Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 177 of 295
Found at i:60714830 original size:15 final size:14
Alignment explanation
Indices: 60714812--60714882 Score: 70
Period size: 15 Copynumber: 4.8 Consensus size: 14
60714802 AACCATGATA
60714812 AAGAAATCCAAAAT
1 AAGAAATCCAAAAT
*
60714826 GAAGAAACCCATAAAT
1 -AAGAAATCCA-AAAT
*
60714842 AAGAAATCCAAAGT
1 AAGAAATCCAAAAT
*
60714856 AAAGAAATCCAAGAT
1 -AAGAAATCCAAAAT
*
60714871 AGAGAGATCCAA
1 A-AGAAATCCAA
60714883 GATGAGGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.09
15 39 0.83
16 4 0.09
ACGTcount: A:0.58, C:0.15, G:0.14, T:0.13
Consensus pattern (14 bp):
AAGAAATCCAAAAT
Found at i:60714881 original size:30 final size:29
Alignment explanation
Indices: 60714798--60714882 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
60714788 AAAGATGACT
* *
60714798 AGAAAACCATGATAAAGAAATCCAAAATGA
1 AGAAAACCAAGAT-AAGAAATCCAAAATAA
* * *
60714828 AGAAACCCATAAATAAGAAATCCAAAGTAA
1 AGAAAACCA-AGATAAGAAATCCAAAATAA
* *
60714858 AGAAATCCAAGATAGAGAGATCCAA
1 AGAAAACCAAGATA-AGAAATCCAA
60714883 GATGAGGAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 4 0.09
30 39 0.87
31 2 0.04
ACGTcount: A:0.58, C:0.15, G:0.14, T:0.13
Consensus pattern (29 bp):
AGAAAACCAAGATAAGAAATCCAAAATAA
Found at i:60716682 original size:14 final size:14
Alignment explanation
Indices: 60716663--60716691 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60716653 CATGCATACT
60716663 AGGTTAGTCCGAGA
1 AGGTTAGTCCGAGA
60716677 AGGTTAGTCCGAGA
1 AGGTTAGTCCGAGA
60716691 A
1 A
60716692 CTGACTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (14 bp):
AGGTTAGTCCGAGA
Found at i:60733484 original size:64 final size:64
Alignment explanation
Indices: 60733335--60733586 Score: 179
Period size: 68 Copynumber: 3.8 Consensus size: 64
60733325 TACAGATAGT
* ** * * * * *
60733335 ATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
*
60733399 TATG
62 TA-A
* * *
60733403 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
60733467 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGTTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60733532 AA
63 AA
* ** * *
60733534 AT-TGGCTAGGTCAAATGGGTGGTACTGA-GTTTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
60733587 CGAACCATAT
Statistics
Matches: 147, Mismatches: 31, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.12
64 25 0.17
65 2 0.01
66 22 0.15
67 32 0.22
68 47 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60737874 original size:68 final size:66
Alignment explanation
Indices: 60737802--60737973 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
60737792 CATCATGTGT
* * * *
60737802 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
60737865 TGTAG
62 TGTAG
** * *
60737870 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
60737935 AG
65 AG
* * * *
60737937 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
60737974 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:60737907 original size:64 final size:64
Alignment explanation
Indices: 60737826--60738009 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
60737816 AGACATTATG
* * *
60737826 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
60737890 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60737955 AA
63 AA
* * *
60737957 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
60738010 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60742090 original size:38 final size:38
Alignment explanation
Indices: 60742067--60742227 Score: 243
Period size: 38 Copynumber: 4.3 Consensus size: 38
60742057 ATGCTAGAAT
* *
60742067 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTTGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
60742105 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
60742143 TATATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
60742181 TATATCCGGGTTAAATCCTGCAGGC-TAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
60742218 TATATTCGGG
1 TATATCCGGG
60742228 CCTTTGAGCC
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
37 20 0.17
38 95 0.83
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:60742126 original size:76 final size:77
Alignment explanation
Indices: 60742031--60742207 Score: 234
Period size: 76 Copynumber: 2.3 Consensus size: 77
60742021 ATGATATTTG
* ** *
60742031 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTAG-AATTATATCCGGGTTAAATCCTGCAGGCTT
1 TATCCGGGTTAAATCCCGCAGGCTATCATGCTAGTAA-TATATCCGGGTTAAATCCCGCAGGCTT
*
60742094 CGTGCTTGTAATA
65 CGTGCTGGTAATA
* * *
60742107 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTC
1 TATCCGGGTTAAATCCCGCAGGCTATCATGCTAGTAATATATCCGGGTTAAATCCCGCAGGCTTC
*
60742171 GTGCTGGTATTA
66 GTGCTGGTAATA
*
60742183 TATCCGGGTTAAATCCTGCAGGCTA
1 TATCCGGGTTAAATCCCGCAGGCTA
60742208 GTGCTGGTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
75 1 0.01
76 85 0.97
77 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (77 bp):
TATCCGGGTTAAATCCCGCAGGCTATCATGCTAGTAATATATCCGGGTTAAATCCCGCAGGCTTC
GTGCTGGTAATA
Found at i:60743652 original size:22 final size:22
Alignment explanation
Indices: 60743609--60743652 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
60743599 ATTAATATAC
* * *
60743609 ACCACATATATTATTTATTCAA
1 ACCACATATATAATCTAGTCAA
*
60743631 ACCACATATCTAATCTAGTCAA
1 ACCACATATATAATCTAGTCAA
60743653 CTCTAAGTCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (22 bp):
ACCACATATATAATCTAGTCAA
Found at i:60752590 original size:13 final size:14
Alignment explanation
Indices: 60752572--60752601 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
60752562 TTTCCTTCTC
60752572 TTCCTTTT-TTTTT
1 TTCCTTTTATTTTT
60752585 TTCCTTTTATTTTT
1 TTCCTTTTATTTTT
60752599 TTC
1 TTC
60752602 TCTCCATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (14 bp):
TTCCTTTTATTTTT
Found at i:60761817 original size:37 final size:37
Alignment explanation
Indices: 60761776--60761849 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
60761766 GAGCTAGACA
60761776 GGATTCACGATGTTTTTCACGTCTCCATGTTAAGGCG
1 GGATTCACGATGTTTTTCACGTCTCCATGTTAAGGCG
60761813 GGATTCACGATGTTTTTCACGTCTCCATGTTAAGGCG
1 GGATTCACGATGTTTTTCACGTCTCCATGTTAAGGCG
60761850 TTATCATTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (37 bp):
GGATTCACGATGTTTTTCACGTCTCCATGTTAAGGCG
Found at i:60764075 original size:27 final size:28
Alignment explanation
Indices: 60764017--60764106 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
60764007 AGGAAGCGTC
*
60764017 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
60764045 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
60764072 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
60764101 CTGGTG
1 CTGGTG
60764107 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:60764117 original size:29 final size:28
Alignment explanation
Indices: 60764027--60764117 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
60764017 CTGGTGGCTA
* * *
60764027 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
60764055 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
60764082 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
60764111 TGTCACA
1 TGCCACA
60764118 TTTTCTATAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:60765108 original size:38 final size:38
Alignment explanation
Indices: 60765057--60765142 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 38
60765047 TGTTACATAA
* * * *
60765057 TATATCTGGGTTAATTCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
*
60765095 TATATCCGGGTTAAATCCTGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
*
60765133 TATATTCGGG
1 TATATCCGGG
60765143 CCTTTGAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.35
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
Found at i:60765185 original size:45 final size:45
Alignment explanation
Indices: 60765135--60765259 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
60765125 GCTGGTATTA
*
60765135 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCAGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGACAC
* * ** *
60765180 TATTCGGGCCTTTGGGCCTAGCTGGCTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGACAC
60765225 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCC
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
60765260 GATGAAATGA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
44 4 0.06
45 66 0.94
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGACAC
Found at i:60765277 original size:45 final size:45
Alignment explanation
Indices: 60765135--60765303 Score: 177
Period size: 45 Copynumber: 3.8 Consensus size: 45
60765125 GCTGGTATTA
* *
60765135 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCC-AGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGA-TGAGATAC
* * * *
60765180 TATTCGGGCCTTTGGGCCTAGCTGGCTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGATAC
*
60765225 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGATGAGAT-AC
* * * *
60765270 TAATCGGGCC-TCGATCCTAGCAGGCGA-AATGCCG
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCG
60765304 GTGATTTGAG
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
43 7 0.07
44 17 0.16
45 79 0.75
46 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGATAC
Found at i:60770324 original size:43 final size:43
Alignment explanation
Indices: 60770277--60770360 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
60770267 TTATAAGCTC
60770277 AGGATTACCAATCCAGGCTAAATCCTTTCTGTAGCATATGCAT
1 AGGATTACCAATCCAGGCTAAATCCTTTCTGTAGCATATGCAT
* *
60770320 AGGATTACCAGTCCAGGCTAAATCCTTTCTTTAGCATATGC
1 AGGATTACCAATCCAGGCTAAATCCTTTCTGTAGCATATGC
60770361 TATAATGAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
AGGATTACCAATCCAGGCTAAATCCTTTCTGTAGCATATGCAT
Found at i:60770418 original size:57 final size:56
Alignment explanation
Indices: 60770320--60770463 Score: 143
Period size: 57 Copynumber: 2.5 Consensus size: 56
60770310 GCATATGCAT
* * *
