Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 144 of 167
Found at i:47873650 original size:35 final size:35
Alignment explanation
Indices: 47873584--47873650 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
47873574 TATGGTTAAT
* * *
47873584 ATTTAAAAAATAATATTTATAATTTTCAAAAATTA
1 ATTTAAAAAATAACATTTATAAATTTAAAAAATTA
*
47873619 ATTTAAGAAATATACATTTA-AAATTTAAAAAA
1 ATTTAAAAAATA-ACATTTATAAATTTAAAAAA
47873651 AAATCTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 21 0.78
36 6 0.22
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (35 bp):
ATTTAAAAAATAACATTTATAAATTTAAAAAATTA
Found at i:47873651 original size:36 final size:35
Alignment explanation
Indices: 47873584--47873651 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 35
47873574 TATGGTTAAT
* * **
47873584 ATTTAAAAAATAATATTTATAATTTTCAAAAATTA
1 ATTTAAAAAATAACATTTAAAATTTAAAAAAATTA
*
47873619 ATTTAAGAAATATACATTTAAAATTTAAAAAAA
1 ATTTAAAAAATA-ACATTTAAAATTTAAAAAAA
47873652 AATCTAAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 11 0.41
36 16 0.59
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (35 bp):
ATTTAAAAAATAACATTTAAAATTTAAAAAAATTA
Found at i:47874126 original size:37 final size:37
Alignment explanation
Indices: 47874055--47874126 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
47874045 AAATAATTAT
*
47874055 TTTTTAAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAAATTTTAAAAAATTAATTTCAAAAATACA
* *
47874092 TTTTT-AAAATTTATAAATAATTAATTTCACAAATA
1 TTTTTAAAAATTT-TAAAAAATTAATTTCAAAAATA
47874127 TATATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 7 0.23
37 24 0.77
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (37 bp):
TTTTTAAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:47874264 original size:36 final size:37
Alignment explanation
Indices: 47874224--47874297 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
47874214 TTTTAAAATT
*
47874224 AATAATAT-AAA-TTAAATAAGTAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
47874260 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
47874297 A
1 A
47874298 GAGACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:47874269 original size:18 final size:18
Alignment explanation
Indices: 47874219--47874270 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
47874209 AAATTTTTTA
*
47874219 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
47874237 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
47874255 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
47874271 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:47874327 original size:9 final size:9
Alignment explanation
Indices: 47874313--47874360 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
47874303 AAAATATAAG
47874313 AAAAAAAGT
1 AAAAAAAGT
47874322 -AAAAAAGT
1 AAAAAAAGT
*
47874330 TAAAAAAGT
1 AAAAAAAGT
47874339 AAAAAAAGT
1 AAAAAAAGT
*
47874348 AAAAAAAAT
1 AAAAAAAGT
47874357 AAAA
1 AAAA
47874361 GAACCTGACA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 8 0.22
9 28 0.78
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:47880322 original size:42 final size:43
Alignment explanation
Indices: 47880268--47880383 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
47880258 ATATGTGATT
*
47880268 TGTGTAAGACCATAGCTGGACTATGGCATCGA-TATATGAATA
1 TGTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
** * *
47880310 TGTGTAAGACCATAGCTGGGGTTTGGCATC-ATTATGTGAAGA
1 TGTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
* *
47880352 TGTGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTGTAAGACCATAGCTGGACTATGGCATCGA
47880384 GAAAATGAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
Found at i:47883059 original size:16 final size:16
Alignment explanation
Indices: 47883038--47883070 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47883028 ATTGGAGTAA
47883038 AAAAGCCAATTAGCAT
1 AAAAGCCAATTAGCAT
47883054 AAAAGCCAATTAGCAT
1 AAAAGCCAATTAGCAT
47883070 A
1 A
47883071 TCTTTAAATT
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:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAGCCAATTAGCAT
Found at i:47886250 original size:18 final size:18
Alignment explanation
Indices: 47886216--47886387 Score: 87
Period size: 18 Copynumber: 9.1 Consensus size: 18
47886206 AATTAATCAA
* *
47886216 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
47886233 TCAGTAACAGA-CAGTTAT
1 TCAGTAACA-ATCAGTTAT
* *
47886251 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
47886269 TCAATAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
*
47886287 TCAGTATCAATCAATTGATCGGTTAT
1 TCAG--T-AA-C-A---ATCAGTTAT
* * *
47886313 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
47886331 TCAGTAAAAATCAGATAT
1 TCAGTAACAATCAGTTAT
* * *
47886349 ACAGTAACAATTAAATTAT
1 TCAGTAACAA-TCAGTTAT
*
47886368 TCAGTAAATAATCAGTTAT
1 TCAGT-AACAATCAGTTAT
47886387 T
1 T
47886388 TTATACCTTT
Statistics
Matches: 113, Mismatches: 29, Indels: 24
0.68 0.17 0.14
Matches are distributed among these distances:
17 5 0.04
18 67 0.59
19 17 0.15
20 5 0.04
21 3 0.03
22 1 0.01
23 3 0.03
24 1 0.01
26 11 0.10
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:47886261 original size:36 final size:36
Alignment explanation
Indices: 47886216--47886302 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
47886206 AATTAATCAA
* * *
47886216 TCAG-AACAATTATTTATTCAGTAACAGA-CAGTTAT
1 TCAGTAACAATCAATTATTCAATAACA-ATCAGTTAT
* *
47886251 TCGGTAACAATCAATTATTCAATAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAATAACAATCAGTTAT
*
47886287 TCAGTATCAATCAATT
1 TCAGTAACAATCAATT
47886303 GATCGGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 4 0.09
36 39 0.91
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAATAACAATCAGTTAT
Found at i:47886569 original size:53 final size:53
Alignment explanation
Indices: 47886498--47886618 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
47886488 TCGGAACAGT
* * * *
47886498 AACAGTAACAGTAGCAGTACGGTACATAGAGTACCTCATCAGAACAAATCCGG
1 AACAGTAACAGTAACAGTACGGTACACAGAGAACCTCATCAGAACAAATCCGA
* *
47886551 AACGGTAACAGTAACAGTACGGTACACAGAGAACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGAACCTCATCAGAACAAATCCGA
47886604 AACAGTAACAGTAAC
1 AACAGTAACAGTAAC
47886619 GTTAACAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGAACCTCATCAGAACAAATCCGA
Found at i:47886625 original size:59 final size:58
Alignment explanation
Indices: 47886492--47886628 Score: 167
Period size: 53 Copynumber: 2.4 Consensus size: 58
47886482 CCGAAGTCGG
* * * *
47886492 AACAGTAACAGTAACAGTAGCAGTACGGTACATAGAGTACCTCATCAGAACAAATCCGG
1 AACAGTAACAGTAAC-GTAACAGTACGGTACACAGAGAACCTCATCAGAACAAATCCGA
* *
47886551 AACGGTAAC----A-GTAACAGTACGGTACACAGAGAACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAACGTAACAGTACGGTACACAGAGAACCTCATCAGAACAAATCCGA
47886604 AACAGTAACAGTAACGTTAACAGTA
1 AACAGTAACAGTAACG-TAACAGTA
47886629 ACAATATCCG
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
53 46 0.71
55 1 0.02
57 1 0.02
58 1 0.02
59 16 0.25
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (58 bp):
AACAGTAACAGTAACGTAACAGTACGGTACACAGAGAACCTCATCAGAACAAATCCGA
Found at i:47888192 original size:22 final size:24
Alignment explanation
Indices: 47888150--47888196 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
47888140 TGTATTACAA
47888150 ATGTATGTATATTATTTATCACAC
1 ATGTATGTATATTATTTATCACAC
*
47888174 ATGTAT-TTTATT-TTTATCACAC
1 ATGTATGTATATTATTTATCACAC
47888196 A
1 A
47888197 CTTGGCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 5 0.23
24 6 0.27
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (24 bp):
ATGTATGTATATTATTTATCACAC
Found at i:47892837 original size:20 final size:21
Alignment explanation
Indices: 47892805--47892843 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
47892795 AACCTCTCAT
47892805 TCTTTAGCAAACT-TTTTGGC
1 TCTTTAGCAAACTATTTTGGC
47892825 TCTTTAAGC-AACTATTTTG
1 TCTTT-AGCAAACTATTTTG
47892844 ACCCCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (21 bp):
TCTTTAGCAAACTATTTTGGC
Found at i:47894928 original size:23 final size:23
Alignment explanation
Indices: 47894902--47894947 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
47894892 ATATTTTACG
*
47894902 AAAAATATTTTCCTGGTTTTCCA
1 AAAAATATTTTCCTGATTTTCCA
47894925 AAAAATATTTTCCTGATTTTCCA
1 AAAAATATTTTCCTGATTTTCCA
47894948 GTGTTTGTTT
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:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (23 bp):
AAAAATATTTTCCTGATTTTCCA
Found at i:47897034 original size:49 final size:49
Alignment explanation
Indices: 47896975--47897070 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
47896965 TTTAAAGGAG
*
47896975 TAAATTAATTTCTTATTATTTTTGAAAGGACAAAAAGTAATTTTACTAT
1 TAAATTAATTTCTTATCATTTTTGAAAGGACAAAAAGTAATTTTACTAT
* *
47897024 TAAATTAATTTCTTATCATTTTTGGAAGGATAAAAAGTAATTTTACT
1 TAAATTAATTTCTTATCATTTTTGAAAGGACAAAAAGTAATTTTACT
47897071 GTTATTGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (49 bp):
TAAATTAATTTCTTATCATTTTTGAAAGGACAAAAAGTAATTTTACTAT
Found at i:47902204 original size:33 final size:34
Alignment explanation
Indices: 47902167--47902232 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
47902157 TAAAATGGGG
* *
47902167 TTTTAAATTCCTTAAAAGTTGG-AGAAAAATTTT
1 TTTTAAATCCCTTAAAAGTTGGTAAAAAAATTTT
*
47902200 TTTTAAGTCCCTTAAAAGTTGGTAAAAAAATTT
1 TTTTAAATCCCTTAAAAGTTGGTAAAAAAATTT
47902233 CAACTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (34 bp):
TTTTAAATCCCTTAAAAGTTGGTAAAAAAATTTT
Found at i:47904168 original size:21 final size:20
Alignment explanation
Indices: 47904120--47904169 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
47904110 ATATAGTTTT
* *
47904120 TAAAATTTATGATTTTTTAA
1 TAAATTTTATGATTTTCTAA
* *
47904140 TTATTTTTATAGATTTTCTAA
1 TAAATTTTAT-GATTTTCTAA
47904161 TAAATTTTA
1 TAAATTTTA
47904170 GTCTAAGATT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TAAATTTTATGATTTTCTAA
Found at i:47905988 original size:21 final size:19
