Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 302 of 373
Found at i:102314327 original size:19 final size:16
Alignment explanation
Indices: 102314287--102314322 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
102314277 TAAAAATTGT
102314287 AAAAA-AAATATTTTA
1 AAAAATAAATATTTTA
102314302 AAAAATAAATATTATTA
1 AAAAATAAATATT-TTA
102314319 AAAA
1 AAAA
102314323 CAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 7 0.37
17 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATAAATATTTTA
Found at i:102318095 original size:37 final size:37
Alignment explanation
Indices: 102318001--102318096 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 37
102317991 GTAGATTTTA
* *
102318001 CTCGTTTGAGCTCCATTCAGTATAACAATAGAATTTG
1 CTCGTTTGAGCTACATTCAGTATAACAAGAGAATTTG
* * * *
102318038 CTCATTTGAGCTTCACTCAGTATAAC-AGCGAAATTTG
1 CTCGTTTGAGCTACATTCAGTATAACAAGAG-AATTTG
* *
102318075 CTTGTTTGAGCTACTTTCAGTA
1 CTCGTTTGAGCTACATTCAGTA
102318097 GAACCAGTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 2 0.04
37 46 0.96
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (37 bp):
CTCGTTTGAGCTACATTCAGTATAACAAGAGAATTTG
Found at i:102318183 original size:19 final size:18
Alignment explanation
Indices: 102318159--102318198 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
102318149 TCAATAAAGT
102318159 ATATTAACAGAGAGCATAA
1 ATATTAACAGA-AGCATAA
**
102318178 ATATTATTAGAAGCATAA
1 ATATTAACAGAAGCATAA
102318196 ATA
1 ATA
102318199 AACGTACGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (18 bp):
ATATTAACAGAAGCATAA
Found at i:102321178 original size:73 final size:73
Alignment explanation
Indices: 102321092--102321237 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
102321082 TCAAGTTCTG
*
102321092 GTAGTGAGAATAATTAGTATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAT
1 GTAGTGAGAATAATTAATATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAT
*
102321157 GTTAAAGA
66 GTCAAAGA
102321165 GTAGTGAGAATAATTAATATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAT
1 GTAGTGAGAATAATTAATATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAT
102321230 GTCAAAGA
66 GTCAAAGA
102321238 TTTTTTATAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (73 bp):
GTAGTGAGAATAATTAATATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAT
GTCAAAGA
Found at i:102325979 original size:79 final size:80
Alignment explanation
Indices: 102325819--102326043 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
102325809 TTGAATGATG
* * * * * *
102325819 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
102325882 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
102325899 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
102325960 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
102325978 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
102326043 G
66 G
102326044 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 46 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:102326007 original size:40 final size:40
Alignment explanation
Indices: 102325819--102326043 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
102325809 TTGAATGATG
* * * *
102325819 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
102325859 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
102325899 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
102325939 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
102325978 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
102326019 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
102326044 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:102326035 original size:119 final size:120
Alignment explanation
Indices: 102325819--102326043 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
102325809 TTGAATGATG
*
102325819 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
102325884 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
102325939 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
102326001 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
102326044 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 3 0.03
119 69 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:102326065 original size:79 final size:78
Alignment explanation
Indices: 102325826--102326076 Score: 244
Period size: 79 Copynumber: 3.2 Consensus size: 78
102325816 ATGTCCGGGC
* * * *
102325826 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
102325889 AGATACTAAATCCGGAC
64 AG-GACTAAATCCGG-T
102325906 TAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGC
1 TAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
102325967 GAGTTACTAAATCCGGGT
63 GAG-GACTAAATCC-GGT
* * **
102325985 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
102326050 GAGCTATATCCGGT
66 GA-CTAAATCCGGT
* *
102326064 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
102326077 TACGTGATTT
Statistics
Matches: 146, Mismatches: 14, Indels: 23
0.80 0.08 0.13
Matches are distributed among these distances:
78 2 0.01
79 81 0.55
80 53 0.36
81 9 0.06
82 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
GACTAAATCCGGT
Found at i:102333891 original size:79 final size:80
Alignment explanation
Indices: 102333731--102333955 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
102333721 TTGAATGATG
* * * * * *
102333731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
102333794 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
102333811 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
102333872 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
102333890 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
102333955 G
66 G
102333956 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 46 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:102333919 original size:40 final size:40
Alignment explanation
Indices: 102333731--102333955 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
102333721 TTGAATGATG
* * * *
102333731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
102333771 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
102333811 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
102333851 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
102333890 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
102333931 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
102333956 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:102333947 original size:119 final size:120
Alignment explanation
Indices: 102333731--102333955 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
102333721 TTGAATGATG
*
102333731 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
102333796 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
102333851 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
102333913 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
102333956 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 3 0.03
119 69 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:102333977 original size:79 final size:78
Alignment explanation
Indices: 102333738--102333988 Score: 244
Period size: 79 Copynumber: 3.2 Consensus size: 78
102333728 ATGTCCGGGC
* * * *
102333738 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
102333801 AGATACTAAATCCGGAC
64 AG-GACTAAATCCGG-T
102333818 TAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGC
1 TAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
102333879 GAGTTACTAAATCCGGGT
63 GAG-GACTAAATCC-GGT
* * **
102333897 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
102333962 GAGCTATATCCGGT
66 GA-CTAAATCCGGT
* *
102333976 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
102333989 TACGTGATTT
Statistics
Matches: 146, Mismatches: 14, Indels: 23
0.80 0.08 0.13
Matches are distributed among these distances:
78 2 0.01
79 81 0.55
80 53 0.36
81 9 0.06
82 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
GACTAAATCCGGT
Found at i:102340018 original size:26 final size:25
Alignment explanation
Indices: 102339945--102340055 Score: 75
Period size: 26 Copynumber: 4.4 Consensus size: 25
102339935 AACTATATAA
* *
102339945 CAGGAAGCTCATAAGAGCC-GTAAT
1 CAGGAAGCTCACAAGAGCCTTTAAT
* * * *
102339969 CAGGAAGTTCACATAAAACTTTTAAT
1 CAGGAAGCTCACA-AGAGCCTTTAAT
102339995 CAGGAAGCTCACAGAGAGCCTTTAAAT
1 CAGGAAGCTCACA-AGAGCCTTT-AAT
* * *
102340022 -GGGAAGCTCATGAAGAGCCATTAAT
1 CAGGAAGCTCA-CAAGAGCCTTTAAT
*
102340047 TAGG-AGCTC
1 CAGGAAGCTC
102340056 CGGATAGCCA
Statistics
Matches: 67, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
24 11 0.16
25 11 0.16
26 41 0.61
27 4 0.06
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (25 bp):
CAGGAAGCTCACAAGAGCCTTTAAT
Found at i:102357306 original size:20 final size:20
Alignment explanation
Indices: 102357281--102357324 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
102357271 ATAAAATTAA
102357281 ATCACAGAATTTTCACAAAC
1 ATCACAGAATTTTCACAAAC
102357301 ATCACAGAATTTTCACAAAC
1 ATCACAGAATTTTCACAAAC
102357321 ATCA
1 ATCA
