Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 296 of 311
Found at i:96315147 original size:24 final size:24
Alignment explanation
Indices: 96315094--96315147 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
96315084 AAAATATAAC
96315094 ATTAA-AAATATATATATGTAATAT
1 ATTAAGAAATATATATA-GTAATAT
*
96315118 A-CAAGAAATATATATA-TAATAGT
1 ATTAAGAAATATATATAGTAATA-T
96315141 ATTAAGA
1 ATTAAGA
96315148 CTAAAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 5 0.20
23 4 0.16
24 16 0.64
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (24 bp):
ATTAAGAAATATATATAGTAATAT
Found at i:96316032 original size:18 final size:18
Alignment explanation
Indices: 96315991--96316025 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
96315981 GCCAAAATTC
96315991 TATTTTTTTG-TTTTTTT
1 TATTTTTTTGATTTTTTT
*
96316008 TATTTTTTTTATTTTTTT
1 TATTTTTTTGATTTTTTT
96316026 GCTTTTTGCT
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:0.09, C:0.00, G:0.03, T:0.89
Consensus pattern (18 bp):
TATTTTTTTGATTTTTTT
Found at i:96316047 original size:9 final size:9
Alignment explanation
Indices: 96315993--96316025 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
96315983 CAAAATTCTA
*
96315993 TTTTTTTGT
1 TTTTTTTAT
96316002 TTTTTTTAT
1 TTTTTTTAT
96316011 TTTTTTTAT
1 TTTTTTTAT
96316020 TTTTTT
1 TTTTTT
96316026 GCTTTTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:96316055 original size:22 final size:22
Alignment explanation
Indices: 96316013--96316055 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
96316003 TTTTTTATTT
*
96316013 TTTTTATTTTTTTGCTTTTTGC
1 TTTTTATTTTTTTGCTATTTGC
*
96316035 TTTTTATTTTTTTGGTATTTG
1 TTTTTATTTTTTTGCTATTTG
96316056 TTAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.77
Consensus pattern (22 bp):
TTTTTATTTTTTTGCTATTTGC
Found at i:96317263 original size:88 final size:87
Alignment explanation
Indices: 96317140--96317370 Score: 256
Period size: 88 Copynumber: 2.6 Consensus size: 87
96317130 ACGTGAGCAA
** * * * * *
96317140 AGGCTCAACTCATTTCTCGCAATATTAGTTGATTTTTTAAAA-CAGAATTTGCAAAACAGATT-T
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTG-AAAAAACATTAT
* *
96317203 TGAAAATACCTCGGTATGTGACCT-G
65 TGAAAATACCTCAGCA--TG-CCTCG
* *
96317228 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAAACATT-AT
96317293 TGAAAATACCTCAGCATGCCTCG
65 TGAAAATACCTCAGCATGCCTCG
* *
96317316 AGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTGACGAA-CAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAGCAGAAATTGAAAA
96317371 GACCTCAGCA
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
87 21 0.17
88 80 0.65
89 7 0.06
90 15 0.12
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAAACATTATT
GAAAATACCTCAGCATGCCTCG
Found at i:96317415 original size:74 final size:72
Alignment explanation
Indices: 96317290--96317498 Score: 269
Period size: 73 Copynumber: 2.9 Consensus size: 72
96317280 AAAAAACATT
* * * *
96317290 AATTGAAAATACCTCAGCAT-GCCTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGA
1 AATTGAAAAGACCTCAGCGTGGCCT-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
*
96317354 CGAACAGA
65 CAAACAGA
*
96317362 AATTGAAAAGACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTT
1 AATTGAAAAGACCTCAGC--GTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
96317426 TGACAAACAGA
62 TGACAAACAGA
** * *
96317437 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AATTGAAAAGACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
96317499 TTTTTAAGAG
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
72 23 0.19
73 34 0.28
74 31 0.26
75 29 0.24
76 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (72 bp):
AATTGAAAAGACCTCAGCGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAC
AAACAGA
Found at i:96317501 original size:75 final size:75
Alignment explanation
Indices: 96317290--96317740 Score: 362
Period size: 75 Copynumber: 5.8 Consensus size: 75
96317280 AAAAAACATT
* *
96317290 AATTGAAAATACCTCAGCATG-CCTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA---TTT
1 AATTGAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
96317351 TGACGAACAGA
65 TGACAAACAGA
* * * *
96317362 AATTGAAAAGACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCGATATGAGTTGA--TT
1 AATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
96317424 TTTGACAAACAGA
63 TTTGACAAACAGA
*
96317437 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
* * *
96317502 TTA-AGAGCAAA
65 TGACA-AACAGA
* ** *** * * *
96317513 AATTGGAAAGCAGAAATCGAAAAT-ACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATA
1 AATT-GAAA--ATACCTC-AGCGTGTCCT--GAG-G--CT----C-AA-CTCACCTCTCGCAATA
*
96317577 TGAGTTGATTTTTTTGACAAACATA
51 TGAGTTGATTTTTTTGACAAACAGA
* * * *
96317602 AATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAACATGAGTTGGTTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
96317667 GAAAAGCAGAAGCAGA
66 G---A-CA-AA-CAGA
*
96317683 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
96317741 ATTTGAAAAG
Statistics
Matches: 300, Mismatches: 46, Indels: 57
0.74 0.11 0.14
Matches are distributed among these distances:
72 19 0.06
73 34 0.11
74 32 0.11
75 60 0.20
76 17 0.06
77 5 0.02
78 1 0.00
79 8 0.03
80 4 0.01
81 59 0.20
82 1 0.00
83 1 0.00
84 4 0.01
85 2 0.01
86 6 0.02
88 5 0.02
89 17 0.06
90 25 0.08
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (75 bp):
AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GACAAACAGA
Found at i:96317630 original size:165 final size:154
Alignment explanation
Indices: 96317290--96317740 Score: 537
Period size: 165 Copynumber: 2.9 Consensus size: 154
96317280 AAAAAACATT
* * * * * *
96317290 AATTGAAAATACCTCAGCATG-CCTCGAGGCTCAACTCACCTTTCGCAATATGAGTT-G--ATTT
1 AATTGAAATTACCTCAGCGTGTCCT-GAGGCCCAACTCACCTCTCGCAACATGAGTTGGTTTTTT
* *
96317351 TG---A-C-GAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTCG
65 TGAAAAGCAGAAGCAGAAATTGAAAATACCTCAGC--GTG-CCCTAAGGCTCAACTCACCTCTCG
*
96317409 CGATATGAGTTGATTTTTGACAAACAGA
127 CAATATGAGTTGATTTTTGACAAACAGA
* * *
96317437 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAACATGAGTTG-GTTTTTT
* * *
96317502 TTAAGAGCAAAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACC
65 TGAAAAGC----A---G-AAGCAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACC
*
96317567 TCTCGCAATATGAGTTGATTTTTTTGACAAACATA
122 TCTCGCAATATGAGTTGA--TTTTTGACAAACAGA
96317602 AATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAACATGAGTTGGTTTTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAACATGAGTTGGTTTTTTT
*
96317667 GAAAAGCAGAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
66 GAAAAGCAGAAGCAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAAT
96317732 ATGAGTTGA
131 ATGAGTTGA
96317741 ATTTGAAAAG
Statistics
Matches: 264, Mismatches: 18, Indels: 35
0.83 0.06 0.11
Matches are distributed among these distances:
147 49 0.19
148 3 0.01
151 4 0.02
154 1 0.00
155 1 0.00
156 63 0.24
157 1 0.00
160 1 0.00
162 2 0.01
163 36 0.14
164 14 0.05
165 89 0.34
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (154 bp):
AATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCGCAACATGAGTTGGTTTTTTT
GAAAAGCAGAAGCAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGACAAACAGA
Found at i:96317729 original size:246 final size:234
Alignment explanation
Indices: 96317224--96317755 Score: 651
Period size: 246 Copynumber: 2.2 Consensus size: 234
96317214 CGGTATGTGA
* * *
96317224 CCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACAT
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAAAAACAG
* * * *
96317289 TAATTGAAAATACCTCAGCATGCCTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGA
66 AAATCGAAAATACCTCAGCATGCCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
* * * *
96317354 CGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCGATATGAGT
131 CAAACAGAAATTGAAAAGACCTCAGCA-GTGAGCCAAGGCCCAACTCACCTCTCGCAACATGAGT
* *
96317419 TGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
195 TGATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGC
* * * *
96317459 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAGAGCAAAAATTG-GAAAG
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAGCAAAAATTGAAAAAA
*
96317523 CAGAAATCGAAAATACCTCAGCGTGCC-CTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
63 CAGAAATCGAAAATACCTCAGCATGCCTC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
* ** * *
96317587 TTTTTGACAAACATAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCCCAACTCACCTCTCGCAA
125 -TTTTGACAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-AAGGCCCAACTCACCTCTCGCAA
*
96317650 CATGAGTTGGTTTTTTTGAAAAGCAGAAGCAGAAATTGAAAATACCTCAGCGTGC
188 CATGAGTT-G-ATTTTTG---A-CA-AA-CAGAAATTGAAAATACCTCAGCGTGC
*
96317705 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTGAAAAGCAAAA
1 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAA
96317756 GTAAAACATC
Statistics
Matches: 254, Mismatches: 27, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
235 35 0.14
236 1 0.00
237 59 0.23
238 47 0.19
239 1 0.00
240 34 0.13
242 12 0.05
243 1 0.00
244 2 0.01
245 2 0.01
246 60 0.24
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (234 bp):
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAATTGAAAAAACAG
AAATCGAAAATACCTCAGCATGCCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
CAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCAAGGCCCAACTCACCTCTCGCAACATGAGTT
GATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGC
Found at i:96330022 original size:54 final size:56
Alignment explanation
Indices: 96329964--96330079 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 56
96329954 GAAAGACGTT
* * * * *
96329964 TACATAGTAATACTAAA-TATAAGTAC-TAATATATATATACATATATTTAA-AAAA
1 TACATAATAATACTAAAGAATAAGTACATAATATACATACACATATA-ATAAGAAAA
* *
96330018 TACATAATAATATTAAAGAATAAGTACATACTATACATACACATATAATAAGAAAA
1 TACATAATAATACTAAAGAATAAGTACATAATATACATACACATATAATAAGAAAA
96330074 TACATA
1 TACATA
96330080 CCATATATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 15 0.29
55 11 0.21
56 26 0.50
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.31
Consensus pattern (56 bp):
TACATAATAATACTAAAGAATAAGTACATAATATACATACACATATAATAAGAAAA
Found at i:96330250 original size:29 final size:26
Alignment explanation
Indices: 96330208--96330280 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
96330198 TACGTGATAT
*
96330208 ATACATATATATAAAATAAATATTGAAAA
1 ATACATATACATAAAAT--ATA-TGAAAA
* *
96330237 ATACATGTACATAACATATATGAAAA
1 ATACATATACATAAAATATATGAAAA
96330263 AT--ATATACATAATAATAT
1 ATACATATACATAA-AATAT
96330281 TAAAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 9 0.24
25 4 0.11
26 8 0.21
27 3 0.08
29 14 0.37
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.32
Consensus pattern (26 bp):
ATACATATACATAAAATATATGAAAA
Found at i:96331311 original size:17 final size:18
Alignment explanation
Indices: 96331284--96331318 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
96331274 AAAAAAAGGG
96331284 AGAGAAGAAGAGAGAGAA
1 AGAGAAGAAGAGAGAGAA
*
96331302 AGAG-AGAAGAGGGAGAA
1 AGAGAAGAAGAGAGAGAA
96331319 GGGAGGACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (18 bp):
AGAGAAGAAGAGAGAGAA
Found at i:96331399 original size:13 final size:13
Alignment explanation
Indices: 96331381--96331435 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
96331371 CAAAATTCTA
*
96331381 TTTTTTTT-GTTT
1 TTTTTTTTATTTT
96331393 TTTTTTTTATTTT
1 TTTTTTTTATTTT
*
96331406 TTATTTTTGATTTT
1 TT-TTTTTTATTTT
*
96331420 TGTTTTTTATTTT
1 TTTTTTTTATTTT
96331433 TTT
1 TTT
96331436 GGTATTTGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 8 0.22
13 17 0.47
14 11 0.31
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.87
Consensus pattern (13 bp):
TTTTTTTTATTTT
Found at i:96331436 original size:22 final size:20
Alignment explanation
Indices: 96331383--96331433 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
96331373 AAATTCTATT
* * *
96331383 TTTTTTGTTTTT-TTTTTTA
1 TTTTTTATTTTTGATTTTTG
96331402 TTTTTTATTTTTGATTTTTG
1 TTTTTTATTTTTGATTTTTG
96331422 TTTTTTATTTTT
1 TTTTTTATTTTT
96331434 TTGGTATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (20 bp):
TTTTTTATTTTTGATTTTTG
Found at i:96333032 original size:16 final size:16
Alignment explanation
Indices: 96333008--96333061 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
96332998 TTTGGTTCGC
* *
96333008 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
96333024 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
96333040 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
96333056 TGTAAT
1 TGTAAT
96333062 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:96333145 original size:39 final size:43
Alignment explanation
Indices: 96333040--96333149 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 43
96333030 GGAATAGAGG
96333040 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * *
96333085 TGTAATGGAATAGAGGCGTAATAG-TAATCTTA-TGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATC-AACTGTTTGGTTA
96333125 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
96333150 TAATGGAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 20 0.34
40 2 0.03
43 1 0.02
44 11 0.19
45 24 0.41
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:96333433 original size:16 final size:16
Alignment explanation
Indices: 96333389--96333435 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
96333379 TACTATAAAA
*
96333389 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
96333405 TATTATT-AAATATAT
1 TATAATTAAAATATAT
96333420 TATAATTAAAATATAT
1 TATAATTAAAATATAT
96333436 AATTTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:96333507 original size:120 final size:121
Alignment explanation
Indices: 96333273--96333809 Score: 859
Period size: 120 Copynumber: 4.5 Consensus size: 121
96333263 ATTTAATTAT
* * *
96333273 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
96333338 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
96333393 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
96333457 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
96333513 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
96333577 ATCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