Alignment explanation
Indices: 47905957--47906028 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 19
47905947 TAAGTAAAAG
47905957 AAATAGAGAAAGACAAAAGCAA
1 AAATA-AGAAAGA-AAAAG-AA
47905979 AAATAAGAAAG-AAAAGAA
1 AAATAAGAAAGAAAAAGAA
* *
47905997 AGA-AAGAAAGAAAAAGAG
1 AAATAAGAAAGAAAAAGAA
*
47906015 AAAGAAGGAAAGAA
1 AAATAA-GAAAGAA
47906029 GCAGACGCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
17 7 0.16
18 12 0.27
19 7 0.16
20 7 0.16
21 6 0.14
22 5 0.11
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (19 bp):
AAATAAGAAAGAAAAAGAA
Found at i:47905992 original size:4 final size:4
Alignment explanation
Indices: 47905983--47906028 Score: 58
Period size: 4 Copynumber: 11.2 Consensus size: 4
47905973 AAGCAAAAAT
*
47905983 AAGA AAGAA AAGA AAGA AAGA AAGA AA-A AGAGA AAGA AGGA AAGA A
1 AAGA AAG-A AAGA AAGA AAGA AAGA AAGA A-AGA AAGA AAGA AAGA A
47906029 GCAGACGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 2 0.05
4 29 0.78
5 6 0.16
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:47906018 original size:20 final size:21
Alignment explanation
Indices: 47905983--47906028 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
47905973 AAGCAAAAAT
47905983 AAGAAAGAAAAGAAAGAAAGA
1 AAGAAAGAAAAGAAAGAAAGA
* *
47906004 AAGAAA-AAGAGAAAGAAGGA
1 AAGAAAGAAAAGAAAGAAAGA
47906024 AAGAA
1 AAGAA
47906029 GCAGACGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAAAGAAAGAAAGA
Found at i:47906404 original size:20 final size:20
Alignment explanation
Indices: 47906368--47906405 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47906358 GTGAAAATTG
*
47906368 TATGAAAATATAGAATTAAT
1 TATGAAAATATAAAATTAAT
47906388 TATGAATAATA-AAAATTA
1 TATGAA-AATATAAAATTA
47906406 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
TATGAAAATATAAAATTAAT
Found at i:47906463 original size:19 final size:20
Alignment explanation
Indices: 47906439--47906479 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
47906429 GAATTTAGGC
*
47906439 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
47906458 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
47906478 AA
1 AA
47906480 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:47911058 original size:19 final size:19
Alignment explanation
Indices: 47911031--47911080 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
47911021 TCATGTATCT
*
47911031 CTATCCATATCTCATTTCA
1 CTATTCATATCTCATTTCA
47911050 CTATTCATATCTCATTTCA
1 CTATTCATATCTCATTTCA
47911069 CTATTCAATATC
1 CTATTC-ATATC
47911081 AATCATGACA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 24 0.83
20 5 0.17
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (19 bp):
CTATTCATATCTCATTTCA
Found at i:47912133 original size:5 final size:5
Alignment explanation
Indices: 47912075--47912151 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
47912065 ACTTTCCCCT
* * *
47912075 TTTTC TTTCTC TTTCTC TTTTC -TTTC TATTC TTTCTT TGTTTC GTTTC
1 TTTTC TTT-TC TTT-TC TTTTC TTTTC TTTTC TTT-TC T-TTTC TTTTC
* *
47912123 GTTTC TTTTC TTTT- TATTTC ATTTC TTTT
1 TTTTC TTTTC TTTTC T-TTTC TTTTC TTTT
47912152 ATTTATTTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
4 5 0.09
5 37 0.64
6 14 0.24
7 2 0.03
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTTC
Found at i:47915857 original size:23 final size:23
Alignment explanation
Indices: 47915787--47915859 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
47915777 CTTATGCGCA
* *
47915787 CAAATGAAAGCGGCACTTCGATG
1 CAAATGAAAGTGGCACTTCGGTG
* *
47915810 CAATTGAAATGTGGCACTTCTGTG
1 CAAATGAAA-GTGGCACTTCGGTG
*
47915834 CAAATGAAAGTGACACTTCGGTG
1 CAAATGAAAGTGGCACTTCGGTG
47915857 CAA
1 CAA
47915860 TACTATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 23 0.55
24 19 0.45
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (23 bp):
CAAATGAAAGTGGCACTTCGGTG
Found at i:47929240 original size:20 final size:20
Alignment explanation
Indices: 47929215--47929254 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47929205 GGAAAGGACA
47929215 CTCAACCTACAACCATTGCT
1 CTCAACCTACAACCATTGCT
47929235 CTCAACCTACAACCATTGCT
1 CTCAACCTACAACCATTGCT
47929255 TTTTAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.05, T:0.25
Consensus pattern (20 bp):
CTCAACCTACAACCATTGCT
Found at i:47932846 original size:21 final size:21
Alignment explanation
Indices: 47932820--47932860 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47932810 ATCTGCTCAA
* *
47932820 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
47932841 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
47932861 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:47935967 original size:25 final size:25
Alignment explanation
Indices: 47935939--47935987 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
47935929 TAATGATATT
* *
47935939 TGATAAATTATTGAAATAATTAAAC
1 TGATAAATTATAGAAATAAATAAAC
* *
47935964 TGATTATTTATAGAAATAAATAAA
1 TGATAAATTATAGAAATAAATAAA
47935988 TGTTATTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (25 bp):
TGATAAATTATAGAAATAAATAAAC
Found at i:47935999 original size:25 final size:24
Alignment explanation
Indices: 47935945--47935996 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
47935935 TATTTGATAA
* *
47935945 ATTATTGAAATAATTAAACTGATT
1 ATTATAGAAATAAATAAACTGATT
47935969 ATTTATAGAAATAAATAAA-TG-TT
1 A-TTATAGAAATAAATAAACTGATT
47935992 ATTAT
1 ATTAT
47935997 TATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 4 0.16
23 3 0.12
24 3 0.12
25 15 0.60
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (24 bp):
ATTATAGAAATAAATAAACTGATT
Found at i:47936087 original size:21 final size:21
Alignment explanation
Indices: 47936063--47936105 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47936053 ATTAGTTACC
47936063 TAAAGTTTAACTAATATTAAG
1 TAAAGTTTAACTAATATTAAG
47936084 TAAAGTTTAACTAATATTAAG
1 TAAAGTTTAACTAATATTAAG
47936105 T
1 T
47936106 TACATTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
TAAAGTTTAACTAATATTAAG
Found at i:47940894 original size:351 final size:351
Alignment explanation
Indices: 47940251--47940941 Score: 1292
Period size: 351 Copynumber: 2.0 Consensus size: 351
47940241 CGTAAGGCTG
*
47940251 TCAAAGAATTAAATTATAGGAGCTGCTCTTAAGGTTGTTCATTTGACAAGGGTTAATTGTTAGGA
1 TCAAAGAATTAAATTATAGGAGCTGATCTTAAGGTTGTTCATTTGACAAGGGTTAATTGTTAGGA
* *
47940316 TACTTCCGCAGTTAATTTACAACTAAGAAATGATTAGTGGTTTGAAGTTGCATATCACTTTAATC
66 TACTTCCGCAATTAATTTACAACTAAGAAATGATTAGTGGTTTGAAGTTGCAGATCACTTTAATC
** *
47940381 GACTTATCATACAGTAAGAAGACATTCATAATTTATAATCAATTTCGAAATTGAAACTGACGCCG
131 GACTTATCATACAGTAAGAAGACATTCATAATTTATAATCAATTTCGAAATTGAAACTGACAACA
47940446 TACCTGAGCCTGGAGTTTTTATTAAATTGGTTTATTCTACTTTATTTTCAAATTTGCTCTTTACC
196 TACCTGAGCCTGGAGTTTTTATTAAATTGGTTTATTCTACTTTATTTTCAAATTTGCTCTTTACC
*
47940511 TTTTGTTTTTGTGTAGTTCCAATTTTATTTATTTAATTTCGTATACTTTAAACTGCCTCTTTCTT
261 TTTTGTTTTAGTGTAGTTCCAATTTTATTTATTTAATTTCGTATACTTTAAACTGCCTCTTTCTT
47940576 GTTTTACGCAATATTATAGGAGCTAC
326 GTTTTACGCAATATTATAGGAGCTAC
47940602 TCAAAGAATTAAATTATAGGAGCTGATCTTAAGGTTGTTCATTTGACAAGGGTTAATTGTTAGGA
1 TCAAAGAATTAAATTATAGGAGCTGATCTTAAGGTTGTTCATTTGACAAGGGTTAATTGTTAGGA
*
47940667 TACTTCCGCAATTAATTTACAACTAAGAAATGATTAGTGGTTTGAAGTTGCCGATCACTTTAATC
66 TACTTCCGCAATTAATTTACAACTAAGAAATGATTAGTGGTTTGAAGTTGCAGATCACTTTAATC
47940732 GACTTATCATACAGTAAGAAGACATTCATAATTTATAATCAATTTCGAAATTGAAACTGACAACA
131 GACTTATCATACAGTAAGAAGACATTCATAATTTATAATCAATTTCGAAATTGAAACTGACAACA
*
47940797 TACCTGAGCCTGGTGTTTTTATTAAATTGGTTTATTCTACTTTATTTTCAAATTTGCTCTTTACC
196 TACCTGAGCCTGGAGTTTTTATTAAATTGGTTTATTCTACTTTATTTTCAAATTTGCTCTTTACC
*
47940862 TTTTGTTTTAGTGTAGTTCCAATTTTATTTATTTAATTTCGTATACTTTAAACTTCCTCTTTCTT
261 TTTTGTTTTAGTGTAGTTCCAATTTTATTTATTTAATTTCGTATACTTTAAACTGCCTCTTTCTT
47940927 GTTTTACGCAATATT
326 GTTTTACGCAATATT
47940942 GCAAATGTCA
Statistics
Matches: 330, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
351 330 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (351 bp):
TCAAAGAATTAAATTATAGGAGCTGATCTTAAGGTTGTTCATTTGACAAGGGTTAATTGTTAGGA
TACTTCCGCAATTAATTTACAACTAAGAAATGATTAGTGGTTTGAAGTTGCAGATCACTTTAATC
GACTTATCATACAGTAAGAAGACATTCATAATTTATAATCAATTTCGAAATTGAAACTGACAACA
TACCTGAGCCTGGAGTTTTTATTAAATTGGTTTATTCTACTTTATTTTCAAATTTGCTCTTTACC
TTTTGTTTTAGTGTAGTTCCAATTTTATTTATTTAATTTCGTATACTTTAAACTGCCTCTTTCTT
GTTTTACGCAATATTATAGGAGCTAC
Found at i:47942390 original size:25 final size:25
Alignment explanation
Indices: 47942357--47942408 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
47942347 CTATTATTAT
*
47942357 TATTATTATTA-TTTTAAAAATAAA
1 TATTATTATAATTTTTAAAAATAAA
47942381 TATTAATTATAATTTTTAAAAATAAA
1 TATT-ATTATAATTTTTAAAAATAAA
47942407 TA
1 TA
47942409 AATTCAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.16
25 6 0.24
26 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTATTATAATTTTTAAAAATAAA
Found at i:47945377 original size:21 final size:21
Alignment explanation
Indices: 47945334--47945379 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47945324 TTTTGAAACC
*
47945334 ATTTTTTAAATAATTACATTT
1 ATTTTTTAAATAATTACAGTT
*
47945355 ATTTTTTAAA-AATTAAGAGTT
1 ATTTTTTAAATAATT-ACAGTT
47945376 ATTT
1 ATTT
47945380 CCATGCATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
ATTTTTTAAATAATTACAGTT
Found at i:47951375 original size:15 final size:15
Alignment explanation
Indices: 47951355--47951414 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
47951345 AAGTGCCGGA
47951355 GGAGGTGGAGGGGGC
1 GGAGGTGGAGGGGGC
47951370 GGAGGTGG-GGGAGGC
1 GGAGGTGGAGGG-GGC
* * *
47951385 GGAGGCGGAGGAGGA
1 GGAGGTGGAGGGGGC
* *
47951400 GGTGGAGGAGGGGGC
1 GGAGGTGGAGGGGGC
47951415 TCCATCAACA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
14 3 0.08
15 31 0.86
16 2 0.06
ACGTcount: A:0.17, C:0.07, G:0.72, T:0.05
Consensus pattern (15 bp):
GGAGGTGGAGGGGGC
Found at i:47952018 original size:18 final size:18
Alignment explanation
Indices: 47951980--47952018 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47951970 ATGTTTCCCA