60770320 AGGATTACCAGTCCAGGCTAAATCCTTTCTTTAGCATATGCT-ATAATGAGCTTA-ATC
1 AGGATTACCCGTCCAGGCTAAATCCTTTCTTTA-CACATGCTCAGAA-G-GCTTATATC
*
60770377 TGGATTACCCGTCCAGGCTAAAT-CTATTCCATTT-CACATGCTCGAGAAGGCTTATATC
1 AGGATTACCCGTCCAGGCTAAATCCT-TT-C-TTTACACATGCTC-AGAAGGCTTATATC
* *
60770435 AGGATTACCCGTCCGGGCTAAATTCTTTC
1 AGGATTACCCGTCCAGGCTAAATCCTTTC
60770464 AAAAATGAGG
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
56 2 0.03
57 36 0.49
58 28 0.38
59 8 0.11
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (56 bp):
AGGATTACCCGTCCAGGCTAAATCCTTTCTTTACACATGCTCAGAAGGCTTATATC
Found at i:60770742 original size:20 final size:20
Alignment explanation
Indices: 60770702--60770769 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
60770692 ATTTTTATCA
60770702 ATTATCATTTA--TCAG-GC
1 ATTATCATTTATTTCAGAGC
60770719 ATTATCATTTATTTCAGAGC
1 ATTATCATTTATTTCAGAGC
60770739 ATTATCATTTATTTCAGA-C
1 ATTATCATTTATTTCAGAGC
*
60770758 AATATCATTTAT
1 ATTATCATTTAT
60770770 CGGGCTTTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
17 11 0.23
19 16 0.34
20 20 0.43
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (20 bp):
ATTATCATTTATTTCAGAGC
Found at i:60771005 original size:21 final size:21
Alignment explanation
Indices: 60770979--60771029 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
60770969 ATACAAGTAG
60770979 ATTTAACATCAATTTAATACA
1 ATTTAACATCAATTTAATACA
* *
60771000 ATTTAA-ACTCAATTTAGTCCA
1 ATTTAACA-TCAATTTAATACA
60771021 ATTT-ACATC
1 ATTTAACATC
60771030 TTAGGCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTTAACATCAATTTAATACA
Found at i:60772714 original size:27 final size:27
Alignment explanation
Indices: 60772428--60773101 Score: 221
Period size: 27 Copynumber: 24.9 Consensus size: 27
60772418 TTAGTTTACC
* * *
60772428 AAATTACTGAAATGCCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTATA
* * *
60772455 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCGATTTATA
** * * *
60772482 AAATTACCCAAATATCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTATA
* * *
60772509 AAATTACCGAAATACCTTC-AGTTTACA
1 AAATTACTGAAATACCCTCGA-TTTATA
* *
60772536 AAATTACTGAAATACCCTCAATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTATA
**
60772564 AAATTACTGAAATACTCCT-G-TAAGATA
1 AAATTACTGAAATAC-CCTCGAT-TTATA
* * ** **
60772591 GAATTAC-CATTTTATGCTCGATTTATA
1 AAATTACTGA-AATACCCTCGATTTATA
* * **
60772618 GAATTAC-CATTTTACCCTCGATTTATA
1 AAATTACTGA-AATACCCTCGATTTATA
* ***
60772645 GAATTA-TCGTCTTACCCTCGATTTATA
1 AAATTACT-GAAATACCCTCGATTTATA
* **
60772672 AAATTAC-CATTTTACCCTCGATTTATA
1 AAATTACTGA-AATACCCTCGATTTATA
* * *
60772699 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACTGAAATACCCTCGATTTATA
** **
60772726 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACTGAAATACCCTCGATTTATA
** * *
60772753 AAATTACCAAAATAGCCCT-GGTTTGTA
1 AAATTACTGAAATA-CCCTCGATTTATA
* * *
60772780 AAATTACTAAAATACCCCTTGATTTGTA
1 AAATTACTGAAATA-CCCTCGATTTATA
* *
60772808 AAATTATTGAAATACCCTCGACTCGTA-A
1 AAATTACTGAAATACCCTCGA-T-TTATA
*
60772836 AAATTAC-CAAAGTACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTATA
* * ** * *
60772863 GAATTA-TTATTTCACCCTTGATTTACA
1 AAATTACTGAAAT-ACCCTCGATTTATA
* *** * *
60772890 GAATTACTGTTTTACCCTTGATTTACA
1 AAATTACTGAAATACCCTCGATTTATA
* *** * *
60772917 AAATTACCGTTTTACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTATA
* ***
60772943 AAATTACTGAAATACCC-CTATAGGGTA
1 AAATTACTGAAATACCCTCGAT-TTATA
* ** * * *
60772970 GAATTACCAAAACATCCCTAG-TTTGTA
1 AAATTACTGAAATA-CCCTCGATTTATA
** * * *
60772997 AAATTACCAAAATACCACT-GGTTTCTG
1 AAATTACTGAAATACC-CTCGATTTATA
* *
60773024 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTATA
** * *
60773051 AAATTACCAAAATACCC-CTAATTTACA
1 AAATTACTGAAATACCCTC-GATTTATA
* *
60773078 AAATTACAGAAATACCCTTGATTT
1 AAATTACTGAAATACCCTCGATTT
60773102 GTAGATTTAC
Statistics
Matches: 496, Mismatches: 119, Indels: 64
0.73 0.18 0.09
Matches are distributed among these distances:
25 2 0.00
26 32 0.06
27 384 0.77
28 74 0.15
29 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTATA
Found at i:60772715 original size:54 final size:54
Alignment explanation
Indices: 60772428--60773115 Score: 256
Period size: 54 Copynumber: 12.7 Consensus size: 54
60772418 TTAGTTTACC
* * * * * *
60772428 AAATTACTGAAATGCCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATA
1 AAATTACTGAAATACCCTCGATTTATAAAATTACCAAATTACCCTCGATTTATA
** * * * * *
60772482 AAATTACCCAAATATCCTTGATTTGTAAAATTACCGAAA-TACCTTC-AGTTTACA
1 AAATTACTGAAATACCCTCGATTTATAAAATTACC-AAATTACCCTCGA-TTTATA
* * * **
60772536 AAATTACTGAAATACCCTCAATTTTGTAAAATTACTGAAA-TACTCCT-G-TAAGATA
1 AAATTACTGAAATACCCTCGA-TTTATAAAATTAC-CAAATTAC-CCTCGAT-TTATA
* * ** ** * **
60772591 GAATTAC-CATTTTATGCTCGATTTATAGAATTACCATTTTACCCTCGATTTATA
1 AAATTACTGA-AATACCCTCGATTTATAAAATTACCAAATTACCCTCGATTTATA
* *** **
60772645 GAATTA-TCGTCTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATA
1 AAATTACT-GAAATACCCTCGATTTATAAAATTACCAAATTACCCTCGATTTATA
* * * * **
60772699 AAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATA
1 AAATTACTGAAATACCCTCGATTTATAAAATTACCAAATTACCCTCGATTTATA
** * * * * * *
60772753 AAATTACCAAAATAGCCCT-GGTTTGTAAAATTACTAAAATACCCCTTGATTTGTA
1 AAATTACTGAAATA-CCCTCGATTTATAAAATTACCAAATTA-CCCTCGATTTATA
* * *
60772808 AAATTATTGAAATACCCTCGACTCGTA-AAAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTGAAATACCCTCGA-T-TTATAAAATTACCAAATTACCCTCGATTTATA
* * ** * * * **** * *
60772863 GAATTA-TTATTTCACCCTTGATTTACAGAATTACTGTTTTACCCTTGATTTACA
1 AAATTACTGAAAT-ACCCTCGATTTATAAAATTACCAAATTACCCTCGATTTATA
* *** * * * * ***
60772917 AAATTACCGTTTTACCCTCGA-TTGTGAAATTACTGAAA-TACCC-CTATAGGGTA
1 AAATTACTGAAATACCCTCGATTTATAAAATTAC-CAAATTACCCTCGAT-TTATA
* ** * * * * * * *
60772970 GAATTACCAAAACATCCCTAG-TTTGTAAAATTACCAAAATACCACT-GGTTTCTG
1 AAATTACTGAAATA-CCCTCGATTTATAAAATTACCAAATTACC-CTCGATTTATA
* * * * *
60773024 AAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTAATTTACA
1 AAATTACTGAAATACCCTCGATTTATAAAATTACCAAATTACCCTC-GATTTATA
* * * * *
60773078 AAATTACAGAAATACCCTTGATTTGTAGATTTACCAAA
1 AAATTACTGAAATACCCTCGATTTATAAAATTACCAAA
60773116 ACACCCTTGT
Statistics
Matches: 468, Mismatches: 134, Indels: 64
0.70 0.20 0.10
Matches are distributed among these distances:
52 2 0.00
53 37 0.08
54 321 0.69
55 91 0.19
56 16 0.03
57 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTATAAAATTACCAAATTACCCTCGATTTATA
Found at i:60772715 original size:81 final size:81
Alignment explanation
Indices: 60772592--60772959 Score: 244
Period size: 81 Copynumber: 4.5 Consensus size: 81
60772582 TGTAAGATAG
** * * ** * * * **
60772592 AATTACCATTTTATGCTCGATTTATAGAATTAC-CATTTTACCCTCGATTTATAGAATTATCGTC
1 AATTACCATTTTACCCTCGATTTATAAAATTACTGA-AATACCCTTGATTTACAAAATTATCGAA
*
60772656 TTACCCTCGATTTATAA
65 ATACCCTCGATTTATAA
* * *
60772673 AATTACCATTTTACCCTCGATTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 AATTACCATTTTACCCTCGATTTATAAAATTACTGAAATACCCTTGATTTACAAAATTATCGAAA
**
60772738 TACCCTCGATCAATAA
66 TACCCTCGATTTATAA
*** * * * ** *
60772754 AATTACCAAAATAGCCCT-GGTTTGTAAAATTACTAAAATACCCCTTGATTTGTAAAATTATTGA
1 AATTACCATTTTA-CCCTCGATTTATAAAATTACTGAAATA-CCCTTGATTTACAAAATTATCGA
*
60772818 AATACCCTCGACTCGTA-AA
64 AATACCCTCGA-T-TTATAA
*** * * ** * *
60772837 AATTACCAAAGTACCCTCGATTTATAGAATTA-TTATTTCACCCTTGATTTACAGAATTA-CTGT
1 AATTACCATTTTACCCTCGATTTATAAAATTACTGAAAT-ACCCTTGATTTACAAAATTATC-GA
** * *
60772900 TTTACCCTTGATTTACAA
64 AATACCCTCGATTTATAA
* * *
60772918 AATTACCGTTTTACCCTCGA-TTGTGAAATTACTGAAATACCC
1 AATTACCATTTTACCCTCGATTTATAAAATTACTGAAATACCC
60772960 CTATAGGGTA
Statistics
Matches: 220, Mismatches: 57, Indels: 21
0.74 0.19 0.07
Matches are distributed among these distances:
80 14 0.06
81 113 0.51
82 65 0.30
83 27 0.12
84 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.36
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTATAAAATTACTGAAATACCCTTGATTTACAAAATTATCGAAA
TACCCTCGATTTATAA
Found at i:60773966 original size:20 final size:20
Alignment explanation
Indices: 60773943--60773993 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
60773933 TTGATATGAT
60773943 ATGCACATGATATGTATAAA
1 ATGCACATGATATGTATAAA
*
60773963 ATGCACATGATATGTATGAA
1 ATGCACATGATATGTATAAA
60773983 ATGCACATGAT
1 ATGCACATGAT
60773994 GTATTCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (20 bp):
ATGCACATGATATGTATAAA
Found at i:60774166 original size:25 final size:26
Alignment explanation
Indices: 60774043--60774204 Score: 215
Period size: 26 Copynumber: 6.3 Consensus size: 26
60774033 GAGGAAGTGC
60774043 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
60774069 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
60774095 CAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
60774121 AAAAGGACTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
60774147 AAAAGGGCTT-TGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
60774172 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
60774195 AAAAGAGGCT
1 AAAAG-GGCT
60774205 AGGCCTCCAG
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
23 5 0.04
24 7 0.06
25 29 0.24
26 78 0.66
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:60774396 original size:42 final size:42
Alignment explanation
Indices: 60774337--60774428 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
60774327 TAGTCTCCCC
* ** * *
60774337 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACACTACATATGATATTG
*
60774379 AAATGGGCTTGCATACATCCATTGACACTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACACTACATATGATATTG
60774421 AAATGGGC
1 AAATGGGC
60774429 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACACTACATATGATATTG
Found at i:60793714 original size:40 final size:40
Alignment explanation
Indices: 60793658--60793930 Score: 433
Period size: 40 Copynumber: 6.8 Consensus size: 40
60793648 TTATTTGATG
* * *
60793658 TGGAATTGTATTCGGGCTTAAAGACCCGCAAGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
*