96333633 ATTTGAA-TTAATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
96333697 ATCAACATTCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * * *
96333753 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
96333810 TAAAATAATT
Statistics
Matches: 396, Mismatches: 19, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
119 63 0.16
120 331 0.84
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:96333555 original size:18 final size:17
Alignment explanation
Indices: 96333534--96333568 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96333524 TTATTATTAA
*
96333534 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
96333552 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
96333569 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:96333585 original size:16 final size:15
Alignment explanation
Indices: 96333560--96333589 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
96333550 ATATATAATT
96333560 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
96333575 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
96333590 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:96333860 original size:47 final size:46
Alignment explanation
Indices: 96333791--96333958 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
96333781 TTAATTAAAA
*
96333791 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
96333838 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
96333883 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
96333929 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
96333959 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 8 0.08
47 46 0.48
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:96333867 original size:101 final size:92
Alignment explanation
Indices: 96333806--96333982 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 92
96333796 GATTTAATAA
* *
96333806 AATTT-AAAATAATT-ATAACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTCATAA-TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA
96333869 TATTAAATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * *
96333897 AATTTCATAAAATTCGTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
96333962 TTAAATATAATTTAA-TAATAA
66 TTAAATATAATTTAATTAATAA
96333983 AATGTTCTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
91 73 0.94
92 5 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:96333978 original size:17 final size:15
Alignment explanation
Indices: 96333947--96333985 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
96333937 TTTATACAAT
96333947 TTAAAATAATTAATA
1 TTAAAATAATTAATA
96333962 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
96333979 ATAAAAT
1 TTAAAAT
96333986 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:96339883 original size:2 final size:2
Alignment explanation
Indices: 96339876--96339902 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96339866 TAAAAATGAG
96339876 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
96339903 AATAGAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96349446 original size:68 final size:68
Alignment explanation
Indices: 96349333--96349470 Score: 222
Period size: 68 Copynumber: 2.0 Consensus size: 68
96349323 CCAGGGACTA
* * *
96349333 TAACACCCCTTGCCCGACCTGATTGCCGGGTCTAAGCTACTAAATGTTACAATCATTGCCAGAAC
1 TAACACCCCTCGCCCGACCTGATTACCGGGTCTAAGCTACGAAATGTTACAATCATTGCCAGAAC
96349398 AAC
66 AAC
* * *
96349401 TAACACCCCTCGCCCGACCTGATTACCGGGTCTGAGCTACGAAATGTTACAATCGTTGCCGGAAC
1 TAACACCCCTCGCCCGACCTGATTACCGGGTCTAAGCTACGAAATGTTACAATCATTGCCAGAAC
96349466 AAC
66 AAC
96349469 TA
1 TA
96349471 CCGTCAAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (68 bp):
TAACACCCCTCGCCCGACCTGATTACCGGGTCTAAGCTACGAAATGTTACAATCATTGCCAGAAC
AAC
Found at i:96353526 original size:20 final size:21
Alignment explanation
Indices: 96353503--96353549 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
96353493 GTCTTATCAT
* *
96353503 AAAATTTATAATT-AAATAAC
1 AAAATTGAGAATTAAAATAAC
*
96353523 AAAAATGAGAATTAAAATAAC
1 AAAATTGAGAATTAAAATAAC
96353544 AAAATT
1 AAAATT
96353550 ACAATGTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAATTGAGAATTAAAATAAC
Found at i:96367174 original size:12 final size:12
Alignment explanation
Indices: 96367154--96367195 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
96367144 TCCACATAAC
96367154 TAAAAATACAAA
1 TAAAAATACAAA
*
96367166 TACAAATACAAA
1 TAAAAATACAAA
*
96367178 TAAAAATAAAAAA
1 TAAAAAT-ACAAA
96367191 TAAAA
1 TAAAA
96367196 TGACAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAATACAAA
Found at i:96372361 original size:11 final size:11
Alignment explanation
Indices: 96372345--96372373 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
96372335 CAACGATTAA
96372345 CACAAAATAAT
1 CACAAAATAAT
96372356 CACAAAATAAT
1 CACAAAATAAT
96372367 CACAAAA
1 CACAAAA
96372374 AGAGATGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.66, C:0.21, G:0.00, T:0.14
Consensus pattern (11 bp):
CACAAAATAAT
Found at i:96377582 original size:30 final size:29
Alignment explanation
Indices: 96377530--96377600 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 29
96377520 TAAATTTATT
96377530 AAAATAAAAACATTAAATTTAAAT-TTTAA
1 AAAATAAAAA-ATTAAATTTAAATATTTAA
96377559 AAAATAAAAAATTATAATATTAAATATTTAA
1 AAAATAAAAAATTA-AAT-TTAAATATTTAA
* *
96377590 ATATTAAAAAA
1 AAAATAAAAAA
96377601 CATTTTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 4 0.11
29 13 0.35
30 6 0.16
31 14 0.38
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATAAAAAATTAAATTTAAATATTTAA
Found at i:96377594 original size:15 final size:15
Alignment explanation
Indices: 96377542--96377597 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
96377532 AATAAAAACA
96377542 TTAAAT-TTAAAT-T
1 TTAAATATTAAATAT
* * * *
96377555 TTAAAAAATAAAAAA
1 TTAAATATTAAATAT
96377570 TTATAATATTAAATAT
1 TTA-AATATTAAATAT
96377586 TTAAATATTAAA
1 TTAAATATTAAA
96377598 AAACATTTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 5 0.16
14 4 0.12
15 12 0.38
16 11 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAATATTAAATAT
Found at i:96377731 original size:5 final size:6
Alignment explanation
Indices: 96377716--96377741 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
96377706 AAAAGCCCTT
96377716 TTTTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
96377742 ACCAACGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:96397834 original size:46 final size:44
Alignment explanation
Indices: 96397730--96397837 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
96397720 TGTCTTTGAC
** * * *
96397730 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
96397774 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
96397820 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
96397838 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:96404941 original size:46 final size:46
Alignment explanation
Indices: 96404891--96405064 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
96404881 GGTTGAGCAT
96404891 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
96404937 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