102357325 ATTCACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (20 bp):
ATCACAGAATTTTCACAAAC
Found at i:102359341 original size:18 final size:18
Alignment explanation
Indices: 102359307--102359341 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102359297 ATATATGTTA
**
102359307 AAATAATAAAAGTAAAAC
1 AAATAATAAAACAAAAAC
102359325 AAATAATAAAACAAAAA
1 AAATAATAAAACAAAAA
102359342 GACAACTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (18 bp):
AAATAATAAAACAAAAAC
Found at i:102360211 original size:45 final size:45
Alignment explanation
Indices: 102360106--102360414 Score: 187
Period size: 45 Copynumber: 6.9 Consensus size: 45
102360096 TGGCTTGATT
* * ** *
102360106 AATGAATAAGACCATAGTTGAAAGACACTATGGCA-CTATACCGGG
1 AATGAATAAGACCATAGTTGAAAGACACTATGACATC-ATGCTAGA
* * *
102360151 AGTGAATTAGGCCATAGTTGAAAGACACTATGACA-CTATGCTAGA
1 AATGAATAAGACCATAGTTGAAAGACACTATGACATC-ATGCTAGA
* * * ** * * * * **
102360196 AATGAGTAAGACCATAGCTAAAAGATGCTACGGCATCACGATTCA
1 AATGAATAAGACCATAGTTGAAAGACACTATGACATCATGCTAGA
* * * * * * **
102360241 AA-CAAGTAAAGACCATAGCTGAAAGACGCTATAACATCACGAT-TC
1 AATGAA-T-AAGACCATAGTTGAAAGACACTATGACATCATGCTAGA
** * * * *
102360286 AATGTGTATGACCATAGTTGAAAGACATTATGACAACATGACGA-A
1 AATGAATAAGACCATAGTTGAAAGACACTATGACATCATG-CTAGA
* ** *
102360331 AATGAATATGACCATAGTTGAAAGACACTATGGGATCATGCTGGA
1 AATGAATAAGACCATAGTTGAAAGACACTATGACATCATGCTAGA
* *
102360376 AATAAATAAGACCATAGTTGAAAGACACTATGGCATCAT
1 AATGAATAAGACCATAGTTGAAAGACACTATGACATCAT
102360415 ATCGGAAGTG
Statistics
Matches: 202, Mismatches: 55, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
44 28 0.14
45 143 0.71
46 31 0.15
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (45 bp):
AATGAATAAGACCATAGTTGAAAGACACTATGACATCATGCTAGA
Found at i:102362062 original size:40 final size:40
Alignment explanation
Indices: 102362007--102362117 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
102361997 GACGATTTAG
* *
102362007 AATAGCTTCAGCTATATATGGCACTTAGTGTATGATTCT-A
1 AATAGTTTCGGCTATATATGGCACTTAGTGTATGATT-TGA
* *
102362047 AATAGTTTCGGCTATATATAGCACTTAGTGTATGATTTGG
1 AATAGTTTCGGCTATATATGGCACTTAGTGTATGATTTGA
*
102362087 AGTAGCTTT-GGCTATATATGGCACTTAGTGT
1 AATAG-TTTCGGCTATATATGGCACTTAGTGT
102362118 GCAAGATCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
39 1 0.02
40 59 0.94
41 3 0.05
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.39
Consensus pattern (40 bp):
AATAGTTTCGGCTATATATGGCACTTAGTGTATGATTTGA
Found at i:102362153 original size:41 final size:41
Alignment explanation
Indices: 102362108--102362186 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
102362098 CTATATATGG
102362108 CACTTAGTGTGCAAGATCA-AGATAGCTTCGGCTATGTAATA
1 CACTTAGTGTGCAAGATCATA-ATAGCTTCGGCTATGTAATA
* *
102362149 CACTTAGTGTGCGAGATTATAATAGCTTCGGCTATGTA
1 CACTTAGTGTGCAAGATCATAATAGCTTCGGCTATGTA
102362187 TTGGCACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (41 bp):
CACTTAGTGTGCAAGATCATAATAGCTTCGGCTATGTAATA
Found at i:102363994 original size:13 final size:13
Alignment explanation
Indices: 102363978--102364049 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
102363968 ATAAAAAGAA
102363978 TATATGAAATGAT
1 TATATGAAATGAT
*
102363991 TATATGAACA-GGT
1 TATATGAA-ATGAT
*
102364004 TATATGGAAATAAT
1 TATAT-GAAATGAT
* *
102364018 TATATAAAATGTT
1 TATATGAAATGAT
* *
102364031 TATACGAAATGTT
1 TATATGAAATGAT
102364044 TATATG
1 TATATG
102364050 GATAGATACA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
13 37 0.79
14 10 0.21
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (13 bp):
TATATGAAATGAT
Found at i:102364007 original size:26 final size:27
Alignment explanation
Indices: 102363978--102364049 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
102363968 ATAAAAAGAA
*
102363978 TATATGAAATGATTATATGAACA-GGT
1 TATATGAAATGATTATATGAAAATGGT
* *
102364004 TATATGGAAATAATTATAT-AAAATGTT
1 TATAT-GAAATGATTATATGAAAATGGT
* *
102364031 TATACGAAATGTTTATATG
1 TATATGAAATGATTATATG
102364050 GATAGATACA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
26 19 0.51
27 18 0.49
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (27 bp):
TATATGAAATGATTATATGAAAATGGT
Found at i:102373100 original size:40 final size:40
Alignment explanation
Indices: 102373043--102373259 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
102373033 TGGATGATAA
* * * *
102373043 CCGGGCTAAGCCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * *
102373083 CTGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
102373123 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
102373163 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
102373203 CCGAGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
102373242 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
102373260 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 15 0.10
39 16 0.10
40 126 0.80
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:102377653 original size:17 final size:18
Alignment explanation
Indices: 102377617--102377654 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
102377607 ATAACATATG
102377617 AAATTTTCAGAACTTATAA
1 AAATTTTCA-AACTTATAA
*
102377636 AAATTTTC-AACTTTTAA
1 AAATTTTCAAACTTATAA
102377653 AA
1 AA
102377655 GGTCACACGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (18 bp):
AAATTTTCAAACTTATAA
Found at i:102378009 original size:42 final size:43
Alignment explanation
Indices: 102377945--102378044 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
102377935 TACCCCAGGG
*
102377945 GACACACGGCCGTGTAAAATGAC-GTGTGCTGCACACGGCTAA
1 GACACACGCCCGTGTAAAATGACTGTGTGCTGCACACGGCTAA
* * *
102377987 GACACACACCCGTGTAACATGACTGTGTGTTGCACACGGCTAA
1 GACACACGCCCGTGTAAAATGACTGTGTGCTGCACACGGCTAA
102378030 GACACACGCCCGTGT
1 GACACACGCCCGTGT
102378045 CTCTACCCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
42 20 0.38
43 32 0.62
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.18
Consensus pattern (43 bp):
GACACACGCCCGTGTAAAATGACTGTGTGCTGCACACGGCTAA
Found at i:102378289 original size:44 final size:44
Alignment explanation
Indices: 102378239--102378328 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
102378229 TATATCAAAA
*
102378239 CATAAGTCAAAAGCTTGTCAAAACATTTCTTTTTATACATCATT
1 CATAAGTCAAAAGCTTGTCAAAACATTTCTTTCTATACATCATT
102378283 CATAAGTCAAAAGCTTGTCAAAACATTTCTTTCTATACATCATT
1 CATAAGTCAAAAGCTTGTCAAAACATTTCTTTCTATACATCATT
102378327 CA
1 CA
102378329 ATTTCATGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (44 bp):
CATAAGTCAAAAGCTTGTCAAAACATTTCTTTCTATACATCATT
Found at i:102383375 original size:20 final size:20
Alignment explanation
Indices: 102383325--102383375 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
102383315 TCTCCCTTTA
* *
102383325 TTTC-CTTTTTCTTTCTTTC
1 TTTCTCTTTTTCATTCTATC
* * *
102383344 CTTATCTGTTTCATTCTATC
1 TTTCTCTTTTTCATTCTATC
102383364 TTTCTCTTTTTC
1 TTTCTCTTTTTC
102383376 TATTTCTATT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.06, C:0.25, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTCTCTTTTTCATTCTATC
Found at i:102383396 original size:17 final size:18
Alignment explanation
Indices: 102383368--102383402 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
102383358 TCTATCTTTC
102383368 TCTTTTTCTATTTCTATT
1 TCTTTTTCTATTTCTATT
*
102383386 TCTTTTT-TATTTTTATT
1 TCTTTTTCTATTTCTATT
102383403 ATAATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (18 bp):
TCTTTTTCTATTTCTATT
Found at i:102383410 original size:5 final size:5
Alignment explanation
Indices: 102383402--102383430 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
102383392 TTATTTTTAT
102383402 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
102383431 TACTTAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:102386873 original size:38 final size:38
Alignment explanation
Indices: 102386810--102386960 Score: 124
Period size: 38 Copynumber: 3.9 Consensus size: 38
102386800 ATTTGATGTG
* * *
102386810 TATCCGGGCTTAAAGACCCACAGGCTTTATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCATGCTGGAATTA
* * *
102386850 TATCCGTGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* * * *
102386888 TATCTGGGTTAAATCCCGCAGGCCT-AGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGAATTA
* * **
102386926 TATCTGAGTTTAAAGTCCCATAGGCTTCATGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCATGCTGG
102386961 TGTTATGTTC
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
38 58 0.64
39 11 0.12
40 21 0.23
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:102393099 original size:38 final size:38
Alignment explanation
Indices: 102393057--102393191 Score: 128
Period size: 38 Copynumber: 3.5 Consensus size: 38
102393047 GGCTTAAAGA
* *
102393057 CCCGCAGGCTTTATGCTGGAATTATATCCATGTTAAAT
1 CCCGCAGGCTTCATGCTGGAATTATATCCAGGTTAAAT
* *
102393095 CCCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAAT
1 CCCGCAGGCTTCATGCTGGAATTATATCCAGGTTAAAT
* * * * * * *
102393133 CCCACGGGCCT-AGTGTTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGGCTTCA-TGCTGGAATTATATC-CAGGTTAAA-T
*
102393173 CCCGTAGGCTTCATGCTGG