60793698 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTAC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
60793738 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
*
60793778 TGGAATTGTGTCCGGGCTTAAAGACCTGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
* *
60793818 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTAC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
*
60793858 TGGAATTGTATCCGGGCTTAAAGATCTGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
* *
60793898 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCTGCAGGCT
60793931 GTGCTAGAGA
Statistics
Matches: 217, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 17 0.08
40 200 0.92
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
Found at i:60802058 original size:40 final size:40
Alignment explanation
Indices: 60801843--60802048 Score: 331
Period size: 40 Copynumber: 5.2 Consensus size: 40
60801833 TTATTTGATG
*
60801843 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * * *
60801883 TGGAATTGTATACGGGCTTAATGACCTGCAGGCTTCGTAC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
60801923 TGGAATTGTATTCGGGCTTAAAGACCCGCAGGTTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
60801963 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTTGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
60802003 TGGAATTGTATCCGGGCTTAAAGATCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
60802043 TGGAAT
1 TGGAAT
60802049 GACATCCGGG
Statistics
Matches: 151, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 151 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:60813176 original size:39 final size:39
Alignment explanation
Indices: 60813099--60813293 Score: 257
Period size: 39 Copynumber: 5.0 Consensus size: 39
60813089 CAAATTCAAT
* * *
60813099 CACCACCACAAA-GCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAATGCCTTCGGGAC-TT-AGCCCGGATATAA
* *
60813139 TACCAGCACAAATGCCTTCGGGACTTAGCTCGGATATAA
1 CACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
* *
60813178 CACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
* * *
60813217 CACCAACACGAATGCCTTCGGGACATAGCCCGGATATAA
1 CACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
* *
60813256 CACCAGCAAAAATGCCTTCGGGAATTAGCCCGGATATA
1 CACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
60813294 TATCTCACAC
Statistics
Matches: 137, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 116 0.85
40 12 0.09
41 9 0.07
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.18
Consensus pattern (39 bp):
CACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
Found at i:60816418 original size:16 final size:16
Alignment explanation
Indices: 60816397--60816428 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60816387 TAATTTAGTA
60816397 AATTGAAAAATTAAAT
1 AATTGAAAAATTAAAT
60816413 AATTGAAAAATTAAAT
1 AATTGAAAAATTAAAT
60816429 TTAATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AATTGAAAAATTAAAT
Found at i:60816434 original size:21 final size:20
Alignment explanation
Indices: 60816404--60816442 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60816394 GTAAATTGAA
60816404 AAATTAAATAATTGAAAAATT
1 AAATTAAATAATT-AAAAATT
*
60816425 AAATTTAATAATTAAAAA
1 AAATTAAATAATTAAAAA
60816443 CTCTAAGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATTAAATAATTAAAAATT
Found at i:60816520 original size:17 final size:18
Alignment explanation
Indices: 60816493--60816526 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60816483 AATTAAATAT
60816493 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
60816511 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
60816527 TAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:60821492 original size:46 final size:45
Alignment explanation
Indices: 60821442--60821617 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
60821432 TGGTTGAGCA
60821442 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
60821488 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
60821535 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
60821581 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTAATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60821618 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:60821598 original size:93 final size:93
Alignment explanation
Indices: 60821439--60821609 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
60821429 GGATGGTTGA
*
60821439 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
60821504 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
60821532 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
60821597 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60821610 ACTAATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:60824585 original size:15 final size:15
Alignment explanation
Indices: 60824565--60824620 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
60824555 GTATCTTGGG
60824565 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
60824580 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
60824595 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
60824610 TTTCTTTATTC
1 TTTCTTTATTC
60824621 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:60827353 original size:14 final size:16
Alignment explanation
Indices: 60827334--60827366 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
60827324 GACGGGGTTG
60827334 TTAGTT-GTTCT-AAA
1 TTAGTTGGTTCTGAAA
60827348 TTAGTTGGTTCTGAAA
1 TTAGTTGGTTCTGAAA
60827364 TTA
1 TTA
60827367 CCTTGTCGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 5 0.29
16 6 0.35
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (16 bp):
TTAGTTGGTTCTGAAA
Found at i:60830915 original size:21 final size:22
Alignment explanation
Indices: 60830873--60830915 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
60830863 TTTAAGTATA
*
60830873 ATTTAATTATTTTATAAAAATT
1 ATTTAATTATTTTACAAAAATT
* *
60830895 ATTT-ATTTTTTTACAAGAATT
1 ATTTAATTATTTTACAAAAATT
60830916 TAATCGAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTAATTATTTTACAAAAATT
Found at i:60841996 original size:17 final size:18
Alignment explanation
Indices: 60841970--60842003 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60841960 TTTTTGTTTA
60841970 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
60841987 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
60842004 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:60842636 original size:25 final size:25
Alignment explanation
Indices: 60842597--60842646 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
60842587 TGTTTTTTCC
* *
60842597 TAAATTTTAATTTTATTCAATTATT
1 TAAATTTTAAGTTTACTCAATTATT
* *
60842622 TAAATTTTTAGTTTACTGAATTATT
1 TAAATTTTAAGTTTACTCAATTATT
60842647 AAGAAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (25 bp):
TAAATTTTAAGTTTACTCAATTATT
Found at i:60845567 original size:29 final size:29
Alignment explanation
Indices: 60845533--60845606 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
60845523 TAATCAACCG
*
60845533 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
60845562 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
60845591 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
60845607 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:60853608 original size:28 final size:29
Alignment explanation
Indices: 60853538--60853610 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
60853528 TAATCAACCG
*
60853538 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* *
60853567 CGCACACTTAGTGCCATGCA-TTTCAAGT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* *
60853595 TGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
60853611 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 20 0.51
29 19 0.49
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:60862372 original size:30 final size:30
Alignment explanation
Indices: 60862338--60862398 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60862328 TCCTTAACTC
60862338 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
60862368 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
60862398 A
1 A
60862399 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:60863485 original size:25 final size:23
Alignment explanation
Indices: 60863438--60863492 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
60863428 ATCTCTTCCC
*
60863438 AAAATCACATCAAATTCATCAAA
1 AAAATAACATCAAATTCATCAAA
60863461 TGAAAATAACATCAAA-TCATCCAAA
1 --AAAATAACATCAAATTCAT-CAAA
60863486 AAAATAA
1 AAAATAA
60863493 TAATCTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 7 0.25
24 4 0.14
25 17 0.61
ACGTcount: A:0.60, C:0.18, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAATAACATCAAATTCATCAAA
Found at i:60865822 original size:15 final size:17
Alignment explanation
Indices: 60865785--60865832 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
60865775 TAAGTATAAG
60865785 ATAT-TTAA-TATATATA
1 ATATATTAATTATAT-TA
60865801 ATATATT-ATTATATTA
1 ATATATTAATTATATTA
60865817 AT-TATTAATTA-ATTA
1 ATATATTAATTATATTA
60865832 A
1 A
60865833 AACATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 9 0.31
16 13 0.45
17 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATATTAATTATATTA
Found at i:60865827 original size:7 final size:8
Alignment explanation
Indices: 60865785--60865825 Score: 50
Period size: 7 Copynumber: 5.2 Consensus size: 8
60865775 TAAGTATAAG
60865785 ATAT-TTA
1 ATATATTA
60865792 ATATATATA
1 ATATAT-TA
60865801 ATATATTA
1 ATATATTA
*
60865809 TTATATTA
1 ATATATTA
60865817 AT-TATTA
1 ATATATTA
60865824 AT
1 AT
60865826 TAATTAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 11 0.37
8 11 0.37
9 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATATATTA
Found at i:60867347 original size:12 final size:12
Alignment explanation
Indices: 60867330--60867354 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60867320 ATGTAAGTGA
60867330 TCTTGATGATTT
1 TCTTGATGATTT
60867342 TCTTGATGATTT