*
96404984 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
96405029 CAGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96405065 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 58 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:96405055 original size:93 final size:92
Alignment explanation
Indices: 96404887--96405057 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 92
96404877 GGATGGTTGA
*
96404887 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
96404952 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
96404979 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCAGAGCTCGTTGAG
1 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
96405043 TTGAGTCTGAGTTCG
64 TTGAGTCCGAGTTCG
96405058 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
92 6 0.08
93 68 0.92
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (92 bp):
GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96418682 original size:46 final size:46
Alignment explanation
Indices: 96418535--96418663 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
96418525 TGTAACCCGC
* *
96418535 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
*
96418581 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
96418627 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
96418664 TGCTCAATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:96422576 original size:46 final size:46
Alignment explanation
Indices: 96422526--96422701 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
96422516 TGGTTGAGCA
96422526 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
96422572 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
96422617 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
96422665 -CCAGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
96422702 CGGGTTACAT
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:96422682 original size:93 final size:93
Alignment explanation
Indices: 96422523--96422694 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
96422513 GGATGGTTGA
* *
96422523 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
96422588 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
96422616 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCAGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGAG
96422680 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
96422695 CTTATGGCGG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96425598 original size:46 final size:44
Alignment explanation
Indices: 96425494--96425601 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
96425484 TGTCTTTGAC
** * * *
96425494 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
96425538 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
96425584 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
96425602 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:96427627 original size:21 final size:21
Alignment explanation
Indices: 96427602--96427645 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
96427592 TTGTAAAGTT
96427602 TAGTCACATTTTGTATCGAGG
1 TAGTCACATTTTGTATCGAGG
96427623 TAGTCACATTTTGTATCGAGG
1 TAGTCACATTTTGTATCGAGG
96427644 TA
1 TA
96427646 AGTTTACAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (21 bp):
TAGTCACATTTTGTATCGAGG
Found at i:96427905 original size:46 final size:48
Alignment explanation
Indices: 96427833--96427935 Score: 131
Period size: 46 Copynumber: 2.2 Consensus size: 48
96427823 GACAGGACAT
* * *
96427833 GACAGAAATGAGTCATGTAAGTCCATA-T-CAGATATATGGCT-TTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGG-TATTGGA
* *
96427879 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGTATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGTATTGGA
96427927 GACAGGAAT
1 GACAGGAAT
96427936 AATTCATGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 24 0.49
47 2 0.04
48 23 0.47
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGTATTGGA
Found at i:96431272 original size:53 final size:53
Alignment explanation
Indices: 96431213--96431319 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
96431203 TACTTACAAT
96431213 TTTTTTTGTTTATTTTTACGTAATATATTTAAAGTGTTGATTAGAATGTTAAG
1 TTTTTTTGTTTATTTTTACGTAATATATTTAAAGTGTTGATTAGAATGTTAAG
96431266 TTTTTTTGTTTATTTTTACGTAATATATTTAAAGTGTTGATTAGAATGTTAAG
1 TTTTTTTGTTTATTTTTACGTAATATATTTAAAGTGTTGATTAGAATGTTAAG
96431319 T
1 T
96431320 ATTTACCTCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (53 bp):
TTTTTTTGTTTATTTTTACGTAATATATTTAAAGTGTTGATTAGAATGTTAAG
Found at i:96437525 original size:20 final size:21
Alignment explanation
Indices: 96437488--96437526 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96437478 AAAAGATTGA
96437488 AAAAAATAAAATATAAATGGC
1 AAAAAATAAAATATAAATGGC
* *
96437509 AAAAATTAAATTA-AAATG
1 AAAAAATAAAATATAAATG
96437527 ATGTGGGGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (21 bp):
AAAAAATAAAATATAAATGGC
Found at i:96446786 original size:6 final size:6
Alignment explanation
Indices: 96446775--96446807 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
96446765 TTCATTGTCC
96446775 TTTTCT TTTTCT TTTTCT TTTTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
96446808 GTCCTCGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:96459799 original size:37 final size:37
Alignment explanation
Indices: 96459729--96459801 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
96459719 ATAAAAATAA
*
96459729 ATAATTTAACTATATTTTAATATAATTATTATTAAAT
1 ATAATTTAACTACATTTTAATATAATTATTATTAAAT
96459766 ATAATTTAA-TAACATTCTTAATATAATTA-TATTAAA
1 ATAATTTAACT-ACATT-TTAATATAATTATTATTAAA
96459802 ATGTTTTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 1 0.03
37 20 0.61
38 12 0.36
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (37 bp):
ATAATTTAACTACATTTTAATATAATTATTATTAAAT
Found at i:96463436 original size:20 final size:20
Alignment explanation
Indices: 96463394--96463438 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
96463384 TTTAATCGTA
* *
96463394 TAAAAATTAATTTGTCATTT
1 TAAAAATTAATATATCATTT
96463414 TAAAAATTAATATAT-ATTGT
1 TAAAAATTAATATATCATT-T
96463434 TAAAA
1 TAAAA
96463439 CTAAACTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
TAAAAATTAATATATCATTT
Found at i:96474456 original size:51 final size:51
Alignment explanation
Indices: 96474380--96474590 Score: 334
Period size: 51 Copynumber: 4.2 Consensus size: 51
96474370 CTGATCACAT
96474380 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * * * **
96474431 TTATCACTTTTCATTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCTT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
96474482 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
96474532 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
96474583 TTGTCACT
1 TTATCACT
96474591 GATCAGAAGT
Statistics
Matches: 144, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
50 46 0.32
51 98 0.68
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:96474535 original size:101 final size:102
Alignment explanation
Indices: 96474379--96474580 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 102
