Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 148 of 352
Found at i:48590316 original size:79 final size:79
Alignment explanation
Indices: 48590163--48590327 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
48590153 GGACTAAGAT
* **
48590163 CCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAGGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAGGCCCGAAGGCATTGGAACGAGTTACTAA
*
48590228 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
48590242 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTA-GGCCCGAAGGCATTGGAACGAGTTA-C
* *
48590305 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48590321 CCGAAGG
1 CCGAAGG
48590328 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAGGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48598300 original size:40 final size:40
Alignment explanation
Indices: 48598159--48598336 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
48598149 ATGTCCAGCA
* * * * *
48598159 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGC
* *
48598199 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGAGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
* * *
48598239 T-AGGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
48598278 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGC
*
48598318 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
48598337 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.28
40 74 0.63
41 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
Found at i:48598358 original size:79 final size:79
Alignment explanation
Indices: 48598205--48598359 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
48598195 GGACTAAGAT
* **
48598205 CCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAGGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAGGCCCGAAGGCATTGGAACGAGTTACTAA
48598270 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
48598284 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTA-GGCCCGAAGGCATTGGAACGAGTTA-C
*
48598347 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
48598360 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAGGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:48600162 original size:21 final size:21
Alignment explanation
Indices: 48600138--48600186 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
48600128 GTGGGGCACA
*
48600138 GGCGTGTTATCCTCCCACACG
1 GGCGTGTTACCCTCCCACACG
* *
48600159 GGCGTGTTACCCTTCTACACG
1 GGCGTGTTACCCTCCCACACG
*
48600180 GACGTGT
1 GGCGTGT
48600187 GCCCTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.14, C:0.33, G:0.27, T:0.27
Consensus pattern (21 bp):
GGCGTGTTACCCTCCCACACG
Found at i:48607681 original size:21 final size:21
Alignment explanation
Indices: 48607657--48607697 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48607647 GGTACGTGTG
* *
48607657 TGCTACTCTCCCATACGGGCC
1 TGCTACCCTCCCACACGGGCC
*
48607678 TGCTACCCTTCCACACGGGC
1 TGCTACCCTCCCACACGGGC
48607698 TTGTGCCCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.44, G:0.20, T:0.22
Consensus pattern (21 bp):
TGCTACCCTCCCACACGGGCC
Found at i:48611241 original size:43 final size:43
Alignment explanation
Indices: 48611194--48611341 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
48611184 TCCCAGATAT
* * *
48611194 GGTCTTACATGTTATCAC-ATATCGAAGCCACTGTCCCAAACAG
1 GGTCTTACACGTAATCACAATA-CGAAGCCAATGTCCCAAACAG
* * * * *
48611237 GGTCTTACACGAAATCATAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACAATACGAAGCCAATGTCCCAAACAG
* * *
48611280 GGTCTTACACGTAATCACAATAC-AATGCCAATGTCCCAGAGAT
1 GGTCTTACACGTAATCACAATACGAA-GCCAATGTCCCAAACAG
*
48611323 GGTCTTACACGTATTCACA
1 GGTCTTACACGTAATCACA
48611342 TCTCGATAAC
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 86 0.96
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGTAATCACAATACGAAGCCAATGTCCCAAACAG
Found at i:48611329 original size:86 final size:85
Alignment explanation
Indices: 48611176--48611333 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 85
48611166 AGCTCACACA
* * * *
48611176 ATGCCAAATCCCAGATATGGTCTTACATGTTATCACATATCGAAGCCACTGTCCCAAACAGGGTC
1 ATGCCAAATCCCAGACATGGTCTTACACGTAATCACATATCGAAGCCAATGTCCCAAACAGGGTC
48611241 TTACACGAAATCATAATACG
66 TTACACGAAATCATAATACG
* * * *
48611261 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATAC-AATGCCAATGTCCCAGAGATG
1 ATGCCAA-ATCCCAGACATGGTCTTACACGTAATCACATAT-CGAA-GCCAATGTCCCAAACAGG
48611324 GTCTTACACG
63 GTCTTACACG
48611334 TATTCACATC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
85 11 0.18
86 51 0.82
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (85 bp):
ATGCCAAATCCCAGACATGGTCTTACACGTAATCACATATCGAAGCCAATGTCCCAAACAGGGTC
TTACACGAAATCATAATACG
Found at i:48616080 original size:27 final size:27
Alignment explanation
Indices: 48616050--48616227 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
48616040 ATATTGAGCC
* * *
48616050 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
48616077 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
48616104 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
48616132 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
48616159 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
48616186 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
48616213 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48616228 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:48616143 original size:55 final size:55
Alignment explanation
Indices: 48616050--48616227 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
48616040 ATATTGAGCC
* * *
48616050 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
48616104 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
48616159 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
48616213 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48616228 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:48616189 original size:82 final size:81
Alignment explanation
Indices: 48616071--48616226 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
48616061 TGCTATACAA
* * *
48616071 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
48616136 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
48616153 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
48616217 CACTTAGTGC
65 CACTTAGTGC
48616227 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48619180 original size:22 final size:22
Alignment explanation
Indices: 48619155--48619198 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48619145 TAGTCATATA
*
48619155 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAAAATAATAAAT
* *
48619177 ATAATTTCTTAAAATAATAAAT
1 ATAAATTATTAAAATAATAAAT
48619199 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAATTATTAAAATAATAAAT
Found at i:48619234 original size:13 final size:14
Alignment explanation
Indices: 48619218--48619259 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
48619208 TTTCAATTTT
48619218 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
48619231 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
48619246 ATTTTAAATAATAT
1 ATTTT-AATAATAT
48619260 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:48619244 original size:16 final size:16
Alignment explanation
Indices: 48619222--48619258 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
48619212 AATTTTATTT
48619222 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
48619239 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
48619254 TAATA
1 TAATA
48619259 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:48620823 original size:30 final size:30
Alignment explanation
Indices: 48620787--48620848 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
48620777 AATCGAAAGT
48620787 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
* *
48620817 TTTGGCACTAAGTGTGTGGTTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
48620847 TT
1 TT
48620849 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:48622284 original size:14 final size:14
Alignment explanation
Indices: 48622265--48622303 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
48622255 CCAAAAAAGT
48622265 AAATCATTTTCTAG
1 AAATCATTTTCTAG
48622279 AAATCATTTTCTAG
1 AAATCATTTTCTAG
*
48622293 AAGTCATTTTC
1 AAATCATTTTC
48622304 AGTGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:48623890 original size:5 final size:5
Alignment explanation
Indices: 48623880--48623921 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
48623870 GAATTAAGTA
*
48623880 TATAT TATAT TATAT TTTAT TATA- T-TAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
48623922 ATAAAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 29 0.88
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:48623909 original size:8 final size:8
Alignment explanation
Indices: 48623878--48623915 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
48623868 AAGAATTAAG
48623878 TATA-TAT
1 TATATTAT
48623885 TATATTA-
1 TATATTAT
*
48623892 TATTTTAT
1 TATATTAT
48623900 TATATTAT
1 TATATTAT
48623908 TATATTAT
1 TATATTAT
48623916 ATTATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 10 0.37
8 17 0.63
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATATTAT
Found at i:48623979 original size:16 final size:16
Alignment explanation
Indices: 48623958--48624037 Score: 51
Period size: 16 Copynumber: 4.9 Consensus size: 16
48623948 AAATAAGAAA
48623958 AAAGAAAAAGAAAAAG