1 CCCGCAGGCTTCATGCTGG
102393192 TTCGGGTTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
38 56 0.73
39 7 0.09
40 13 0.17
41 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGAATTATATCCAGGTTAAAT
Found at i:102394252 original size:25 final size:25
Alignment explanation
Indices: 102394224--102394274 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
102394214 TATTTACGGC
102394224 TCAGTTTATAAAAACAAGGTCCCGA
1 TCAGTTTATAAAAACAAGGTCCCGA
* *
102394249 TCAGTTTATAAAAATAAGGTCTCGA
1 TCAGTTTATAAAAACAAGGTCCCGA
102394274 T
1 T
102394275 ACCTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (25 bp):
TCAGTTTATAAAAACAAGGTCCCGA
Found at i:102394281 original size:24 final size:25
Alignment explanation
Indices: 102394229--102394281 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
102394219 ACGGCTCAGT
**
102394229 TTATAAAAACAAGGTCCCGATCAGT
1 TTATAAAAACAAGGTCCCGATCACC
* *
102394254 TTATAAAAATAAGGTCTCGAT-ACC
1 TTATAAAAACAAGGTCCCGATCACC
102394278 TTAT
1 TTAT
102394282 TTTCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (25 bp):
TTATAAAAACAAGGTCCCGATCACC
Found at i:102394973 original size:9 final size:9
Alignment explanation
Indices: 102394956--102394997 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
102394946 GCTCAGGGGT
*
102394956 ATTTCAGTA
1 ATTTTAGTA
102394965 ATTTTAGTA
1 ATTTTAGTA
**
102394974 ATTTTAAAA
1 ATTTTAGTA
102394983 ATTTTAGTA
1 ATTTTAGTA
102394992 ATTTTA
1 ATTTTA
102394998 CAAATCGAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (9 bp):
ATTTTAGTA
Found at i:102394985 original size:18 final size:18
Alignment explanation
Indices: 102394964--102395002 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
102394954 GTATTTCAGT
102394964 AATTTTAGTAATTTTAAA
1 AATTTTAGTAATTTTAAA
*
102394982 AATTTTAGTAATTTTACA
1 AATTTTAGTAATTTTAAA
102395000 AAT
1 AAT
102395003 CGAGGGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (18 bp):
AATTTTAGTAATTTTAAA
Found at i:102395013 original size:27 final size:28
Alignment explanation
Indices: 102394983--102395233 Score: 313
Period size: 27 Copynumber: 9.3 Consensus size: 28
102394973 AATTTTAAAA
* *
102394983 ATTTTAGTAATTTTACAAATCGA-GGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
**
102395010 ATTTCAGTAATTTTACAAAT-CAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
* *
102395037 ATTTCGGTAATTTTACAAAT-TAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
* * *
102395064 ATTTTGGTAATCTTA-AAAACCAAGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
102395091 ATTTTGGTAATTTTACAAAT-CAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
**
102395118 ATTTTGGTAATTTTACAAA-CCAATGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
*
102395145 ATTTTGGTAATTTTACAAA-CCAGGAGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
* *
102395172 ATTTTGGTAATTTTACAAA-CCATGAGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
102395199 ATTTTGGTAATTTTACAAA-CCAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
102395226 ATTTTGGT
1 ATTTTGGT
102395234 GATTAGGTAA
Statistics
Matches: 200, Mismatches: 20, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
26 4 0.02
27 193 0.96
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (28 bp):
ATTTTGGTAATTTTACAAATCCAGGGGT
Found at i:102395047 original size:54 final size:54
Alignment explanation
Indices: 102394983--102395233 Score: 351
Period size: 54 Copynumber: 4.6 Consensus size: 54
102394973 AATTTTAAAA
* ** * *
102394983 ATTTTAGTAATTTTACAAATC-GAGGGTATTTCAGTAATTTTACAAATCAGGGGT
1 ATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAAGGGT
* * * *
102395037 ATTTCGGTAATTTTACAAATTAGGGGTATTTTGGTAATCTTAAAAACCAAGGGT
1 ATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGT
*
102395091 ATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAATGGT
1 ATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGT
* * * *
102395145 ATTTTGGTAATTTTACAAACCAGGAGTATTTTGGTAATTTTACAAACCATGAGT
1 ATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGT
*
102395199 ATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
1 ATTTTGGTAATTTTACAAATCAGGGGTATTTTGGT
102395234 GATTAGGTAA
Statistics
Matches: 176, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 175 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
ATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGT
Found at i:102399074 original size:6 final size:6
Alignment explanation
Indices: 102399063--102399087 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
102399053 CATTTTCCAA
102399063 GAAAAT GAAAAT GAAAAT GAAAAT G
1 GAAAAT GAAAAT GAAAAT GAAAAT G
102399088 GCTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
GAAAAT
Found at i:102403672 original size:19 final size:19
Alignment explanation
Indices: 102403648--102403687 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
102403638 ATTAAATGAC
102403648 TAGTGTGAGTAATGCTTTT
1 TAGTGTGAGTAATGCTTTT
102403667 TAGTGTGAGTAATGCTTTT
1 TAGTGTGAGTAATGCTTTT
102403686 TA
1 TA
102403688 ATGACGTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (19 bp):
TAGTGTGAGTAATGCTTTT
Found at i:102424836 original size:53 final size:53
Alignment explanation
Indices: 102424706--102424828 Score: 162
Period size: 53 Copynumber: 2.3 Consensus size: 53
102424696 ATTTTGTGCT
* **
102424706 ACATGATA-TTGGTTTTACGAAGGTTCGGATGAATTGTATGGGGAATGTATATG
1 ACATGATATTTGGTTTTGCGAAGGTTCGGATGAATTGTATGAAGAA-GTATATG
* *
102424759 -CATGATATTTGGCTTTGCGAAGGTTCGGGTGAATTGTATGAAGAA-TATATG
1 ACATGATATTTGGTTTTGCGAAGGTTCGGATGAATTGTATGAAGAAGTATATG
102424810 CACATGATATTTGGTTTTG
1 -ACATGATATTTGGTTTTG
102424829 TGGAGGTTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
51 6 0.10
52 7 0.11
53 48 0.79
ACGTcount: A:0.27, C:0.07, G:0.28, T:0.37
Consensus pattern (53 bp):
ACATGATATTTGGTTTTGCGAAGGTTCGGATGAATTGTATGAAGAAGTATATG
Found at i:102425573 original size:25 final size:24
Alignment explanation
Indices: 102425539--102425614 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
102425529 GATTAAATTT
102425539 AATATTAAATCTATTAAATTAATAA
1 AATATTAAAT-TATTAAATTAATAA
102425564 AATATTAAATTA--AAATTAA-AA
1 AATATTAAATTATTAAATTAATAA
*
102425585 TAATCATATTAA-TATTAAATTAATAA
1 -AAT-AT-TAAATTATTAAATTAATAA
102425611 AATA
1 AATA
102425615 CTATCAAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
21 2 0.05
22 10 0.23
23 4 0.09
24 6 0.14
25 20 0.45
26 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATTAAATTATTAAATTAATAA
Found at i:102425602 original size:42 final size:42
Alignment explanation
Indices: 102425520--102425602 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
102425510 CTTATCAAGA
* * *
102425520 AAAATATTAGATTAAATTTAATATTAAATCTATTAAATTAAT
1 AAAATATTAAATTAAAATTAATAATAAATCTATTAAATTAAT
102425562 AAAATATTAAATTAAAATTAA-AAT-AATCATATTAATATTAA
1 AAAATATTAAATTAAAATTAATAATAAATC-TATTAA-ATTAA
102425603 ATTAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 4 0.11
41 8 0.22
42 24 0.67
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (42 bp):
AAAATATTAAATTAAAATTAATAATAAATCTATTAAATTAAT
Found at i:102427232 original size:27 final size:27
Alignment explanation
Indices: 102427191--102427260 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
102427181 CTAGTCTGAA
* *
102427191 CCCATGTTTAATGTCTTGGT-GAACTTC
1 CCCATGTTTAATGTCCTGGTAG-ACTAC
*
102427218 CCCATGTTTACTGTCCTGGTAGACTAC
1 CCCATGTTTAATGTCCTGGTAGACTAC
*
102427245 CCCATGTTTATTGTCC
1 CCCATGTTTAATGTCC
102427261 CAATGGACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (27 bp):
CCCATGTTTAATGTCCTGGTAGACTAC
Found at i:102430004 original size:14 final size:14
Alignment explanation
Indices: 102429982--102430012 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
102429972 TAATTTCATT
*
102429982 TATTTTATAATATA
1 TATTATATAATATA
102429996 TATTATATAATATA
1 TATTATATAATATA
102430010 TAT
1 TAT
102430013 ACATACTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATATAATATA
Found at i:102432054 original size:17 final size:18
Alignment explanation
Indices: 102432028--102432061 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
102432018 AAGATTTTCC
102432028 AAATTCATTT-TTCAAAA
1 AAATTCATTTATTCAAAA
*
102432045 AAATTTATTTATTCAAA
1 AAATTCATTTATTCAAA
102432062 TTTTCTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTCATTTATTCAAAA
Found at i:102435074 original size:6 final size:6
Alignment explanation
Indices: 102435059--102435110 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 6
102435049 ATTTAGTCAT
* *
102435059 TTTTTAA TTTTTA TTTTAA TATTTTA GTTTTTA GTTTTTA GTTTTA TTTTTA
1 TTTTT-A TTTTTA TTTTTA T-TTTTA -TTTTTA -TTTTTA TTTTTA TTTTTA
102435111 CATTCTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 17 0.44
7 21 0.54
8 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:102435089 original size:14 final size:13
Alignment explanation
Indices: 102435060--102435110 Score: 61
Period size: 12 Copynumber: 3.9 Consensus size: 13
102435050 TTTAGTCATT
102435060 TTTTAATTTTTA-
1 TTTTAATTTTTAG
102435072 TTTTAATATTTTAG
1 TTTTAAT-TTTTAG
*
102435086 TTTTTAGTTTTTAG
1 -TTTTAATTTTTAG
102435100 TTTT-ATTTTTA