96474369 ACTGATCACA
*
96474379 TTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTTTCA
1 TTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGTCA
96474444 TTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCT
66 TTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCT
96474481 TTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAACTACCACTTATCACTTATCACTTGTCA
1 TTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGTCA
*
96474545 TTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
66 TTGATCAAATAAGTGTAGCTAAAGCTACCACTTATC
96474581 ACTTGTCACT
Statistics
Matches: 98, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 64 0.65
102 34 0.35
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (102 bp):
TTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGTCA
TTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCT
Found at i:96478875 original size:47 final size:47
Alignment explanation
Indices: 96478766--96478876 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
96478756 CCGGGATAAG
*
96478766 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * * *
96478813 CACAAAGTACTTCATCGGAACAAATCTGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
96478860 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
96478877 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:96486037 original size:46 final size:47
Alignment explanation
Indices: 96485929--96486038 Score: 145
Period size: 46 Copynumber: 2.4 Consensus size: 47
96485919 CCGGGATAAG
*
96485929 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
96485976 CACAAAGTACTTCATCGGAACAAATCC-GAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
96486022 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
96486039 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 1 0.02
46 27 0.49
47 27 0.49
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:96486810 original size:4 final size:4
Alignment explanation
Indices: 96486801--96486877 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
96486791 CCCTTTTCTA
** * * * **
96486801 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
*
96486851 TTTC TATC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
96486878 TTTTTAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 53 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:96491767 original size:46 final size:46
Alignment explanation
Indices: 96491700--96491921 Score: 231
Period size: 46 Copynumber: 4.8 Consensus size: 46
96491690 TGTAACCCGC
*
96491700 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CGTTCGCAT
* *
96491746 CCATAAGTGAACAT-TGACTCAACTCAACGAGCTCGGATACCTAGTT-ACAT
1 CCATAAGTGAAC-TCGGACTCAACTCAACGAGCTCGG--A-C--GTTCGCAT
* * * *
96491796 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
96491839 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
96491885 CCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
96491922 TGCCCAAATA
Statistics
Matches: 147, Mismatches: 18, Indels: 22
0.79 0.10 0.12
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 2 0.01
45 3 0.02
46 99 0.67
47 27 0.18
48 2 0.01
49 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:96491819 original size:93 final size:93
Alignment explanation
Indices: 96491707--96491876 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
96491697 CGCCCATAAG
* *
96491707 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACAT-TGACTCAACT
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAAC-TCAGACTCAACT
96491770 CAACGAGCTCGGATACCTAGTTACATCTCA
64 CAACGAGCTCGGATACCTAGTTACATCTCA
*
96491800 CGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
96491865 ACGAGTTCGGAT
66 ACGAGCTCGGAT
96491877 GTTCGCATCC
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 1 0.01
93 68 0.96
94 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATACCTAGTTACATCTCA
Found at i:96493446 original size:46 final size:49
Alignment explanation
Indices: 96493340--96493461 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
96493330 TGTCTTCGAC
** * *
96493340 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* *
96493390 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATAT-T-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
*
96493436 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
96493462 ATGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 27 0.42
47 1 0.02
48 6 0.09
50 30 0.47
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:96498369 original size:43 final size:43
Alignment explanation
Indices: 96498303--96498500 Score: 351
Period size: 43 Copynumber: 4.6 Consensus size: 43
96498293 CCAGCATTAC
*
96498303 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
96498346 GCGTGCTAGGCACGAAGGGCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
96498389 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
96498432 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
96498475 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
96498501 TAATACCAGC
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.30, C:0.32, G:0.27, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:96501492 original size:15 final size:15
Alignment explanation
Indices: 96501444--96501512 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
96501434 TAAAGATAAC
*
96501444 AAGAAAGCC-GAATA
1 AAGAAACCCAGAATA
* *
96501458 AAGAAATCCA-AGATT
1 AAGAAACCCAGA-ATA
*
96501473 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
96501488 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
96501503 AAGAAACCCA
1 AAGAAACCCA
96501513 AGATACGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.20
15 34 0.77
16 1 0.02
ACGTcount: A:0.57, C:0.17, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:96501508 original size:30 final size:30
Alignment explanation
Indices: 96501444--96501512 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
96501434 TAAAGATAAC
* *
96501444 AAGAAAGCC-GAATAAAGAAATCCAAGATT
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
*
96501473 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
96501503 AAGAAACCCA
1 AAGAAACCCA
96501513 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.57, C:0.17, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:96502147 original size:23 final size:23
Alignment explanation
Indices: 96502121--96502166 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
96502111 AAAGTAAATT
96502121 CATTCCTTAACTGGGATAGTACA
1 CATTCCTTAACTGGGATAGTACA
*
96502144 CATTCTTTAACTGGGATAGTACA
1 CATTCCTTAACTGGGATAGTACA
96502167 TAGCTCCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (23 bp):
CATTCCTTAACTGGGATAGTACA
Found at i:96504672 original size:46 final size:46
Alignment explanation
Indices: 96504522--96504740 Score: 169
Period size: 46 Copynumber: 4.8 Consensus size: 46
96504512 TGTAACCCGC
* * * **** *
96504522 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* * *
96504568 CCATAAGTGAACTCGGACTC-ACTCAACAAGCTCGGATACCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-A-C-A-TTCGCAT
* * *
96504617 -C-TCA-CGAACTCGGACCCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* * **
96504660 CCATAAGTGAACTCGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* * *
96504706 CCATAAGTGAAATCAGACTCAACTCAATGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
96504741 GAAACCCAAA
Statistics
Matches: 139, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 14 0.10
46 97 0.70
47 13 0.09
48 1 0.01
49 4 0.03
50 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
Found at i:96512142 original size:24 final size:24
Alignment explanation
Indices: 96512086--96512157 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
96512076 ATCCGGGCTG
*
96512086 TATAACAGGAAGCTCATAAGAGCC
1 TATAACAAGAAGCTCATAAGAGCC
* **
96512110 -ATATTCAAGAAGCTCATGCGAGCC
1 TATA-ACAAGAAGCTCATAAGAGCC
*
96512134 TATAACAAGTAGCTC-TAAAGAGCC
1 TATAACAAGAAGCTCAT-AAGAGCC
96512158 ATTAATTGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
23 4 0.11
24 30 0.81
25 3 0.08
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (24 bp):
TATAACAAGAAGCTCATAAGAGCC
Found at i:96512292 original size:26 final size:26
Alignment explanation
Indices: 96512214--96512292 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
96512204 AGCCATATCG
*
96512214 GGAAGCTC-CGAAAAGCCATTAATCA
1 GGAAGCTCACGAAAAGCCATTAATCT
*
96512239 GGAAGCTCAC-AAAGAGCCTTTAATCT
1 GGAAGCTCACGAAA-AGCCATTAATCT
*
96512265 GGAAGCTCACGAAAAACCATATAA-CT
1 GGAAGCTCACGAAAAGCCAT-TAATCT
96512291 GG
1 GG
96512293 GATGTTTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 11 0.24
26 29 0.63
27 6 0.13
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACGAAAAGCCATTAATCT
Found at i:96527860 original size:63 final size:63
Alignment explanation
Indices: 96527791--96527916 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
96527781 GAAGAAGTCA
96527791 CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
1 CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
96527854 CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
1 CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
96527917 TCTTTCTTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (63 bp):
CACAGTGCTTGCAAATAGCTCTCTATGTAAGTAACTGTTGCTTCTTTTAGAAAATCTGATAGT
Found at i:96534792 original size:17 final size:17
Alignment explanation
Indices: 96534770--96534803 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96534760 TTGATATATT
96534770 TTATTTAAATATTAACA
1 TTATTTAAATATTAACA
*
96534787 TTATTTAAATCTTAACA
1 TTATTTAAATATTAACA
96534804 AGTTCTTTTA
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:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATTTAAATATTAACA
Found at i:96554449 original size:36 final size:36
Alignment explanation
Indices: 96554402--96554475 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
96554392 GTCCACCATT
96554402 AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
1 AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
96554438 AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
1 AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
96554474 AG
1 AG
96554476 ACAGCTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (36 bp):
AGTGAGAGGTTGACAACAATCTGACCATTTAACCAA
Found at i:96557933 original size:12 final size:13
Alignment explanation
Indices: 96557906--96557943 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
96557896 TAATAAAATT
*
96557906 TAAATATTTTATA
1 TAAATTTTTTATA
96557919 TAAATTTTTTA-A
1 TAAATTTTTTATA
*
96557931 TAAATTATTTATA
1 TAAATTTTTTATA
96557944 CAATTATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAAATTTTTTATA
Found at i:96557990 original size:30 final size:32
Alignment explanation
Indices: 96557914--96557990 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 32
96557904 TTTAAATATT
*
96557914 TTATATAAATTTTTTAATAAATTATTTATACAA
1 TTAT-TAAAATTTTTAATAAATTATTTATACAA
* *
96557947 TTATTCAAA-TTTTAA-ACAA-TATTTATATAA
1 TTATTAAAATTTTTAATA-AATTATTTATACAA
96557977 TT-TTAAAATTTTTA
1 TTATTAAAATTTTTA
96557991 TAGCGTACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 5 0.13
30 18 0.47
31 8 0.21
32 3 0.08
33 4 0.11
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (32 bp):
TTATTAAAATTTTTAATAAATTATTTATACAA
Found at i:96563715 original size:181 final size:180
Alignment explanation
Indices: 96563369--96563903 Score: 1011
Period size: 181 Copynumber: 3.0 Consensus size: 180
96563359 GGAGATTTCG
96563369 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
*
96563434 TGATCTTTCCGAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
96563499 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
96563549 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
96563614 TGATCTTTCCAAGTGTTAAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTAC
66 TGATCTTTCCAAGTGTT-AATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTAC
*
96563679 ACCGATACTAGCTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
130 ACCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
96563730 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
96563795 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAA-C-CACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
* *
96563858 CCGAAACTAGTTTCATACTAGCAGGTTATGTTACAATTTGTAAAAC
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAAC
96563904 ATTATACTGA
Statistics
Matches: 349, Mismatches: 5, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
178 54 0.15
179 1 0.00
180 115 0.33
181 179 0.51
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (180 bp):
AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
Found at i:96567825 original size:39 final size:39
Alignment explanation
Indices: 96567776--96567861 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
96567766 TATTTCTATA
* * *
96567776 TATAAAAATATCAAATTTGTTTTTTTTATTAGGTATTTT
1 TATAAAAATATCAAAATTATTTATTTTATTAGGTATTTT
* * *
96567815 TATAACAATATCAAAATTATTTATTTTGTTAGGTCTTTT
1 TATAAAAATATCAAAATTATTTATTTTATTAGGTATTTT
96567854 CT-TAAAAA
1 -TATAAAAA
96567862 GAATGAACCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 38 0.97
40 1 0.03
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (39 bp):
TATAAAAATATCAAAATTATTTATTTTATTAGGTATTTT
Found at i:96572943 original size:20 final size:20
Alignment explanation
Indices: 96572918--96572955 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96572908 CACATATGAA
96572918 ATAAATTATTAT-ATAATTAT
1 ATAAA-TATTATGATAATTAT
96572938 ATAAATATTATGATAATT
1 ATAAATATTATGATAATT
96572956 TTATCCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
ATAAATATTATGATAATTAT
Found at i:96576411 original size:16 final size:16
Alignment explanation
Indices: 96576392--96576431 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
96576382 TGAATGTAAA
*
96576392 AAAATATTTTTATTTT
1 AAAATATTTATATTTT
*
96576408 AAAATAATTATATTTT
1 AAAATATTTATATTTT
*
96576424 AGAATATT
1 AAAATATT
96576432 AAGTTTTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AAAATATTTATATTTT
Found at i:96579538 original size:13 final size:13
Alignment explanation
Indices: 96579520--96579545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96579510 AAATTACAAC
96579520 TATTAATATTTTT
1 TATTAATATTTTT