1 AAAGAAAAAGAAAAAG
* *
48623974 AAAGAAACATAAAAAG
1 AAAGAAAAAGAAAAAG
48623990 ACAA-ACAAATTAG-AAAAG
1 A-AAGA-AAA--AGAAAAAG
48624008 AAAGAAATAA-AAAAA-
1 AAAGAAA-AAGAAAAAG
*
48624023 AAGAGAGAAAGAAAA
1 AA-AGAAAAAGAAAA
48624038 GGGAGAAAGG
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
15 4 0.08
16 29 0.58
17 8 0.16
18 8 0.16
19 1 0.02
ACGTcount: A:0.76, C:0.04, G:0.15, T:0.05
Consensus pattern (16 bp):
AAAGAAAAAGAAAAAG
Found at i:48624024 original size:18 final size:18
Alignment explanation
Indices: 48624003--48624037 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48623993 AACAAATTAG
*
48624003 AAAAGAAAGAAATAAAAA
1 AAAAGAAAGAAAGAAAAA
*
48624021 AAAAGAGAGAAAGAAAA
1 AAAAGAAAGAAAGAAAA
48624038 GGGAGAAAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAGAAAGAAAGAAAAA
Found at i:48624741 original size:24 final size:24
Alignment explanation
Indices: 48624714--48624760 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
48624704 ATTGAAATGG
48624714 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
48624738 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
48624761 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:48625049 original size:40 final size:40
Alignment explanation
Indices: 48624919--48625057 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
48624909 AACTTTGAGT
* * * **
48624919 CGATGAGACACTGAGTGTCAATTTACTACTTCGAATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ACC
* * * * ** *
48624960 TGATGAGGCA-TGGGTGGC-AA-T-TTATTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTACC
*
48624996 CAATGAGACACTGGGTGTCAAATTATTACTTCGAATTACC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTACC
* *
48625036 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
48625058 CTGGTGTGTT
Statistics
Matches: 72, Mismatches: 22, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
36 8 0.11
37 15 0.21
38 3 0.04
39 2 0.03
40 36 0.50
41 8 0.11
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTACC
Found at i:48628632 original size:40 final size:39
Alignment explanation
Indices: 48628391--48628618 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 39
48628381 TGTTCGGATG
* * *
48628391 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACT
* *
48628431 A-ATTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
* * * *
48628471 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGATCTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTACT
* * *
48628511 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
*
48628551 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
*
48628590 ATAACCGGGCTGAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
48628619 AGCTAGTGGC
Statistics
Matches: 164, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 36 0.22
40 124 0.76
41 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACT
Found at i:48628649 original size:79 final size:79
Alignment explanation
Indices: 48628435--48628616 Score: 269
Period size: 79 Copynumber: 2.3 Consensus size: 79
48628425 GTGGCTAATT
*
48628435 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
48628500 TGCGATCTATTATAT
65 TGCAATCTACTATAA
*
48628515 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
48628579 TGCAAGT-TACTATAA
65 TGCAA-TCTACTATAA
*
48628594 CCGGGCTGAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
48628617 TGAGCTAGTG
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 56 0.60
80 38 0.40
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAATCTACTATAA
Found at i:48636148 original size:40 final size:40
Alignment explanation
Indices: 48636104--48636283 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
48636094 GGCTAATTCT
*
48636104 GGGCTAAGTCCCAAAGGCATTCGTGCGAGCTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCC
* *
48636144 GGGCTAAGTCCCGAAGGCGTTCGTGCGAGCTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCC
* *
48636184 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA-CC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCC
* * * * *
48636223 GGTCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCC
48636263 GGGCTAAGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
48636284 TGAGTTAGTG
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 35 0.27
40 94 0.73
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCC
Found at i:48636273 original size:79 final size:80
Alignment explanation
Indices: 48636104--48636283 Score: 263
Period size: 79 Copynumber: 2.3 Consensus size: 80
48636094 GGCTAATTCT
* *
48636104 GGGCTAAGTCCCAAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTCGTG
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
* * *
48636169 CGAGCTATTATATCC
66 CAAGCTACTATAACC
* * * *
48636184 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA-CCGGTCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
*
48636248 CAAGTTACTATAACC
66 CAAGCTACTATAACC
48636263 GGGCTAAGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
48636284 TGAGTTAGTG
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 56 0.62
80 34 0.38
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTG
CAAGCTACTATAACC
Found at i:48636317 original size:79 final size:79
Alignment explanation
Indices: 48636104--48636308 Score: 234
Period size: 79 Copynumber: 2.6 Consensus size: 79
48636094 GGCTAATTCT
* * *
48636104 GGGCTAAGTCCCAAAGGCATTCGTGCGAGCT-ACTATATCCGGGCTAAGTCCCGAAGGCGTTCGT
1 GGGCTAAGTCCCGAAGGCATTCGAGCGAG-TGACTATATCC-GGCTAAGTCCCGAAGGCATTCGT
* * *
48636168 GCGAGCTATTATATCC
64 GCAAGCTACTATAACC
* * * *
48636184 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA-CCGGTCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTCGAGCGAGTGACTATATCCGG-CTAAGTCCCGAAGGCATTCGTG
*
48636248 CAAGTTACTATAACC
65 CAAGCTACTATAACC
* ** *
48636263 GGGCTAAGTCCCGAAGGCATTTGAGTTAGTGGCTATATCCGGCTAA
1 GGGCTAAGTCCCGAAGGCATTCGAGCGAGTGACTATATCCGGCTAA
48636309 ACTCCGAAGT
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 68 0.64
80 37 0.35
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTCGAGCGAGTGACTATATCCGGCTAAGTCCCGAAGGCATTCGTGC
AAGCTACTATAACC
Found at i:48644023 original size:40 final size:40
Alignment explanation
Indices: 48643979--48644075 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
48643969 TTTCAATTTG
**
48643979 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATA
** *
48644019 TGGCACTTAGTGTGCGATTTTAGATAGCTTCAACTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATA
***
48644059 CAACACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
48644076 GATATCGAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATA
Found at i:48644106 original size:28 final size:28
Alignment explanation
Indices: 48644062--48644129 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
48644052 CTATATACAA
* * *
48644062 CACTTAGTGTGCGAGATATCGAGTGTGG
1 CACTTAGTGTGCAAGATATCAAGTATGG
* *
48644090 TACTTAGTGTGCAAGATTTCAAGTATGG
1 CACTTAGTGTGCAAGATATCAAGTATGG
48644118 CACTTAGTGTGC
1 CACTTAGTGTGC
48644130 GAGGCATTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (28 bp):
CACTTAGTGTGCAAGATATCAAGTATGG
Found at i:48644142 original size:28 final size:27
Alignment explanation
Indices: 48644062--48644143 Score: 69
Period size: 28 Copynumber: 2.9 Consensus size: 27
48644052 CTATATACAA
*
48644062 CACTTAGTGTGCGA-GATATCGAGTGTGG
1 CACTTAGTGTGCGAGGAT-T-GAGTATGG
* * *
48644090 TACTTAGTGTGC-AAGATTTCAAGTATGG
1 CACTTAGTGTGCGAGGA-TT-GAGTATGG
48644118 CACTTAGTGTGCGAGGCATTGAGTAT
1 CACTTAGTGTGCGAGG-ATTGAGTAT
48644144 TCAACAGCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.02
28 37 0.84
29 5 0.11
30 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (27 bp):
CACTTAGTGTGCGAGGATTGAGTATGG
Found at i:48645654 original size:21 final size:21
Alignment explanation
Indices: 48645628--48645667 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
48645618 CCTCAGAGAG
48645628 TTAGATATTTCATTTGGCTCA
1 TTAGATATTTCATTTGGCTCA
48645649 TTAGATATTTCATTTGGCT
1 TTAGATATTTCATTTGGCT
48645668 TATTCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (21 bp):
TTAGATATTTCATTTGGCTCA
Found at i:48660432 original size:23 final size:20
Alignment explanation
Indices: 48660393--48660437 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 20
48660383 CAATACTTGT
48660393 AAACATATACCAGCCAATTC
1 AAACATATACCAGCCAATTC
48660413 AAACATTATAACCAAGCCAATTC
1 AAACA-TAT-ACC-AGCCAATTC
48660436 AA
1 AA
48660438 GCACCTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.23
21 3 0.14
22 3 0.14
23 11 0.50
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (20 bp):
AAACATATACCAGCCAATTC
Found at i:48660953 original size:28 final size:29
Alignment explanation
Indices: 48660918--48660979 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
48660908 CTCAAATAAG
*
48660918 CAAGTTAGTCACATAATTCACATGTACAT
1 CAAGTTAGTCACATAATTCAAATGTACAT
48660947 -AAGTTAGTCACATAATTCAAATGTACAT
1 CAAGTTAGTCACATAATTCAAATGTACAT
48660975 CAAGT
1 CAAGT
48660980 AAGCATTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (29 bp):
CAAGTTAGTCACATAATTCAAATGTACAT
Found at i:48663784 original size:29 final size:29
Alignment explanation
Indices: 48663717--48663838 Score: 174
Period size: 29 Copynumber: 4.2 Consensus size: 29
48663707 AAGTCTACAT
* *
48663717 ACATGCATATGGCCCAATAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
48663745 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** * *
48663774 ACATTTGTATGGACCATTAGGCCCAAATA