1 TTTTAATTTTTA
102435111 CATTCTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 13 0.38
13 9 0.26
14 6 0.18
15 6 0.18
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (13 bp):
TTTTAATTTTTAG
Found at i:102446381 original size:18 final size:18
Alignment explanation
Indices: 102446340--102446401 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
102446330 TATCAATATC
*
102446340 ATTCAATAA-AATCAATT
1 ATTCAGTAACAATCAATT
* *
102446357 TTTCAGTAGCAAT-AAGTT
1 ATTCAGTAACAATCAA-TT
102446375 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
102446393 ATTCAGTAA
1 ATTCAGTAA
102446402 TAGTTAGTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 8 0.22
18 27 0.73
19 2 0.05
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:102447358 original size:12 final size:11
Alignment explanation
Indices: 102447318--102447358 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
102447308 TTAATATTTA
102447318 AATTTCTTATTC
1 AATTTC-TATTC
102447330 AATTTCTATTC
1 AATTTCTATTC
*
102447341 AATTTCTACTTT
1 AATTTCTA-TTC
102447353 AATTTC
1 AATTTC
102447359 AATTTTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:102447775 original size:17 final size:15
Alignment explanation
Indices: 102447747--102447780 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
102447737 TCTCTATTTC
102447747 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
102447762 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
102447779 TC
1 TC
102447781 TTTCTCCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:102449582 original size:43 final size:41
Alignment explanation
Indices: 102449481--102449584 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
102449471 TGTGTGAAAT
* * *
102449481 ATGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTC
1 ATGTAAGACCATGTCTGGGACAATGGCATCGTATATGATGC
* *
102449522 GTGTAAGACCCTGTCTGGGACAATGGCATC-TATATGTGATAGC
1 ATGTAAGACCATGTCTGGGACAATGGCATCGTATA--TGAT-GC
*
102449565 ATGTAAGACCATATCTGGGA
1 ATGTAAGACCATGTCTGGGA
102449585 TATGACATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.08
41 26 0.50
42 4 0.08
43 18 0.35
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (41 bp):
ATGTAAGACCATGTCTGGGACAATGGCATCGTATATGATGC
Found at i:102468632 original size:21 final size:21
Alignment explanation
Indices: 102468606--102468665 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
102468596 GTGTGGAAGG
102468606 AGGCACACGACCGTGTGACAA-
1 AGGCACACGACCGTGTGA-AAC
*
102468627 AGGCACACG-CTCATGTGAAAC
1 AGGCACACGAC-CGTGTGAAAC
*
102468648 AGGGACACGACCGTGTGA
1 AGGCACACGACCGTGTGA
102468666 GCAGATCGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 29 0.88
22 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.30, T:0.12
Consensus pattern (21 bp):
AGGCACACGACCGTGTGAAAC
Found at i:102470719 original size:42 final size:42
Alignment explanation
Indices: 102470653--102470738 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
102470643 CACGGTCTGG
* * *
102470653 TACACGGCCTCAGACATGGTCATGTGTACC-AAGTCAATGAGT
1 TACACGGCCTCAGACACGGCCATGT-AACCAAAGTCAATGAGT
102470695 TACACGGCCTGC-GACACGGCCATGTAACCAAAGTCAATGAGT
1 TACACGGCCT-CAGACACGGCCATGTAACCAAAGTCAATGAGT
102470737 TA
1 TA
102470739 GAGGGTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
41 3 0.08
42 35 0.90
43 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (42 bp):
TACACGGCCTCAGACACGGCCATGTAACCAAAGTCAATGAGT
Found at i:102481010 original size:5 final size:5
Alignment explanation
Indices: 102480997--102481183 Score: 312
Period size: 5 Copynumber: 38.0 Consensus size: 5
102480987 TATTTATATA
*
102480997 ATTAA ATTAT ATTAT A-TAT -TTACTT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTA--T ATTAT ATTAT ATTAT ATTAT ATTAT
102481047 ATTAT ATTAT ATTAT ATTAT ATT-T ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
102481096 A-T-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
102481144 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
102481184 TATAATAAAA
Statistics
Matches: 174, Mismatches: 1, Indels: 14
0.92 0.01 0.07
Matches are distributed among these distances:
3 2 0.01
4 11 0.06
5 157 0.90
6 1 0.01
7 3 0.02
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:102481267 original size:11 final size:10
Alignment explanation
Indices: 102481206--102481289 Score: 51
Period size: 11 Copynumber: 7.7 Consensus size: 10
102481196 TAAAATAAAT
*
102481206 GAAAGAAATA
1 GAAAGAAAAA
102481216 GAAATAGAAAATA
1 G-AA-AGAAAA-A
***
102481229 GAAAGAAGTT
1 GAAAGAAAAA
*
102481239 GAAACAAAACA
1 GAAAGAAAA-A
*
102481250 GATAGAAAAA
1 GAAAGAAAAA
102481260 GGAAAGAAAAA
1 -GAAAGAAAAA
102481271 GAAAGGAGAAAA
1 GAAA-GA-AAAA
102481283 GAAAGAA
1 GAAAGAA
102481290 GGAAAATTAG
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
10 13 0.23
11 26 0.46
12 15 0.27
13 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.07
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:102483678 original size:12 final size:12
Alignment explanation
Indices: 102483661--102483693 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
102483651 AAAAATTTAA
102483661 TTTAATAATTAT
1 TTTAATAATTAT
102483673 TTTAATAA-TAT
1 TTTAATAATTAT
*
102483684 TTTATTAATT
1 TTTAATAATT
102483694 TAATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATAATTAT
Found at i:102483695 original size:19 final size:19
Alignment explanation
Indices: 102483668--102483704 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
102483658 TAATTTAATA
*
102483668 ATTATTTTAATAATATTTT
1 ATTAATTTAATAATATTTT
102483687 ATTAATTTAATAATATTT
1 ATTAATTTAATAATATTT
102483705 AATTTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTAATTTAATAATATTTT
Found at i:102486737 original size:22 final size:23
Alignment explanation
Indices: 102486692--102486738 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
102486682 CATTTAAATT
102486692 ATATTTACTATTTTAAATATAAA
1 ATATTTACTATTTTAAATATAAA
*
102486715 ATATTTA-T-TTTTATATTATAAA
1 ATATTTACTATTTTA-AATATAAA
102486737 AT
1 AT
102486739 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 10 0.45
23 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTTACTATTTTAAATATAAA
Found at i:102488511 original size:20 final size:19
Alignment explanation
Indices: 102488488--102488527 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
102488478 TATTATACAT
102488488 TATAAGATTATTTTATTATA
1 TATAAGATTA-TTTATTATA
**
102488508 TATATTATTATTTATTATA
1 TATAAGATTATTTATTATA
102488527 T
1 T
102488528 CTTATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TATAAGATTATTTATTATA
Found at i:102501428 original size:205 final size:206
Alignment explanation
Indices: 102500968--102501468 Score: 826
Period size: 206 Copynumber: 2.4 Consensus size: 206
102500958 GAGCAGATCG
*
102500968 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAAATGATTTGTCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTC
* *
102501033 TGTATTGTCAGAGTACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGTAA
66 TGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGCAA
*
102501098 ATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
131 ATCTCACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
102501163 GGAACAAATCA
196 GGAACAAATCA
* * *
102501174 AAGACGTAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATAATTTGTCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTC
* *
102501239 TGTATTGTCAGAGAACAAATCTAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGCAG
66 TGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGCAA
* * * * *
102501304 ATCTCACCTTCAGATGTTTATG-TTGAAG-TAGATCTAAGATGATTTGGCATCCTTGTGCTTACA
131 ATCTCACCTTCAGACGATTA-GACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACA
102501367 AGGAACAAATCA
195 AGGAACAAATCA
*
102501379 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGTCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTC
* *
102501444 TATATTGTTAGAGAACAAATCGAAG
66 TGTATTGTCAGAGAACAAATCGAAG
102501469 AAGCAAATTT
Statistics
Matches: 273, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
205 128 0.47
206 144 0.53
207 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (206 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTC
TGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACAGCAA
ATCTCACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAA
GGAACAAATCA
Found at i:102503091 original size:25 final size:23
Alignment explanation
Indices: 102503055--102503112 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 23
102503045 TTTACCTTAC
102503055 TTTTA-TATTATACATTATAAGATTA
1 TTTTATTA-TATACATTAT--GATTA
* *
102503080 TTTTATTATATATATTATTATTA
1 TTTTATTATATACATTATGATTA
102503103 -TTTATTATAT
1 TTTTATTATAT
102503113 CTTATTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 10 0.33
23 4 0.13
25 14 0.47
26 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTATTATATACATTATGATTA
Found at i:102503093 original size:20 final size:22
Alignment explanation
Indices: 102503070--102503112 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
102503060 TATTATACAT
102503070 TATAAGATTA-T-TTTATTATA