1 TCTTGATGATTT
60867354 T
1 T
60867355 TACATTTTTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:60868179 original size:46 final size:47
Alignment explanation
Indices: 60868048--60868268 Score: 184
Period size: 46 Copynumber: 4.7 Consensus size: 47
60868038 TAATTTGTGT
* * * * *
60868048 GCCAGTGTAAGACCATGTCTGGGGCATGGCATCTGCATTGAGACGAGT-
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGGGACGA-TA
* * *
60868096 GCCAATGTAAG-GCATGTCTGGGACATGCATC-GTCCTCGGGACGTTA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCAG-CCTCGGGACGATA
* *
60868142 GCCAGTGTAAGA-CATGTCTAGGACATGCATCAGCCTCGAGAC-AT-
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGGGACGATA
* * * * * *
60868186 GTCAGGGTAAGACCATGTCTGGGACATGGGATCAGCACATCAGTACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGC-C-TCGGGACGATA
*
60868236 GCTAGTGTAAGACCATGTCTGGGACATTGCATC
1 GCCAGTGTAAGACCATGTCTGGGACA-TGCATC
60868269 GAAAACTTAA
Statistics
Matches: 139, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 55 0.40
47 15 0.11
48 14 0.10
49 1 0.01
50 27 0.19
51 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGGGACGATA
Found at i:60874820 original size:12 final size:12
Alignment explanation
Indices: 60874803--60874827 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60874793 ATGTAAGTGA
60874803 TCTTGATGATTT
1 TCTTGATGATTT
60874815 TCTTGATGATTT
1 TCTTGATGATTT
60874827 T
1 T
60874828 TACATTTTTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:60875643 original size:46 final size:45
Alignment explanation
Indices: 60875535--60875671 Score: 152
Period size: 46 Copynumber: 3.0 Consensus size: 45
60875525 TAATTTGTGT
* *
60875535 GCCAGTGTAAGACCATGTCTGGGACATGGCAACGGCATTGAGACAAG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACAAG
* * *
60875582 TGCCAGTGTAAGACATGTCTGGGACATGCATCGTCCTCGAGATGTAA-
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA--CAAG
*
60875629 GCCAGTGTAAGACATGTCTAGGACATGCATCGGC-TACGAGACA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGACA
60875672 TGTTAGTGCA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 48 0.62
47 14 0.18
48 14 0.18
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAAG
Found at i:60875735 original size:50 final size:50
Alignment explanation
Indices: 60875675--60875805 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 50
60875665 CGAGACATGT
* * * * *
60875675 TAGTGCAAGACCATTTATGGGACATGGCATCAGCACGTAAGTACAAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCACATAAATACAAGAGC
* * * *
60875725 TAGTGTAAGACCATGTCTAGCACATGGAATCAGCACATAAATACGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCACATAAATACAAGAGC
*
60875775 TAGTGTAAGACCATGTCTGGGACATTGCATC
1 TAGTGTAAGACCATGTCTGGGACATGGCATC
60875806 GGCAACTTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (50 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAGCACATAAATACAAGAGC
Found at i:60891735 original size:27 final size:27
Alignment explanation
Indices: 60891700--60891753 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
60891690 TGTTATGTGA
* *
60891700 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
60891727 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
60891754 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:60892084 original size:49 final size:49
Alignment explanation
Indices: 60892012--60892232 Score: 241
Period size: 49 Copynumber: 4.5 Consensus size: 49
60892002 TGAGGACTTG
* *
60892012 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACCGGATACTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATACTTGGTCACA
* * * * *
60892061 TGTGTAGTACTAAGCGCAGGCTACTATGCGTACCCGATAACTTTGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT-AC-TTGGTCACA
* * * *
60892112 TGTGTAGTACTAAGTGCAGGCGACTACGTGTATCAACGG-T--TAGGCCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-C--CGGATACTTGGTCACA
* * *
60892161 TGTGTAGTACTAAGTGCATGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATACTTGGTCACA
*
60892210 TATGTAGTACTAAGTGCAGGCTA
1 TGTGTAGTACTAAGTGCAGGCTA
60892233 TTATGCATAC
Statistics
Matches: 140, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
46 3 0.02
47 1 0.01
48 1 0.01
49 94 0.67
50 2 0.01
51 35 0.25
52 1 0.01
53 1 0.01
54 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATACTTGGTCACA
Found at i:60895410 original size:30 final size:29
Alignment explanation
Indices: 60895369--60895429 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
60895359 TATATTATCA
* * *
60895369 TATCTTAGGTTTCTTTATTTTGGATTTCTT
1 TATCCTAGGTTTCTCTATCTTGGATTT-TT
60895399 TATCCTAGGTTTCTCTATCTTGGATTTTT
1 TATCCTAGGTTTCTCTATCTTGGATTTTT
60895428 TA
1 TA
60895430 ACTCGGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (29 bp):
TATCCTAGGTTTCTCTATCTTGGATTTTT
Found at i:60895411 original size:15 final size:15
Alignment explanation
Indices: 60895369--60895419 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
60895359 TATATTATCA
60895369 TATCTTAGGTTTCTT
1 TATCTTAGGTTTCTT
*
60895384 TAT-TTTGGATTTCTT
1 TATCTTAGG-TTTCTT
* *
60895399 TATCCTAGGTTTCTC
1 TATCTTAGGTTTCTT
60895414 TATCTT
1 TATCTT
60895420 GGATTTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 4 0.14
15 22 0.76
16 3 0.10
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.59
Consensus pattern (15 bp):
TATCTTAGGTTTCTT
Found at i:60901125 original size:27 final size:27
Alignment explanation
Indices: 60901084--60901137 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
60901074 TGTCATGTGA
* *
60901084 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
60901111 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
60901138 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:60901628 original size:49 final size:50
Alignment explanation
Indices: 60901388--60901628 Score: 231
Period size: 49 Copynumber: 4.8 Consensus size: 50
60901378 ATCTATTGTG
* * * * *
60901388 AGGTCACGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCGGATACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATT
** *
60901438 -GGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-ATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAATAA-TT
* * * * * *
60901488 CGAG-CACGTGTGTAGTACTAAGTGCAGGCTATTATGTGTATCAGACT-GTT
1 AG-GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAATAATT
* * * *
60901538 AGGTCACGTGTTTAGTACTAAGTGTAGGCTACTACGTGTACCGAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATT
* *
60901588 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
60901629 AGATAGCCTT
Statistics
Matches: 154, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
49 76 0.49
50 42 0.27
51 34 0.22
52 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATT
Found at i:60909803 original size:33 final size:33
Alignment explanation
Indices: 60909747--60909812 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
60909737 GTTTCAATTG
* * * **
60909747 GGATTTAGCCTGGACTGGTAATCCTTATTGACT
1 GGATTTAACCTGGACTAGCAATCCAGATTGACT
60909780 GGATTTAACCTGGACTAGCAATCCAGATTGACT
1 GGATTTAACCTGGACTAGCAATCCAGATTGACT
60909813 CAAAAGGGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (33 bp):
GGATTTAACCTGGACTAGCAATCCAGATTGACT
Found at i:60914908 original size:27 final size:26
Alignment explanation
Indices: 60914860--60914911 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60914850 GCGAGGCTGC
*
60914860 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
60914886 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
60914912 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60929083 original size:32 final size:32
Alignment explanation
Indices: 60929032--60929098 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
60929022 GGTTCACTGG
*
60929032 AATGGAATATGACTGTAATGGAATAGAACTAT
1 AATGGAATATGACTATAATGGAATAGAACTAT
**
60929064 AATGGAATA-GAGCTATAATGGAATAGGGCTAT
1 AATGGAATATGA-CTATAATGGAATAGAACTAT
60929096 AAT
1 AAT
60929099 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 2 0.06
32 29 0.94
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (32 bp):
AATGGAATATGACTATAATGGAATAGAACTAT
Found at i:60929098 original size:16 final size:16
Alignment explanation
Indices: 60929032--60929089 Score: 82
Period size: 16 Copynumber: 3.6 Consensus size: 16
60929022 GGTTCACTGG
*
60929032 AATGGAATATG-ACTGT
1 AATGGAATA-GAACTAT
60929048 AATGGAATAGAACTAT
1 AATGGAATAGAACTAT
*
60929064 AATGGAATAGAGCTAT
1 AATGGAATAGAACTAT
60929080 AATGGAATAG
1 AATGGAATAG
60929090 GGCTATAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
15 1 0.03
16 38 0.97
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAACTAT
Found at i:60929284 original size:26 final size:25
Alignment explanation
Indices: 60929254--60929342 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 25
60929244 GGTATTAAAT
*
60929254 TTTAATAAGATTATTATTAAATATAA
1 TTTAATAA-ATAATTATTAAATATAA
* * *
60929280 TTTAATAAAAATAAATAATTTAATCATAT
1 TTTAAT--AAAT-AATTATTAAAT-ATAA
60929309 TTTAATATAATAATTATTAAATATAA
1 TTTAATA-AATAATTATTAAATATAA
60929335 TTTAATAA
1 TTTAATAA
60929343 CATTCTTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
25 1 0.02
26 16 0.31
27 12 0.24
28 13 0.25
29 9 0.18
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
TTTAATAAATAATTATTAAATATAA
Found at i:60932758 original size:48 final size:48
Alignment explanation
Indices: 60932703--60932796 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
60932693 CAATTTTACA
*
60932703 GCATAGGCTTGTAATGGAATAAGCCTGTAATAGGGCATTCCATTCACT
1 GCATAGGCTTGTAATGGAATAAGCCTATAATAGGGCATTCCATTCACT
60932751 GCATAGGCTTGTAATGGAATAAGCCTATAATAGGGCATTCCATTCA
1 GCATAGGCTTGTAATGGAATAAGCCTATAATAGGGCATTCCATTCA
60932797 ACCAAACAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (48 bp):
GCATAGGCTTGTAATGGAATAAGCCTATAATAGGGCATTCCATTCACT
Found at i:60942179 original size:27 final size:27
Alignment explanation
Indices: 60942149--60942306 Score: 210
Period size: 27 Copynumber: 5.9 Consensus size: 27
60942139 AGTGGATAAG
*
60942149 TTGTAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