1 ACATTCATATGGCCCATTAGGCCCAAATC
48663803 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
48663832 ACATTCA
1 ACATTCA
48663839 GATACATGCT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 21 0.26
29 60 0.74
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48664078 original size:15 final size:16
Alignment explanation
Indices: 48664052--48664085 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
48664042 ATAGCTAAAC
48664052 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
48664068 TTTCA-CTTTTCGGGA
1 TTTCAGCTTTTCGGCA
48664083 TTT
1 TTT
48664086 GCCGATCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.50
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:48679401 original size:35 final size:35
Alignment explanation
Indices: 48679355--48679425 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
48679345 CATCTCCGGA
*
48679355 GCTTGGCAAATATGGGAAGTA-ATCTTCAAAGATAT
1 GCTTGGCAAATAT-GGAAGGAGATCTTCAAAGATAT
48679390 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
48679425 G
1 G
48679426 TGATCCTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 6 0.18
35 28 0.82
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGGAGATCTTCAAAGATAT
Found at i:48684500 original size:35 final size:35
Alignment explanation
Indices: 48684454--48684524 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
48684444 CATCTTCGGA
*
48684454 GCTTGGAAAATAT-GAAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAATATAG-AAAGGAATCTTCAAAGATAT
* * *
48684489 GCTTGGCAAATATAGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATAGAAAGGAATCTTCAAAGATAT
48684524 G
1 G
48684525 TGATCCTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATAGAAAGGAATCTTCAAAGATAT
Found at i:48685870 original size:47 final size:45
Alignment explanation
Indices: 48685798--48686020 Score: 189
Period size: 47 Copynumber: 4.7 Consensus size: 45
48685788 TGATTTGTGC
* *
48685798 GCCAGTGTAAGACATGTCCGGGACATGCTTCTGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGAGA
** ** *
48685844 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACA-TTATGAGA
* * * *
48685892 GCCAGAGTAAGACATGTTTGGGACATGCATTGGCCTCGA-TA-GAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCA-TCGCCAC-ATTATGAG--A
**
48685939 GCCAGTGTAAGACATGTCTGGGACATGCATCAACATGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGCCA--CAT-TATGAGA
*
48685987 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
48686021 ACAATTTATC
Statistics
Matches: 140, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
45 3 0.02
46 18 0.13
47 61 0.44
48 35 0.25
49 15 0.11
50 8 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGCCACATTATGAGA
Found at i:48693056 original size:40 final size:40
Alignment explanation
Indices: 48692971--48693238 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
48692961 TCCAAACACA
* *
48692971 AATGCCTTCGGGACTTAGCCCGGATATAAC-ACCAGTACG
1 AATGCCTTCGGAACTTAGCCCGGATATAACAACCAGCACG
* * * *
48693010 AGTGCCTTCGGAACTTGGCCCGAATATAACAACCAGCACA
1 AATGCCTTCGGAACTTAGCCCGGATATAACAACCAGCACG
* **
48693050 AATGCCTTCAGAACTTAGCCCGGATATAATGACCAGCACG
1 AATGCCTTCGGAACTTAGCCCGGATATAACAACCAGCACG
* *
48693090 AATGCCTTC-GAGACTTAACTCGGATATAACAACCAGCACG
1 AATGCCTTCGGA-ACTTAGCCCGGATATAACAACCAGCACG
*
48693130 AATGCCTTCGGAACTTAGCCCAGATATAACAACCAGCACG
1 AATGCCTTCGGAACTTAGCCCGGATATAACAACCAGCACG
* *
48693170 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
1 AATGCCTTCGGAACTTAGCCCGGATATAACAACCAGCACG
* * *
48693210 AACGCCTTCGGAACTTAACCCAGATATAA
1 AATGCCTTCGGAACTTAGCCCGGATATAA
48693239 TCCTCAATTG
Statistics
Matches: 200, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 28 0.14
40 170 0.85
41 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (40 bp):
AATGCCTTCGGAACTTAGCCCGGATATAACAACCAGCACG
Found at i:48695324 original size:23 final size:21
Alignment explanation
Indices: 48695284--48695333 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
48695274 GGCTGTCACA
48695284 CAAACA-TATACCAGCCAATT
1 CAAACACTATACCAGCCAATT
48695304 CAAACACTATAACCAAGCCAATT
1 CAAACACTAT-ACC-AGCCAATT
*
48695327 CTAACAC
1 CAAACAC
48695334 CTAACATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 3 0.12
22 3 0.12
23 14 0.54
ACGTcount: A:0.46, C:0.32, G:0.04, T:0.18
Consensus pattern (21 bp):
CAAACACTATACCAGCCAATT
Found at i:48702058 original size:33 final size:33
Alignment explanation
Indices: 48702007--48702109 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 33
48701997 AACAGTGCAT
* * *
48702007 ACAGTAACGGTCTAGGCCTGAGCCCTATTCAATA
1 ACAGT-ACAGTCTAGGCCTAAGCCCTATGCAATA
* * *
48702041 ATAGTACAGTCTAGGCCTCAGCCCTATGCAGTA
1 ACAGTACAGTCTAGGCCTAAGCCCTATGCAATA
*
48702074 ACAGTACAGTCTAGGCCTAAGCCCTATGCAGTA
1 ACAGTACAGTCTAGGCCTAAGCCCTATGCAATA
48702107 ACA
1 ACA
48702110 ATGTAGGCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 58 0.94
34 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (33 bp):
ACAGTACAGTCTAGGCCTAAGCCCTATGCAATA
Found at i:48702515 original size:28 final size:28
Alignment explanation
Indices: 48702467--48702526 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
48702457 CTACTTCTAA
* * *
48702467 GGTATAATAGTCATTTCTACCCATTAGG
1 GGTAGAATAGTAATTTCTACCCATCAGG
*
48702495 GGTAGAATAGTAAGTTT-TACCCCTCAGG
1 GGTAGAATAGTAA-TTTCTACCCATCAGG
48702523 GGTA
1 GGTA
48702527 TTTTGGTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (28 bp):
GGTAGAATAGTAATTTCTACCCATCAGG
Found at i:48705146 original size:28 final size:28
Alignment explanation
Indices: 48705098--48705188 Score: 119
Period size: 29 Copynumber: 3.2 Consensus size: 28
48705088 AAGTCTACAT
*
48705098 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
* *
48705126 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCC-AATC
* *
48705155 ACATTCATACGACCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCC-AATC
48705184 ACATT
1 ACATT
48705189 TTTATACATG
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.31, C:0.34, G:0.13, T:0.22
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:48706995 original size:27 final size:28
Alignment explanation
Indices: 48706963--48707024 Score: 99
Period size: 27 Copynumber: 2.2 Consensus size: 28
48706953 GGACTAAATT
**
48706963 GTGAAAAATTCAAAATTTAGGGGTTTAA
1 GTGAAAAATTCAAAATTTAAAGGTTTAA
48706991 -TGAAAAATTCAAAATTTAAAGGTTTAA
1 GTGAAAAATTCAAAATTTAAAGGTTTAA
48707018 GTGAAAA
1 GTGAAAA
48707025 TAGGGAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.31
Consensus pattern (28 bp):
GTGAAAAATTCAAAATTTAAAGGTTTAA
Found at i:48707438 original size:20 final size:19
Alignment explanation
Indices: 48707406--48707446 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
48707396 TCGGTATATG
*
48707406 ATGAATTAATTGAATTTAT
1 ATGAATTAATTGAATTCAT
48707425 ATGAATTGAATTGAATTCAT
1 ATGAATT-AATTGAATTCAT
48707445 AT
1 AT
48707447 TTATATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (19 bp):
ATGAATTAATTGAATTCAT
Found at i:48715355 original size:39 final size:39
Alignment explanation
Indices: 48715302--48715384 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
48715292 CGTTTTAATG
* *
48715302 AAAAATGCCGCTAAAGATCGAGCATTAGTGGGGCTTTTT
1 AAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT
*
48715341 GAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT
1 AAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT
48715380 AAAAA
1 AAAAA
48715385 ACGCTGCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (39 bp):
AAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT
Found at i:48715895 original size:7 final size:7
Alignment explanation
Indices: 48715874--48715967 Score: 91
Period size: 7 Copynumber: 13.4 Consensus size: 7
48715864 TTAATTATCA
*
48715874 TTATAGT
1 TTATGGT
*
48715881 TTAGGGT
1 TTATGGT
48715888 TTATGGT
1 TTATGGT
*
48715895 TTAGGGT
1 TTATGGT
*
48715902 GTATGG-
1 TTATGGT
*
48715908 TTAAGGT
1 TTATGGT
*
48715915 TTAAGGT
1 TTATGGT
*
48715922 TTATGGA
1 TTATGGT
48715929 TTATGGGT
1 TTAT-GGT
* *
48715937 TTAGGGA
1 TTATGGT
48715944 TTATGGT
1 TTATGGT
48715951 TTATGGT
1 TTATGGT
48715958 TTATGGT
1 TTATGGT
48715965 TTA
1 TTA
48715968 AGGGTTGGGG
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
6 4 0.06
7 61 0.87
8 5 0.07
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:48715896 original size:14 final size:14
Alignment explanation
Indices: 48715874--48715973 Score: 103
Period size: 14 Copynumber: 7.1 Consensus size: 14
48715864 TTAATTATCA
*
48715874 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
48715888 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
48715902 GTATGG-TTAAGGT
1 TTATGGTTTAGGGT
* * *
48715915 TTAAGGTTTATGGA
1 TTATGGTTTAGGGT
*
48715929 TTATGGGTTTAGGGA
1 TTAT-GGTTTAGGGT
*
48715944 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
48715958 TTATGGTTTAAGGGT
1 TTATGGTTT-AGGGT
48715973 T
1 T
48715974 GGGGGTTAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
13 10 0.14
14 43 0.61
15 18 0.25
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:48715986 original size:7 final size:7
Alignment explanation
Indices: 48715906--48716015 Score: 58
Period size: 7 Copynumber: 15.6 Consensus size: 7
48715896 TAGGGTGTAT
48715906 GGTTAAG
1 GGTTAAG
*
48715913 GTTTAAG
1 GGTTAAG
* *
48715920 GTTTATG
1 GGTTAAG
* *
48715927 GATTATG
1 GGTTAAG
*
48715934 GGTTTAG
1 GGTTAAG
*
48715941 GGATTATG
1 GG-TTAAG
* *
48715949 GTTTATG
1 GGTTAAG
* *
48715956 GTTTATG
1 GGTTAAG
*
48715963 GTTTAAG
1 GGTTAAG