96579533 TATTAATATTTTT
1 TATTAATATTTTT
96579546 CGTTAATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTAATATTTTT
Found at i:96580355 original size:31 final size:31
Alignment explanation
Indices: 96580320--96580378 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
96580310 ATAATCAAAG
* *
96580320 TAGAAAGAACATATAGACTATGCATTAAAAA
1 TAGAAAGAACACATAGACAATGCATTAAAAA
96580351 TAGAAAGAACACATAGACAATGCATTAA
1 TAGAAAGAACACATAGACAATGCATTAA
96580379 TTAACAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.20
Consensus pattern (31 bp):
TAGAAAGAACACATAGACAATGCATTAAAAA
Found at i:96580889 original size:15 final size:16
Alignment explanation
Indices: 96580869--96580898 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96580859 ACCATATCTA
96580869 TTTATAT-AACAACAT
1 TTTATATGAACAACAT
96580884 TTTATATGAACAACA
1 TTTATATGAACAACA
96580899 AATCTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (16 bp):
TTTATATGAACAACAT
Found at i:96584770 original size:7 final size:7
Alignment explanation
Indices: 96584758--96584783 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
96584748 TAATTATGAT
96584758 AATTTAA
1 AATTTAA
96584765 AATTTAA
1 AATTTAA
96584772 AATTTAA
1 AATTTAA
96584779 AATTT
1 AATTT
96584784 TAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTAA
Found at i:96587716 original size:14 final size:14
Alignment explanation
Indices: 96587699--96587728 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96587689 CTAATTTTAA
96587699 AAATATATTAAATT
1 AAATATATTAAATT
*
96587713 AAATATATTAGATT
1 AAATATATTAAATT
96587727 AA
1 AA
96587729 GAAATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
AAATATATTAAATT
Found at i:96595377 original size:17 final size:18
Alignment explanation
Indices: 96595357--96595393 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
96595347 TTTATCATGC
*
96595357 TAATTAT-TTTTTTATAG
1 TAATTATATTTTTTAAAG
96595374 TAATTATATTTTTTAAAG
1 TAATTATATTTTTTAAAG
96595392 TA
1 TA
96595394 TAAACTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TAATTATATTTTTTAAAG
Found at i:96607023 original size:30 final size:29
Alignment explanation
Indices: 96606981--96607052 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
96606971 ATAATTCACC
* * *
96606981 ATAAAAAGGTTTTCTCATTATATATTTAAT
1 ATAAAAATGTTTTCTCATAAT-TAATTAAT
* *
96607011 ATAAACATGTTTTTTTCATAATTAATTAAT
1 ATAAAAATG-TTTTCTCATAATTAATTAAT
96607041 ATAAAAATGTTT
1 ATAAAAATGTTT
96607053 CAATAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
29 3 0.09
30 22 0.63
31 10 0.29
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (29 bp):
ATAAAAATGTTTTCTCATAATTAATTAAT
Found at i:96621217 original size:25 final size:24
Alignment explanation
Indices: 96621188--96621236 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
96621178 AAATAAAAAA
*
96621188 ATTT-AAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
96621213 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
96621237 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 7 0.32
26 8 0.36
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:96625193 original size:70 final size:70
Alignment explanation
Indices: 96625104--96625252 Score: 298
Period size: 70 Copynumber: 2.1 Consensus size: 70
96625094 GTGCTGCGAT
96625104 TTTTTTTTTAAATGTATACAAATATTATTTAGCAAATCAGTTTATTTTTAATTATTTAAAAAAAT
1 TTTTTTTTTAAATGTATACAAATATTATTTAGCAAATCAGTTTATTTTTAATTATTTAAAAAAAT
96625169 AAATC
66 AAATC
96625174 TTTTTTTTTAAATGTATACAAATATTATTTAGCAAATCAGTTTATTTTTAATTATTTAAAAAAAT
1 TTTTTTTTTAAATGTATACAAATATTATTTAGCAAATCAGTTTATTTTTAATTATTTAAAAAAAT
96625239 AAATC
66 AAATC
96625244 TTTTTTTTT
1 TTTTTTTTT
96625253 TACAAAAAGA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 79 1.00
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (70 bp):
TTTTTTTTTAAATGTATACAAATATTATTTAGCAAATCAGTTTATTTTTAATTATTTAAAAAAAT
AAATC
Found at i:96625601 original size:14 final size:15
Alignment explanation
Indices: 96625584--96625612 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
96625574 ATATTTTTTT
96625584 ATAAATAAA-CTATA
1 ATAAATAAAGCTATA
96625598 ATAAATAAAGCTATA
1 ATAAATAAAGCTATA
96625613 TTTTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (15 bp):
ATAAATAAAGCTATA
Found at i:96629321 original size:41 final size:39
Alignment explanation
Indices: 96629237--96629321 Score: 91
Period size: 39 Copynumber: 2.1 Consensus size: 39
96629227 AAAATAATTT
* * * *
96629237 ATTATGATTTATGGAATATATAAACTCAAATTCGTGAAT
1 ATTATGATATATGGAATATATAAACTCAAATTAGTAAAA
*
96629276 ATTATGATATATGGGATATATAAACAT-AAATTATAGTAAAA
1 ATTATGATATATGGAATATATAAAC-TCAAA-T-TAGTAAAA
96629317 ATTAT
1 ATTAT
96629322 AATTGATTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
39 26 0.68
40 2 0.05
41 10 0.26
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.38
Consensus pattern (39 bp):
ATTATGATATATGGAATATATAAACTCAAATTAGTAAAA
Found at i:96634548 original size:22 final size:22
Alignment explanation
Indices: 96634523--96634566 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
96634513 TTATATTTGT
*
96634523 GTATAAATA-TATTTATATATAA
1 GTAT-AATAGTATGTATATATAA
*
96634545 GTATATTAGTATGTATATATAA
1 GTATAATAGTATGTATATATAA
96634567 AAATATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
GTATAATAGTATGTATATATAA
Found at i:96635143 original size:7 final size:7
Alignment explanation
Indices: 96635133--96635159 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
96635123 TAATTTAACA
96635133 AATAAAT
1 AATAAAT
96635140 AATAAAT
1 AATAAAT
96635147 AATAAAT
1 AATAAAT
96635154 AATAAA
1 AATAAA
96635160 ATACTTAAAT
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:96642972 original size:17 final size:16
Alignment explanation
Indices: 96642934--96642991 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
96642924 AATAAATTAT
96642934 CTTTTTATTTTTTTTA
1 CTTTTTATTTTTTTTA
96642950 CCTTTTTGATTTTTTCTTA
1 -CTTTTT-ATTTTTT-TTA
*
96642969 --TTTTATTTTGTTTA
1 CTTTTTATTTTTTTTA
*
96642983 TTTTTTATT
1 CTTTTTATT
96642992 ATTAACTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 3 0.08
15 6 0.17
16 11 0.31
17 6 0.17
18 7 0.19
19 3 0.08
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (16 bp):
CTTTTTATTTTTTTTA
Found at i:96643042 original size:21 final size:22
Alignment explanation
Indices: 96643003--96643049 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
96642993 TTAACTTTAA
96643003 AAAATTTGTAATGTATATTTTT
1 AAAATTTGTAATGTATATTTTT
96643025 AAAATTT-TAAT-TATTATTTTT
1 AAAATTTGTAATGTA-TATTTTT
96643046 AAAA
1 AAAA
96643050 ATATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AAAATTTGTAATGTATATTTTT
Found at i:96643150 original size:37 final size:35
Alignment explanation
Indices: 96643020--96643155 Score: 122
Period size: 37 Copynumber: 3.9 Consensus size: 35
96643010 GTAATGTATA
*
96643020 TTTTTAAAATTTTAATTATTATTTTTAAA--AATAT
1 TTTTTAAAATTTTAAATATTATTTTTAAATTAAT-T
* *
96643054 TTTTT--AA-TTTAGATATATATTTGTGAAATTAA-T
1 TTTTTAAAATTTTAAATAT-TATTT-TTAAATTAATT
* *
96643087 TTTTTATATATTTTAAAAATGTATTTTTCAAATTAATT
1 TTTTTA-AAATTTTAAATAT-TATTTTT-AAATTAATT
96643125 TTTTTAAAATTTTAAATATTAATTTTTAAAT