1 TATAAGATTATTATTTATTATA
**
102503090 TATATTATTATTATTTATTATA
1 TATAAGATTATTATTTATTATA
102503112 T
1 T
102503113 CTTATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATAAGATTATTATTTATTATA
Found at i:102503117 original size:20 final size:17
Alignment explanation
Indices: 102503076--102503120 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
102503066 ACATTATAAG
102503076 ATTATTTTATTATATAT
1 ATTATTTTATTATATAT
102503093 ATTATTATTATTTATTATAT
1 ATTATT-TTA-TTA-TATAT
*
102503113 CTTATTTT
1 ATTATTTT
102503121 TCACAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 5 0.21
20 10 0.42
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTTATTATATAT
Found at i:102503163 original size:14 final size:14
Alignment explanation
Indices: 102503134--102503167 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
102503124 CAAATTATTG
102503134 TTATTA-TTTTACA
1 TTATTATTTTTACA
*
102503147 TTATTATTTTTATA
1 TTATTATTTTTACA
102503161 TTATTAT
1 TTATTAT
102503168 AGCTTACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTATTTTTACA
Found at i:102503255 original size:29 final size:30
Alignment explanation
Indices: 102503221--102503286 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
102503211 TTCTTACATA
102503221 TATATTTTCGTTATTT-ATAT-TATGTT-TAT
1 TATATTTTC-TTATTTCATATATAT-TTATAT
*
102503250 TATA-TTTCTTATTTCCTATATATTTATAT
1 TATATTTTCTTATTTCATATATATTTATAT
102503279 TATATTTT
1 TATATTTT
102503287 ATTGTATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 6 0.19
28 9 0.28
29 14 0.44
30 3 0.09
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (30 bp):
TATATTTTCTTATTTCATATATATTTATAT
Found at i:102504307 original size:19 final size:19
Alignment explanation
Indices: 102504283--102504321 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
102504273 TGTTTCGAGA
102504283 TAGGAATTTCCAAAAAGGG
1 TAGGAATTTCCAAAAAGGG
102504302 TAGGAATTTCCAAAAAGGG
1 TAGGAATTTCCAAAAAGGG
102504321 T
1 T
102504322 TAACTTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (19 bp):
TAGGAATTTCCAAAAAGGG
Found at i:102504811 original size:16 final size:16
Alignment explanation
Indices: 102504790--102504820 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102504780 TATTTTATTT
*
102504790 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
102504806 ATATTAAGATAATTA
1 ATATTAAGATAATTA
102504821 TTAGGAGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:102504849 original size:28 final size:27
Alignment explanation
Indices: 102504786--102504850 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
102504776 ACTCTATTTT
102504786 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
102504814 ATAATTATTAGGAGTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
102504843 ATTTTATT
1 ATTTTATT
102504851 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:102504865 original size:10 final size:10
Alignment explanation
Indices: 102504846--102504877 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
102504836 TTTTAGGATT
102504846 TTAT-TTTAA
1 TTATCTTTAA
102504855 TTATCTTTAA
1 TTATCTTTAA
102504865 TTATCTTTAA
1 TTATCTTTAA
102504875 TTA
1 TTA
102504878 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:102511247 original size:17 final size:17
Alignment explanation
Indices: 102511224--102511300 Score: 67
Period size: 15 Copynumber: 4.8 Consensus size: 17
102511214 TTAATTTTAA
102511224 ATTTTATTTCTATTAT-TT
1 ATTTTATTT-TATT-TCTT
102511242 -TTTTATTTTATTTCTT
1 ATTTTATTTTATTTCTT
102511258 ATTTTATTTTATTTC--
1 ATTTTATTTTATTTCTT
* *
102511273 AATTTGTTTTATTT-TT
1 ATTTTATTTTATTTCTT
*
102511289 A-ATTATTTTATT
1 ATTTTATTTTATT
102511301 GTATTAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
15 22 0.43
16 7 0.14
17 22 0.43
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (17 bp):
ATTTTATTTTATTTCTT
Found at i:102511250 original size:5 final size:5
Alignment explanation
Indices: 102511224--102511305 Score: 58
Period size: 5 Copynumber: 15.6 Consensus size: 5
102511214 TTAATTTTAA
* *
102511224 ATTTT ATTTCT ATTATT TTTTT ATTTT ATTTCTT ATTTT ATTTT ATTTC
1 ATTTT ATTT-T ATT-TT ATTTT ATTTT A-TT-TT ATTTT ATTTT ATTTT
* * * *
102511273 AATTT GTTTT ATTTT -TAATT ATTTT ATTGT ATT
1 ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT ATT
102511306 AATAAAATTC
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
4 1 0.02
5 43 0.72
6 12 0.20
7 4 0.07
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:102511261 original size:12 final size:12
Alignment explanation
Indices: 102511224--102511266 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
102511214 TTAATTTTAA
102511224 ATTTTATTTC-T
1 ATTTTATTTCTT
102511235 ATTATT-TTT-TT
1 ATT-TTATTTCTT
102511246 ATTTTATTTCTT
1 ATTTTATTTCTT
102511258 ATTTTATTT
1 ATTTTATTT
102511267 TATTTCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.07
11 13 0.46
12 13 0.46
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTATTTCTT
Found at i:102514562 original size:16 final size:16
Alignment explanation
Indices: 102514541--102514571 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102514531 CATTTTATTT
*
102514541 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
102514557 ATATTAAGATAATTA
1 ATATTAAGATAATTA
102514572 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:102514600 original size:28 final size:27
Alignment explanation
Indices: 102514537--102514601 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
102514527 ACTCCATTTT
102514537 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
102514565 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
102514594 ATTTTATT
1 ATTTTATT
102514602 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:102516441 original size:18 final size:18
Alignment explanation
Indices: 102516418--102516453 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
102516408 GTAATCAAGA
102516418 CCCATCGGCTTCAATCTT
1 CCCATCGGCTTCAATCTT
102516436 CCCATCGGCTTCAATCTT
1 CCCATCGGCTTCAATCTT
102516454 ACATTGATGG
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:0.17, C:0.39, G:0.11, T:0.33
Consensus pattern (18 bp):
CCCATCGGCTTCAATCTT
Found at i:102519239 original size:43 final size:42
Alignment explanation
Indices: 102519192--102519303 Score: 120
Period size: 41 Copynumber: 2.6 Consensus size: 42
102519182 CCTCAATTGA
* **
102519192 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTTAC-TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-T
*
102519235 GATTT-CTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTACTGTAAGACCATGTCTGGGACAGAGGCATCGATATT
* * *
102519276 AAATTACATGTAAGACCACGTCTGGGAC
1 GATTTAC-TGTAAGACCATGTCTGGGAC
102519304 GTTGGAATTG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 30 0.52
42 5 0.09
43 23 0.40
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (42 bp):
GATTTACTGTAAGACCATGTCTGGGACAGAGGCATCGATATT
Found at i:102523460 original size:3 final size:3
Alignment explanation
Indices: 102523452--102523505 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
102523442 AGTAAAAAGA
102523452 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
102523500 TAT TAT
1 TAT TAT
102523506 GAAATAAATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:102523692 original size:16 final size:16
Alignment explanation
Indices: 102523654--102523695 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
102523644 TATAGTGTAT
102523654 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
102523670 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
102523685 TATTAATTATA
1 TATTAATTATA
102523696 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:102524054 original size:24 final size:23
Alignment explanation
Indices: 102524019--102524063 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
102524009 TATTATATAT
102524019 TATATTATTATAACATAAAGTAAA
1 TATATTATTAT-ACATAAAGTAAA
*
102524043 TATATT-TCTATATATAAAGTA
1 TATATTAT-TATACATAAAGTA
102524064 TAAAAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
TATATTATTATACATAAAGTAAA
Found at i:102528404 original size:137 final size:137
Alignment explanation
Indices: 102528156--102528442 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
102528146 TATTGGGCCT
**
102528156 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
102528221 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGTCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
102528286 CATATGC
131 CATATGC
102528293 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
102528358 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTTAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
102528423 CATATGC
131 CATATGC
102528430 AAGCCCATTTGGG
1 AAGCCCATTTGGG
102528443 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:102530266 original size:26 final size:26
Alignment explanation
Indices: 102530228--102530285 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
102530218 CATGAAATTC
102530228 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
102530254 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
102530280 TTATCA