**
48715970 GGTTGGG
1 GGTTAAG
48715977 GGTTAAG
1 GGTTAAG
48715984 GGTTAAG
1 GGTTAAG
*
48715991 GGTTAGG
1 GGTTAAG
*
48715998 GGTTAAA
1 GGTTAAG
*
48716005 GGTTAAT
1 GGTTAAG
48716012 GGTT
1 GGTT
48716016 TATGATTTAG
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
7 79 0.95
8 4 0.05
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (7 bp):
GGTTAAG
Found at i:48715991 original size:21 final size:21
Alignment explanation
Indices: 48715965--48716015 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
48715955 GGTTTATGGT
* *
48715965 TTAAGGGTTGGGGGTTAAGGG
1 TTAAGGGTTAGGGGTTAAAGG
48715986 TTAAGGGTTAGGGGTTAAAGG
1 TTAAGGGTTAGGGGTTAAAGG
*
48716007 TTAATGGTT
1 TTAAGGGTT
48716016 TATGATTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTAAAGG
Found at i:48716176 original size:14 final size:14
Alignment explanation
Indices: 48716154--48716205 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
48716144 TTAATTATGA
*
48716154 TTACAGTTTAGGGT
1 TTACGGTTTAGGGT
48716168 TTACGGTTTAGGGT
1 TTACGGTTTAGGGT
* * *
48716182 ATATGGTTAAGGGT
1 TTACGGTTTAGGGT
*
48716196 TTAAGGTTTA
1 TTACGGTTTA
48716206 CGAGTTACTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.23, C:0.04, G:0.31, T:0.42
Consensus pattern (14 bp):
TTACGGTTTAGGGT
Found at i:48716729 original size:6 final size:7
Alignment explanation
Indices: 48716712--48716766 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
48716702 AAATCTTCAA
48716712 AAAAATT
1 AAAAATT
48716719 AAAAATT
1 AAAAATT
48716726 AAAAATT
1 AAAAATT
48716733 -AAAATT
1 AAAAATT
*
48716739 AAAAAAAT
1 -AAAAATT
*
48716747 AAAAAAT
1 AAAAATT
48716754 AAAGAACTT
1 AAA-AA-TT
48716763 AAAA
1 AAAA
48716767 TTTTAATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
6 6 0.14
7 24 0.57
8 8 0.19
9 4 0.10
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (7 bp):
AAAAATT
Found at i:48716736 original size:21 final size:21
Alignment explanation
Indices: 48716712--48716766 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
48716702 AAATCTTCAA
*
48716712 AAAAATT-AAAAATTAAAAAT
1 AAAAATTAAAAAATAAAAAAT
*
48716732 TAAAATTAAAAAAATAAAAAAT
1 AAAAATT-AAAAAATAAAAAAT
48716754 AAAGAACTTAAAA
1 AAA-AA-TTAAAA
48716767 TTTTAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
22 14 0.50
23 6 0.21
24 2 0.07
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAATTAAAAAATAAAAAAT
Found at i:48716765 original size:30 final size:29
Alignment explanation
Indices: 48716710--48716768 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
48716700 AAAAATCTTC
*
48716710 AAAAAAATTAAAAATTAAAAATTAAAATT
1 AAAAAAATTAAAAAATAAAAATTAAAATT
48716739 AAAAAAA-TAAAAAATAAAGAACTTAAAATT
1 AAAAAAATTAAAAAATAAA-AA-TTAAAATT
48716769 TTAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.37
29 9 0.33
30 8 0.30
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (29 bp):
AAAAAAATTAAAAAATAAAAATTAAAATT
Found at i:48718235 original size:40 final size:40
Alignment explanation
Indices: 48718180--48718259 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
48718170 AAAGAAGGAT
* * *
48718180 CTCCGTGCTGTAATGCTGAAACGTCGTTTTGCAGACACTA
1 CTCCGTACTGCAATGCTAAAACGTCGTTTTGCAGACACTA
48718220 CTCCGTACTGCAATGCTAAAACGTCGTTTTGCAGACACTA
1 CTCCGTACTGCAATGCTAAAACGTCGTTTTGCAGACACTA
48718260 TTCTAAAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (40 bp):
CTCCGTACTGCAATGCTAAAACGTCGTTTTGCAGACACTA
Found at i:48720290 original size:46 final size:46
Alignment explanation
Indices: 48720223--48720663 Score: 423
Period size: 46 Copynumber: 9.6 Consensus size: 46
48720213 TTGAGATGTT
* * * * *
48720223 AATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCAGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGATGTTAAAGTGCTGCA
*
48720269 AATTGAAGTGTTTAAATGTTGTAAATTGA-AGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGA-TGTTAAAGTGCTGCA
** * * ** * *
48720315 AATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATTGCTG-T
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGATGTTAAAGTGCTGCA
* * * *
48720360 AATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGATGTTAAAGTGCTGCA
48720406 AATTGAAGTGTTTAAATGCTGTAAATTGA-AGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGA-TGTTAAAGTGCTGCA
* * * *
48720452 AACTGAAGTGTTTGAATGCTGTAAATT-AAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGA-TG-TTAAAGTGCTGCA
* * * *
48720498 AATTGAAGTGCTTAAATGTTGCAAATTGA-ACTGCTT-AAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGA-TG-TTAAAGTGCTGCA
** * * ** *
48720544 AATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTA-TCGCTG-T
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGATGTTAAAGT-GCTGCA
* * *
48720589 AATTGAGGTGTATAAATGCTGTTAATTGAGATGTTAAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGTAAATTGAGATGTTAAAGTGCTGCA
*
48720635 AATTGAAGTGTTTACATGCTGTAAATTGA
1 AATTGAAGTGTTTAAATGCTGTAAATTGA
48720664 AGTGTTTAAG
Statistics
Matches: 318, Mismatches: 64, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
45 74 0.23
46 236 0.74
47 8 0.03
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (46 bp):
AATTGAAGTGTTTAAATGCTGTAAATTGAGATGTTAAAGTGCTGCA
Found at i:48720411 original size:137 final size:137
Alignment explanation
Indices: 48720222--48720557 Score: 466
Period size: 137 Copynumber: 2.4 Consensus size: 137
48720212 ATTGAGATGT
*
48720222 TAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCAGCAAATTGAAGTGTTTAAATG
1 TAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
* * * * *
48720287 TTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT-AGTTGCTGGACATT-GAGATGTT
66 CTGTAAATTGAAGTGTTAAAGTGCTGCAAACTGAAGTGTTTGA-ATGCTGGAAATTAAAG-TGTT
* *
48720350 TTATTGCTG
129 TAAATGCTG
48720359 TAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
1 TAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
*
48720424 CTGTAAATTGAAGTGTTAAAGTGCTGCAAACTGAAGTGTTTGAATGCTGTAAATTAAAGTGTTTA
66 CTGTAAATTGAAGTGTTAAAGTGCTGCAAACTGAAGTGTTTGAATGCTGGAAATTAAAGTGTTTA
48720489 AATGCTG
131 AATGCTG
* ** *
48720496 TAAATTGAAGTGCT-TAAATGTTGCAAATTGA-ACTGCTT-AAGTACTGCAAATTGAAGTGTTTA
1 T-AATTGAGGTG-TATAAATGTTGTTAATTGAGA-TG-TTAAAGTGCTGCAAATTGAAGTGTTTA
48720558 GTTGCTGGAC
Statistics
Matches: 180, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
137 125 0.69
138 52 0.29
139 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (137 bp):
TAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
CTGTAAATTGAAGTGTTAAAGTGCTGCAAACTGAAGTGTTTGAATGCTGGAAATTAAAGTGTTTA
AATGCTG
Found at i:48720670 original size:23 final size:23
Alignment explanation
Indices: 48720223--48720672 Score: 341
Period size: 23 Copynumber: 19.7 Consensus size: 23
48720213 TTGAGATGTT
* * * *
48720223 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
* *
48720246 AATTG-AGATG-TTAAAGTGCAGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
*
48720269 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
48720292 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
** *
48720315 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGTA
* * *
48720338 CATTG-AGATGTTTTATTGCTGT-
1 AATTGAAG-TGTTTAAATGCTGTA
* * * *
48720360 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
*
48720383 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
48720406 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
48720429 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
* *
48720452 AACTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
48720475 AATTAAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* * *
48720498 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGTA
* * * * *
48720521 AATTGAACTGCTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTA
** *
48720544 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGTA
* *
48720567 CATTG-AGATGTTT-TATCGCTGT-
1 AATTGAAG-TGTTTAAAT-GCTGTA
* * *
48720589 AATTGAGGTGTATAAATGCTGTT
1 AATTGAAGTGTTTAAATGCTGTA
*
48720612 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
*
48720635 AATTGAAGTGTTTACATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
48720658 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
48720673 GTACTTATTT
Statistics
Matches: 337, Mismatches: 66, Indels: 48
0.75 0.15 0.11
Matches are distributed among these distances:
22 57 0.17
23 253 0.75
24 27 0.08
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGTA
Found at i:48729560 original size:15 final size:15
Alignment explanation
Indices: 48729540--48729576 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
48729530 TGGCCCCGAA
*
48729540 ACCACTGTTTCCAGC
1 ACCACTGTTTCCAAC
*
48729555 ACCACTATTTCCAAC
1 ACCACTGTTTCCAAC
48729570 ACCACTG
1 ACCACTG
48729577 AAAAACAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.27, C:0.41, G:0.08, T:0.24
Consensus pattern (15 bp):
ACCACTGTTTCCAAC
Found at i:48731357 original size:27 final size:27
Alignment explanation
Indices: 48731312--48731425 Score: 90
Period size: 27 Copynumber: 4.2 Consensus size: 27
48731302 CCCTGTTTAG
*
48731312 AATACCTTAG-TTTACTAAAATTACCGA
1 AATACCTTAGATTT-GTAAAATTACCGA
* **
48731339 AATACGCTTAG-TTTGTAAAAATATTGA
1 AATAC-CTTAGATTTGTAAAATTACCGA
* * * *
48731366 AATGCCCTCGATTTGTAAAATTACTGA
1 AATACCTTAGATTTGTAAAATTACCGA
* *
48731393 AATACCTTCGACTTGTAAAATTACC-A
1 AATACCTTAGATTTGTAAAATTACCGA
48731419 AAGTACC
1 AA-TACC
48731426 CCCGATTTAT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 6 0.08
27 57 0.80
28 8 0.11
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (27 bp):