60942176 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
60942203 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
60942230 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
* ** **
60942257 TTGTGAAATTACTGAAATA-CCCTCAAC
1 TTGTAAAATTACCAAAATACCCCT-AGT
* *
60942284 TTGTAAAATTAACAAAGTACCCC
1 TTGTAAAATTACCAAAATACCCC
60942307 CGATTTACAG
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 4 0.03
27 109 0.94
28 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:60943104 original size:27 final size:26
Alignment explanation
Indices: 60943060--60943111 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60943050 CTCGCTGCAA
*
60943060 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
60943087 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
60943112 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:60943176 original size:33 final size:32
Alignment explanation
Indices: 60943129--60943190 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
60943119 CGCTGCAATC
* *
60943129 TGGTGGCTTTGCCACATATATATATATCTGTTT
1 TGGTGGCCTAGCCACA-ATATATATATCTGTTT
* *
60943162 TGGTGGCCTAGCCACAATATCTGTATCTG
1 TGGTGGCCTAGCCACAATATATATATCTG
60943191 GTGACTTCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (32 bp):
TGGTGGCCTAGCCACAATATATATATCTGTTT
Found at i:60947643 original size:30 final size:29
Alignment explanation
Indices: 60947588--60947664 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
60947578 TACGAAATAG
* * *
60947588 AGATGACATGAAAACCAAGATAAAGAAGTCC
1 AGAT-ACA-GAAATCCAAAATAAAGAAATCC
60947619 A-ATACAAAGAAATCCAAAATAAAGAAATCC
1 AGATAC--AGAAATCCAAAATAAAGAAATCC
60947649 AGATACAGAAATCCAA
1 AGATACAGAAATCCAA
60947665 GATACAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 12 0.30
30 22 0.55
31 6 0.15
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (29 bp):
AGATACAGAAATCCAAAATAAAGAAATCC
Found at i:60947670 original size:15 final size:15
Alignment explanation
Indices: 60947597--60947668 Score: 83
Period size: 15 Copynumber: 4.9 Consensus size: 15
60947587 GAGATGACAT
*
60947597 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * *
60947612 GAAGTCCAATACAAA
1 GAAATCCAAGATAAA
*
60947627 GAAATCCAAAATAAA
1 GAAATCCAAGATAAA
*
60947642 GAAATCC-AGATACA
1 GAAATCCAAGATAAA
60947656 GAAATCCAAGATA
1 GAAATCCAAGATA
60947669 CAATATCATA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 12 0.26
15 35 0.74
ACGTcount: A:0.58, C:0.17, G:0.12, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:60949786 original size:17 final size:18
Alignment explanation
Indices: 60949751--60949786 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60949741 GGACACAGGG
*
60949751 ACACGCCCGTGTGCCTCA
1 ACACCCCCGTGTGCCTCA
60949769 ACACCCCCGTGT-CCTCA
1 ACACCCCCGTGTGCCTCA
60949786 A
1 A
60949787 GCTGTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.19, C:0.47, G:0.17, T:0.17
Consensus pattern (18 bp):
ACACCCCCGTGTGCCTCA
Found at i:60956196 original size:24 final size:24
Alignment explanation
Indices: 60956164--60956227 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
60956154 TCTTACTTAT
**
60956164 TCGCACACATAGTGCCATGTTTTC
1 TCGCACACATAGTGCCATGTAATC
60956188 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCATGTAATC
60956212 TCGCACACATAGTGCC
1 TCGCACACATAGTGCC
60956228 GCATAGCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (24 bp):
TCGCACACATAGTGCCATGTAATC
Found at i:60963008 original size:24 final size:24
Alignment explanation
Indices: 60962951--60963039 Score: 110
Period size: 24 Copynumber: 3.7 Consensus size: 24
60962941 GAATTGAAAG
60962951 TCGCACACATAGTGCTCTTAC-TTAT-
1 TCGCACACATAGTGC-C--ACGTTATC
*
60962976 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTTATC
* *
60963000 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTATC
60963024 TCGCACACATAGTGCC
1 TCGCACACATAGTGCC
60963040 GCATAGCCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
22 2 0.03
23 3 0.05
24 38 0.66
25 15 0.26
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTTATC
Found at i:60980367 original size:45 final size:45
Alignment explanation
Indices: 60980318--60980582 Score: 424
Period size: 45 Copynumber: 5.9 Consensus size: 45
60980308 GATTATCATT
* * *
60980318 TCACCGGCATTATAGCCTGCTAGGCTTGAAA-GCCCGAATAGTATC
1 TCACCGGCATAATAGCCTGCTAGGC-TCAAAGGCCCGAATAGTGTC
* * *
60980363 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
* *
60980408 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
*
60980453 TCACCGGCATAATAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
*
60980498 TCACCGGCATAATAGCCTGCTAGGCTAAAAGGCCCGAATAGTGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
60980543 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
60980583 TAATACCAGT
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
44 4 0.02
45 203 0.98
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (45 bp):
TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
Found at i:60980623 original size:38 final size:38
Alignment explanation
Indices: 60980575--60980660 Score: 127
Period size: 38 Copynumber: 2.3 Consensus size: 38
60980565 GGCTCAAAGG
* * * *
60980575 CCCGAATATAATACCAGTACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
60980613 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
60980651 CCCGGATATA
1 CCCGGATATA
60980661 CATCAAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:60983009 original size:17 final size:17
Alignment explanation
Indices: 60982987--60983020 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60982977 AGTTATCGAG
*
60982987 ACTCATCATTTTCTATT
1 ACTCATCATTTGCTATT
60983004 ACTCATCATTTGCTATT
1 ACTCATCATTTGCTATT
60983021 TCCCACACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.50
Consensus pattern (17 bp):
ACTCATCATTTGCTATT
Found at i:61001636 original size:18 final size:20
Alignment explanation
Indices: 61001596--61001645 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
61001586 CCTATCCATG
*
61001596 ACCCCTTGGCGGCAGCTGTGC
1 ACCCCTTGGCGG-AGCTGAGC
61001617 ACCCCTTGGC-G-GCTGAGC
1 ACCCCTTGGCGGAGCTGAGC
61001635 ACCACCTTGGC
1 ACC-CCTTGGC
61001646 CCACGACTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 9 0.33
19 7 0.26
20 1 0.04
21 10 0.37
ACGTcount: A:0.12, C:0.40, G:0.30, T:0.18
Consensus pattern (20 bp):
ACCCCTTGGCGGAGCTGAGC
Found at i:61004284 original size:18 final size:18
Alignment explanation
Indices: 61004243--61004278 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
61004233 TACTCATGCT
61004243 CACATACAAATTTTCTAA
1 CACATACAAATTTTCTAA
61004261 CACATACAAATTTTCTAA
1 CACATACAAATTTTCTAA
61004279 ATCATATTAT
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (18 bp):
CACATACAAATTTTCTAA
Found at i:61007451 original size:18 final size:17
Alignment explanation
Indices: 61007424--61007457 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61007414 CATGTCATTT
61007424 GCCCAAGTGGGCCCACAC
1 GCCCAAGT-GGCCCACAC
*
61007442 GCCCATGTGGCCCACA
1 GCCCAAGTGGCCCACA
61007458 AGGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.44, G:0.26, T:0.09
Consensus pattern (17 bp):
GCCCAAGTGGCCCACAC
Found at i:61010130 original size:17 final size:17
Alignment explanation
Indices: 61010108--61010146 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
61010098 GAAAGTTTCT
61010108 TCCTTCTTCAATCTTAC
1 TCCTTCTTCAATCTTAC
61010125 TCCTTCTTCAATCTTAC
1 TCCTTCTTCAATCTTAC
61010142 TCCTT
1 TCCTT
61010147 AATTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.36, G:0.00, T:0.49
Consensus pattern (17 bp):
TCCTTCTTCAATCTTAC
Found at i:61013361 original size:41 final size:41
Alignment explanation
Indices: 61013241--61013403 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 41
61013231 TACCATACCA
* * *
61013241 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTGTCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* * * *
61013283 ATGCCAATAGCCCAGCTATAGTCTTACACAAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAC-GAATCTCATATCG
* *
61013326 ATGCCATA-CTCAAATATGGTCTTACACGAAGTCTCATCAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAA-TCTCAT-ATCG
* *
61013367 ATGTCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
61013404 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
40 2 0.02
41 29 0.29
42 32 0.32
43 36 0.36
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:61016144 original size:46 final size:46
Alignment explanation
Indices: 61016087--61016534 Score: 239
Period size: 46 Copynumber: 9.5 Consensus size: 46
61016077 TTTTTCTACT
*
61016087 AGTGTAAGACAT-TCTGGGACATGCATCGGCCACATTATGTGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
61016132 AGTGTTAAGACAT-TCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTG-TAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
* *
61016178 AGTGTAAGACCATGTCTGGGAAATGGCATCGG---CATTGA-GACGACAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGA-G--AGCC
* * *
61016226 AGTGTAAGACATGTCTGAGACATGCATCGGCCTCATGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCC
* * * * * *
61016272 AGTGTAAGACATGTCTAGGAGATGCATCGGCTAC--GA-GAGGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GAGCC
* * * * *
61016316 AGTGTAAGACCATGTCTAGGACATGGCATCGG-AAC-GTATAGAGGTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTAT-GA-GAGCC
* * * *
61016364 AATGTAAGACCATGTCTGGGACATGGCATCGG-CATGGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CAT-TATGAGAGCC
* * * * * **
61016414 AGTGTATGACCATGTATGGGACATGGCGTCGGCCTCGATT-TCGATAGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTAT-GAGAGCC
* *
61016463 AGTATAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGATGATCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-AT-GA-GAGCC
*
61016510 AATGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
61016535 GCATTAGCAT
Statistics
Matches: 327, Mismatches: 46, Indels: 59
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 15 0.05
45 30 0.09
46 101 0.31
47 44 0.13
48 61 0.19
49 36 0.11
