATAG-CCACTACATGCATATTA
76496987 AAAAAA
1 AAAAAA
76496993 AGTTATACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.58, C:0.14, G:0.08, T:0.20
Consensus pattern (26 bp):
AAAAAATAGCCACTACATGCATATTA
Found at i:76497083 original size:63 final size:66
Alignment explanation
Indices: 76497005--76497176 Score: 235
Period size: 63 Copynumber: 2.6 Consensus size: 66
76496995 TTATACACAT
* * *
76497005 ACATACACACACCTAAAAAGCAGTCAATGAATGCATATTAAATAGTCATACACACCAA-AA-AT-
1 ACATACACACCCCTAAAAAACAGTCACTGAATGCATATTAAATAGTCATACACACCAACAACATA
76497067 C
66 C
* * *
76497068 ATATACACACCCCTAAAAAATAGTCACT-AGATGCATATTAAATAGTCATACACACTAACAATCA
1 ACATACACACCCCTAAAAAACAGTCACTGA-ATGCATATTAAATAGTCATACACACCAACAA-CA
76497132 TAC
64 TAC
*
76497135 ACATACACACCCCTAAAAAACAGTCACTGTATGCATATTAAA
1 ACATACACACCCCTAAAAAACAGTCACTGAATGCATATTAAA
76497177 AAGTAGTCAA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.01
63 50 0.53
64 2 0.02
66 2 0.02
67 39 0.41
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (66 bp):
ACATACACACCCCTAAAAAACAGTCACTGAATGCATATTAAATAGTCATACACACCAACAACATA
C
Found at i:76499933 original size:39 final size:39
Alignment explanation
Indices: 76499890--76500046 Score: 224
Period size: 39 Copynumber: 4.0 Consensus size: 39
76499880 CCGGATTCCA
** * * * *
76499890 TTCCAGCACGTAGCCTGCGAACTTCAAGTCCAGATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
76499929 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
* *
76499968 TTCCAGCATATAGCTTGCGGACCTCATGTCCGGGTATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
* *
76500007 TCCCAGCATATAGCCTGCGGACCTCATGTCTGGATATAT
1 TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
76500046 T
1 T
76500047 CCCAATATCA
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (39 bp):
TTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATAT
Found at i:76502338 original size:9 final size:9
Alignment explanation
Indices: 76502317--76502360 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
76502307 TTGTTTTTAA
76502317 TATTTATTTT
1 TATTTA-TTT
*
76502327 TATTTGTTT
1 TATTTATTT
76502336 TATTTATTT
1 TATTTATTT
76502345 TATTTTATTT
1 TA-TTTATTT
76502355 CTATTT
1 -TATTT
76502361 TTGGAAACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 13 0.43
10 15 0.50
11 2 0.07
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TATTTATTT
Found at i:76502352 original size:14 final size:15
Alignment explanation
Indices: 76502319--76502360 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
76502309 GTTTTTAATA
* *
76502319 TTTATTTTTATTTGT
1 TTTATTTATATTTAT
76502334 TTTATTTAT-TTTAT
1 TTTATTTATATTTAT
*
76502348 TTTATTTCTATTT
1 TTTATTTATATTT
76502361 TTGGAAACGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTATTTATATTTAT
Found at i:76504182 original size:25 final size:25
Alignment explanation
Indices: 76504153--76504204 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
76504143 AAAAATAATT
**
76504153 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
76504178 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
76504203 TG
1 TG
76504205 TTACGCCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:76506797 original size:63 final size:61
Alignment explanation
Indices: 76506689--76506823 Score: 191
Period size: 63 Copynumber: 2.2 Consensus size: 61
76506679 CCATTTTTGT
* *
76506689 CAGACAATAACAAATACAAAATAATTTAATATAAACACAATCATTTCTGTCATGCACATAG
1 CAGACAATAACAAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATAG
* * *
76506750 CAGACAATAATC-AATACAAAAAATAATTTAGTACAAGCACAACCATTTCTGTCATGCACATGG
1 CAGACAATAA-CAAATAC--AAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATAG
76506813 CAGACAATAAC
1 CAGACAATAAC
76506824 CAAACATTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
61 15 0.23
62 2 0.03
63 49 0.74
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.24
Consensus pattern (61 bp):
CAGACAATAACAAATACAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATAG
Found at i:76507225 original size:6 final size:6
Alignment explanation
Indices: 76507144--76507207 Score: 128
Period size: 6 Copynumber: 10.7 Consensus size: 6
76507134 CCCTAAATTG
76507144 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
76507192 AAATCA AAATCA AAAT
1 AAATCA AAATCA AAAT
76507208 TAGCATCGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:76507254 original size:16 final size:16
Alignment explanation
Indices: 76507233--76507263 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76507223 AATTGAAGTC
*
76507233 GAAATAATCCTAAATT
1 GAAATAACCCTAAATT
76507249 GAAATAACCCTAAAT
1 GAAATAACCCTAAAT
76507264 CCAAAAAATA
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:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (16 bp):
GAAATAACCCTAAATT
Found at i:76507459 original size:5 final size:5
Alignment explanation
Indices: 76507449--76507483 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
76507439 TGAATCTGAG
76507449 AAAAT AAAAT AAAAT AAAAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT --AAAAT AAAAT AAAAT AAA
76507484 GAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:76507471 original size:12 final size:12
Alignment explanation
Indices: 76507454--76507479 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
76507444 CTGAGAAAAT
76507454 AAAATAAAATAA
1 AAAATAAAATAA
76507466 AAAATAAAATAA
1 AAAATAAAATAA
76507478 AA
1 AA
76507480 TAAAGAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:76507471 original size:17 final size:17
Alignment explanation
Indices: 76507449--76507483 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
76507439 TGAATCTGAG
76507449 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
76507466 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
76507483 A
1 A
76507484 GAACACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:76518453 original size:22 final size:23
Alignment explanation
Indices: 76518411--76518455 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
76518401 ATTGATTTGG
* *
76518411 ATTTTATATTTTTTTATAATTTT
1 ATTTTATATTTCTTTAAAATTTT
76518434 ATTTTAT-TTTCTTTAAAATTTT
1 ATTTTATATTTCTTTAAAATTTT
76518456 TAATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (23 bp):
ATTTTATATTTCTTTAAAATTTT
Found at i:76518671 original size:18 final size:18
Alignment explanation
Indices: 76518631--76518672 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
76518621 ATTAAAATTT
76518631 AATTAATTAATTTTATAA
1 AATTAATTAATTTTATAA
*
76518649 TATTAATTAATTTTA-AA
1 AATTAATTAATTTTATAA
76518666 CAATTAA
1 -AATTAA
76518673 CATCAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTAATTAATTTTATAA
Found at i:76518952 original size:13 final size:13
Alignment explanation
Indices: 76518934--76518958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76518924 TATTCTAAAA
76518934 TGTTTTTTTGTTT
1 TGTTTTTTTGTTT
76518947 TGTTTTTTTGTT
1 TGTTTTTTTGTT
76518959 AAATATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TGTTTTTTTGTTT
Done.