AATACCTTAGATTTGTAAAATTACCGA
Found at i:48731643 original size:27 final size:27
Alignment explanation
Indices: 48731422--48731634 Score: 257
Period size: 27 Copynumber: 7.9 Consensus size: 27
48731412 ATTACCAAAG
* * *
48731422 TACCCCCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
48731449 TACCCTCGATTTTCATAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
48731476 TAACCC-CGATTTACATAATTACTGTTT
1 T-ACCCTCGATTTACAGAATTACTATTT
* **
48731503 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
48731530 TACCCTCGATTTAGAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
48731557 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
48731584 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
48731611 TACCCTCGATCTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
48731635 AAATACCCTT
Statistics
Matches: 163, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 4 0.02
27 155 0.95
28 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:48731655 original size:27 final size:27
Alignment explanation
Indices: 48731625--48731863 Score: 212
Period size: 27 Copynumber: 8.8 Consensus size: 27
48731615 CTCGATCTAC
*
48731625 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
48731652 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
48731679 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
48731706 GAAATTACCGAAATA-CCTTCAATTTGT
1 AAAATTACCAAAATACCCTT-GGTTTGT
* * **
48731733 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * *
48731760 AAAGTTACAAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTG-GTTTGT
* * * **
48731788 AAAAATTA-TAGAAATACCATTAGTTTAC
1 -AAAATTACCA-AAATACCCTTGGTTTGT
*
48731816 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
48731843 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
48731864 TAGGATGAAA
Statistics
Matches: 170, Mismatches: 36, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
26 4 0.02
27 139 0.82
28 12 0.07
29 15 0.09
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:48731658 original size:54 final size:54
Alignment explanation
Indices: 48731492--48731713 Score: 151
Period size: 54 Copynumber: 4.1 Consensus size: 54
48731482 CGATTTACAT
* * ***** * * *
48731492 AATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAG-AG
1 AATTACTATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTT-GTAA
* * *** * ** *
48731546 AATTATTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAG
1 AATTACTATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
* *
48731600 AATTACTATTTTACCCTCGATCTACAAAATTACTAAAATACCCTTGGTTTGTAA
1 AATTACTATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
* *** * * * *
48731654 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGA
1 AATTACTATTTTACCCTCGA-TTTATAAAATTACTAAAATACCCTTGGTTTGTAA
48731708 AATTAC
1 AATTAC
48731714 CGAAATACCT
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
53 2 0.01
54 137 0.99
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.39
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTGTAA
Found at i:48731658 original size:81 final size:81
Alignment explanation
Indices: 48731382--48731659 Score: 225
Period size: 81 Copynumber: 3.4 Consensus size: 81
48731372 CTCGATTTGT
* * * * * *** * *
48731382 AAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAGAATTACCAT
1 AAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCAT
* *
48731447 TTTACCCTCGATTTTC
66 TTTACCCTCGATCTAC
* * *** * * * * *
48731463 ATAATTACCATTTTAACCC-CGATTTACATAATTACTGTTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACTAAAAT-ACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCA
* *
48731527 TTTTACCCTCGATTTAG
65 TTTTACCCTCGATCTAC
* * *** * * *
48731544 AGAATTATTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTAT
1 AAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCAT
48731609 TTTACCCTCGATCTAC
66 TTTACCCTCGATCTAC
* * *
48731625 AAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 AAAATTACTAAAATACCCTCGATTTATAAAATTAC
48731660 CAAAATACCC
Statistics
Matches: 154, Mismatches: 41, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
80 4 0.03
81 147 0.95
82 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.38
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACCAT
TTTACCCTCGATCTAC
Found at i:48731923 original size:27 final size:27
Alignment explanation
Indices: 48731893--48731985 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
48731883 TACCCCTATT
*
48731893 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
48731920 AGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* * *
48731947 GGGTAAAGTGATCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
48731974 TGGTAAAATGAC
1 AGGTAAAATGAC
48731986 GAATATGCCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:48733025 original size:42 final size:42
Alignment explanation
Indices: 48732978--48733069 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
48732968 TAGTCTCGCC
* ** *
48732978 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATACTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATACTG
* *
48733020 AAATGGTCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATACTG
48733062 AAATGGGC
1 AAATGGGC
48733070 CTATAGGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATACTG
Found at i:48733138 original size:31 final size:31
Alignment explanation
Indices: 48733093--48733171 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
48733083 CGTTTACAGT
*
48733093 AAAA-GCTTCAGCCCAGTGAAATGATTTATG
1 AAAAGGCTTCGGCCCAGTGAAATGATTTATG
* *
48733123 AAAAGGCTTTGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGAAATGATTTATG
*
48733154 AAAAGGGTTCGGCCCAGT
1 AAAAGGCTTCGGCCCAGT
48733172 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 4 0.09
31 39 0.91
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGAAATGATTTATG
Found at i:48733197 original size:29 final size:29
Alignment explanation
Indices: 48733155--48733230 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
48733145 TGATTTATGA
* *
48733155 AAAGGGTTCGGCCCAGTAACCGTTAAACG
1 AAAGGCTTCGGCCCAGTAACCATTAAACG
*
48733184 AAAGGCTTCAGCCCAGTAACCATTAAACG
1 AAAGGCTTCGGCCCAGTAACCATTAAACG
48733213 AAAGGCTTCGGCCCAGTA
1 AAAGGCTTCGGCCCAGTA
48733231 TATGTCAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAGTAACCATTAAACG
Found at i:48735972 original size:41 final size:40
Alignment explanation
Indices: 48735914--48736067 Score: 136
Period size: 41 Copynumber: 3.8 Consensus size: 40
48735904 GGGTCTAAAT
*
48735914 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATA
1 CCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTGCTAATA
* * *
48735954 GTCGAGCTTAGTTTCGAAGGGCTTTTTAGAGCCAGTG-TCATAA
1 -CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGTGCTAAT-A
* **
48735997 CCG-GACTTAGT-TCCGAAGGGCCTCCGAGCCAGTGGTCTAAT-
1 CCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATA
*
48736038 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCC
1 CCGAGCTTAGTCTCGAAGGGCTTTTGAGCC
48736068 GGTACTAAGA
Statistics
Matches: 90, Mismatches: 13, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
40 8 0.09
41 44 0.49
42 25 0.28
43 13 0.14
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTGCTAATA
Found at i:48744425 original size:41 final size:40
Alignment explanation
Indices: 48744364--48744517 Score: 136
Period size: 41 Copynumber: 3.8 Consensus size: 40
48744354 GGGTCTAAAT
* *
48744364 CCGAGCTTGGTCTCGGAGGGCTTTTGAGCCAGTGCTAATA
1 CCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTGCTAATA
* * *
48744404 GCCGAGCTTAGTTTCGAAGGGCTTTTTAGAGCTAGTG-TCATAA
1 -CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGTGCTAAT-A
* *
48744447 CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT-
1 CCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATA
*
48744488 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCC
1 CCGAGCTTAGTCTCGAAGGGCTTTTGAGCC
48744518 GGTACTAAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
40 7 0.08
41 46 0.51
42 26 0.29
43 12 0.13
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.28
Consensus pattern (40 bp):
CCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGTGCTAATA
Found at i:48746879 original size:20 final size:19
Alignment explanation
Indices: 48746829--48746881 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
48746819 GGCTAAATTG
48746829 GAAATCAAAAA-TATTAAAA
1 GAAAT-AAAAATTATTAAAA
* *
48746848 G-ATTATAAATTATTAAAAA
1 GAAATAAAAATTATT-AAAA
48746867 GAAATAAAAATTATT
1 GAAATAAAAATTATT
48746882 TTTATCATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 6 0.22
20 11 0.41
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (19 bp):
GAAATAAAAATTATTAAAA
Found at i:48748030 original size:57 final size:58
Alignment explanation
Indices: 48747907--48748030 Score: 137
Period size: 57 Copynumber: 2.2 Consensus size: 58
48747897 ATTATAGAAG
* * * * * *
48747907 GGATTTAGCCCAGATGGGTAATCCTGATATAATTCCTCTCGAGCATATCTTATAGATT
1 GGATTTAGCCCAGATGAGTAATCCTGATATAACTCCTCTAGAGCATATCTCATAAATA
* *
48747965 GGATTTAGCCCGGATGAGTAAT-CT-ATATCAAACTCCT-TAGAGCATATGTCATAAATA
1 GGATTTAGCCCAGATGAGTAATCCTGATAT--AACTCCTCTAGAGCATATCTCATAAATA
48748022 GGATTTAGC
1 GGATTTAGC
48748031 TTGGACTGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
56 4 0.07
57 26 0.46
58 26 0.46
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (58 bp):
GGATTTAGCCCAGATGAGTAATCCTGATATAACTCCTCTAGAGCATATCTCATAAATA