50 33 0.10
51 3 0.01
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
Found at i:61016230 original size:48 final size:46
Alignment explanation
Indices: 61016171--61016538 Score: 209
Period size: 48 Copynumber: 7.8 Consensus size: 46
61016161 GCCACATTAT
* *
61016171 GAGAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCATTGAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGA
* * * *
61016218 CGACAGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCTCATGA
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GA
* * * *
61016264 TGTA-AGCCAGTGTAAGA-CATGTCTAGGAGAT-GCATCGGCTACGAGA
1 -G-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGA
* *
61016310 G-GTG-TCAGTGTAAGACCATGTCTAGGACATGGCATCGGAACGTAT-AGA
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGG--C-T-TGAGA
* * * *
61016358 G-GTG-TCAATGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGT
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTG--A-GA
* * * * **
61016407 GAGAGCTAGTGTATGACCATGTATGGGACATGGCGTCGGCCTCGATTTC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGA--GA
* * * *
61016456 GATAGTTAGTATAAGACCATGTCTGGGACATGGCATCGACTTGATG-
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GA
* * *
61016502 GATGATCCAATGTAAGACCATGTCTGGGACATGGCAT
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
61016539 TAGCATTATA
Statistics
Matches: 255, Mismatches: 46, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 55 0.22
47 43 0.17
48 60 0.24
49 37 0.15
50 32 0.13
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGA
Found at i:61016248 original size:94 final size:96
Alignment explanation
Indices: 61016087--61016538 Score: 277
Period size: 94 Copynumber: 4.8 Consensus size: 96
61016077 TTTTTCTACT
* * *
61016087 AGTGTAAGA-CAT-TCTGGGACAT-GCATCGGCCA-C-ATTATGTGAGCCAGTGTTAAGA-CAT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGA-GA-GAGAGCTAGTG-TAAGACCATG
*
61016145 TCTGGGACAT-GCATCGGCCACATTAT-GAGAGCC
62 TCTGAGACATGGCATCGGCCACATTATAGAGAGCC
* * *
61016178 AGTGTAAGACCATGTCTGGGAAATGGCATCGGCATTGAGACGACAGCTAGTGTAAGA-CATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA-GAGAGCTAGTGTAAGACCATGTCT
* *
61016242 GAGACAT-GCATCGGCCTCATGAT-GTA-AGCC
65 GAGACATGGCATCGGCCACATTATAG-AGAGCC
* * *
61016272 AGTGTAAGA-CATGTCTAGGAGAT-GCATCGGC-TACGAGAG-GTG-TCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGAGAGAGCT-AGTGTAAGACCATGTC
* * * *
61016332 T-AGGACATGGCATCGG-AAC-GTATAGAGGTGTC
64 TGA-GACATGGCATCGGCCACATTATAGA-GAGCC
* * * *
61016364 AATGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCTAGTGTATGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG--A-GAGAGAGCTAGTGTAAGACCATGT
* * * * * * **
61016429 ATGGGACATGGCGTCGGCCTCGATT-TCGATAGTT
63 CTGAGACATGGCATCGGCCAC-ATTATAGAGAGCC
* * * * * *
61016463 AGTATAAGACCATGTCTGGGACATGGCATCGAC-TTGATG-GATGATCCAATGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GAGA-GAGCTAGTGTAAGACCATGTC
*
61016526 TGGGACATGGCAT
64 TGAGACATGGCAT
61016539 TAGCATTATA
Statistics
Matches: 285, Mismatches: 48, Indels: 51
0.74 0.12 0.13
Matches are distributed among these distances:
89 1 0.00
90 14 0.05
91 25 0.09
92 32 0.11
93 43 0.15
94 62 0.22
95 5 0.02
96 32 0.11
97 2 0.01
98 31 0.11
99 34 0.12
100 3 0.01
101 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGAGAGAGCTAGTGTAAGACCATGTCTG
AGACATGGCATCGGCCACATTATAGAGAGCC
Found at i:61016434 original size:50 final size:49
Alignment explanation
Indices: 61016316--61016538 Score: 172
Period size: 49 Copynumber: 4.6 Consensus size: 49
61016306 GAGAGGTGTC
* * * * *
61016316 AGTGTAAGACCATGTCTAGGACATGGCATCGG-AACG-TATAGAG-GTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATTTCGAGAG-CT
* *
61016363 CAATGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGT-GAGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAT-T-TCGAGAGCT
* * * * * *
61016414 AGTGTATGACCATGTATGGGACATGGCGTCGGCCTCGATTTCGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATTTCGAGAGCT
* * * * * *
61016463 AGTATAAGACCATGTCTGGGACATGGCATCGAC-TTGA--TGGATGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATTTCGA-GAGCT
*
61016510 AATGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
61016539 TAGCATTATA
Statistics
Matches: 141, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
46 3 0.02
47 28 0.20
48 34 0.24
49 36 0.26
50 34 0.24
51 4 0.03
52 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATTTCGAGAGCT
Found at i:61022780 original size:40 final size:40
Alignment explanation
Indices: 61022743--61022888 Score: 233
Period size: 40 Copynumber: 3.6 Consensus size: 40
61022733 TGAGGAATGT
61022743 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTG
* * *
61022783 TATCCGGGCTTAAAAACCCGCAGGCTAT-ATGCTGGAA-TG
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGTTGGAATTG
61022822 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTG
1 -TATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTG
61022863 TATCCGGGCTTAAAGACCCGCAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCT
61022889 ACGAGCTGGT
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
39 3 0.03
40 90 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTG
Found at i:61022869 original size:80 final size:80
Alignment explanation
Indices: 61022736--61022889 Score: 299
Period size: 80 Copynumber: 1.9 Consensus size: 80
61022726 TGATACTTGA
61022736 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTGTATCCGGGCTTAAAAACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTGTATCCGGGCTTAAAAACC
61022801 CGCAGGCTATATGCT
66 CGCAGGCTATATGCT
*
61022816 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTGTATCCGGGCTTAAAAACC
61022881 CGCAGGCTA
66 CGCAGGCTA
61022890 CGAGCTGGTA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGTTGGAATTGTATCCGGGCTTAAAAACC
CGCAGGCTATATGCT
Found at i:61028413 original size:38 final size:38
Alignment explanation
Indices: 61028371--61028451 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
61028361 TAAAGACCCA
** *
61028371 CAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTAAAATATCAAGGATAAATCCCG
**
61028409 CAGGCTTCGTGCTGGTATTATATCAAGGATAAATCCCG
1 CAGGCTTCGTGCTGGTAAAATATCAAGGATAAATCCCG
61028447 CAGGC
1 CAGGC
61028452 CTAGTGATGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTAAAATATCAAGGATAAATCCCG
Found at i:61028515 original size:43 final size:43
Alignment explanation
Indices: 61028467--61028613 Score: 267
Period size: 43 Copynumber: 3.4 Consensus size: 43
61028457 GATGGTATTA
61028467 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
61028510 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
61028553 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
61028596 TATTCGGGCCTTCATGCC
1 TATTCGGGCCTTCATGCC
61028614 GGTGATGTGT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.11, C:0.27, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:61028627 original size:70 final size:70
Alignment explanation
Indices: 61028535--61028683 Score: 226
Period size: 70 Copynumber: 2.1 Consensus size: 70
61028525 GCCTAGCAGG
* * * * *
61028535 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTATATTCAGGCATTCGTACCTAGCAGGCTTCGTGCCAGTGATATGTATT
61028600 CGGGC
66 CGGGC
* * *
61028605 CTTCATGCCGGTGATGTGTATTCAGGCATTCGTACCTAGTAGGCTTCGTGCCAGTGATATGTATT
1 CTTCGTGCCGGTGATGTATATTCAGGCATTCGTACCTAGCAGGCTTCGTGCCAGTGATATGTATT
61028670 CGGGC
66 CGGGC
61028675 CTTCGTGCC
1 CTTCGTGCC
61028684 TAGCAGGCGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.32
Consensus pattern (70 bp):
CTTCGTGCCGGTGATGTATATTCAGGCATTCGTACCTAGCAGGCTTCGTGCCAGTGATATGTATT
CGGGC
Found at i:61028680 original size:43 final size:43
Alignment explanation
Indices: 61028605--61028691 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
61028595 GTATTCGGGC
* * *
61028605 CTTCATGCCGGTGATGTGTATTCAGGCATTCGTACCTAGTAGG
1 CTTCATGCCAGTGATATGTATTCAGGCATTCGTACCTAGCAGG
* * * *
61028648 CTTCGTGCCAGTGATATGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCATGCCAGTGATATGTATTCAGGCATTCGTACCTAGCAGG
61028691 C
1 C
61028692 GTAATGCCGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (43 bp):
CTTCATGCCAGTGATATGTATTCAGGCATTCGTACCTAGCAGG
Found at i:61028700 original size:113 final size:113
Alignment explanation
Indices: 61028492--61028704 Score: 327
Period size: 113 Copynumber: 1.9 Consensus size: 113
61028482 GCCTAGCAGG
* * * * * *
61028492 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTATATT
1 CTTCATGCCGGTGATGTGTATTCAGGCATTCGTACCTAGCAGGCTTCGTGCCAGTGATATATATT
* **
61028557 CGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGC
66 CGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTGTATTCGGGC
* *
61028605 CTTCATGCCGGTGATGTGTATTCAGGCATTCGTACCTAGTAGGCTTCGTGCCAGTGATATGTATT
1 CTTCATGCCGGTGATGTGTATTCAGGCATTCGTACCTAGCAGGCTTCGTGCCAGTGATATATATT
61028670 CGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
66 CGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
61028705 AATGATATGT
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
113 89 1.00
ACGTcount: A:0.13, C:0.24, G:0.32, T:0.31
Consensus pattern (113 bp):
CTTCATGCCGGTGATGTGTATTCAGGCATTCGTACCTAGCAGGCTTCGTGCCAGTGATATATATT
CGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTGTATTCGGGC
Found at i:61034286 original size:17 final size:17
Alignment explanation
Indices: 61034264--61034297 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61034254 AAATGCTTAG
61034264 TAAGTTTTAAGCAGTGT
1 TAAGTTTTAAGCAGTGT
61034281 TAAGTTTTAAGCAGTGT
1 TAAGTTTTAAGCAGTGT
61034298 CAACAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
TAAGTTTTAAGCAGTGT
Found at i:61034759 original size:37 final size:37
Alignment explanation
Indices: 61034700--61034808 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
61034690 AGCTCAGACG
* *
61034700 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
61034737 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
61034774 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