* * *
47951980 GGTGTTTGATCAGATGTT
1 GGTGTTTGACCAGAAGCT
47951998 GGTGTTTGACCAGAAGCT
1 GGTGTTTGACCAGAAGCT
47952016 GGT
1 GGT
47952019 ACTACAGAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.36, T:0.36
Consensus pattern (18 bp):
GGTGTTTGACCAGAAGCT
Found at i:47956928 original size:21 final size:21
Alignment explanation
Indices: 47956890--47956931 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47956880 TAATTTAAAT
*
47956890 TTAAATTTTGAAATATAAAAA
1 TTAAATTTTGAAAAATAAAAA
47956911 TTAAGATTTT-AAAAATAAAAA
1 TTAA-ATTTTGAAAAATAAAAA
47956932 AAAATACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
TTAAATTTTGAAAAATAAAAA
Found at i:47957389 original size:21 final size:21
Alignment explanation
Indices: 47957359--47957404 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
47957349 TCAATATTAT
* *
47957359 AATATTTTATCTAGATATTTTAA
1 AATATTATA-CTA-ATAATTTAA
47957382 AATATTATACTAATAATTTAA
1 AATATTATACTAATAATTTAA
47957403 AA
1 AA
47957405 AAAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 3 0.14
23 8 0.38
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (21 bp):
AATATTATACTAATAATTTAA
Found at i:47957449 original size:23 final size:23
Alignment explanation
Indices: 47957423--47957466 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
47957413 TAATATTGAT
47957423 TTAAATT-TTAAAATATAAAAAAA
1 TTAAATTCTTAAAAT-TAAAAAAA
47957446 TTAAATTCTTAAAATTAAAAA
1 TTAAATTCTTAAAATTAAAAA
47957467 TATATAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TTAAATTCTTAAAATTAAAAAAA
Found at i:47962229 original size:10 final size:10
Alignment explanation
Indices: 47962214--47962257 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
47962204 TAATTTTAGG
47962214 ATTTAT-TTT
1 ATTTATCTTT
47962223 CATTTATCTTT
1 -ATTTATCTTT
47962234 ATTTATCTTT
1 ATTTATCTTT
*
47962244 AATTATCTTT
1 ATTTATCTTT
47962254 ATTT
1 ATTT
47962258 GTATTTATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 28 0.90
11 3 0.10
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:47962239 original size:20 final size:20
Alignment explanation
Indices: 47962214--47962271 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
47962204 TAATTTTAGG
47962214 ATTTATTTTCATTTATCTTT
1 ATTTATTTTCATTTATCTTT
*
47962234 ATTTATCTTT-AATTATCTTT
1 ATTTAT-TTTCATTTATCTTT
47962254 ATTTGTATTTATCATTTA
1 A-TT-TATTT-TCATTTA
47962272 GTATTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 16 0.52
21 7 0.23
22 4 0.13
23 4 0.13
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTATTTTCATTTATCTTT
Found at i:47968698 original size:14 final size:14
Alignment explanation
Indices: 47968679--47968741 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 14
47968669 AGGTAACCCA
*
47968679 ATTTTTATTGTTTT
1 ATTTTTATTATTTT
47968693 ATTTTTATTATTTTT
1 ATTTTTATTA-TTTT
47968708 ATTATTTATTATTTAT
1 ATT-TTTATTATTT-T
*
47968724 AATTTTATTTATTTT
1 ATTTTTA-TTATTTT
47968739 ATT
1 ATT
47968742 AATAATAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 9 0.21
15 17 0.40
16 16 0.38
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (14 bp):
ATTTTTATTATTTT
Found at i:47968703 original size:9 final size:9
Alignment explanation
Indices: 47968691--47968742 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 9
47968681 TTTTATTGTT
47968691 TTATTTTTA
1 TTATTTTTA
47968700 TTATTTTTA
1 TTATTTTTA
47968709 TTATTTATTA
1 TTATTT-TTA
47968719 TTTATAATTTTA
1 -TTAT--TTTTA
47968731 TT-TATTTTA
1 TTAT-TTTTA
47968740 TTA
1 TTA
47968743 ATAATAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
9 23 0.61
10 4 0.11
11 6 0.16
12 3 0.08
13 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTATTTTTA
Found at i:47968706 original size:23 final size:23
Alignment explanation
Indices: 47968678--47968742 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
47968668 GAGGTAACCC
*
47968678 AATTTTTATTGTTTTATT-TTTAT
1 AATTTTTATT-ATTTATTATTTAT
*
47968701 TATTTTTATTATTTATTATTTAT
1 AATTTTTATTATTTATTATTTAT
47968724 AA-TTTTATTTATTTTATTA
1 AATTTTTA-TTA-TTTATTA
47968743 ATAATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.31
23 18 0.50
24 7 0.19
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
AATTTTTATTATTTATTATTTAT
Found at i:47968717 original size:16 final size:15
Alignment explanation
Indices: 47968679--47968738 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
47968669 AGGTAACCCA
*
47968679 ATTTTTATT-GTTTT
1 ATTTTTATTATTTTT
47968693 ATTTTTATTATTTTT
1 ATTTTTATTATTTTT
*
47968708 ATTATTTATTATTTAT
1 ATT-TTTATTATTTTT
*
47968724 AATTTTATTTATTTT
1 ATTTTTA-TTATTTT
47968739 ATTAATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 9 0.23
15 11 0.28
16 19 0.49
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (15 bp):
ATTTTTATTATTTTT
Found at i:47968746 original size:21 final size:19
Alignment explanation
Indices: 47968709--47968747 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
47968699 ATTATTTTTA
*
47968709 TTATTTATTATTTATAATT
1 TTATTTATTATTAATAATT
47968728 TTATTTATTTTATTAATAAT
1 TTATTTA--TTATTAATAAT
47968748 AAAAATTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTATTATTAATAATT
Found at i:47970368 original size:269 final size:269
Alignment explanation
Indices: 47969889--47970426 Score: 1076
Period size: 269 Copynumber: 2.0 Consensus size: 269
47969879 TCTCTTTATT
47969889 TTTCGTATGCATTTTTTCTAATTTTTATAAAACTTTGGAGTAGTATTTCTTTCATGGCAGGATTT
1 TTTCGTATGCATTTTTTCTAATTTTTATAAAACTTTGGAGTAGTATTTCTTTCATGGCAGGATTT
47969954 AATTTTCATAGTGGACGGGAACCATACTTGAGGGCAAGCATAGGATAAGTAGGGGGAATTTGATA
66 AATTTTCATAGTGGACGGGAACCATACTTGAGGGCAAGCATAGGATAAGTAGGGGGAATTTGATA
47970019 ATACTCTAGAACAACATATTTTATGTACTAATTGCATGATTATTTTGAATATGATCCTACTAATT
131 ATACTCTAGAACAACATATTTTATGTACTAATTGCATGATTATTTTGAATATGATCCTACTAATT
47970084 TGGGTTATTTTATGGTCTTTTATCTTTTAGGGACTAAATTGGAGGCAAGAGGAAATTTAAAGACA
196 TGGGTTATTTTATGGTCTTTTATCTTTTAGGGACTAAATTGGAGGCAAGAGGAAATTTAAAGACA
47970149 AAAAGTGTA
261 AAAAGTGTA
47970158 TTTCGTATGCATTTTTTCTAATTTTTATAAAACTTTGGAGTAGTATTTCTTTCATGGCAGGATTT
1 TTTCGTATGCATTTTTTCTAATTTTTATAAAACTTTGGAGTAGTATTTCTTTCATGGCAGGATTT
47970223 AATTTTCATAGTGGACGGGAACCATACTTGAGGGCAAGCATAGGATAAGTAGGGGGAATTTGATA
66 AATTTTCATAGTGGACGGGAACCATACTTGAGGGCAAGCATAGGATAAGTAGGGGGAATTTGATA
47970288 ATACTCTAGAACAACATATTTTATGTACTAATTGCATGATTATTTTGAATATGATCCTACTAATT
131 ATACTCTAGAACAACATATTTTATGTACTAATTGCATGATTATTTTGAATATGATCCTACTAATT
47970353 TGGGTTATTTTATGGTCTTTTATCTTTTAGGGACTAAATTGGAGGCAAGAGGAAATTTAAAGACA
196 TGGGTTATTTTATGGTCTTTTATCTTTTAGGGACTAAATTGGAGGCAAGAGGAAATTTAAAGACA
47970418 AAAAGTGTA
261 AAAAGTGTA
47970427 AATTTGAAGA
Statistics
Matches: 269, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
269 269 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (269 bp):
TTTCGTATGCATTTTTTCTAATTTTTATAAAACTTTGGAGTAGTATTTCTTTCATGGCAGGATTT
AATTTTCATAGTGGACGGGAACCATACTTGAGGGCAAGCATAGGATAAGTAGGGGGAATTTGATA
ATACTCTAGAACAACATATTTTATGTACTAATTGCATGATTATTTTGAATATGATCCTACTAATT
TGGGTTATTTTATGGTCTTTTATCTTTTAGGGACTAAATTGGAGGCAAGAGGAAATTTAAAGACA
AAAAGTGTA
Found at i:47970655 original size:20 final size:20
Alignment explanation
Indices: 47970617--47970655 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47970607 TTATTTCCAT
*
47970617 TTATCCTTATTTCTCTTTAA
1 TTATCCTTATTTCTATTTAA
* *
47970637 TTATCTTTATTTGTATTTA
1 TTATCCTTATTTCTATTTA
47970656 TCATTTAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATCCTTATTTCTATTTAA
Found at i:47978934 original size:24 final size:25
Alignment explanation
Indices: 47978907--47978959 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
47978897 ATTTTTTATA
*
47978907 TTATGATAAAAAAT-ATCACATTTT
1 TTATGATAAAAAATGATCACATCTT
** *
47978931 TTATTTTAAAAAATGATCACGTCTT
1 TTATGATAAAAAATGATCACATCTT
47978956 TTAT
1 TTAT
47978960 TTTCTTTCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (25 bp):
TTATGATAAAAAATGATCACATCTT
Found at i:47978949 original size:25 final size:24
Alignment explanation
Indices: 47978913--47978962 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
47978903 TATATTATGA
*
47978913 TAAAAAATATCACATTTTTTATTT
1 TAAAAAATATCACATCTTTTATTT
*
47978937 TAAAAAATGATCACGTCTTTTATTT
1 TAAAAAAT-ATCACATCTTTTATTT
47978962 T
1 T
47978963 CTTTCCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (24 bp):
TAAAAAATATCACATCTTTTATTT
Found at i:47979901 original size:14 final size:14
Alignment explanation
Indices: 47979882--47979920 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
47979872 ATTTGACATA
47979882 AGCATTCTAATCAT
1 AGCATTCTAATCAT
47979896 AGCATTCTAATCAT
1 AGCATTCTAATCAT
47979910 AGCATTCTAAT
1 AGCATTCTAAT
47979921 TATTTGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (14 bp):
AGCATTCTAATCAT
Found at i:47980310 original size:133 final size:133
Alignment explanation
Indices: 47980072--47980347 Score: 417
Period size: 133 Copynumber: 2.1 Consensus size: 133
47980062 ATTCTACAGG
* *
47980072 TCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAAACGACGAATCTTGTCTTCCTGAAGTTGC
1 TCTTGTCTCCCTGAAGTTACAGTGGAACAGATCGAAAACGACGAATCATGTCTTCCTGAAGTTGC
* * *
47980137 AGTGAAGCAAATTTAAACCACCATCCTAACTCCCTAAAATTGTAGTGGAGTAGGTTGAAGATCGT
66 AGTGAAGCAAATTTAAACCACCATCCTAACTCCCTAAAATTGTAGCGGAGTAGGCTGAAGATCGC
47980202 AGA
131 AGA
* * * *
47980205 TCTTGTTTCCCTGAAGTTACAGTGGAGCAGATTGAAAACGTCGAATCATGTCTTCCTGAAGTTGC
1 TCTTGTCTCCCTGAAGTTACAGTGGAACAGATCGAAAACGACGAATCATGTCTTCCTGAAGTTGC
* * * * *
47980270 AGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAATTTTAGCGGAGTAGGCTGAAGATCGC
66 AGTGAAGCAAATTTAAACCACCATCCTAACTCCCTAAAATTGTAGCGGAGTAGGCTGAAGATCGC
47980335 AGA
131 AGA
*
47980338 TCTCGTCTCC
1 TCTTGTCTCC
47980348 AGTGGAGCAA
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 127 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (133 bp):
TCTTGTCTCCCTGAAGTTACAGTGGAACAGATCGAAAACGACGAATCATGTCTTCCTGAAGTTGC
AGTGAAGCAAATTTAAACCACCATCCTAACTCCCTAAAATTGTAGCGGAGTAGGCTGAAGATCGC
AGA
Found at i:47980458 original size:168 final size:168
Alignment explanation