Found at i:48749564 original size:27 final size:27
Alignment explanation
Indices: 48749534--48749787 Score: 316
Period size: 27 Copynumber: 9.4 Consensus size: 27
48749524 AGGGGCATAT
*
48749534 CAGTCATCTTACCAT-ATAAGGGCAAAA
1 CAGTCATTTTACC-TCATAAGGGCAAAA
*
48749561 CAGTCATTTTACCTCATAAGGGCAAAT
1 CAGTCATTTTACCTCATAAGGGCAAAA
* *
48749588 CAATCATTTTACTTCATAAGGGCAAAA
1 CAGTCATTTTACCTCATAAGGGCAAAA
* *
48749615 CAATCATTTTACCCCATAAGGGCAAAA
1 CAGTCATTTTACCTCATAAGGGCAAAA
*
48749642 CAGTCATTTTACCACATAAGGGCAAAA
1 CAGTCATTTTACCTCATAAGGGCAAAA
* * *
48749669 TAGTCATTTTATCTCATAAGGGCAAAT
1 CAGTCATTTTACCTCATAAGGGCAAAA
*
48749696 CAGTCATTTTACCTCATAAGGACAAAA
1 CAGTCATTTTACCTCATAAGGGCAAAA
* *
48749723 CAATCATTTTATCC-CATAAGGGCAAAG
1 CAGTCATTTTA-CCTCATAAGGGCAAAA
* *
48749750 CAGTCATTTTA-CTACATAGGGGAAAAA
1 CAGTCATTTTACCT-CATAAGGGCAAAA
*
48749777 TAGTCATTTTA
1 CAGTCATTTTA
48749788 TCGATTAAGG
Statistics
Matches: 198, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 194 0.98
28 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (27 bp):
CAGTCATTTTACCTCATAAGGGCAAAA
Found at i:48753640 original size:48 final size:47
Alignment explanation
Indices: 48753588--48753912 Score: 400
Period size: 48 Copynumber: 6.8 Consensus size: 47
48753578 AATATGTGCT
* *
48753588 CTAGTATAAGACCATGTCTGGAACATGGAATCGGCATCGTTATGTGAG
1 CTAGTGTAAGACCATGTCTGG-ACATGGCATCGGCATCGTTATGTGAG
* * *
48753636 CTAGTGTGAGACCATGTCTAGGACATGGCATCGGAATCGTTATGTGAT
1 CTAGTGTAAGACCATGTCT-GGACATGGCATCGGCATCGTTATGTGAG
* *
48753684 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGTTATGTGAG
1 CTAGTGTAAGACCATGTCT-GGACATGGCATCGGCATCGTTATGTGAG
* * *
48753732 ATAGTCTAAGACTATGTCTGAGACATGGCATCGGCATCGTTATGTGAG
1 CTAGTGTAAGACCATGTCTG-GACATGGCATCGGCATCGTTATGTGAG
* * * * *
48753780 AC-AGTGTATGACCATGTCTGGGACATAGCATCAGTATTGTTATGTGAG
1 -CTAGTGTAAGACCATGTCT-GGACATGGCATCGGCATCGTTATGTGAG
**
48753828 CTAGTGTAAGACCATGTCTAGGACATGGCATCAACATCGTTATGTGAG
1 CTAGTGTAAGACCATGTCT-GGACATGGCATCGGCATCGTTATGTGAG
* *
48753876 CCAGAGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 CTAGTGTAAGACCATGTCT-GGACATGGCATCGGCAT
48753913 GAGGCATCGT
Statistics
Matches: 238, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.01
48 233 0.98
49 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (47 bp):
CTAGTGTAAGACCATGTCTGGACATGGCATCGGCATCGTTATGTGAG
Found at i:48753749 original size:96 final size:96
Alignment explanation
Indices: 48753594--48753912 Score: 453
Period size: 96 Copynumber: 3.3 Consensus size: 96
48753584 TGCTCTAGTA
* * * *
48753594 TAAGACCATGTCTGGAACATGGAATCGGCATCGTTATGTGAGCTAGTGTGAGACCATGTCTAGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCTAGTGTAAGACCATGTCTAGGA
*
48753659 CATGGCATCGGAATCGTTATGTGATCCAGTG
66 CATGGCATCGGAATCGTTATGTGAGCCAGTG
* * * *
48753690 TAAGACCATGTCTAGGACATGGCATCGGCATTGTTATGTGAGATAGTCTAAGACTATGTCT-GAG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCTAGTGTAAGACCATGTCTAG-G
* *
48753754 ACATGGCATCGGCATCGTTATGTGAGACAGTG
65 ACATGGCATCGGAATCGTTATGTGAGCCAGTG
* * * *
48753786 TATGACCATGTCTGGGACATAGCATCAGTATTGTTATGTGAGCTAGTGTAAGACCATGTCTAGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCTAGTGTAAGACCATGTCTAGGA
* *
48753851 CATGGCATC-AACATCGTTATGTGAGCCAGAG
66 CATGGCATCGGA-ATCGTTATGTGAGCCAGTG
48753882 TAAGACCATGTCTGGGACATGGCATCGGCAT
1 TAAGACCATGTCTGGGACATGGCATCGGCAT
48753913 GAGGCATCGT
Statistics
Matches: 193, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 191 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCTAGTGTAAGACCATGTCTAGGA
CATGGCATCGGAATCGTTATGTGAGCCAGTG
Found at i:48764467 original size:20 final size:20
Alignment explanation
Indices: 48764442--48764481 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48764432 AACCGATGAT
* *
48764442 CAACTCGTAATCCTTAATTA
1 CAACTCATAATACTTAATTA
48764462 CAACTCATAATACTTAATTA
1 CAACTCATAATACTTAATTA
48764482 ATTCTAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (20 bp):
CAACTCATAATACTTAATTA
Found at i:48771372 original size:13 final size:13
Alignment explanation
Indices: 48771356--48771385 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48771346 ATGATATGTT
48771356 TTTATTATATTAA
1 TTTATTATATTAA
*
48771369 TTTATTTTATTAA
1 TTTATTATATTAA
48771382 TTTA
1 TTTA
48771386 CCATATTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATTATATTAA
Found at i:48775029 original size:14 final size:15
Alignment explanation
Indices: 48775010--48775038 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48775000 TTGAAACATT
48775010 ATTGAG-GGGATAAA
1 ATTGAGCGGGATAAA
48775024 ATTGAGCGGGATAAA
1 ATTGAGCGGGATAAA
48775039 GTCTCATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.03, G:0.34, T:0.21
Consensus pattern (15 bp):
ATTGAGCGGGATAAA
Found at i:48778272 original size:19 final size:19
Alignment explanation
Indices: 48778248--48778284 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48778238 GTTTGAAGTA
48778248 AAGTTACAGTGTTCAAACC
1 AAGTTACAGTGTTCAAACC
* *
48778267 AAGTTACGGTTTTCAAAC
1 AAGTTACAGTGTTCAAAC
48778285 ACATTAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (19 bp):
AAGTTACAGTGTTCAAACC
Found at i:48778575 original size:25 final size:25
Alignment explanation
Indices: 48778529--48778577 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48778519 CTATTTTTGA
* * *
48778529 TAGTATATCCTGACACTGCTATAGG
1 TAGTATATACTAACACTACTATAGG
*
48778554 TAGTATATACTAAGACTACTATAG
1 TAGTATATACTAACACTACTATAG
48778578 ATAGACTGTA
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:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (25 bp):
TAGTATATACTAACACTACTATAGG
Found at i:48785445 original size:27 final size:27
Alignment explanation
Indices: 48785411--48785586 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
48785401 TAAATTGTAC
48785411 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48785438 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
48785464 ATGCACTATGTG-GCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48785491 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48785519 AGCACTAAGTGT-CGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
48785545 AGCACAAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48785572 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48785587 GACTTAATAT
Statistics
Matches: 121, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 40 0.33
27 62 0.51
28 19 0.16
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48795289 original size:27 final size:27
Alignment explanation
Indices: 48795259--48795435 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
48795249 ATATTAAGTC
* * * *
48795259 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48795286 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48795313 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48795341 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48795368 CGCACAC-TAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48795394 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48795421 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48795436 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 21 0.16
27 83 0.65
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48806491 original size:27 final size:27
Alignment explanation
Indices: 48806457--48806634 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48806447 TAAATTGTAC
48806457 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48806484 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48806510 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48806538 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48806566 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48806593 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48806620 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48806635 GACTTAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48806571 original size:82 final size:81
Alignment explanation
Indices: 48806458--48806613 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48806448 AAATTGTACA
* *
48806458 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48806522 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48806539 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48806604 TGCGAGTTGA
65 TGCGAATTGA
48806614 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48806625 original size:82 final size:81
Alignment explanation
Indices: 48806454--48806634 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48806444 GGTTAAATTG
* *
48806454 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48806519 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48806535 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48806599 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48806617 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48806635 GACTTAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48808521 original size:23 final size:23
Alignment explanation
Indices: 48808491--48808537 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
48808481 TCGTTAAAGG
48808491 TGCAAAATTAGAGTTCTATAAGT
1 TGCAAAATTAGAGTTCTATAAGT
48808514 TGCAAAATTAGAGTTCTATAAGT
1 TGCAAAATTAGAGTTCTATAAGT
48808537 T
1 T
48808538 AAAGGTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (23 bp):
TGCAAAATTAGAGTTCTATAAGT
Found at i:48810232 original size:15 final size:17
Alignment explanation