61034809 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:61035080 original size:48 final size:48
Alignment explanation
Indices: 61034954--61035138 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
61034944 GCACATCGCC
*
61034954 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
61035004 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* * *
61035052 TACATATTTCATATTAGCCATTCGGCTTTACCACATATAAATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
61035100 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
61035139 TGCATGTTCA
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
48 78 0.64
49 2 0.02
50 41 0.34
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:61035143 original size:98 final size:98
Alignment explanation
Indices: 61034954--61035137 Score: 284
Period size: 98 Copynumber: 1.9 Consensus size: 98
61034944 GCACATCGCC
* *
61034954 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCATACATATATTTCACATT
61035019 GACCATTCAGCTTTACCACATATGCATATCTCA
66 GACCATTCAGCTTTACCACATATGCATATCTCA
* * *
61035052 TACATATTTCATATTAGCCATTCGGCTTTACCACATATAAATTTCTCATACAT-T-TTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCATACATATATTTCACATT
*
61035115 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCAGCTTTACCACATAT
61035138 ATGCATGTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.37
97 1 0.01
98 48 0.61
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCATACATATATTTCACATT
GACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:61035201 original size:47 final size:47
Alignment explanation
Indices: 61035108--61035301 Score: 253
Period size: 47 Copynumber: 4.1 Consensus size: 47
61035098 CATACATTTT
* * * *
61035108 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * *
61035155 CCACATTGGCCATTCGGCCTTATCACACATATACGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
61035202 TCACATTGGCCATTCGACCTTATCACATAAATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
61035249 TCACATTGGCCACTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
61035296 TCACAT
1 TCACAT
61035302 AAAATCCTAA
Statistics
Matches: 125, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:61040334 original size:40 final size:40
Alignment explanation
Indices: 61040297--61040389 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
61040287 TGAGGAATGT
* *
61040297 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTACGAGCTGGAATTG
* *
61040337 TATCCGGGCTTAAAGACCCGCAGGCTACGAGCTGGTATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTACGAGCTGGAATTG
*
61040377 TA-CCGGGTTTAAA
1 TATCCGGGCTTAAA
61040390 TTCCCGTAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.21
40 38 0.79
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTACGAGCTGGAATTG
Found at i:61041738 original size:16 final size:16
Alignment explanation
Indices: 61041717--61041775 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
61041707 ATGTATCAGC
*
61041717 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCA
61041733 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGCCA
***
61041749 AAAAATTGAAATGCCA
1 AAAAGCCGAAATGCCA
61041765 AAAAGCCGAAA
1 AAAAGCCGAAA
61041776 GTTTGGCTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.53, C:0.20, G:0.19, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:61041917 original size:18 final size:19
Alignment explanation
Indices: 61041884--61041919 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
61041874 ATTTGGCCAT
61041884 ATGGGCCAGAATGGGCTAA
1 ATGGGCCAGAATGGGCTAA
*
61041903 ATGGGCCCG-ATGGGCTA
1 ATGGGCCAGAATGGGCTA
61041920 TTGGGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (19 bp):
ATGGGCCAGAATGGGCTAA
Found at i:61042040 original size:29 final size:29
Alignment explanation
Indices: 61042000--61042080 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
61041990 AATGTGACTA
* *
61042000 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAAGGTGATTTG
*
61042029 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAAGGTGATTTG
* *
61042058 GGCCTAATGGGCCAGATACAGGT
1 GGCCTAATGGGCCATATAAAGGT
61042081 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTGATTTG
Found at i:61043007 original size:17 final size:17
Alignment explanation
Indices: 61042985--61043018 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61042975 TATATTCATT
61042985 GTAATTACGAGAAGTTG
1 GTAATTACGAGAAGTTG
61043002 GTAATTACGAGAAGTTG
1 GTAATTACGAGAAGTTG
61043019 AACATGGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
GTAATTACGAGAAGTTG
Found at i:61048163 original size:26 final size:26
Alignment explanation
Indices: 61048131--61048186 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
61048121 TTCTAATATA
61048131 AAGTAAAGAAATAAAAAAATCGTTTC
1 AAGTAAAGAAATAAAAAAATCGTTTC
61048157 AAGTAAAGAAATAAAAAAATCGTTTC
1 AAGTAAAGAAATAAAAAAATCGTTTC
61048183 AAGT
1 AAGT
61048187 TCAATAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.23
Consensus pattern (26 bp):
AAGTAAAGAAATAAAAAAATCGTTTC
Found at i:61056985 original size:3 final size:3
Alignment explanation
Indices: 61056977--61057065 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
61056967 GCGACCACTA
*
61056977 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
61057025 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
61057066 ATGTTCCCTC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:61061632 original size:29 final size:29
Alignment explanation
Indices: 61061590--61061649 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
61061580 ATTTGGTAAA
*
61061590 TTTTAATCCCTGTACTTTTCAAA-TTAATG
1 TTTTAATCCCTGTA-ATTTCAAACTTAATG
* *
61061619 TTTTAGTCCTTGTAATTTCAAACTTTAATG
1 TTTTAATCCCTGTAATTTCAAAC-TTAATG
61061649 T
1 T
61061650 AATCCTAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 7 0.27
29 12 0.46
30 7 0.27
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (29 bp):
TTTTAATCCCTGTAATTTCAAACTTAATG
Found at i:61061837 original size:134 final size:133
Alignment explanation
Indices: 61061681--61061950 Score: 522
Period size: 134 Copynumber: 2.0 Consensus size: 133
61061671 AATTAAATTC
61061681 ATTTGATTAAATTTTATTATTATTGTTCTATGCGTAAAATTGTAAACTTAGTTCATGTTCACCAA
1 ATTTGATTAAATTTTATTATTATTGTTCTATGCGTAAAATTGTAAACTTAGTTCATGTTCACCAA
61061746 TTTGATCATTCCTACACTTTTTGAATTTTGAAATATCAGTCTTGACACAAACAACCATAAAATCC
66 TTTGATCATTCCTACACTTTTTGAA-TTTGAAATATCAGTCTTGACACAAACAACCATAAAATCC
61061811 ATTA
130 ATTA
61061815 ATTTGATTAAATTTTATTATTATTGTTCTATGCGTAAAATTGTAAACTTAGTTCATGTTCACCAA
1 ATTTGATTAAATTTTATTATTATTGTTCTATGCGTAAAATTGTAAACTTAGTTCATGTTCACCAA
*
61061880 TTTGATCATTCCTACACTTTTTGAATTTGAAATATCAGTCTTGACGCAAACAACCATAAAATCCA
66 TTTGATCATTCCTACACTTTTTGAATTTGAAATATCAGTCTTGACACAAACAACCATAAAATCCA
61061945 TTA
131 TTA
61061948 ATT
1 ATT
61061951 GGCTTTTTTG
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
133 45 0.33
134 90 0.67
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (133 bp):
ATTTGATTAAATTTTATTATTATTGTTCTATGCGTAAAATTGTAAACTTAGTTCATGTTCACCAA
TTTGATCATTCCTACACTTTTTGAATTTGAAATATCAGTCTTGACACAAACAACCATAAAATCCA
TTA
Found at i:61064356 original size:459 final size:459
Alignment explanation
Indices: 61063498--61064413 Score: 1832
Period size: 459 Copynumber: 2.0 Consensus size: 459
61063488 ACTACTAGTA
61063498 CATATAAAGTAAATATGGCGCATTAACATGTGTCAATAAATTGTCATTAAAAGATCAAAAAGAAA
1 CATATAAAGTAAATATGGCGCATTAACATGTGTCAATAAATTGTCATTAAAAGATCAAAAAGAAA
61063563 GAGCAAAGTGTCAGATGGACTATGCAATAAATTGAAACCTAAGATAAATGTGGTATTCCTATTTT
66 GAGCAAAGTGTCAGATGGACTATGCAATAAATTGAAACCTAAGATAAATGTGGTATTCCTATTTT
61063628 TATTTCCATCAAGTTATACAACATGAAAACCATCAATAATCTGAATCCCCAAGAGACCAAATAAA
131 TATTTCCATCAAGTTATACAACATGAAAACCATCAATAATCTGAATCCCCAAGAGACCAAATAAA
61063693 ATGCCATGTCATATAATAATTCAGGTGAACAAGGCTAAAGTCGGACTCATTTAAGCCAAATGCAG
196 ATGCCATGTCATATAATAATTCAGGTGAACAAGGCTAAAGTCGGACTCATTTAAGCCAAATGCAG
61063758 TTGCTTACTCAATAAGAAAAACAGCCTTTTTGTTAGGACAATGTTGTAAAAGGAAAAAGTAACCG
261 TTGCTTACTCAATAAGAAAAACAGCCTTTTTGTTAGGACAATGTTGTAAAAGGAAAAAGTAACCG
61063823 AATGCAAAAAGAGAAGAATAATAAAATTTCCAAATGCTTGTGGCAGGGGCAATATCGGGAACAGA
326 AATGCAAAAAGAGAAGAATAATAAAATTTCCAAATGCTTGTGGCAGGGGCAATATCGGGAACAGA
61063888 ACAAGAAAGCACATGCAACACACATGTTGCCAGATGCTGAAATGAGTAAAGTTCTAATGATAAGA
391 ACAAGAAAGCACATGCAACACACATGTTGCCAGATGCTGAAATGAGTAAAGTTCTAATGATAAGA
61063953 TATT
456 TATT
61063957 CATATAAAGTAAATATGGCGCATTAACATGTGTCAATAAATTGTCATTAAAAGATCAAAAAGAAA
1 CATATAAAGTAAATATGGCGCATTAACATGTGTCAATAAATTGTCATTAAAAGATCAAAAAGAAA
61064022 GAGCAAAGTGTCAGATGGACTATGCAATAAATTGAAACCTAAGATAAATGTGGTATTCCTATTTT
66 GAGCAAAGTGTCAGATGGACTATGCAATAAATTGAAACCTAAGATAAATGTGGTATTCCTATTTT
61064087 TATTTCCATCAAGTTATACAACATGAAAACCATCAATAATCTGAATCCCCAAGAGACCAAATAAA
131 TATTTCCATCAAGTTATACAACATGAAAACCATCAATAATCTGAATCCCCAAGAGACCAAATAAA
61064152 ATGCCATGTCATATAATAATTCAGGTGAACAAGGCTAAAGTCGGACTCATTTAAGCCAAATGCAG
196 ATGCCATGTCATATAATAATTCAGGTGAACAAGGCTAAAGTCGGACTCATTTAAGCCAAATGCAG
61064217 TTGCTTACTCAATAAGAAAAACAGCCTTTTTGTTAGGACAATGTTGTAAAAGGAAAAAGTAACCG
261 TTGCTTACTCAATAAGAAAAACAGCCTTTTTGTTAGGACAATGTTGTAAAAGGAAAAAGTAACCG
61064282 AATGCAAAAAGAGAAGAATAATAAAATTTCCAAATGCTTGTGGCAGGGGCAATATCGGGAACAGA
326 AATGCAAAAAGAGAAGAATAATAAAATTTCCAAATGCTTGTGGCAGGGGCAATATCGGGAACAGA
61064347 ACAAGAAAGCACATGCAACACACATGTTGCCAGATGCTGAAATGAGTAAAGTTCTAATGATAAGA
391 ACAAGAAAGCACATGCAACACACATGTTGCCAGATGCTGAAATGAGTAAAGTTCTAATGATAAGA
61064412 TA
456 TA
61064414 ACAGCATAGC
Statistics
Matches: 457, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
459 457 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (459 bp):
CATATAAAGTAAATATGGCGCATTAACATGTGTCAATAAATTGTCATTAAAAGATCAAAAAGAAA
GAGCAAAGTGTCAGATGGACTATGCAATAAATTGAAACCTAAGATAAATGTGGTATTCCTATTTT
TATTTCCATCAAGTTATACAACATGAAAACCATCAATAATCTGAATCCCCAAGAGACCAAATAAA
ATGCCATGTCATATAATAATTCAGGTGAACAAGGCTAAAGTCGGACTCATTTAAGCCAAATGCAG
TTGCTTACTCAATAAGAAAAACAGCCTTTTTGTTAGGACAATGTTGTAAAAGGAAAAAGTAACCG
AATGCAAAAAGAGAAGAATAATAAAATTTCCAAATGCTTGTGGCAGGGGCAATATCGGGAACAGA
ACAAGAAAGCACATGCAACACACATGTTGCCAGATGCTGAAATGAGTAAAGTTCTAATGATAAGA