Indices: 47980248--47980863 Score: 1065
Period size: 168 Copynumber: 3.7 Consensus size: 168
47980238 GAAAACGTCG
* *
47980248 AATCATGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAATTTT
1 AATCATGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
* * * **
47980313 AGCGGAGTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAAATCAAAGAAAACAAGCCTTA
66 AGTGGATTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
47980378 ACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTGCAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTGCAA
47980416 AATCATGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
1 AATCATGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
47980481 AGTGGATTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
66 AGTGGATTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
47980546 ACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTGCAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTGCAA
47980584 AATCATGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
1 AATCATGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
47980649 AGTGGATTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
66 AGTGGATTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
*
47980714 ACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTGAAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTGCAA
* * * * *
47980752 AATCCTGTCTTCCTGAAATTGTAGTGAAGCAGA-TTAATCCACC-ACACTATCTCCCTAAAGTTG
1 AATCATGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTC-CTATCTCCCTAAAGTTG
* * *
47980815 TAGTGGAATAGGCTGAAGGTCACAGATCTCGTCTCCAGTGGAGCAGATC
65 TAGTGGATTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATC
47980864 GAAGTCACAA
Statistics
Matches: 431, Mismatches: 16, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
166 1 0.00
167 72 0.17
168 358 0.83
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (168 bp):
AATCATGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
AGTGGATTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
ACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTGCAA
Found at i:47981908 original size:30 final size:25
Alignment explanation
Indices: 47981846--47981912 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
47981836 GAAGCCTTCG
*
47981846 GGGTTCGGCTGAGCAAAAAGGGGTA
1 GGGTTCGGCTGAGAAAAAAGGGGTA
*
47981871 GGATTCGGCTGAGAAGAAGAATGGAGGCTA
1 GGGTTCGGCTGAGAA-AA-AA-GG-GG-TA
47981901 GGGTTCGGCTGA
1 GGGTTCGGCTGA
47981913 ATAGGCCCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 13 0.38
26 2 0.06
27 2 0.06
28 2 0.06
29 2 0.06
30 13 0.38
ACGTcount: A:0.27, C:0.12, G:0.43, T:0.18
Consensus pattern (25 bp):
GGGTTCGGCTGAGAAAAAAGGGGTA
Found at i:47983844 original size:131 final size:132
Alignment explanation
Indices: 47983692--47984164 Score: 438
Period size: 131 Copynumber: 3.6 Consensus size: 132
47983682 GTAATTCCCG
* * * * *
47983692 GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCA
1 GAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA
* * * * * *
47983757 AAATTTCACTGAGGTCTTCTAAAAATCCTTTAAAACTAAGGCAAGACTT-GGTGTTTGACAATTC
66 GAATTTCACTCAGGTTTTCTAAAAATCCTTTAAAACAAAGGCAAGAGTTCGGTGTTTGGCAATTC
47983821 GA
131 GA
** * *
47983823 GAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTA
1 GAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA
** * * * * *
47983888 GGTTTTCACTCATGTTTTTTTTAAGAAAACCGTTTAAAACAAAGGC--GTTGTTCGATGTTTGGC
66 GAATTTCACTCA-G-GTTTTCTAA-AAATCC-TTTAAAACAAAGGCAAG-AGTTCGGTGTTTGGC
47983951 AATTCGA
126 AATTCGA
** * * * * * * *
47983958 GAATTGTGCCCTATCGTGCTGGGTTGCACTTTTTCATTTGTTCGAAACGATCGAAGATCCCTTCG
1 GAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA
* * *
47984023 GAATTTCACTCACGTTTTCTAAAACT-CTTTAAAACGAAA-G-AA-ATGTTCAGTGTTTGGCAAT
66 GAATTTCACTCAGGTTTTCTAAAAATCCTTTAAAAC-AAAGGCAAGA-GTTCGGTGTTTGGCAAT
47984084 TCGA
129 TCGA
* * * * * * * *
47984088 GGAATAATACCCTATCGTGCTGGGTTGCAATCTCCCTTTTGTTCAAAATAATCGAATATCTCTTT
1 -GAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC
*
47984153 GGAATTTCACTC
65 AGAATTTCACTC
47984165 GTATTTTCTA
Statistics
Matches: 272, Mismatches: 59, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
130 28 0.10
131 130 0.48
132 3 0.01
133 14 0.05
134 7 0.03
135 90 0.33
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (132 bp):
GAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA
GAATTTCACTCAGGTTTTCTAAAAATCCTTTAAAACAAAGGCAAGAGTTCGGTGTTTGGCAATTC
GA
Found at i:47996129 original size:133 final size:133
Alignment explanation
Indices: 47995891--47996159 Score: 349
Period size: 133 Copynumber: 2.0 Consensus size: 133
47995881 ATTCTACAGG
* * *
47995891 TCTTGTCTCCTTGAAGCTGCAGTGGAGCAGATAAAAAACGACGAATCTTGTTTTCCTGAAGTTGC
1 TCTTGTCTCCCTGAAGCTGCAGTGGAGCAGATAAAAAACGACGAATCATGTCTTCCTGAAGTTGC
* ** * * *
47995956 AGTGAAGCAAATTTAAATTACCATCCTAGCTCCCTAAAGTTGTAGTAGAGTAAGCTGAAGATTGT
66 ACTGAAGCAAATTTAAACCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTGAAGATCGC
47996021 AGA
131 AGA
* * ** *
47996024 TCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGGCGAATCATGTCTTCCTGAAGTTGC
1 TCTTGTCTCCCTGAAGCTGCAGTGGAGCAGATAAAAAACGACGAATCATGTCTTCCTGAAGTTGC
* * * ** * *
47996089 ACTGAAGCAGATTTAAGCCACCGTCCTATTTCCCTAAAGTTGTAGCGGAGTAGGCTGAAGATCGC
66 ACTGAAGCAAATTTAAACCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTGAAGATCGC
47996154 AGA
131 AGA
47996157 TCT
1 TCT
47996160 CGTATCCAGT
Statistics
Matches: 115, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
133 115 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (133 bp):
TCTTGTCTCCCTGAAGCTGCAGTGGAGCAGATAAAAAACGACGAATCATGTCTTCCTGAAGTTGC
ACTGAAGCAAATTTAAACCACCATCCTAGCTCCCTAAAGTTGTAGCAGAGTAAGCTGAAGATCGC
AGA
Found at i:47996361 original size:168 final size:168
Alignment explanation
Indices: 47996067--47996513 Score: 700
Period size: 168 Copynumber: 2.7 Consensus size: 168
47996057 GAAAACGGCG
* * *
47996067 AATCATGTCTTCCTGAAGTTGCACTGAAGCAGATTTAAGCCACCGTCCTATTTCCCTAAAGTTGT
1 AATCCTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
* * *
47996132 AGCGGAGTAGGCTGAAGATCGCAGATCTCGTATCCAGTGGAGCAGATTAAAGAATGCAAGCCTTA
66 AGCGGAGTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
47996197 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGTAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGTAA
47996235 AATCCTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
1 AATCCTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
47996300 AGCGGAGTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
66 AGCGGAGTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
* * *
47996365 ACCTCCTCAGTAGTAGGGCAACAGGCTGAAGATTGTAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGTAA
* * * ** *
47996403 AATCCTGTCTTTC-GAAATTGCAGTGAAGCAGA-TTAATCCACCACCCTATCTCCCTAAAGTTCT
1 AATCCTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
** * * *
47996466 AATGGAGTAGGCTGAAGGTCACAGATCTCATCTCCAGTGGAGCAGATC
66 AGCGGAGTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATC
47996514 GAAGTCACAA
Statistics
Matches: 259, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
166 70 0.27
167 18 0.07
168 171 0.66
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (168 bp):
AATCCTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCGTCCTATCTCCCTAAAGTTGT
AGCGGAGTAGGCTGAAGATCGCAGATCTCGTCTCCAGTGGAGCAGATCAAAGAAGGCAAGCCTTA
ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGTAA
Found at i:47997524 original size:25 final size:30
Alignment explanation
Indices: 47997496--47997562 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 30
47997486 GAAGCCTTTG
*
47997496 GGGTTCGGCTGAGCA-AA-AA-GG-GG-TA
1 GGGTTCGGCTGAGAAGAAGAATGGAGGCTA
47997521 GGGTTCGGCTGAGAAGAAGAATGGAGGCTA
1 GGGTTCGGCTGAGAAGAAGAATGGAGGCTA
47997551 GGGTTCGGCTGA
1 GGGTTCGGCTGA
47997563 ATAGGCTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 14 0.39
26 2 0.06
27 2 0.06
28 2 0.06
29 2 0.06
30 14 0.39
ACGTcount: A:0.25, C:0.12, G:0.45, T:0.18
Consensus pattern (30 bp):
GGGTTCGGCTGAGAAGAAGAATGGAGGCTA
Found at i:47999508 original size:131 final size:130
Alignment explanation
Indices: 47999297--47999817 Score: 479
Period size: 132 Copynumber: 3.9 Consensus size: 130
47999287 ATTATTCATT
* * * * * * * *
47999297 TAAAAATTCTTTAAAACGAAGGCGAGATTTGATATTTGGTAATTCGCGGAATCGTGCCCTAACGT
1 TAAAAATCCTTTAAAACGAAGGCAAG-TTCGATGTTTGGCAATTCG-AGAATCATGCCCTATCGT
* * * * * *
47999362 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCT
64 GCTGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTCAGGTTT
47999427 TC
129 TC
* * *
47999429 TAAAAATCCTTTAAAACGAAGGCAAGACTCGGTGTTTGACAATTCGAGAATCATGCCCTATCGTG
1 TAAAAATCCTTTAAAACGAAGGCAAG-TTCGATGTTTGGCAATTCGAGAATCATGCCCTATCGTG
* ** * * ** *
47999494 CTGGGCTGTGATTTCTCATTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTT
65 CTGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTCA-GGTTT
*
47999559 TT
129 TC
* * * * **
47999561 TAAGAAAACCCTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTCAAGAATTGTGCCCTATCG
1 T-A-AAAATCCTTTAAAACGAAGGC-AAGTTCGATGTTTGGCAATTCGAGAATCATGCCCTATCG
** * * * * *
47999626 TGCTGGGTTGCGCTTTTTCATTTGTTCGAAACGATCGAAGATCCCTTCAGAATTTCACTCACGTT
63 TGCTGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTCAGGTT
47999691 TTC
128 TTC
* * * * *
47999694 TAAAAA-CTCTTTAAAACGAAAGAAATGTTC-AGTGTTTGGCAATTCAGGGAATAATGCCTTATC
1 TAAAAATC-CTTTAAAACGAAGGCAA-GTTCGA-TGTTTGGCAATTC-GAGAATCATGCCCTATC
* * * * * *
47999757 GTGCTGGGTTGCAATCTCCCTTTTGTTCAAAATAATCGAATATCTCTTCGGAATTTCACTC
62 GTGCTGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTC
47999818 GTATTTTCTA
Statistics
Matches: 311, Mismatches: 70, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
130 3 0.01
131 96 0.31
132 105 0.34
133 6 0.02
134 99 0.32
135 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (130 bp):
TAAAAATCCTTTAAAACGAAGGCAAGTTCGATGTTTGGCAATTCGAGAATCATGCCCTATCGTGC
TGGGTTGCAATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTTCACTCAGGTTTTC
Found at i:47999620 original size:134 final size:131
Alignment explanation
Indices: 47999351--47999817 Score: 454
Period size: 134 Copynumber: 3.5 Consensus size: 131
47999341 CGCGGAATCG
* * * * * * *
47999351 TGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTT
1 TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTT
* * * * * * * * *
47999416 CACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGCAA-GACTCGGTGTTTGACAATTCGAGAAT
66 CACTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAATG-TTCAGTGTTTGGCAATTCAAGAAT
*
47999480 CA
130 AA
* * * * **
47999482 TGCCCTATCGTGCTGGGCTGTGATTTCTCATTTGTTCAAAACAATCGAATATTCCTTTAGGTTTT
1 TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTT
* * **
47999547 CACTCATGTTTTTTTAAGAAAACCCTTTAAAAC-AAAGGCGATGTTC-GATGTTTGGCAATTCAA
66 CACTCACG-TTTTCT-A-AAAACCCTTTAAAACGAAA-GAAATGTTCAG-TGTTTGGCAATTCAA
**
47999610 GAATTG
126 GAATAA
* * * * *
47999616 TGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCGAAACGATCGAAGATCCCTTCAGAATTT
1 TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTT
* *
47999681 CACTCACGTTTTCTAAAAACTCTTTAAAACGAAAGAAATGTTCAGTGTTTGGCAATTCAGGGAAT
66 CACTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAATGTTCAGTGTTTGGCAATTCA-AGAAT
47999746 AA
130 AA
* * * * * * * *
47999748 TGCCTTATCGTGCTGGGTTGCAATCTCCCTTTTGTTCAAAATAATCGAATATCTCTTCGGAATTT
1 TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTT
47999813 CACTC
66 CACTC
47999818 GTATTTTCTA
Statistics
Matches: 271, Mismatches: 56, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
131 94 0.35
132 70 0.26
133 9 0.03
134 97 0.36
135 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (131 bp):
TGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGTTCAAAACAATCGAATATCCCTTCAGAATTT
CACTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAATGTTCAGTGTTTGGCAATTCAAGAATA
A
Found at i:47999697 original size:265 final size:267
Alignment explanation
Indices: 47999305--47999799 Score: 604
Period size: 265 Copynumber: 1.9 Consensus size: 267
47999295 TTTAAAAATT
* * * **
47999305 CTTTAAAACGAAGGCGAGATTTGATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGCTGGGTT
1 CTTTAAAACAAAGGCGAGATTCGATATTTGGCAATTCGAAGAATCGTGCCCTAACGTGCTGGGTT
* * * *
47999370 GCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAA
66 GCAATTTCTCATTTGCTCAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGTCTTCTAAAAA
* * * *
47999435 -TCCTTTAAAACGAAGGCAA-GACTCGGTGTTTGACAATTC-GAGAATCATGCCCTATCGTGCTG
131 CT-CTTTAAAACGAAAGAAATG-CTCAGTGTTTGACAATTCAGAGAATAATGCCCTATCGTGCTG
** * *
47999497 GGCTGTGATTTCTCATTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTTTTT
194 GGCTGCAATCTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTTTTT
47999562 AAGAAAACC
259 AAGAAAACC
* * *
47999571 CTTTAAAACAAAGGCGATG-TTCGATGTTTGGCAATTC-AAGAATTGTGCCCTATCGTGCTGGGT
1 CTTTAAAACAAAGGCGA-GATTCGATATTTGGCAATTCGAAGAATCGTGCCCTAACGTGCTGGGT
** * * * * * * *
47999634 TGCGCTTTTTCATTTGTTCGAAACGATCGAAGATCCCTTCAGAATTTCACTCACGTTTTCTAAAA
65 TGCAATTTCTCATTTGCTCAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGTCTTCTAAAA
* * * *
47999699 ACTCTTTAAAACGAAAGAAATGTTCAGTGTTTGGCAATTCAGGGAATAATGCCTTATCGTGCTGG
130 ACTCTTTAAAACGAAAGAAATGCTCAGTGTTTGACAATTCAGAGAATAATGCCCTATCGTGCTGG
* * *
47999764 GTTGCAATCTCCCTTTTGTTCAAAATAATCGAATAT
195 GCTGCAATCTCCCATTTGTTCAAAACAATCGAATAT
47999800 CTCTTCGGAA
Statistics
Matches: 189, Mismatches: 36, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
265 105 0.56
266 83 0.44
267 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (267 bp):
CTTTAAAACAAAGGCGAGATTCGATATTTGGCAATTCGAAGAATCGTGCCCTAACGTGCTGGGTT
GCAATTTCTCATTTGCTCAAAACAATCAAAGATCCCTTCAAAATTTCACTCACGTCTTCTAAAAA
CTCTTTAAAACGAAAGAAATGCTCAGTGTTTGACAATTCAGAGAATAATGCCCTATCGTGCTGGG
CTGCAATCTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATGTTTTTTTAA
GAAAACC
Found at i:48013804 original size:21 final size:20
Alignment explanation
Indices: 48013780--48013832 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
48013770 TGCATTTTTC
*
48013780 TTTTATTTTTTAATTAAGCT
1 TTTTCTTTTTTAATTAAGCT
* *
48013800 ATTTTCTATTATAATTAAGCT
1 -TTTTCTTTTTTAATTAAGCT
48013821 TTTTCTTTTTTA
1 TTTTCTTTTTTA
48013833 TAACTACAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (20 bp):
TTTTCTTTTTTAATTAAGCT
Found at i:48016278 original size:25 final size:24
Alignment explanation
Indices: 48016245--48016291 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
48016235 TGGGAGATTT
48016245 TTATTTTATTAAATATTAATATAA
1 TTATTTTATTAAATATTAATATAA
*
48016269 TTATATTTATTTAATATTAATAT
1 TTAT-TTTATTAAATATTAATAT
48016292 TAATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTTTATTAAATATTAATATAA
Found at i:48016312 original size:31 final size:31
Alignment explanation
Indices: 48016244--48016306 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
48016234 TTGGGAGATT
*
48016244 TTTATTT--TATTAAATATTAATATAATTATA
1 TTTATTTAATATT-AATATTAATATAATAATA
48016274 TTTATTTAATATTAATATTAATATAA-AAT-
1 TTTATTTAATATTAATATTAATATAATAATA
48016303 TTTA
1 TTTA
48016307 AATTTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.13
30 9 0.30
31 13 0.43
32 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTATTTAATATTAATATTAATATAATAATA
Found at i:48016318 original size:31 final size:31
Alignment explanation
Indices: 48016250--48016318 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
48016240 GATTTTTATT
*
48016250 TTATTAAATATTAATATAATTATATTTATTTA
1 TTATT-AATATTAATATAATAATATTTATTTA
*
48016282 ATATTAATATTAATATAA-AAT-TTTAAATTTA
1 TTATTAATATTAATATAATAATATTT--ATTTA
48016313 TTATTA
1 TTATTA
48016319 TAATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.09
30 2 0.06
31 23 0.72
32 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
TTATTAATATTAATATAATAATATTTATTTA
Found at i:48016325 original size:20 final size:22
Alignment explanation
Indices: 48016287--48016348 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 22
48016277 ATTTAATATT
* *
48016287 AATATTAATA-TAAAATTTT-A
1 AATATTATTATTATAATTTTAA
48016307 AAT-TTATTATTATAATTTTAA
1 AATATTATTATTATAATTTTAA
48016328 AATACTTATTATTATATATTT
1 AATA-TTATTATTATA-ATTT
48016349 CTTTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 5 0.14
20 11 0.31
21 4 0.11
23 11 0.31
24 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATTATTATTATAATTTTAA
Found at i:48020505 original size:5 final size:5
Alignment explanation
Indices: 48020495--48020519 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48020485 ACTAAGATAC
48020495 CAGGG CAGGG CAGGG CAGGG CAGGG
1 CAGGG CAGGG CAGGG CAGGG CAGGG
48020520 GAAATGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.60, T:0.00
Consensus pattern (5 bp):
CAGGG
Found at i:48020990 original size:13 final size:14
Alignment explanation
Indices: 48020967--48020995 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48020957 TAAGTATTTG
48020967 TAAATTTTAAAAAT
1 TAAATTTTAAAAAT
48020981 TAAA-TTTAAAAAT
1 TAAATTTTAAAAAT
48020994 TA
1 TA
48020996 TGATCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAATTTTAAAAAT
Found at i:48021994 original size:25 final size:27
Alignment explanation
Indices: 48021951--48022005 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
48021941 TTTAATTTAA
48021951 ATTTTACAAATAATTTATA-TTCAT-T
1 ATTTTACAAATAATTTATATTTCATAT
*
48021976 ATTTTA-AAATATTTATATATTTCATAT
1 ATTTTACAAATAATT-TATATTTCATAT
48022003 ATT
1 ATT
48022006 ATAATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 10 0.38
26 5 0.19
27 4 0.15
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTACAAATAATTTATATTTCATAT
Found at i:48024024 original size:3 final size:3
Alignment explanation
Indices: 48024016--48024052 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
48024006 TTAAAATGAC
48024016 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48024053 AAAAGACACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48033762 original size:25 final size:24
Alignment explanation
Indices: 48033728--48033780 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
48033718 AAGTTTAAAC
*
48033728 GAGCCATATCAGGAAGTTCAAAAA
1 GAGCCATATCAGGAAGGTCAAAAA
* *
48033752 GAGCCTATATCAGGATGGTCATAAA
1 GAGCC-ATATCAGGAAGGTCAAAAA
48033777 GAGC
1 GAGC
48033781 TGTGTTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGAAGGTCAAAAA
Found at i:48034890 original size:18 final size:18
Alignment explanation
Indices: 48034869--48034904 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48034859 TTCTCATTTT
48034869 CCATGGATGAATCATCAA
1 CCATGGATGAATCATCAA
48034887 CCATGGATGAATCATCAA
1 CCATGGATGAATCATCAA
48034905 AAATATCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (18 bp):
CCATGGATGAATCATCAA
Found at i:48036432 original size:49 final size:49
Alignment explanation
Indices: 48036368--48036599 Score: 248
Period size: 49 Copynumber: 4.7 Consensus size: 49
48036358 CTGGTATGCA
* * * *
48036368 TAGTAGCATGTACTTAGCACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
48036417 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
48036467 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
* * ** *
48036518 TAGTTGCCTGCACTTAGTATTACACATGCAACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
48036567 TAGTAGCTTGCATTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
48036600 TCACAATAGA
Statistics
Matches: 148, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 65 0.44
50 48 0.32
51 35 0.24
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:48040254 original size:100 final size:100
Alignment explanation
Indices: 48040114--48040301 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
48040104 TAGCCAAAGC
* * * * * *
48040114 TATCTGGTACGCATAGTAGCCTGTAGTTAGTATTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAG
48040179 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
* *
48040214 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACACATAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAG
48040279 TAGCCTGCACTTAGTACTACACA