Indices: 48810208--48810241 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48810198 GCTAAGGACT
48810208 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
48810224 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
48810240 AA
1 AA
48810242 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:48811028 original size:7 final size:7
Alignment explanation
Indices: 48811016--48811042 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48811006 GAAAAGGCCC
48811016 GATAAAT
1 GATAAAT
48811023 GATAAAT
1 GATAAAT
48811030 GATAAAT
1 GATAAAT
48811037 GATAAA
1 GATAAA
48811043 AATGTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:48811378 original size:56 final size:57
Alignment explanation
Indices: 48811272--48811378 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
48811262 CATTACAGAA
* *
48811272 AGGATTTCGCCTAGACTGGTAATCCTGATATAAGCCCTGTTGAGCATATGTACAAAT
1 AGGATTTAGCCTAGACTGGTAATCCTAATATAAGCCCTGTTGAGCATATGTACAAAT
* *
48811329 AGGATTTAGCCTGGA-TGGGTAATCCTAAT-TAAGCTCT-TGTGAGCATATGT
1 AGGATTTAGCCTAGACT-GGTAATCCTAATATAAGCCCTGT-TGAGCATATGT
48811379 TGAAAACAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
55 1 0.02
56 19 0.43
57 24 0.55
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (57 bp):
AGGATTTAGCCTAGACTGGTAATCCTAATATAAGCCCTGTTGAGCATATGTACAAAT
Found at i:48813436 original size:16 final size:17
Alignment explanation
Indices: 48813390--48813431 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
48813380 GTAGATAATC
48813390 GGAAGCTCATTTGGGTT
1 GGAAGCTCATTTGGGTT
*
48813407 GGAAGCTCATTTGGTTT
1 GGAAGCTCATTTGGGTT
48813424 GGAAGCTC
1 GGAAGCTC
48813432 GTTGGAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.33
Consensus pattern (17 bp):
GGAAGCTCATTTGGGTT
Found at i:48829356 original size:79 final size:81
Alignment explanation
Indices: 48829221--48829404 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
48829211 CGAATGATGT
*
48829221 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
48829285 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
48829301 TCGGGCTAAG-CCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
48829363 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
48829380 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48829405 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAA
Found at i:48829411 original size:40 final size:40
Alignment explanation
Indices: 48829220--48829404 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
48829210 TCGAATGATG
* * * *
48829220 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
48829260 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48829300 TTCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48829339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48829380 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48829405 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48829426 original size:79 final size:79
Alignment explanation
Indices: 48829273--48829427 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
48829263 GGACTAAGAT
** ***
48829273 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
48829338 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
48829352 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
48829415 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
48829428 AATTCCGAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:48831513 original size:13 final size:13
Alignment explanation
Indices: 48831495--48831523 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48831485 TTTAGTTTAA
48831495 TTAGTTAATTAGT
1 TTAGTTAATTAGT
48831508 TTAGTTAATTAGT
1 TTAGTTAATTAGT
48831521 TTA
1 TTA
48831524 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:48868819 original size:47 final size:47
Alignment explanation
Indices: 48868750--48868878 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 47
48868740 GGGATATTTG
* *
48868750 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--A
* *
48868797 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAA
*
48868845 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
48868879 TATGGGCGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 31 0.42
47 32 0.44
48 4 0.05
50 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAA
Found at i:48868873 original size:46 final size:48
Alignment explanation
Indices: 48868753--48868883 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 48
48868743 ATATTTGGGC
* * *
48868753 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
* *
48868799 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAA-ATG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
48868847 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48868884 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 36 0.48
47 29 0.39
48 4 0.05
50 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:48870392 original size:24 final size:24
Alignment explanation
Indices: 48870365--48870412 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48870355 ATTCTAAAGA
48870365 CATTTTTCAATGCTAATCTCAAGC
1 CATTTTTCAATGCTAATCTCAAGC
48870389 CATTTTTCAATGCTAATCTCAAGC
1 CATTTTTCAATGCTAATCTCAAGC
48870413 ACTTTCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (24 bp):
CATTTTTCAATGCTAATCTCAAGC
Found at i:48874482 original size:6 final size:6
Alignment explanation
Indices: 48874471--48874496 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48874461 TAATTAATTC
48874471 AAATAT AAATAT AAATAT AAATAT AA
1 AAATAT AAATAT AAATAT AAATAT AA
48874497 TGTCTATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:48877964 original size:30 final size:30
Alignment explanation
Indices: 48877930--48877989 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48877920 AGATGACGTG
**
48877930 TTATGCAATTTTCTCGGTTTTCTTCTTCCA
1 TTATGCAATTTTCTCAATTTTCTTCTTCCA
*
48877960 TTATGCAATTTTCTCAATTTTTTTCTTCCA
1 TTATGCAATTTTCTCAATTTTCTTCTTCCA
48877990 GTCAAATTCT
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:0.17, C:0.22, G:0.07, T:0.55
Consensus pattern (30 bp):
TTATGCAATTTTCTCAATTTTCTTCTTCCA
Found at i:48879469 original size:30 final size:30
Alignment explanation
Indices: 48879393--48879505 Score: 111
Period size: 30 Copynumber: 3.8 Consensus size: 30
48879383 GGGGAAGTGG
* * * **
48879393 TGGGTGATGGGGTTGGAGCTGGAGATGCAGA
1 TGGG-GATGGGGTTGGGGTTGGGGATGGGGA
*
48879424 TGGGGTTGGGGTTGGGGTTGGGGATGGGGA
1 TGGGGATGGGGTTGGGGTTGGGGATGGGGA
*
48879454 TGGGGATGGGGTTGGGGTTGGGGTTGGGG-
1 TGGGGATGGGGTTGGGGTTGGGGATGGGGA
* * * *
48879483 TTGGGTTGGGGATGGGGTCGGGG
1 TGGGGATGGGGTTGGGGTTGGGG
48879506 TTGGAGTAGC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
29 19 0.27
30 47 0.67
31 4 0.06
ACGTcount: A:0.09, C:0.03, G:0.63, T:0.26
Consensus pattern (30 bp):
TGGGGATGGGGTTGGGGTTGGGGATGGGGA
Found at i:48879490 original size:5 final size:6
Alignment explanation
Indices: 48879424--48879509 Score: 120
Period size: 6 Copynumber: 14.5 Consensus size: 6
48879414 GAGATGCAGA
* * *
48879424 TGGGGT TGGGGT TGGGGT TGGGGA TGGGGA TGGGGA TGGGGT TGGGGT
1 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT
* *
48879472 TGGGGT TGGGGT T-GGGT TGGGGA TGGGGT CGGGGT TGG
1 TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGGGGT TGG
48879510 AGTAGCAGCT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
5 5 0.07
6 68 0.93
ACGTcount: A:0.05, C:0.01, G:0.66, T:0.28
Consensus pattern (6 bp):
TGGGGT
Found at i:48879550 original size:15 final size:15
Alignment explanation
Indices: 48879523--48879559 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
48879513 AGCAGCTGGC
48879523 GGTGGTGGAGATGTG
1 GGTGGTGGAGATGTG
48879538 GGTGG-GGATGATGTG
1 GGTGGTGGA-GATGTG
48879553 GGTGGTG
1 GGTGGTG
48879560 CTGTTGGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 16 0.80
16 1 0.05
ACGTcount: A:0.11, C:0.00, G:0.62, T:0.27
Consensus pattern (15 bp):
GGTGGTGGAGATGTG
Found at i:48882498 original size:18 final size:19
Alignment explanation
Indices: 48882475--48882515 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
48882465 TTAGAAATTA
*
48882475 TTTTTATCAT-ACTAATAT
1 TTTTTATAATAACTAATAT
*
48882493 TTTTTATAATAATTAATAT
1 TTTTTATAATAACTAATAT
48882512 TTTT
1 TTTT
48882516 AAAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTATAATAACTAATAT
Found at i:48882516 original size:18 final size:17
Alignment explanation
Indices: 48882473--48882516 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
48882463 GTTTAGAAAT
*
48882473 TATTTTTATCATACTAA
1 TATTTTTATAATACTAA
*
48882490 TATTTTTTATAATAATTAA
1 TA-TTTTTATAAT-ACTAA
48882509 TATTTTTA
1 TATTTTTA
48882517 AAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTTATAATACTAA
Found at i:48884890 original size:32 final size:32
Alignment explanation
Indices: 48884854--48884921 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
48884844 TGCAAATATG
* * *
48884854 TAGATGCATTTTATTTATGCTTGAATAATGCT
1 TAGATGCATTTTATTTACGCTCGAACAATGCT
*
48884886 TAGATGCATTTTATTTACGCTCGACCAATGCT
1 TAGATGCATTTTATTTACGCTCGAACAATGCT
48884918 TAGA
1 TAGA
48884922 ACGCCACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
TAGATGCATTTTATTTACGCTCGAACAATGCT
Found at i:48885505 original size:69 final size:69
Alignment explanation
Indices: 48885425--48885562 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
48885415 CAATGATTGA
48885425 ATTGTAAAAACCATAAAAGTTAATCCTTATTGATTTTTATTAGTTAAAAAGGTTCAGATGATAAT