TATT
Found at i:61065640 original size:38 final size:37
Alignment explanation
Indices: 61065597--61065669 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
61065587 GGTGTTACAG
* *
61065597 GGAACAAAGCCTTATCGGTTTGGAAACTGTTGTTATAA
1 GGAACAAAGCCTTATCAGCTTGGAAACTGTT-TTATAA
* *
61065635 GGAACAGAGCCTTATCAGCTTGGAAATTGTTTTAT
1 GGAACAAAGCCTTATCAGCTTGGAAACTGTTTTAT
61065670 GAAAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.13
38 27 0.87
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (37 bp):
GGAACAAAGCCTTATCAGCTTGGAAACTGTTTTATAA
Found at i:61065983 original size:26 final size:26
Alignment explanation
Indices: 61065953--61066003 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
61065943 AACTATTTAT
*
61065953 AAAGTAATCTTTGGAGATAACTGAGC
1 AAAGTAATCTTTGGAGACAACTGAGC
*
61065979 AAAGTGATCTTTGGAGACAACTGAG
1 AAAGTAATCTTTGGAGACAACTGAG
61066004 AACTAGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (26 bp):
AAAGTAATCTTTGGAGACAACTGAGC
Found at i:61070002 original size:26 final size:26
Alignment explanation
Indices: 61069951--61070003 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
61069941 AAGGTCAGAG
* * *
61069951 ATGCGATAATGCATCTCAGAATACAT
1 ATGCGATAACGCATCTCACAACACAT
*
61069977 ATGCGATAACGCATTTCACAACACAT
1 ATGCGATAACGCATCTCACAACACAT
61070003 A
1 A
61070004 CATTTCATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
ATGCGATAACGCATCTCACAACACAT
Found at i:61070477 original size:34 final size:34
Alignment explanation
Indices: 61070431--61070499 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
61070421 ATTGTGAAGG
* *
61070431 TCACACTGGACACGTAAACAACTAATCTACTCTA
1 TCACACTAGACACCTAAACAACTAATCTACTCTA
*
61070465 TCACACTAGACACCTAAACAATTAATCTACTCTA
1 TCACACTAGACACCTAAACAACTAATCTACTCTA
61070499 T
1 T
61070500 TGCTAGTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.26
Consensus pattern (34 bp):
TCACACTAGACACCTAAACAACTAATCTACTCTA
Found at i:61079305 original size:20 final size:20
Alignment explanation
Indices: 61079277--61079326 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
61079267 AGAAGTCATC
* * *
61079277 AATTGTATCCACCAGTTGCG
1 AATTATATCCACCAATTGCA
*
61079297 AATTATATCAACCAATTGCA
1 AATTATATCCACCAATTGCA
*
61079317 AATCATATCC
1 AATTATATCC
61079327 GCTGGGCGAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (20 bp):
AATTATATCCACCAATTGCA
Found at i:61087024 original size:27 final size:27
Alignment explanation
Indices: 61086994--61087046 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
61086984 ATGAAAATTT
*
61086994 AGAGAATTA-AAAGAGTTGAGAAAGTTG
1 AGAG-ATTAGAAAGAATTGAGAAAGTTG
* *
61087021 AGAGTTTAGAAAGAATTGAGAGAGTT
1 AGAGATTAGAAAGAATTGAGAAAGTT
61087047 AGATTTGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (27 bp):
AGAGATTAGAAAGAATTGAGAAAGTTG
Found at i:61087476 original size:17 final size:18
Alignment explanation
Indices: 61087449--61087482 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61087439 TCAAATATAG
61087449 TTATAAATTTTTATATTA
1 TTATAAATTTTTATATTA
*
61087467 TTAT-AATTTTTTTATT
1 TTATAAATTTTTATATT
61087483 CGTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATAAATTTTTATATTA
Found at i:61092135 original size:42 final size:42
Alignment explanation
Indices: 61092088--61092200 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
61092078 TATCCACAAT
* *
61092088 GAACTTAGACCACTCAACGAGCTCGGATGC-CACATATCTCAC
1 GAACTTAGACCACTCAACGAGCTCGGAT-CTCACACATATCAC
* * * * *
61092130 GAACTTGGACCACTCAACAAGTTCAGAATCTCATACATATCAC
1 GAACTTAGACCACTCAACGAGCTC-GGATCTCACACATATCAC
*
61092173 GAACTTAGACCTCTCAACGAGCTCGGAT
1 GAACTTAGACCACTCAACGAGCTCGGAT
61092201 TGCTTAATTC
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (42 bp):
GAACTTAGACCACTCAACGAGCTCGGATCTCACACATATCAC
Found at i:61094939 original size:19 final size:20
Alignment explanation
Indices: 61094915--61094960 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
61094905 CAAAAATAAA
61094915 TCCAAAGTCCCAA-A-CAAAG
1 TCCAAAGT-CCAAGACCAAAG
61094934 TCCAAA-TCCAAGACCAAAG
1 TCCAAAGTCCAAGACCAAAG
61094953 TCCAAAGT
1 TCCAAAGT
61094961 AATTAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.17
18 2 0.08
19 17 0.71
20 1 0.04
ACGTcount: A:0.46, C:0.30, G:0.11, T:0.13
Consensus pattern (20 bp):
TCCAAAGTCCAAGACCAAAG
Found at i:61102862 original size:36 final size:37
Alignment explanation
Indices: 61102779--61102888 Score: 132
Period size: 36 Copynumber: 3.0 Consensus size: 37
61102769 TTTGAAATTA
* * * * **
61102779 AATTATTGATGTTCTGATTCGCATGATAAACATGTTAT
1 AATT-TTGATATTCTGACTCGCATGTTAAGCATGCCAT
* *
61102817 TATTTTGATATTCTGACTCTCATGTT-AGCATGCCAT
1 AATTTTGATATTCTGACTCGCATGTTAAGCATGCCAT
61102853 AATTTTGATATTCTGACTCGCATGTTAAGCATGCCA
1 AATTTTGATATTCTGACTCGCATGTTAAGCATGCCA
61102889 ATGTGATAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
36 31 0.51
37 27 0.44
38 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (37 bp):
AATTTTGATATTCTGACTCGCATGTTAAGCATGCCAT
Found at i:61121189 original size:452 final size:452
Alignment explanation
Indices: 61120311--61121178 Score: 1718
Period size: 452 Copynumber: 1.9 Consensus size: 452
61120301 ATTAAAATCT
61120311 TAAAATTACCTTTTTAACCCTAACTTTTCACTTATTTACAAATTGGTCCATAGGCTCGTAAAATG
1 TAAAATTACCTTTTTAACCCTAACTTTTCACTTATTTACAAATTGGTCCATAGGCTCGTAAAATG
61120376 AAATGCATGCATTTTCTTGGTTACCCAAGCCTATCTGAACCTATACCATGCTCATATCAGCACAC
66 AAATGCATGCATTTTCTTGGTTACCCAAGCCTATCTGAACCTATACCATGCTCATATCAGCACAC
61120441 ATTTTTCTTAATTTCACATTTTTACTACTCACTTTCACACTTTTTACAAACAAGTCCTTTTTAGG
131 ATTTTTCTTAATTTCACATTTTTACTACTCACTTTCACACTTTTTACAAACAAGTCCTTTTTAGG
*
61120506 TTTTTTTTACTAAAAACCACCTAGTAAAAGATGTTCATCGTACATCAAACTTTCATAATCTTCCG
196 TTTTTTTTACTAAAAACCACCTAGTAAAAGATGTTCATCGCACATCAAACTTTCATAATCTTCCG
61120571 TTAATCATCAAAATACATGTAACACCCCAAACCCGTCCTAGACATTATGGCCGAATCTAGAGGTG
261 TTAATCATCAAAATACATGTAACACCCCAAACCCGTCCTAGACATTATGGCCGAATCTAGAGGTG
61120636 TCACATGAAAGTGTTTTTCGTAGAATAAAATTTCGTTTGGAAAACCCCATTCTGTATTAAACCTC
326 TCACATGAAAGTGTTTTTCGTAGAATAAAATTTCGTTTGGAAAACCCCATTCTGTATTAAACCTC
61120701 TTTGTAATCTTAGCTAGTATTTAGGTTACATTGTTCATATCAACCCATAACACATACTTTAG
391 TTTGTAATCTTAGCTAGTATTTAGGTTACATTGTTCATATCAACCCATAACACATACTTTAG
61120763 TAAAATTACCTTTTTAACCCTAACTTTTCACTTATTTACAAATTGGTCCATAGGCTCGTAAAATG
1 TAAAATTACCTTTTTAACCCTAACTTTTCACTTATTTACAAATTGGTCCATAGGCTCGTAAAATG
61120828 AAATGCATGCATTTTCTTGGTTACCCAAGCCTATCTGAACCTATACCATGCTCATATCAGCACAC
66 AAATGCATGCATTTTCTTGGTTACCCAAGCCTATCTGAACCTATACCATGCTCATATCAGCACAC
*
61120893 ATTTTTCTTTATTTCACATTTTTACTACTCACTTTCACACTTTTTACAAACAAGTCCTTTTTAGG
131 ATTTTTCTTAATTTCACATTTTTACTACTCACTTTCACACTTTTTACAAACAAGTCCTTTTTAGG
61120958 TTTTTTTTACTAAAAACCACCTAGTAAAAGATGTTCATCGCACATCAAACTTTCATAATCTTCCG
196 TTTTTTTTACTAAAAACCACCTAGTAAAAGATGTTCATCGCACATCAAACTTTCATAATCTTCCG
61121023 TTAATCATCAAAATACATGTAACACCCCAAACCCGTCCTAGACATTATGGCCGAATCTAGAGGTG
261 TTAATCATCAAAATACATGTAACACCCCAAACCCGTCCTAGACATTATGGCCGAATCTAGAGGTG
61121088 TCACATGAAAGTGTTTTTCGTAGAATAAAATTTCGTTTGGAAAACCCCATTCTGTATTAAACCTC
326 TCACATGAAAGTGTTTTTCGTAGAATAAAATTTCGTTTGGAAAACCCCATTCTGTATTAAACCTC
61121153 TTTGTAATCTTAGCTAGTATTTAGGT
391 TTTGTAATCTTAGCTAGTATTTAGGT
61121179 CGTCTTGTTC
Statistics
Matches: 414, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
452 414 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (452 bp):
TAAAATTACCTTTTTAACCCTAACTTTTCACTTATTTACAAATTGGTCCATAGGCTCGTAAAATG
AAATGCATGCATTTTCTTGGTTACCCAAGCCTATCTGAACCTATACCATGCTCATATCAGCACAC
ATTTTTCTTAATTTCACATTTTTACTACTCACTTTCACACTTTTTACAAACAAGTCCTTTTTAGG
TTTTTTTTACTAAAAACCACCTAGTAAAAGATGTTCATCGCACATCAAACTTTCATAATCTTCCG
TTAATCATCAAAATACATGTAACACCCCAAACCCGTCCTAGACATTATGGCCGAATCTAGAGGTG
TCACATGAAAGTGTTTTTCGTAGAATAAAATTTCGTTTGGAAAACCCCATTCTGTATTAAACCTC
TTTGTAATCTTAGCTAGTATTTAGGTTACATTGTTCATATCAACCCATAACACATACTTTAG
Found at i:61121740 original size:22 final size:22
Alignment explanation
Indices: 61121710--61121763 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
61121700 CAGCTAGCCT
*
61121710 CTACTCACCACTCCGTCCAACC
1 CTACACACCACTCCGTCCAACC
61121732 CTACACACCACTCCGTCCAACC
1 CTACACACCACTCCGTCCAACC
*
61121754 CCACACACCA
1 CTACACACCA
61121764 TATGAGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.56, G:0.04, T:0.13
Consensus pattern (22 bp):
CTACACACCACTCCGTCCAACC
Found at i:61126679 original size:47 final size:47
Alignment explanation
Indices: 61126625--61126740 Score: 214
Period size: 47 Copynumber: 2.5 Consensus size: 47
61126615 GCCCATAAGT
61126625 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATATCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATATCAC
*
61126672 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATATCAC
*
61126719 GAACTCGGACTCAACTTAACGA
1 GAACTCGGACTCAACTCAACGA
61126741 CTTCAGAACT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATATCAC
Found at i:61129557 original size:11 final size:11
Alignment explanation
Indices: 61129541--61129565 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61129531 TTATATATAC
61129541 TAATAAAATAA
1 TAATAAAATAA
61129552 TAATAAAATAA
1 TAATAAAATAA
61129563 TAA
1 TAA
61129566 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:61129700 original size:16 final size:16
Alignment explanation
Indices: 61129681--61129715 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
61129671 TCTCTTCCAA
*
61129681 TTGATCATTTTTCCCT
1 TTGACCATTTTTCCCT
61129697 TTGACCATTTTTCCCT
1 TTGACCATTTTTCCCT
61129713 TTG
1 TTG
61129716 TGATCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.26, G:0.09, T:0.54
Consensus pattern (16 bp):
TTGACCATTTTTCCCT
Found at i:61129884 original size:23 final size:23
Alignment explanation
Indices: 61129847--61129890 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
61129837 GATCCTTCCA
61129847 CCCTTAAAATATTTTCACTATTAG
1 CCCTTAAAATATTTTCA-TATTAG
*
61129871 CCCTTCAAA-ATTTTCATATT
1 CCCTTAAAATATTTTCATATT
61129891 TACACTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (23 bp):
CCCTTAAAATATTTTCATATTAG
Done.