66 TAGCCTGCACTTAGTACTACACA
48040302 CATGACCTCA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAG
TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
Found at i:48040308 original size:49 final size:49
Alignment explanation
Indices: 48040114--48040301 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
48040104 TAGCCAAAGC
* * * * *
48040114 TATCTGGTACGCATAGTAGCCTGTAGTTAGTATTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
48040163 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* *
48040214 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
*
48040263 AATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
48040302 CATGACCTCA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
49 74 0.61
50 6 0.05
51 42 0.34
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:48042066 original size:18 final size:18
Alignment explanation
Indices: 48042045--48042080 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48042035 TTTACAGTCC
48042045 ATAAATACAAGCCCAAAT
1 ATAAATACAAGCCCAAAT
**
48042063 ATAAATTGAAGCCCAAAT
1 ATAAATACAAGCCCAAAT
48042081 TCTAAAACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.19
Consensus pattern (18 bp):
ATAAATACAAGCCCAAAT
Found at i:48047587 original size:13 final size:13
Alignment explanation
Indices: 48047558--48047595 Score: 69
Period size: 12 Copynumber: 3.0 Consensus size: 13
48047548 CTAAAATTCG
48047558 CTAAAAAATAAAA
1 CTAAAAAATAAAA
48047571 -TAAAAAATAAAA
1 CTAAAAAATAAAA
48047583 CTAAAAAATAAAA
1 CTAAAAAATAAAA
48047596 AGTAGTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (13 bp):
CTAAAAAATAAAA
Found at i:48047718 original size:13 final size:13
Alignment explanation
Indices: 48047700--48047724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48047690 AGCAATCATG
48047700 TAAAAAATAAAAC
1 TAAAAAATAAAAC
48047713 TAAAAAATAAAA
1 TAAAAAATAAAA
48047725 AGTAGTTTCA
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAAATAAAAC
Found at i:48049794 original size:100 final size:100
Alignment explanation
Indices: 48049654--48049841 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
48049644 TAGCCAAAGC
* * * * * *
48049654 TATCTGGTACGCATAGTAGCCTGTAGTTAGTATTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAG
48049719 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
* *
48049754 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACACATAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAG
48049819 TAGCCTGCACTTAGTACTACACA
66 TAGCCTGCACTTAGTACTACACA
48049842 CATGACCTCA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAG
TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
Found at i:48049848 original size:49 final size:49
Alignment explanation
Indices: 48049654--48049841 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
48049644 TAGCCAAAGC
* * * * *
48049654 TATCTGGTACGCATAGTAGCCTGTAGTTAGTATTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
48049703 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* *
48049754 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
*
48049803 AATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
48049842 CATGACCTCA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
49 74 0.61
50 6 0.05
51 42 0.34
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:48056880 original size:13 final size:13
Alignment explanation
Indices: 48056851--48056888 Score: 69
Period size: 12 Copynumber: 3.0 Consensus size: 13
48056841 CTAAAATTCG
48056851 CTAAAAAATAAAA
1 CTAAAAAATAAAA
48056864 -TAAAAAATAAAA
1 CTAAAAAATAAAA
48056876 CTAAAAAATAAAA
1 CTAAAAAATAAAA
48056889 AGTAGTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (13 bp):
CTAAAAAATAAAA
Found at i:48064093 original size:50 final size:51
Alignment explanation
Indices: 48063994--48064095 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 51
48063984 AAGTAGTATA
* *
48063994 CTTAAAAAGGAAAAGAGGCCAAAGTGAAAACCTGCAAAGAGCGCTTTGAGAC
1 CTTAAAAA-GAAAAGAGGCCAAAGTGAAAACCCGCAAAGAGCGCATTGAGAC
* * *
48064046 CTTAAAAA-AAAAGAGGCCAATGTGAAAACCCGCAAAGGGCTCATTGAGAC
1 CTTAAAAAGAAAAGAGGCCAAAGTGAAAACCCGCAAAGAGCGCATTGAGAC
48064096 TCTCTATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 37 0.82
52 8 0.18
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (51 bp):
CTTAAAAAGAAAAGAGGCCAAAGTGAAAACCCGCAAAGAGCGCATTGAGAC
Found at i:48064443 original size:16 final size:16
Alignment explanation
Indices: 48064422--48064455 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48064412 GAATTGGCTA
48064422 TCTTTGAAATATTTTT
1 TCTTTGAAATATTTTT
48064438 TCTTTGAAATATTTTT
1 TCTTTGAAATATTTTT
48064454 TC
1 TC
48064456 CCAATCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
TCTTTGAAATATTTTT
Found at i:48065509 original size:44 final size:45
Alignment explanation
Indices: 48065459--48065554 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
48065449 TCTCTCTGAG
* *
48065459 GGAGCAGGCTGAAGATTGTAG-TTTTATCTTCCT-GAGGTAGCAAT
1 GGAGCAGACTGAAGATTGTAGATTTTATC-TCCTCGAGATAGCAAT
*
48065503 GGAGCAGACTGAAGATTGTAGATTTTGTCTCCTCGAGATAGCAAT
1 GGAGCAGACTGAAGATTGTAGATTTTATCTCCTCGAGATAGCAAT
48065548 GG-GCAGA
1 GGAGCAGA
48065555 TCGAGGATAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 29 0.62
45 18 0.38
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (45 bp):
GGAGCAGACTGAAGATTGTAGATTTTATCTCCTCGAGATAGCAAT
Found at i:48065662 original size:44 final size:44
Alignment explanation
Indices: 48065614--48065700 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
48065604 AGCCACCAGC
* * *
48065614 CTTATCTTTCTGAGGTAGCAAGGGAACAGGCTGAAGATTGTAGT
1 CTTATCTTCCTGAGGTAGCAAGGGAACAGACTAAAGATTGTAGT
*
48065658 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAG
1 CTTATCTTCCTGAGGTAGCAAGGGAACAGACTAAAGATTGTAG
48065701 ATTTTGTCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGGAACAGACTAAAGATTGTAGT
Found at i:48065840 original size:44 final size:44
Alignment explanation
Indices: 48065792--48065877 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
48065782 AGCCACTAGC
* **
48065792 CTTATC-TCCTTGAGGTAGCAAGGGAGCAGGTTGAAGATTGTAAT
1 CTTATCTTCC-TGAGGTAGCAAGGGAACAGACTGAAGATTGTAAT
48065836 CTTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGTA
1 CTTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGTA
48065878 GATATTGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 35 0.92
45 3 0.08
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGTAAT
Found at i:48065841 original size:178 final size:176
Alignment explanation
Indices: 48065352--48065998 Score: 728
Period size: 178 Copynumber: 3.7 Consensus size: 176
48065342 TAGTGATTTC
* * * * *
48065352 AGATTTTGTCTCCCTGAA-ATAG-CGATGGAGCAGATCAAAGACGACAAATCTTATCTTCTCGAG
1 AGATTTTGTCT-CCTCAAGATAGTAG-TGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAG
* * * *
48065415 TTAGTAGAGGAGCAGATTTTAGCCACCAGCCTTATCTCT---CT-G--AGGGAGCAGGCTGAAGA
64 GTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTGAGGTAGCAAGGGAGCAGGCTGAAGA
* *
48065474 TTGTAGTTTTATCTTCCTGAGGTAGCAATGGAGCAGACTGAAGATTGT
129 TTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* * * * ** * ** *
48065522 AGATTTTGTCTCCTCGAGATAGCAATGG-GCAGATCGAGGATAGCGAATCTTATCTTCTGGAGGC
1 AGATTTTGTCTCCTCAAGATAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGGT
* *
48065586 AGCA-GGGAGTAGATTTTTAGCCACCAGCCTTATCTTTCTGAGGTAGCAAGGGAACAGGCTGAAG
66 AGCAGGGGAGCAGA-TTTTAGCCACCAGCCTTATC--TCTGAGGTAGCAAGGGAGCAGGCTGAAG
*
48065650 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTAAAGATTGT
128 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
48065699 AGATTTTGTCTCCTCAAGATAGTAGTGGAGCAGATCGAAGACGGCAAAAT-TTATCTTCCCGAGG
1 AGATTTTGTCTCCTCAAGATAGTAGTGGAGCAGATCGAAGACGGC-AAATCTTATCTTCCCGAGG
* * *
48065763 TAGCAGGGGAGTAGATTTTAGCCACTAGCCTTATCTCCTTGAGGTAGCAAGGGAGCAGGTTGAAG
65 TAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCT-C-TGAGGTAGCAAGGGAGCAGGCTGAAG
* *
48065828 ATTGTAATCTTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGT
128 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* * ** * **
48065877 AGATATTGTCTCTTTGAGATAGTAGT-GAGGTAGATCGAA-AGCGGTGAATCTTATCTTCCCGAG
1 AGATTTTGTCTCCTCAAGATAGTAGTGGA-GCAGATCGAAGA-CGGCAAATCTTATCTTCCCGAG
* * *
48065940 GTATCAGGGGAGCATATTTTAGCC-CCTAGCTTTATCTTCCTGAGGTAGCAAGGGAGCAG
64 GTAGCAGGGGAGCAGATTTTAGCCACC-AGCCTTATC-T-CTGAGGTAGCAAGGGAGCAG
48065999 ATTGATGATG
Statistics
Matches: 407, Mismatches: 49, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
168 7 0.02
169 54 0.13
170 18 0.04
171 3 0.01
174 1 0.00
175 1 0.00
176 1 0.00
177 94 0.23
178 213 0.52
179 15 0.04
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (176 bp):
AGATTTTGTCTCCTCAAGATAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGGT
AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTGAGGTAGCAAGGGAGCAGGCTGAAGATT
GTAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
Found at i:48066074 original size:133 final size:134
Alignment explanation
Indices: 48065837--48066084 Score: 320
Period size: 133 Copynumber: 1.9 Consensus size: 134
48065827 GATTGTAATC
* * * *
48065837 TTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATATTGTCTCTTTGAGATAGTAG
1 TTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATATTGTCTCCTCGAGATAGCAA
* * * *
48065902 TGAGGTAGATCGAAAGCGGTGAATCTTATCTTCCCGAGGTATCAGGGGAGCATATTTTAGCCCCT
66 CGAGGCAGATCGAAAACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCATATTTTAGCCCCT
48065967 AGCT
131 AGCT
* * * * *
48065971 TTATCTTCCTGAGGTAGCAAGGGAGCAGATTGATGA-TGCT-GATTTTGTCTCCTCGAGTTAGCA
1 TTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTG-TAGATATTGTCTCCTCGAGATAGCA
* * * *
48066034 ACGGGGCAGATCGAAAATGGTGAGTCTTATCTTCTCGAGGTAGCAGGGGAG
65 ACGAGGCAGATCGAAAACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAG
48066085 TAGATTGAAG
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
133 62 0.65
134 34 0.35
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (134 bp):
TTATCTTCCTGAGGTAGCAAGGGAACAGACTGAAGATTGTAGATATTGTCTCCTCGAGATAGCAA
CGAGGCAGATCGAAAACGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCATATTTTAGCCCCT
AGCT
Found at i:48066078 original size:45 final size:44
Alignment explanation
Indices: 48065971--48066089 Score: 107
Period size: 44 Copynumber: 2.7 Consensus size: 44
48065961 GCCCCTAGCT
* ** *
48065971 TTATCTTC-CTGAGGTAGCAAGGGAGCAGATTGATGATGCTGATT
1 TTATCTTCTC-GAGGTAGCAAGGGAGCAGATCGAAAATGCTGATC
* * * *
48066015 TTGTCTCCTCGAGTTAGCAACGGG-GCAGATCGAAAATGGTGAGTC
1 TTATCTTCTCGAGGTAGCAA-GGGAGCAGATCGAAAATGCTGA-TC
* *
48066060 TTATCTTCTCGAGGTAGCAGGGGAGTAGAT
1 TTATCTTCTCGAGGTAGCAAGGGAGCAGAT
48066090 TGAAGCCACC
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
44 32 0.55
45 26 0.45
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (44 bp):
TTATCTTCTCGAGGTAGCAAGGGAGCAGATCGAAAATGCTGATC
Found at i:48066504 original size:19 final size:20
Alignment explanation
Indices: 48066480--48066517 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48066470 CCAAATATAA
*
48066480 AAACCA-AAATATAAATTAT
1 AAACCAGAAATAAAAATTAT
48066499 AAACCAGAAATAAAAATTA
1 AAACCAGAAATAAAAATTA
48066518 AAATTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.21
Consensus pattern (20 bp):
AAACCAGAAATAAAAATTAT
Found at i:48068137 original size:28 final size:28
Alignment explanation
Indices: 48068117--48068177 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 28
48068107 TTTGTATTAT
48068117 TTTATGTATATATTTTCTTTTAAATCTA
1 TTTATGTATATATTTTCTTTTAAATCTA
*
48068145 TTTATGTTTATATTTGTTTTCTTTTAAATCTA
1 TTTATG--TATA--TATTTTCTTTTAAATCTA
48068177 T
1 T
48068178 ATATAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 6 0.21
30 4 0.14
32 18 0.64
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (28 bp):
TTTATGTATATATTTTCTTTTAAATCTA
Found at i:48068146 original size:16 final size:16
Alignment explanation
Indices: 48068127--48068177 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
48068117 TTTATGTATA
48068127 TATTTTCTTTTAAATC
1 TATTTTCTTTTAAATC
* * *
48068143 TATTTAT-GTTTATATT
1 TATTT-TCTTTTAAATC
*
48068159 TGTTTTCTTTTAAATC
1 TATTTTCTTTTAAATC
48068175 TAT
1 TAT
48068178 ATATAATTTA
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (16 bp):
TATTTTCTTTTAAATC
Found at i:48069447 original size:25 final size:24
Alignment explanation
Indices: 48069419--48069499 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
48069409 CCAAGAAGGT
*
48069419 TTTACAGAGAGTTCGCCAT-AAGGAC
1 TTTACAGA-AGTTCGCCATAAAAG-C
*
48069444 TTTACAGAATATTCGCCATAAAAGC
1 TTTACAGAA-GTTCGCCATAAAAGC
* * *
48069469 TTTATAGAAAGTTCGCCACAAATGC
1 TTTACAG-AAGTTCGCCATAAAAGC
48069494 TTTACA
1 TTTACA
48069500 AAATATTCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.02
25 40 0.87
26 5 0.11
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (24 bp):
TTTACAGAAGTTCGCCATAAAAGC
Found at i:48069512 original size:25 final size:25
Alignment explanation
Indices: 48069443--48069512 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
48069433 GCCATAAGGA
* *
48069443 CTTTACAGAATATTCGCCATAAAAG
1 CTTTACAAAATATTCGCCACAAAAG
* * *
48069468 CTTTATAGAAA-GTTCGCCACAAATG
1 CTTTACA-AAATATTCGCCACAAAAG
*
48069493 CTTTACAAAATATTCACCAC
1 CTTTACAAAATATTCGCCAC
48069513 TGATGCTTAG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 3 0.09
25 30 0.86
26 2 0.06
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (25 bp):
CTTTACAAAATATTCGCCACAAAAG
Found at i:48071250 original size:9 final size:9
Alignment explanation
Indices: 48071236--48071263 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
48071226 TAATTAAAAC
48071236 ATAAAATAA
1 ATAAAATAA
48071245 ATAAAATAA
1 ATAAAATAA
48071254 ATAAAATAA
1 ATAAAATAA
48071263 A
1 A
48071264 GAAATAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAAAATAA
Found at i:48074482 original size:138 final size:138
Alignment explanation
Indices: 48074234--48074510 Score: 545
Period size: 138 Copynumber: 2.0 Consensus size: 138
48074224 GTCGAGGAGA
48074234 AGTGGCGCCAACAATGGCACCATTGGGCACGGTGGTTGTGATTCTTCGATGGTAGAGCAGTGGAA
1 AGTGGCGCCAACAATGGCACCATTGGGCACGGTGGTTGTGATTCTTCGATGGTAGAGCAGTGGAA
*
48074299 AAATTAGACTCCTAGTGGGATTCTATAAGTAACTTGATTTCAAATTAACTTTTCTAAAGAAAATA
66 AAATTAGACACCTAGTGGGATTCTATAAGTAACTTGATTTCAAATTAACTTTTCTAAAGAAAATA
48074364 TTATTTTT
131 TTATTTTT
48074372 AGTGGCGCCAACAATGGCACCATTGGGCACGGTGGTTGTGATTCTTCGATGGTAGAGCAGTGGAA
1 AGTGGCGCCAACAATGGCACCATTGGGCACGGTGGTTGTGATTCTTCGATGGTAGAGCAGTGGAA
48074437 AAATTAGACACCTAGTGGGATTCTATAAGTAACTTGATTTCAAATTAACTTTTCTAAAGAAAATA
66 AAATTAGACACCTAGTGGGATTCTATAAGTAACTTGATTTCAAATTAACTTTTCTAAAGAAAATA
48074502 TTATTTTT
131 TTATTTTT
48074510 A
1 A
48074511 TGAATTTAAT
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (138 bp):
AGTGGCGCCAACAATGGCACCATTGGGCACGGTGGTTGTGATTCTTCGATGGTAGAGCAGTGGAA
AAATTAGACACCTAGTGGGATTCTATAAGTAACTTGATTTCAAATTAACTTTTCTAAAGAAAATA
TTATTTTT
Found at i:48074612 original size:31 final size:31
Alignment explanation
Indices: 48074575--48074678 Score: 131
Period size: 31 Copynumber: 3.4 Consensus size: 31
48074565 TAAATTTAAT
*
48074575 TTAATTTAATATTTATTTAGATAATATTTTA
1 TTAATTTAATATTTATATAGATAATATTTTA
* * **
48074606 TTAATTTAATATTAATAT-GA-GATATTAAA
1 TTAATTTAATATTTATATAGATAATATTTTA
*
48074635 TTTAATTTAATATTTATCTAGATAATATTTTA
1 -TTAATTTAATATTTATATAGATAATATTTTA
48074667 TTAATTTAATAT
1 TTAATTTAATAT
48074679 GAATGTGATT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 6 0.10
30 18 0.30
31 30 0.50
32 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (31 bp):
TTAATTTAATATTTATATAGATAATATTTTA
Found at i:48074621 original size:47 final size:45
Alignment explanation
Indices: 48074506--48074618 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 45
48074496 AAAATATTAT
*
48074506 TTTTATGAATTTAATATTTCATTTAATTTAATATTTTTCTATATA
1 TTTTATGAATTTAATATTTAATTTAATTTAATATTTTTCTATATA
*
48074551 TTAATATGAGATATTAA-ATTTAATTTAATTTAATATTTATT-TAGATAATA
1 TT-TTATGA-AT-TTAATATTTAATTTAATTTAATATTT-TTCT--AT-ATA
*
48074601 TTTTATTAATTTAATATT
1 TTTTATGAATTTAATATT
48074619 AATATGAGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
45 2 0.04
46 5 0.09
47 27 0.48
48 11 0.20
49 6 0.11
50 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (45 bp):
TTTTATGAATTTAATATTTAATTTAATTTAATATTTTTCTATATA
Found at i:48081905 original size:12 final size:12
Alignment explanation
Indices: 48081888--48081912 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48081878 AACCTGCTTC
48081888 TTCTTCTTTTTT
1 TTCTTCTTTTTT
48081900 TTCTTCTTTTTT
1 TTCTTCTTTTTT
48081912 T
1 T
48081913 ATGGAATGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTCTTCTTTTTT
Found at i:48082463 original size:19 final size:20
Alignment explanation
Indices: 48082427--48082464 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48082417 CTCAATGTGA
* *
48082427 CAAAAAAAAGAGTGAAATTG
1 CAAAAAAAAGAATCAAATTG
48082447 CAAAAAAAA-AATCAAATT
1 CAAAAAAAAGAATCAAATT
48082465 ACATTATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.66, C:0.08, G:0.11, T:0.16
Consensus pattern (20 bp):
CAAAAAAAAGAATCAAATTG
Found at i:48086921 original size:51 final size:51
Alignment explanation
Indices: 48086845--48086964 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
48086835 AACTAAGTTA
* *
48086845 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGAAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGAAATAAT
* * * *
48086896 TCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGAAATAAT
*
48086947 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
48086965 TAAGTTTGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGAAATAAT
Found at i:48090317 original size:51 final size:51
Alignment explanation
Indices: 48090241--48090360 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
48090231 AACTAAGTTA
* *
48090241 TCCGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGAAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGAAATAAT
* * * *
48090292 TCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGAAATAAT
*
48090343 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
48090361 TAAGTTTGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGAAATAAT
Found at i:48093313 original size:19 final size:20
Alignment explanation
Indices: 48093289--48093326 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
48093279 TGTGACATTT
*
48093289 AATGCATATG-ATGAAATGC
1 AATGCAGATGCATGAAATGC
48093308 AATGCAGATGCATGAAATG
1 AATGCAGATGCATGAAATG
48093327 AGTGCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (20 bp):
AATGCAGATGCATGAAATGC
Found at i:48095378 original size:3 final size:3
Alignment explanation
Indices: 48095370--48095798 Score: 192
Period size: 3 Copynumber: 143.7 Consensus size: 3
48095360 AATAAAAGGG
* * *
48095370 TAA TAA TAA TAA AAA T-G TAA TAAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
48095415 TAA TAA TAA TAA TAA TAAA TAC GAA -AA GAA -AA TATT TAA T-G TCA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * *
48095459 TAA TAA CAA T-A TAA -AA TTAA TTAG T-T TAA TAA T-A TGA TGA CAA
1 TAA TAA TAA TAA TAA TAA -TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
48095502 TAA TAG TAA TAA TAC T-A TAA TAA TAA -AG TAGA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
** ** * *
48095546 TAA TAA T-A TGT TAA TAA GGA TAA TAG TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
48095593 TAA TAA AAA TAA AAA TAG CAA TGA TAA TAA TAA TAT TGA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
48095639 TAA TAA TAG TAA -AA -AA TAA AAA TAA TAA TAGA AAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA T-AA TAA
* * * *
48095684 -AA AAA TGAA GAA TAA TAA TAA TACA TTAA TAA TAA TAA -AA TCAG GAA
1 TAA TAA T-AA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA T-AA TAA
* * *
48095731 TAA TAA TAA TAA TAA CAA CAA CAA T-A TAAA TAA TAA T-A TGAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA
* *
48095775 AAA TAA TAG TAA TAA TAAA TAA TA
1 TAA TAA TAA TAA TAA T-AA TAA TA
48095799 TATATAAGTA
Statistics