1 TTATCA
102530286 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:102532323 original size:7 final size:7
Alignment explanation
Indices: 102532311--102532337 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
102532301 AAATTCACTA
102532311 TCCTTTG
1 TCCTTTG
102532318 TCCTTTG
1 TCCTTTG
102532325 TCCTTTG
1 TCCTTTG
102532332 TCCTTT
1 TCCTTT
102532338 ACAAATCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.30, G:0.11, T:0.59
Consensus pattern (7 bp):
TCCTTTG
Found at i:102545924 original size:21 final size:20
Alignment explanation
Indices: 102545866--102545929 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 20
102545856 GTTTTCATTA
*
102545866 TTTTTAATAATTTTAATAAT
1 TTTTTAATATTTTTAATAAT
* * *
102545886 TTCTT-ATATTATTGATAAT
1 TTTTTAATATTTTTAATAAT
102545905 TTTTTACATATTTTTAATAAT
1 TTTTTA-ATATTTTTAATAAT
102545926 TTTT
1 TTTT
102545930 ATATTTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 15 0.43
20 4 0.11
21 16 0.46
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTAATATTTTTAATAAT
Found at i:102548785 original size:48 final size:48
Alignment explanation
Indices: 102548728--102548942 Score: 251
Period size: 46 Copynumber: 4.6 Consensus size: 48
102548718 AAGCTGTCGC
102548728 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * ** * **
102548776 CATGTCCCAGACATGTCTTACTCTAGC-TCT-CGTCTCAAATCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* *
102548822 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * * *
102548870 CATGTCCTAGACATGTCTTACACTAGCTCT-CATA-AT-GTGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAGGCCGATG
*
102548916 TATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
102548943 ACACATATCA
Statistics
Matches: 139, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
46 68 0.49
47 5 0.04
48 65 0.47
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:102548951 original size:94 final size:94
Alignment explanation
Indices: 102548728--102548942 Score: 315
Period size: 94 Copynumber: 2.3 Consensus size: 94
102548718 AAGCTGTCGC
*
102548728 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCCCAGACATGTC
* * *
102548793 TTACTCTAGCTCTCGTCTCAAATCCGATG
66 TTACACTAGCTCTCATATCAAATCCGATG
* *
102548822 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCAATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCCCAGACATGTC
****
102548887 TTACACTAGCTCTCATAATGTGGT-CGATG
66 TTACACTAGCTCTCAT-ATCAAATCCGATG
*
102548916 TATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
102548943 ACACATATCA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
94 106 0.98
95 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATATCAAATCCGATG
Found at i:102551746 original size:18 final size:18
Alignment explanation
Indices: 102551723--102551758 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
102551713 TTTCTAGGTG
102551723 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
102551741 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
102551759 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:102553074 original size:25 final size:25
Alignment explanation
Indices: 102553010--102553067 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
102553000 CTTTTCATTC
102553010 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTCTGTTTCTTCTTGCTA
102553035 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTCTGTTTCTTCTTGCTA
102553060 CCATATTC
1 CCATATTC
102553068 ACAGTTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (25 bp):
CCATATTCTCTGTTTCTTCTTGCTA
Found at i:102555313 original size:39 final size:40
Alignment explanation
Indices: 102555269--102555366 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 40
102555259 TATTGAATGC
*
102555269 ATACTTTCAATTTACTAA-AATAATAGATGAGTCCGAGAG
1 ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
**
102555308 ATACTTTCAATTTTTTACCAATCTTTCTAATAGATGAGTCCGAGAG
1 ATACTTTCAA---TTTACCAA---TAATAATAGATGAGTCCGAGAG
102555354 ATACTTTCAATTT
1 ATACTTTCAATTT
102555367 TTTACTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
39 10 0.20
42 7 0.14
43 3 0.06
46 29 0.59
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
Found at i:102557677 original size:32 final size:32
Alignment explanation
Indices: 102557641--102557800 Score: 266
Period size: 32 Copynumber: 5.0 Consensus size: 32
102557631 TATAACTATG
102557641 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
102557673 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
102557705 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
102557737 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
102557769 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
102557801 ATTTTTTATG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 117 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:102557742 original size:64 final size:64
Alignment explanation
Indices: 102557641--102557800 Score: 293
Period size: 64 Copynumber: 2.5 Consensus size: 64
102557631 TATAACTATG
*
102557641 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
* *
102557705 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
102557769 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
102557801 ATTTTTTATG
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:102559850 original size:21 final size:21
Alignment explanation
Indices: 102559798--102559852 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
102559788 ACCACTGTTT
* *
102559798 CTAATCTCACAGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
102559819 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
102559840 CTAATCTCACCGC
1 CTAATCTCACCGC
102559853 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.36, G:0.09, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:102564077 original size:48 final size:48
Alignment explanation
Indices: 102563977--102564077 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
102563967 CATTATCTTT
* * * ***
102563977 ATATCTCGAGGCCGATGCATATCCCAGACATGTCTTACACTGGCTTGT
1 ATATCTCAAGACCGATGCATATCCCAGACATGTCTTACACTAGCTCAC
*
102564025 ATATCTCAAGACCGATGCATGTCCCAGACATGTCTTACACTAG-TACAC
1 ATATCTCAAGACCGATGCATATCCCAGACATGTCTTACACTAGCT-CAC
102564073 ATATC
1 ATATC
102564078 ACCCAATATC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.02
48 44 0.98
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
ATATCTCAAGACCGATGCATATCCCAGACATGTCTTACACTAGCTCAC
Found at i:102565351 original size:18 final size:18
Alignment explanation
Indices: 102565315--102565353 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
102565305 ACTAATTTTC
* *
102565315 AAATTTTAAATTCATAAT
1 AAATTTAAAATTCAAAAT
*
102565333 AAATTTAAAATTTAAAAT
1 AAATTTAAAATTCAAAAT
102565351 AAA
1 AAA
102565354 ATAAACAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTTAAAATTCAAAAT
Found at i:102565995 original size:17 final size:18
Alignment explanation
Indices: 102565964--102565997 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102565954 CTCATAAATA
*
102565964 TATTTTTGGGCCAAAAAG
1 TATTTTTGAGCCAAAAAG
102565982 TATTTTTGAG-CAAAAA
1 TATTTTTGAGCCAAAAA
102565998 TTAAAGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (18 bp):
TATTTTTGAGCCAAAAAG
Found at i:102568422 original size:27 final size:27
Alignment explanation
Indices: 102568378--102568432 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
102568368 AATATATTGG
*
102568378 ATTTATACTCTTGACTTTGGTTTGTCA
1 ATTTATACTATTGACTTTGGTTTGTCA
* * *
102568405 ATTTGTACTATTGGCTTTTGTTTGTCA
1 ATTTATACTATTGACTTTGGTTTGTCA
102568432 A
1 A
102568433 CTTCTCCCCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (27 bp):
ATTTATACTATTGACTTTGGTTTGTCA
Found at i:102572525 original size:27 final size:27
Alignment explanation
Indices: 102572472--102572526 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
102572462 TGTAACAACC
* *
102572472 AACCTATTTGAGAGATCTGAGTAGTGA
1 AACCCATTTGAGAGATCTGAGCAGTGA
*
102572499 AACCCATTTGAGAGATCTGAGCGGTGA
1 AACCCATTTGAGAGATCTGAGCAGTGA
102572526 A
1 A
102572527 GAAGTTCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (27 bp):
AACCCATTTGAGAGATCTGAGCAGTGA
Found at i:102580846 original size:60 final size:60
Alignment explanation
Indices: 102580771--102580904 Score: 191
Period size: 60 Copynumber: 2.2 Consensus size: 60
102580761 CAATTTGATC
* * ** * *
102580771 CTAAATCTAAAAATTCAATAAATTTAGTCC-TCAATGTTTACAAAATTTGTCATTTTAGTT
1 CTAATTCTTAAAATTCAATAAATTTAG-CCTTCAACATTTACAAAATTTGTCAATTTAGTG
102580831 CTAATTCTTAAAATTCAATAAATTTAGCCTTCAACATTTACAAAATTTGTCAATTTAGTG
1 CTAATTCTTAAAATTCAATAAATTTAGCCTTCAACATTTACAAAATTTGTCAATTTAGTG
102580891 CTAATTC-TAAAATT
1 CTAATTCTTAAAATT
102580905 TAAAAAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
59 9 0.13
60 58 0.87
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (60 bp):
CTAATTCTTAAAATTCAATAAATTTAGCCTTCAACATTTACAAAATTTGTCAATTTAGTG
Found at i:102595079 original size:691 final size:689
Alignment explanation
Indices: 102594074--102595441 Score: 2105
Period size: 691 Copynumber: 2.0 Consensus size: 689
102594064 TGCCAAAGAC