1 ATTGTAAAAACCATAAAAGTTAATCCTTATTGATTTTTATTAGTTAAAAAGGTTCAGATGATAAT
48885490 TATT
66 TATT
48885494 ATTGTAAAAACCATAAAAGTTAATCCTTATTGATTTTTATTAGTTAAAAAGGTTCAGATGATAAT
1 ATTGTAAAAACCATAAAAGTTAATCCTTATTGATTTTTATTAGTTAAAAAGGTTCAGATGATAAT
48885559 TATT
66 TATT
48885563 TGAAGATTTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (69 bp):
ATTGTAAAAACCATAAAAGTTAATCCTTATTGATTTTTATTAGTTAAAAAGGTTCAGATGATAAT
TATT
Found at i:48889316 original size:16 final size:16
Alignment explanation
Indices: 48889278--48889316 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
48889268 AATTAGTAAT
48889278 AAAGG-AAAAGAAAGG
1 AAAGGAAAAAGAAAGG
48889293 -AAGAGAAAAAGAAAGG
1 AAAG-GAAAAAGAAAGG
48889309 AAAGGAAA
1 AAAGGAAA
48889317 GGATGGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 1 0.05
16 14 0.67
17 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
AAAGGAAAAAGAAAGG
Found at i:48891664 original size:163 final size:164
Alignment explanation
Indices: 48891370--48891664 Score: 398
Period size: 163 Copynumber: 1.8 Consensus size: 164
48891360 TAAGATGGTT
* * * *
48891370 TTAGGTCACGTGTTTAGTACTAAGTACAGGCTATTACGTGTACCAAATAGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTACAAGCTACTACGTGTACCAAATAGTTAGGTAGCATGTGT
* ** * *
48891435 AGTACTAAGTGCAGGCTACTATACGTACCCGACAACTTCGATTACGTGTGTAGTACTAATTGCAG
66 AGTACTAAGTGCAGGCTACTATACGTACCAGACAACTTCGATTACAAGGGTAGTAATAATTGCAG
48891500 GCTACTACGTGTATCAAATGATTAGGTCAGATGG
131 GCTACTACGTGTATCAAATGATTAGGTCAGATGG
** * *
48891534 TTAGGTCACGTGTGTAGTACTAAGTGTAAGCTACTACGTGTACCATATTGTT-GGTAGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTACAAGCTACTACGTGTACCAAATAGTTAGGTAGCATGTGT
* * * *
48891598 AGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTC-AGTTACAAGGGTGGTAAT-ATGTGC
66 AGTACTAAGTGCAGGCTACTATACGTACCAGACAACTTCGA-TTACAAGGGTAGTAATAAT-TGC
48891661 AGGC
129 AGGC
48891665 AACCGTGTAT
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
162 3 0.03
163 64 0.57
164 45 0.40
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (164 bp):
TTAGGTCACGTGTGTAGTACTAAGTACAAGCTACTACGTGTACCAAATAGTTAGGTAGCATGTGT
AGTACTAAGTGCAGGCTACTATACGTACCAGACAACTTCGATTACAAGGGTAGTAATAATTGCAG
GCTACTACGTGTATCAAATGATTAGGTCAGATGG
Found at i:48896083 original size:93 final size:93
Alignment explanation
Indices: 48895924--48896095 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
48895914 CACCCATAAT
* * *
48895924 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48895989 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
48896017 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48896082 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48896096 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48896092 original size:46 final size:45
Alignment explanation
Indices: 48895917--48896092 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
48895907 TGTAACCCAC
* * * *
48895917 CCATAATCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAT-GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
48895963 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCAT-AATGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
48896013 -C-TCACGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
48896056 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGA
48896093 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 31 0.29
48 1 0.01
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:48899501 original size:40 final size:40
Alignment explanation
Indices: 48899446--48899596 Score: 214
Period size: 40 Copynumber: 3.8 Consensus size: 40
48899436 ATAACCACAA
* * * *
48899446 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
48899486 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
48899526 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
48899566 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
48899597 AAATCACTAG
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:48899597 original size:40 final size:40
Alignment explanation
Indices: 48899426--48899612 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
48899416 TCTTCAGAAT
* * * * *
48899426 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
* * * * * *
48899465 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGTC
* * *
48899505 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGTC
*
48899545 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
48899585 TTAGCCCGGATAAAATCACTAGCATAAA
1 TTAGCCCGGATAAAATCACTAGCATAAA
48899613 ATCATTCAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 5 0.04
40 121 0.93
41 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
Found at i:48916837 original size:26 final size:26
Alignment explanation
Indices: 48916781--48916839 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
48916771 CACCACATAT
*
48916781 TTTACACATTTTAAAAATAAATCCTTA
1 TTTACACATTTTAAAAAAAAAT-CTTA
48916808 TTTA-ACATTTTCAAAAAAAAAT-TTA
1 TTTACACATTTT-AAAAAAAAATCTTA
48916833 CTTTACA
1 -TTTACA
48916840 AAAGTTGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 3 0.11
26 11 0.39
27 14 0.50
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (26 bp):
TTTACACATTTTAAAAAAAAATCTTA
Found at i:48930088 original size:22 final size:22
Alignment explanation
Indices: 48930056--48930107 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
48930046 CACTAGGAAC
*
48930056 TATGTGATCTGAGCTCTTGAGA
1 TATGTGATCTGAGCTCATGAGA
*
48930078 TATGTGGTCTGAGCTCATGAGA
1 TATGTGATCTGAGCTCATGAGA
48930100 TATGTGAT
1 TATGTGAT
48930108 ATATGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.37
Consensus pattern (22 bp):
TATGTGATCTGAGCTCATGAGA
Found at i:48934302 original size:27 final size:28
Alignment explanation
Indices: 48934218--48934315 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
48934208 CATGAGATTG
* * * *
48934218 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48934247 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48934275 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48934302 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48934316 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48934326 original size:27 final size:27
Alignment explanation
Indices: 48934246--48934328 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48934236 TAAATTGTAC
* *
48934246 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
48934274 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
48934301 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
48934328 A
1 A
48934329 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:48934329 original size:29 final size:27
Alignment explanation
Indices: 48934218--48934329 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
48934208 CATGAGATTG
** * *
48934218 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
48934247 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
48934275 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
48934302 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
48934330 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:48940272 original size:26 final size:26
Alignment explanation
Indices: 48940243--48940295 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
48940233 TATACATGCC
48940243 ATAGACTTAAGTATTTGAATACTTAT
1 ATAGACTTAAGTATTTGAATACTTAT
48940269 ATAGACTTAAGTATTTGAATACTTAT
1 ATAGACTTAAGTATTTGAATACTTAT
48940295 A
1 A
48940296 CCCGAAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (26 bp):
ATAGACTTAAGTATTTGAATACTTAT
Found at i:48944979 original size:43 final size:43
Alignment explanation
Indices: 48944932--48945042 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
48944922 TCCTAGATAT
*
48944932 GGTCTTACATGTTATCACATATCGATGCCACTATCCCACACAA
1 GGTCTTACATGTTATCACATATCGATGCCAATATCCCACACAA
* ** * * *
48944975 GGTCTTACACGAAATCACA-ATACAATGCCAATATCCCAGACAT
1 GGTCTTACATGTTATCACATAT-CGATGCCAATATCCCACACAA
*
48945018 TGTCTTACAT-TTAATCACATATCGA
1 GGTCTTACATGTT-ATCACATATCGA
48945043 GTTGATGGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 2 0.04
43 49 0.92
44 2 0.04
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTTATCACATATCGATGCCAATATCCCACACAA
Found at i:48951455 original size:43 final size:43
Alignment explanation
Indices: 48951408--48951518 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
48951398 TCCTAGATAT
*
48951408 GGTCTTACATGTTATCACATATCGATGCCACTATCCCACACAA
1 GGTCTTACATGTTATCACATATCGATGCCAATATCCCACACAA
* ** * * *
48951451 GGTCTTACACGAAATCACA-ATACAATGCCAATATCCCAGACAT
1 GGTCTTACATGTTATCACATAT-CGATGCCAATATCCCACACAA
*
48951494 TGTCTTACAT-TTAATCACATATCGA
1 GGTCTTACATGTT-ATCACATATCGA
48951519 GTTGATGGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 2 0.04
43 49 0.92
44 2 0.04
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTTATCACATATCGATGCCAATATCCCACACAA
Found at i:48969365 original size:55 final size:55
Alignment explanation
Indices: 48969266--48969374 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 55
48969256 TCGCTTCTCC
* * * **
48969266 CACGCCCGTGTTAATTTAACAGGTTTGGCCACGGGTACTTGGCACGGGCGTGTCA
1 CACGCCCGTGTTAACTTAACAGGTTCGACCACGGGTACCAGGCACGGGCGTGTCA
* * * *
48969321 CACGCCCGTGTTAACTTGACAGGTTCGACCACGGTTTCCAGGCACGGGTGTGTC
1 CACGCCCGTGTTAACTTAACAGGTTCGACCACGGGTACCAGGCACGGGCGTGTC
48969375 GCATCCCGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (55 bp):
CACGCCCGTGTTAACTTAACAGGTTCGACCACGGGTACCAGGCACGGGCGTGTCA
Done.