Matches: 321, Mismatches: 73, Indels: 64
0.70 0.16 0.14
Matches are distributed among these distances:
2 31 0.10
3 255 0.79
4 33 0.10
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:48095384 original size:18 final size:17
Alignment explanation
Indices: 48095355--48095429 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 17
48095345 AAAAATATAA
*
48095355 AATAA-AATAAAAGGGT
1 AATAATAATAAAAAGGT
*
48095371 AATAATAATAAAAATGT
1 AATAATAATAAAAAGGT
*
48095388 AATAAATAATAATAA--T
1 AAT-AATAATAAAAAGGT
* *
48095404 AATAATGATAATAA--T
1 AATAATAATAAAAAGGT
48095419 AATAATAATAA
1 AATAATAATAA
48095430 TAAATACGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
15 21 0.40
16 9 0.17
17 12 0.23
18 10 0.19
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
AATAATAATAAAAAGGT
Found at i:48095547 original size:35 final size:35
Alignment explanation
Indices: 48095500--48095745 Score: 129
Period size: 38 Copynumber: 6.4 Consensus size: 35
48095490 ATATGATGAC
*
48095500 AATAATAGTAATAATACT-ATAATAATAAAGTAGAA
1 AATAATAATAATAATA-TAATAATAATAAAGTAGAA
* *
48095535 AATAATAATAATAATAATATGTTAATAAGGATAATAGTA-AT
1 AATAATAATAATAAT-ATA--ATAAT-A--ATAA-AGTAGAA
* *
48095576 AATAATAATAATAATAGTAATAAAAATAAAAATAGCAA
1 AATAATAATAATAATA-TAATAATAAT-AAAGTAG-AA
* * *
48095614 TGATAATAATAATATTGATAATAAATAATAATAGTAAAA
1 -AATAATAATAATAAT-ATAAT-AATAATAA-AGTAGAA
* * **
48095653 AATAAAAATAATAATAGAAAATAATAAATAAAAAAATGAA
1 AATAATAATAATAAT--ATAATAAT-AAT-AAAGTA-GAA
*
48095693 GAATAATAATAATACAT-TAATAATAATAAAATCAGGAA
1 -AATAATAATAATA-ATATAATAATAATAAAGT-A-GAA
48095731 TAATAATAATAATAA
1 -AATAATAATAATAA
48095746 CAACAACAAT
Statistics
Matches: 164, Mismatches: 24, Indels: 44
0.71 0.10 0.19
Matches are distributed among these distances:
35 15 0.09
36 6 0.04
37 7 0.04
38 41 0.25
39 41 0.25
40 14 0.09
41 34 0.21
42 6 0.04
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (35 bp):
AATAATAATAATAATATAATAATAATAAAGTAGAA
Found at i:48095661 original size:22 final size:22
Alignment explanation
Indices: 48095631--48095706 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
48095621 AATAATATTG
48095631 ATAATAAATAATAATAGTAAAA-A
1 ATAA-AAATAATAATAG-AAAATA
48095654 ATAAAAATAATAATAGAAAATA
1 ATAAAAATAATAATAGAAAATA
*
48095676 ATAAATAA-AAAAAT-GAAGAATA
1 ATAAA-AATAATAATAGAA-AATA
*
48095698 ATAATAATA
1 ATAAAAATA
48095707 CATTAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
21 9 0.19
22 32 0.68
23 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (22 bp):
ATAAAAATAATAATAGAAAATA
Found at i:48095850 original size:16 final size:16
Alignment explanation
Indices: 48095817--48095856 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
48095807 TAAAAAGCAG
*
48095817 ATAAATAAATGTAGAA
1 ATAAATAAATGAAGAA
*
48095833 ATAAATAAATGAATAA
1 ATAAATAAATGAAGAA
48095849 ATGAAATA
1 AT-AAATA
48095857 TTAAATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (16 bp):
ATAAATAAATGAAGAA
Found at i:48098741 original size:42 final size:42
Alignment explanation
Indices: 48098678--48098804 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
48098668 CTTCGTTTTC
** * *
48098678 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
48098721 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
48098762 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
48098803 TC
1 TC
48098805 TCACTAATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:48098954 original size:31 final size:31
Alignment explanation
Indices: 48098911--48099090 Score: 279
Period size: 31 Copynumber: 5.8 Consensus size: 31
48098901 CTTGTCACTT
* * *
48098911 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
48098942 GTAGCTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
48098973 GTAGCCGAAGCTACTACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
48099004 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
*
48099035 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
*
48099066 GTAGCTAAAGCTACCACTTTTCACT
1 GTAGCTGAAGCTACCACTTTTCACT
48099091 TGTCATTTGT
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 135 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:48099177 original size:15 final size:15
Alignment explanation
Indices: 48099157--48099186 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48099147 TTTCCTTGAT
48099157 CAGATAAGTGTAGCC
1 CAGATAAGTGTAGCC
48099172 CAGATAAGTGTAGCC
1 CAGATAAGTGTAGCC
48099187 GAAGCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
CAGATAAGTGTAGCC
Found at i:48099185 original size:64 final size:65
Alignment explanation
Indices: 48099108--48099236 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
48099098 TGTCATTGAT
48099108 CAGATAAATGTAGCCGAAGCTATCACTTAT-ACTTTCACTTTTCCTTGATCAGATAAGTGTAGCC
1 CAGATAAATGTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGTGTAGCC
*
48099172 CAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGTGTAGCC
1 CAGATAAATGTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGTGTAGCC
48099237 GAAGCTATCA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 29 0.46
65 34 0.54
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (65 bp):
CAGATAAATGTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGTGTAGCC
Found at i:48109381 original size:25 final size:24
Alignment explanation
Indices: 48109337--48109391 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
48109327 GTGATTCATT
*
48109337 AATTAAATTAATTCTAAATAAAAA
1 AATTAAATTAATTATAAATAAAAA
*
48109361 AATTAGAATTAA-T-T-AATAATAA
1 AATTA-AATTAATTATAAATAAAAA
48109383 AATTAAATT
1 AATTAAATT
48109392 GTATTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.14
22 12 0.41
23 1 0.03
24 6 0.21
25 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AATTAAATTAATTATAAATAAAAA
Found at i:48115551 original size:31 final size:31
Alignment explanation
Indices: 48115509--48115570 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
48115499 AGACCCAAAA
*
48115509 AAATTAAGTACC-AACTTAA-AAAAAATTGTC
1 AAATTAAGTACCGAA-TTAAGAAAAAAATGTC
48115539 AAATATAAGTACCGAATTAAGAAAAAAATGTC
1 AAAT-TAAGTACCGAATTAAGAAAAAAATGTC
48115571 TAGTTAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 4 0.14
31 12 0.43
32 12 0.43
ACGTcount: A:0.55, C:0.11, G:0.10, T:0.24
Consensus pattern (31 bp):
AAATTAAGTACCGAATTAAGAAAAAAATGTC
Found at i:48116651 original size:32 final size:27
Alignment explanation
Indices: 48116613--48116687 Score: 82
Period size: 26 Copynumber: 2.7 Consensus size: 27
48116603 TATAAGTATG
48116613 TGTATATATATATAAAAACACGTATGTACATA
1 TGTATATATATATAAAAA-A-GTA--TA-ATA
*
48116645 TGTATATATAT-TATAAAAGTATAATA
1 TGTATATATATATAAAAAAGTATAATA
48116671 TGTATATATATA-AAAAA
1 TGTATATATATATAAAAA
48116688 TGGGTACGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 18 0.45
27 2 0.05
29 3 0.08
30 1 0.03
31 5 0.12
32 11 0.28
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (27 bp):
TGTATATATATATAAAAAAGTATAATA
Found at i:48116751 original size:30 final size:29
Alignment explanation
Indices: 48116717--48116788 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
48116707 ATATATTACA
48116717 TAAAAATAAAAGATATAAGTATGTATATCG
1 TAAAAATAAAAGATATAAGTATGTATAT-G
* *
48116747 T-AAAATAAAACAATGTAAGTATGTATATG
1 TAAAAATAAAA-GATATAAGTATGTATATG
* *
48116776 TATATATAAAAGA
1 TAAAAATAAAAGA
48116789 AAATAGACGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.54, C:0.03, G:0.12, T:0.31
Consensus pattern (29 bp):
TAAAAATAAAAGATATAAGTATGTATATG
Found at i:48116917 original size:18 final size:18
Alignment explanation
Indices: 48116896--48116955 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
48116886 AAAATATGTT
*
48116896 TATAAAAAGATATATAGA
1 TATAAAAAGATATAAAGA
*
48116914 TATATAATAAGATATAAATA
1 TATA-AA-AAGATATAAAGA
*
48116934 TATAATAAGATATAAAGA
1 TATAAAAAGATATAAAGA
48116952 TATA
1 TATA
48116956 TATAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TATAAAAAGATATAAAGA
Found at i:48123995 original size:26 final size:25
Alignment explanation
Indices: 48123966--48124030 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
48123956 AAAAATAAGT
48123966 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
48123992 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
48124017 -TATATTTATATATA
1 GTATATGTATATATA
48124031 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:48126616 original size:3 final size:3
Alignment explanation
Indices: 48126604--48126637 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
48126594 AGAAGCATGT
48126604 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
48126638 CTGTCTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48131821 original size:181 final size:181
Alignment explanation
Indices: 48131517--48131879 Score: 726
Period size: 181 Copynumber: 2.0 Consensus size: 181
48131507 AATTTCAGTT
48131517 AGGTCCCTAGCAATCCATATTTTTTATTTATTTCACAATTTAGCCATGAATTTTACACATTTCAC
1 AGGTCCCTAGCAATCCATATTTTTTATTTATTTCACAATTTAGCCATGAATTTTACACATTTCAC
48131582 AATTTAATCCCTATTTGGACATTTTACTAAAAATTACTTAACGAATATTGTTTATCTAACAACAA
66 AATTTAATCCCTATTTGGACATTTTACTAAAAATTACTTAACGAATATTGTTTATCTAACAACAA
48131647 GCATATATTTTCTACCATTAAACATCAAAACACATGCTATTTCATCAAAGG
131 GCATATATTTTCTACCATTAAACATCAAAACACATGCTATTTCATCAAAGG
48131698 AGGTCCCTAGCAATCCATATTTTTTATTTATTTCACAATTTAGCCATGAATTTTACACATTTCAC
1 AGGTCCCTAGCAATCCATATTTTTTATTTATTTCACAATTTAGCCATGAATTTTACACATTTCAC
48131763 AATTTAATCCCTATTTGGACATTTTACTAAAAATTACTTAACGAATATTGTTTATCTAACAACAA
66 AATTTAATCCCTATTTGGACATTTTACTAAAAATTACTTAACGAATATTGTTTATCTAACAACAA
48131828 GCATATATTTTCTACCATTAAACATCAAAACACATGCTATTTCATCAAAGG
131 GCATATATTTTCTACCATTAAACATCAAAACACATGCTATTTCATCAAAGG
48131879 A
1 A
48131880 AAAACTCTAA
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 182 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.37
Consensus pattern (181 bp):
AGGTCCCTAGCAATCCATATTTTTTATTTATTTCACAATTTAGCCATGAATTTTACACATTTCAC
AATTTAATCCCTATTTGGACATTTTACTAAAAATTACTTAACGAATATTGTTTATCTAACAACAA
GCATATATTTTCTACCATTAAACATCAAAACACATGCTATTTCATCAAAGG
Done.