* * * *
102594074 AAAAAGTATAGGCATAGCTGTTGTGTTGTAGGCGAGGTCTTTTTGTTAGAAAAGTAATTACACAT
1 AAAAAGTATAGGCATAGCCGTTATGTTGTAGGCGAGGTCTTTTGGTTAGAAAAGAAATTACACAT
* * *
102594139 TTCTTTTTGTAAAAATTGAAAAGGTAAACTGTATCACAAAGATAACTTGCGAAAGTAAAGTTGAT
66 TTCTTTTTATAAAAATTGAAAAGGTAAACTATATCACAAAGATAACTTGCGAAAATAAAGTTGAT
* * * * *
102594204 ATTATTCCTAATACACCATTTGTGAATGAAGGCATGTTATATTGAACTTGGAGATCTTGAAAGTA
131 ATTATTCCTAATACACCATTTATGAATAAAGGCATGTTATATTAAACTTCGAGACCTTGAAAGTA
* *
102594269 AAGTATGAACACACAACGCATAACTTTGAAGATAAAGTGTGAATATAAAAAGTGGTACTAAAATT
196 AAGTATGAACACACAACGCATAACTTTGAAGATAAAGTATGAATACAAAAAGTGGTACTAAAATT
*
102594334 TTGTTGAAAGGGTTGAAAAGGTGAAAAGTGAAATTATATGTAAGAAGGTTAAAATCTTGAAATCA
261 TTGTTGAAAGGGTTAAAAAGGTGAAAAGTGAAATTATATGTAAGAAGGTTAAAATCTTGAAATCA
102594399 AAGTGACTGAAAAAGGTGCGCAACTTAAGAAGGTGAAGACCTGAAAACATAAAGAGATCCCTAGC
326 AAGTGACTGAAAAAGGTGCGCAACTTAAGAAGGTGAAGACCTGAAAACATAAAGAGATCCCTAGC
* *
102594464 TCCATGCTTCAAAAAGGATAAATATGTATAAAATTACATGACCTGAAAAGATCAAAAGTTGGGTG
391 TCCATGCTTCAAAAAGGATAAATATGTAAAAAATTACATGACCTGAAAAAATCAAAAGTTGGGTG
* * *
102594529 GCTTGATGCCTAGAAAAGCTTAAGTAAGT-GTTGACTAGGCATGTGAAATGTGGCTAT-ATGGGT
456 GCTTGATGCCTAGAAAAGCTTAAGTAAGTACTT-ACGAGGCATGTGAAATGTGGCTATCAT--GC
** ** ** * *
102594592 GTAATAAGACAAATGGGAGAAAATAGTAAAATAAATTTTGATAACCTCATTGCTCGCATCAATGG
518 CCAATAAGACAAATGGGAGAAAATAGTAAAATAAATTTCAATAACCTCAACGCTCACATCAATAG
* * *
102594657 TGGG-TCAAGGACTACTAGTGCAATTGGGGAAATATTAGCTATTTCTAGCACATATATAATATAT
583 TGGGCT-AAGGACTACTAGTGCAATTGGGAAAATATTAGCTATTGCTAGAACATATATAATATAT
102594721 ATAAATTGGAGCATTGTCAACCAATATATAAATATATATAATT
647 ATAAATTGGAGCATTGTCAACCAATATATAAATATATATAATT
*
102594764 AAAAAGGTATAGGCATAGCCGTTATGTTGTAGGTGAGGTCTTTTGGTTAGAAAA-AAATTACACA
1 AAAAA-GTATAGGCATAGCCGTTATGTTGTAGGCGAGGTCTTTTGGTTAGAAAAGAAATTACACA
*
102594828 TTTCTTTTTATAAAAATTGAAAAGTTAAACTATATCACAAAGATAACTTGCGAAAATAAAGTTGA
65 TTTCTTTTTATAAAAATTGAAAAGGTAAACTATATCACAAAGATAACTTGCGAAAATAAAGTTGA
* * *
102594893 TATTATTCTTAATACACCATTTATGAATAAAGGGATGTTGTATTAAACTTACGAGACCTTGAAAG
130 TATTATTCCTAATACACCATTTATGAATAAAGGCATGTTATATTAAACTT-CGAGACCTTGAAAG
* * * * *
102594958 TAAAGTATGAACACACAATGCATAACTTTGAAGATAAAGTATGAATGCAAAAGGTGGTACTACAG
194 TAAAGTATGAACACACAACGCATAACTTTGAAGATAAAGTATGAATACAAAAAGTGGTACTAAAA
* * *
102595023 TTTTTTTGAAAGGGTTAAAAATGTGAAAAGTGAAATTATATGTAAGAATGTTAAAATCTTGAAAT
259 TTTTGTTGAAAGGGTTAAAAAGGTGAAAAGTGAAATTATATGTAAGAAGGTTAAAATCTTGAAAT
* * *
102595088 CAAAGTGACTTAAAAATGTGCGCAACTTAAGAAGGTGAAGACCTGAAAATATAAAGAGATCCCTA
324 CAAAGTGACTGAAAAAGGTGCGCAACTTAAGAAGGTGAAGACCTGAAAACATAAAGAGATCCCTA
* * * * *
102595153 GCTTCATGCTTTAAAAAGGATAAATATGTAAAAAATTACATGACTTGAAAAAATTAAGAGTTGGG
389 GCTCCATGCTTCAAAAAGGATAAATATGTAAAAAATTACATGACCTGAAAAAATCAAAAGTTGGG
* **
102595218 TGGCTTGATGCCTGGAAAAGCTTAAGTAAGTACTTACGAGGCATGTGATTTGTGGCTATGCATGC
454 TGGCTTGATGCCTAGAAAAGCTTAAGTAAGTACTTACGAGGCATGTGAAATGTGGCTAT-CATGC
* *
102595283 CCAATAAGACAAATGGGAGAGAATAGTAAAATAAATTTCAATAACCTCAACGCTTACATCAATAG
518 CCAATAAGACAAATGGGAGAAAATAGTAAAATAAATTTCAATAACCTCAACGCTCACATCAATAG
* *
102595348 TGGGCTAGGGACTACTAGTGCAATTGGGAAAATATTAGCTATTGCTAGAACATATATAGTATATA
583 TGGGCTAAGGACTACTAGTGCAATTGGGAAAATATTAGCTATTGCTAGAACATATATAATATATA
*
102595413 TAAATTGGGGCATTGTCAACCAATATATA
648 TAAATTGGAGCATTGTCAACCAATATATA
102595442 TATAACTTGC
Statistics
Matches: 612, Mismatches: 60, Indels: 11
0.90 0.09 0.02
Matches are distributed among these distances:
690 119 0.19
691 488 0.80
692 3 0.00
693 2 0.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (689 bp):
AAAAAGTATAGGCATAGCCGTTATGTTGTAGGCGAGGTCTTTTGGTTAGAAAAGAAATTACACAT
TTCTTTTTATAAAAATTGAAAAGGTAAACTATATCACAAAGATAACTTGCGAAAATAAAGTTGAT
ATTATTCCTAATACACCATTTATGAATAAAGGCATGTTATATTAAACTTCGAGACCTTGAAAGTA
AAGTATGAACACACAACGCATAACTTTGAAGATAAAGTATGAATACAAAAAGTGGTACTAAAATT
TTGTTGAAAGGGTTAAAAAGGTGAAAAGTGAAATTATATGTAAGAAGGTTAAAATCTTGAAATCA
AAGTGACTGAAAAAGGTGCGCAACTTAAGAAGGTGAAGACCTGAAAACATAAAGAGATCCCTAGC
TCCATGCTTCAAAAAGGATAAATATGTAAAAAATTACATGACCTGAAAAAATCAAAAGTTGGGTG
GCTTGATGCCTAGAAAAGCTTAAGTAAGTACTTACGAGGCATGTGAAATGTGGCTATCATGCCCA
ATAAGACAAATGGGAGAAAATAGTAAAATAAATTTCAATAACCTCAACGCTCACATCAATAGTGG
GCTAAGGACTACTAGTGCAATTGGGAAAATATTAGCTATTGCTAGAACATATATAATATATATAA
ATTGGAGCATTGTCAACCAATATATAAATATATATAATT
Found at i:102596779 original size:38 final size:38
Alignment explanation
Indices: 102596737--102596813 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
102596727 TCAAGAGAGT
102596737 TTCGACTGAGGTGGAAAAGGGTTGGAAAGAGTCAAGTG
1 TTCGACTGAGGTGGAAAAGGGTTGGAAAGAGTCAAGTG
102596775 TTCGACTGAGGTGGAAAAGGGTTGGAAAGAGTCAAGTG
1 TTCGACTGAGGTGGAAAAGGGTTGGAAAGAGTCAAGTG
102596813 T
1 T
102596814 GGGGGTTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.08, G:0.39, T:0.22
Consensus pattern (38 bp):
TTCGACTGAGGTGGAAAAGGGTTGGAAAGAGTCAAGTG
Found at i:102598454 original size:27 final size:25
Alignment explanation
Indices: 102598411--102598480 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
102598401 GGAGGAAGTG
* *
102598411 TACTGTATTGGCGGCTTAGCCACATA
1 TACTGTACTGGCAGCTTAGCCACA-A
* **
102598437 TACTGATACTGGCAGCTTTGCTGCAA
1 TACTG-TACTGGCAGCTTAGCCACAA
102598463 TACTGCTACTGGCAGCTT
1 TACTG-TACTGGCAGCTT
102598481 TGCTGCGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 23 0.62
27 14 0.38
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.31
Consensus pattern (25 bp):
TACTGTACTGGCAGCTTAGCCACAA
Found at i:102598465 original size:26 final size:26
Alignment explanation
Indices: 102598436--102598486 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
102598426 TTAGCCACAT
102598436 ATACTGATACTGGCAGCTTTGCTGCA
1 ATACTGATACTGGCAGCTTTGCTGCA
*
102598462 ATACTGCTACTGGCAGCTTTGCTGC
1 ATACTGATACTGGCAGCTTTGCTGC
102598487 GATATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCA
Found at i:102598571 original size:22 final size:22
Alignment explanation
Indices: 102598528--102598571 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
102598518 TTGTCCCCAC
* *
102598528 ATGGTGTGTTGGTTGGTATGGG
1 ATGGTGTGTTGGCTAGTATGGG
*
102598550 ATGGTGTGTTGGCTAGTTTGGG
1 ATGGTGTGTTGGCTAGTATGGG
102598572 TTGAGCTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.02, G:0.48, T:0.41
Consensus pattern (22 bp):
ATGGTGTGTTGGCTAGTATGGG
Found at i:102599533 original size:22 final size:23
Alignment explanation
Indices: 102599503--102599546 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
102599493 ACAGATACGC
*
102599503 GAATTTCC-ACCCAAACACACCA
1 GAATATCCAACCCAAACACACCA
102599525 GAATATCCAACCCAAACACACC
1 GAATATCCAACCCAAACACACC
102599547 CGGAATATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.43, C:0.41, G:0.05, T:0.11
Consensus pattern (23 bp):
GAATATCCAACCCAAACACACCA
Found at i:102600670 original size:12 final size:12
Alignment explanation
Indices: 102600655--102600685 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
102600645 TTCTCTTTTA
*
102600655 TTTTTCTTTCCC
1 TTTTTCTTTCAC
102600667 TTTTTCTTTCAC
1 TTTTTCTTTCAC
102600679 TTTTTCT
1 TTTTTCT
102600686 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCAC
Found at i:102610986 original size:30 final size:30
Alignment explanation
Indices: 102610952--102611009 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
102610942 TTAGAAGGAC
*
102610952 AAAAAATTTAATATCAAATATTTAGTTTAT
1 AAAAAATTGAATATCAAATATTTAGTTTAT
*
102610982 AAAAAATTGAATATCAAATCTTTAGTTT
1 AAAAAATTGAATATCAAATATTTAGTTT
102611010 TAACCACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.41
Consensus pattern (30 bp):
AAAAAATTGAATATCAAATATTTAGTTTAT
Found at i:102611044 original size:57 final size:57
Alignment explanation
Indices: 102610969--102611089 Score: 215
Period size: 57 Copynumber: 2.1 Consensus size: 57
102610959 TTAATATCAA
102610969 ATATTTAGTTTATAAAAAATTGAATATCAAATCTTTAGTTTTAACCACAATTCTATT
1 ATATTTAGTTTATAAAAAATTGAATATCAAATCTTTAGTTTTAACCACAATTCTATT
* * *
102611026 GTATTTAGTTTCTGAAAAATTGAATATCAAATCTTTAGTTTTAACCACAATTCTATT
1 ATATTTAGTTTATAAAAAATTGAATATCAAATCTTTAGTTTTAACCACAATTCTATT
102611083 ATATTTA
1 ATATTTA
102611090 ATCAAGACAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.45
Consensus pattern (57 bp):
ATATTTAGTTTATAAAAAATTGAATATCAAATCTTTAGTTTTAACCACAATTCTATT
Found at i:102613860 original size:19 final size:18
Alignment explanation
Indices: 102613817--102613856 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
102613807 GGTGGCACAA
*
102613817 GAAATAAGGAAAATTGAG
1 GAAATAAGGAAAAATGAG
102613835 GAAATAAGGGAAAAATG-G
1 GAAATAA-GGAAAAATGAG
102613853 GAAA
1 GAAA
102613857 ATAACAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.12
Consensus pattern (18 bp):
GAAATAAGGAAAAATGAG
Found at i:102626513 original size:121 final size:121
Alignment explanation
Indices: 102626308--102626531 Score: 324
Period size: 121 Copynumber: 1.9 Consensus size: 121
102626298 GTCCCAGTTC
* * * *
102626308 ATGTGTCCGCCCGTGTGTGCATTCAATGTTGGGTCACATGACCATGTCACAGGTCGTGTCACAAA
1 ATGTGTCCGCCCGTATGTGCATTCAATGTTGGGTCACACGACCATGTCACAAGCCGTGTCACAAA
102626373 CCATGTAACTAATCGTTTTAAGATACACAGTCATGTCGCAAGCTATTTCCCAACCT
66 CCATGTAACTAATCGTTTTAAGATACACAGTCATGTCGCAAGCTATTTCCCAACCT
* * * * * *
102626429 ATGTGTCCGCCCTTATGTGCATTTAATGTTGGGTCACACGGCCATGTCGCAAGCCGTGTCTCAGA
1 ATGTGTCCGCCCGTATGTGCATTCAATGTTGGGTCACACGACCATGTCACAAGCCGTGTCACAAA
* *
102626494 CCATGTAACTAA-CTGTTTTAAGATACACGGTCGTGTCG
66 CCATGTAACTAATC-GTTTTAAGATACACAGTCATGTCG
102626532 TAGGCTGTGT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
120 1 0.01
121 89 0.99
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (121 bp):
ATGTGTCCGCCCGTATGTGCATTCAATGTTGGGTCACACGACCATGTCACAAGCCGTGTCACAAA
CCATGTAACTAATCGTTTTAAGATACACAGTCATGTCGCAAGCTATTTCCCAACCT
Found at i:102627748 original size:75 final size:75
Alignment explanation
Indices: 102627598--102627765 Score: 182
Period size: 75 Copynumber: 2.3 Consensus size: 75
102627588 CGCCTAACGG
* * * *
102627598 TAGTCGGGTAAACCAACAAATATAATGGTGTGCCCAGCACTAGTAAGATAAATTGAAAAAGGTTG
1 TAGTCGGATAAACCAACAAATATAATGGTGTGCCCAACACTAGTAAGATAAATTCAAAAAGATTG
**
102627663 CACCTTGCGC
66 CACCCAGCGC
* * * *
102627673 TAG-CTGGATAAACCGACAAGTATAATGTTGTGCCCAACACTAGT-CGAATAAA-TCAACAAAGA
1 TAGTC-GGATAAACCAACAAATATAATGGTGTGCCCAACACTAGTAAG-ATAAATTCAA-AAAGA
*
102627735 TTGCGCCCAGCGC
63 TTGCACCCAGCGC
102627748 TAGTCGGAT-AACCAACAA
1 TAGTCGGATAAACCAACAA
102627766 TAGTTGTGCC
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
74 13 0.17
75 63 0.82
76 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (75 bp):
TAGTCGGATAAACCAACAAATATAATGGTGTGCCCAACACTAGTAAGATAAATTCAAAAAGATTG
CACCCAGCGC
Found at i:102627785 original size:34 final size:34
Alignment explanation
Indices: 102627699--102627785 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
102627689 CAAGTATAAT
* *
102627699 GTTGTGCCCAACACTAGTCGAATAAATCAACAAA
1 GTTGTGCCCAGCACTAGTCGAATAAACCAACAAA
* * *
102627733 GATTGCGCCCAGCGCTAGTCGGAT-AACCAACAATA
1 G-TTGTGCCCAGCACTAGTCGAATAAACCAACAA-A
*
102627768 GTTGTGCCCTGCACTAGT
1 GTTGTGCCCAGCACTAGT
102627786 TGGGTGTACC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
34 23 0.53
35 20 0.47
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (34 bp):
GTTGTGCCCAGCACTAGTCGAATAAACCAACAAA
Found at i:102630114 original size:14 final size:15
Alignment explanation
Indices: 102630095--102630124 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
102630085 TCGAAACAGG
102630095 GAAAGAAAA-AGAAA
1 GAAAGAAAAGAGAAA
102630109 GAAAGAAAAGAGAAA
1 GAAAGAAAAGAGAAA
102630124 G
1 G
102630125 GAAAAACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAGAGAAA
Found at i:102635664 original size:15 final size:14
Alignment explanation
Indices: 102635640--102635814 Score: 61
Period size: 15 Copynumber: 12.5 Consensus size: 14
102635630 ACTCAAATAC
102635640 TATTATTTATCTAT
1 TATTATTTATCTAT
102635654 TATTGATTTATCTAT
1 TATT-ATTTATCTAT
102635669 T-TATATTTCTATC-AT
1 TAT-TA-TT-TATCTAT
102635684 TATTATATT-TCTAT
1 TATTAT-TTATCTAT
* * *
102635698 GTATTGTATCTCTAT
1 -TATTATTTATCTAT
102635713 T-TATATTTATATACTAAT
1 TAT-TA-TT-TAT-CT-AT
*
102635731 ATCATTTTTTAT-TAT
1 -T-ATTATTTATCTAT
*
102635746 TATT-TTTATATAT
1 TATTATTTATCTAT
102635759 TATTA-TTATC-AT
1 TATTATTTATCTAT
*
102635771 TATTA-TCA-CTAT
1 TATTATTTATCTAT
* *
102635783 TAGTA-CTAT-TAT
1 TATTATTTATCTAT
*
102635795 TATTTTTTATC-AT
1 TATTATTTATCTAT
102635808 TATTATT
1 TATTATT
102635815 ATTACTTTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 47
0.66 0.08 0.25
Matches are distributed among these distances:
11 1 0.01
12 27 0.22
13 28 0.23
14 14 0.11
15 33 0.27
16 8 0.07
17 2 0.02
18 5 0.04
19 3 0.02
20 1 0.01
21 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTATTTATCTAT
Found at i:102635747 original size:3 final size:3
Alignment explanation
Indices: 102635739--102635919 Score: 115
Period size: 3 Copynumber: 61.3 Consensus size: 3
102635729 ATATCATTTT
* * * *
102635739 TTA TTA TTA TTT TTA TATA TTA TTA TTA TCA TTA TTA TCA CTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
102635785 GTA CTA TTA TTA TT- TT- TTA TCA TTA TTA TTA TTA CTT- TT- TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * * *
102635827 CTA CTA TTA TTA TT- TCGTA CTA TTA TTG TTA TTA TTA CTA CTA TTA
1 TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
102635873 TTT TTA TTA TT- TT- TTA CTA TTA TTA TTG TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
102635919 T
1 T
102635920 CTTTTTAATT
Statistics
Matches: 142, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
2 13 0.09
3 123 0.87
4 6 0.04
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:102635847 original size:16 final size:16
Alignment explanation
Indices: 102635823--102635853 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102635813 TTATTACTTT
102635823 TTTCCTACTATTATTA
1 TTTCCTACTATTATTA
*
102635839 TTTCGTACTATTATT
1 TTTCCTACTATTATT
102635854 GTTATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTCCTACTATTATTA
Found at i:102635896 original size:25 final size:25
Alignment explanation
Indices: 102635831--102635908 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
102635821 TTTTTCCTAC
*
102635831 TATTATTATTT-CGTACTATTATTGT
1 TATTATTTTTTAC-TACTATTATTGT
*
102635856 TATTA----TTACTACTATTATTTT
1 TATTATTTTTTACTACTATTATTGT
*
102635877 TATTATTTTTTACTATTATTATTGT
1 TATTATTTTTTACTACTATTATTGT
*
102635902 TGTTATT
1 TATTATT
102635909 ATTATTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
21 18 0.41
22 1 0.02
25 25 0.57
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.64
Consensus pattern (25 bp):
TATTATTTTTTACTACTATTATTGT
Found at i:102635896 original size:37 final size:38
Alignment explanation
Indices: 102635855--102635926 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 38
102635845 ACTATTATTG
*
102635855 TTATTATTACTACTATTATTTTTATTAT-TTTTTACTA
1 TTATTATTACTACTATTATTATTATTATCTTTTTACTA
** **
102635892 TTATTATTGTTGTTATTATTATTATTATCTTTTTA
1 TTATTATTACTACTATTATTATTATTATCTTTTTA
102635927 ATTTGTGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 23 0.79
38 6 0.21
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (38 bp):
TTATTATTACTACTATTATTATTATTATCTTTTTACTA
Found at i:102635915 original size:43 final size:43
Alignment explanation
Indices: 102635833--102635917 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
102635823 TTTCCTACTA
*
102635833 TTATTATTTCGTACTATTATTGTTATTATTACTACTATTATTT
1 TTATTATTTCGTACTATTATTATTATTATTACTACTATTATTT
** * * * *
102635876 TTATTATTTTTTACTATTATTATTGTTGTTATTATTATTATT
1 TTATTATTTCGTACTATTATTATTATTATTACTACTATTATT
102635918 ATCTTTTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.65
Consensus pattern (43 bp):
TTATTATTTCGTACTATTATTATTATTATTACTACTATTATTT
Found at i:102636056 original size:15 final size:16
Alignment explanation
Indices: 102636017--102636057 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
102636007 CTTATGGGTT
**
102636017 TTATTTATTTTATGCA
1 TTATTTATTTTAAACA
102636033 TTATTTATTTTAAACA
1 TTATTTATTTTAAACA
102636049 TT-TTTATTT
1 TTATTTATTT
102636058 GTTGTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (16 bp):
TTATTTATTTTAAACA
Found at i:102643734 original size:19 final size:19
Alignment explanation
Indices: 102643706--102643755 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
102643696 GGTATAGAGC
102643706 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
*
102643725 ACATGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
102643744 ACACGCCCGTGT
1 ACACGCCCGTGT
102643756 CCCAAACCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (19 bp):
ACACGCCCGTGTGCTAGGG
Found at i:102645311 original size:93 final size:93
Alignment explanation
Indices: 102645199--102645368 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
102645189 GCCCATAAGT
* *
102645199 GAACTCGGACTCAACTCAACGAGCTC-AGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGA-ACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
102645263 ATGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
*
102645292 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
102645357 CGAGTTCGGATG
66 CGAGCTCGGATG
102645369 TTCAACCATC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:102645385 original size:46 final size:46
Alignment explanation
Indices: 102645191--102645371 Score: 192
Period size: 46 Copynumber: 3.9 Consensus size: 46
102645181 TGTAACCTGC
102645191 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACGTTCGCAT
* *
102645237 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * * * *
102645287 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
102645330 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTC
102645372 AACCATCCTA
Statistics
Matches: 111, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 64 0.58
47 26 0.23
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:102650285 original size:9 final size:8
Alignment explanation
Indices: 102650270--102650294 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
102650260 TGAGACCTTC
102650270 TAAAAAAA
1 TAAAAAAA
102650278 TAAAAAAA
1 TAAAAAAA
102650286 TAAAAAAA
1 TAAAAAAA
102650294 T
1 T
102650295 GGAGAAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Done.