1 TTTTTAAAATTTTAAATATT-ATTTTTAAAT
96643156 ATTAATCATA
Statistics
Matches: 81, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
31 7 0.09
32 7 0.09
33 10 0.12
34 5 0.06
35 2 0.02
36 7 0.09
37 36 0.44
38 7 0.09
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (35 bp):
TTTTTAAAATTTTAAATATTATTTTTAAATTAATT
Found at i:96643153 original size:14 final size:14
Alignment explanation
Indices: 96643134--96643161 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
96643124 TTTTTTAAAA
96643134 TTTTAAATATTAAT
1 TTTTAAATATTAAT
96643148 TTTTAAATATTAAT
1 TTTTAAATATTAAT
96643162 CATATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:96643418 original size:18 final size:18
Alignment explanation
Indices: 96643397--96643444 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
96643387 CTTTTTTAAG
*
96643397 TTTTATATTATTTCCTTA
1 TTTTATATTATTTACTTA
* * *
96643415 TTTTATTTTGTTTATTTA
1 TTTTATATTATTTACTTA
*
96643433 ATTTATATTATT
1 TTTTATATTATT
96643445 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTATATTATTTACTTA
Found at i:96643418 original size:36 final size:36
Alignment explanation
Indices: 96643360--96643444 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
96643350 TTTTTTATTA
*
96643360 AATTTTATCTT-TTTCTTAATTTT-TTTTCTTTTTT
1 AATTTTATATTATTTCTTAATTTTATTTTCTTTTTT
*
96643394 AAGTTTTATATTATTTCCTT-ATTTTATTTTGTTTATTT
1 AA-TTTTATATTATTT-CTTAATTTTATTTTCTTT-TTT
96643432 AA-TTTATATTATT
1 AATTTTATATTATT
96643445 AATTTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
34 2 0.05
35 8 0.18
36 19 0.43
37 10 0.23
38 5 0.11
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (36 bp):
AATTTTATATTATTTCTTAATTTTATTTTCTTTTTT
Found at i:96643916 original size:38 final size:38
Alignment explanation
Indices: 96643874--96643962 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 38
96643864 TTTCTAGTTA
96643874 TTTATATATTAACTAGTAAATAATCAAATATATTCACT
1 TTTATATATTAACTAGTAAATAATCAAATATATTCACT
***
96643912 TTTATTATTATTGTTTTAGTAAATAATCAAATATATTCACT
1 TTTA-TA-TATT-AACTAGTAAATAATCAAATATATTCACT
96643953 TTTAT-TATTA
1 TTTATATATTA
96643963 TTGTTTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
38 8 0.18
39 2 0.05
40 5 0.11
41 29 0.66
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (38 bp):
TTTATATATTAACTAGTAAATAATCAAATATATTCACT
Found at i:96643932 original size:41 final size:41
Alignment explanation
Indices: 96643887--96643970 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
96643877 ATATATTAAC
96643887 TAGTAAATAATCAAATATATTCACTTTTATTATTATTGTTT
1 TAGTAAATAATCAAATATATTCACTTTTATTATTATTGTTT
96643928 TAGTAAATAATCAAATATATTCACTTTTATTATTATTGTTT
1 TAGTAAATAATCAAATATATTCACTTTTATTATTATTGTTT
96643969 TA
1 TA
96643971 ATAATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (41 bp):
TAGTAAATAATCAAATATATTCACTTTTATTATTATTGTTT
Found at i:96644755 original size:6 final size:6
Alignment explanation
Indices: 96644722--96644804 Score: 114
Period size: 6 Copynumber: 13.7 Consensus size: 6
96644712 AGAAAAAAAA
* *
96644722 TTATATT TTATAT ATATTT TTAATAT TTATAT TTATAT TTATAT TTATAT
1 TTATA-T TTATAT TTATAT TT-ATAT TTATAT TTATAT TTATAT TTATAT
*
96644772 TTATAT TTATAT TTATAT TTTTAT TTA-AT TTAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTAT
96644805 TAATAGTCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
5 5 0.07
6 53 0.78
7 10 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTATAT
Found at i:96644932 original size:21 final size:20
Alignment explanation
Indices: 96644904--96644967 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
96644894 GTTAAAAAAG
96644904 AATTTAAAAATAATATTTA-A
1 AATTTAAAAA-AATATTTATA
96644924 AATTGTAAAAAAATATATTATA
1 AATT-TAAAAAAATAT-TTATA
* *
96644946 AAATTAAAAAAATATTTTTA
1 AATTTAAAAAAATATTTATA
96644966 AA
1 AA
96644968 AATAATAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 15 0.38
21 20 0.51
22 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AATTTAAAAAAATATTTATA
Found at i:96644990 original size:22 final size:21
Alignment explanation
Indices: 96644961--96645006 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
96644951 AAAAAAATAT
96644961 TTTTAAAAATAATA-ATTAAAA
1 TTTTAAAAAT-ATACATTAAAA
*
96644982 TTTTAAAAATATACATTACAA
1 TTTTAAAAATATACATTAAAA
96645003 TTTT
1 TTTT
96645007 TTTAAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTAAAAATATACATTAAAA
Found at i:96645040 original size:16 final size:15
Alignment explanation
Indices: 96645019--96645076 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
96645009 TAAAGTTAAT
96645019 AATAAAAAATAAACAA
1 AATAAAAAATAAA-AA
*
96645035 AATAAAATAAGAAAAA
1 AATAAAA-AATAAAAA
*
96645051 AATCAAAAAGGTAAAAAA
1 AAT-AAAAA-AT-AAAAA
96645069 AATAAAAA
1 AATAAAAA
96645077 GACAATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 13 0.37
17 14 0.40
18 8 0.23
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.12
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:96648025 original size:19 final size:20
Alignment explanation
Indices: 96648003--96648041 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
96647993 AATCGTGCTG
96648003 AAAATATATT-TTAATAATT
1 AAAATATATTATTAATAATT
*
96648022 AAAATATATTATTTATAATT
1 AAAATATATTATTAATAATT
96648042 GTAATTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATATATTATTAATAATT
Found at i:96650326 original size:16 final size:15
Alignment explanation
Indices: 96650305--96650355 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
96650295 TCGATGCCAA
96650305 TAAAAAAAAGTTTATG
1 TAAAAAAAA-TTTATG
96650321 TAAAAATAAATTTA--
1 TAAAAA-AAATTTATG
96650335 TAAAAAAAA-TTATG
1 TAAAAAAAATTTATG
*
96650349 TTAAAAA
1 TAAAAAA
96650356 CAGCTGTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 12 0.39
16 10 0.32
17 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
TAAAAAAAATTTATG
Found at i:96656567 original size:39 final size:39
Alignment explanation
Indices: 96656489--96656568 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
96656479 AAAAGAGTCA
*
96656489 TTAAACTATTTAAAAAAATTCATTTAAGTCACTATTCTG
1 TTAAACTATTTAAAAAAATTCATTTAAGTCACTACTCTG
*
96656528 TTAAACTATTTAAAAAAATTCATTTAAGTCACTCCTCTG
1 TTAAACTATTTAAAAAAATTCATTTAAGTCACTACTCTG
96656567 TT
1 TT
96656569 GTATGTCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (39 bp):
TTAAACTATTTAAAAAAATTCATTTAAGTCACTACTCTG
Found at i:96672569 original size:127 final size:125
Alignment explanation
Indices: 96672264--96672828 Score: 650
Period size: 127 Copynumber: 4.5 Consensus size: 125
96672254 CCCAAACGAT
* * * ** * * * *
96672264 AAATCGAAACCCAACACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCCTCATT
1 AAATTGAAACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATT
* * *** * *
96672329 TTAATTTGAGAAAACATGGATGAAATTTCAAAAGGATATTTTGTATTTTAGTCGAATGGA
66 TTATTTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGCCGAATGAA
*
96672389 AAATTGAAGCCCA-CACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATT
1 AAATTGAAACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATT
* * *
96672453 TTATTTTAAGAAAATATGGATGAAATTTCAAAAAAGGATATTTCATATTTTAGCCGAATGGA
66 TTATTTTAAGAAAACATGGATGAAATTTC--AAAAGGATATTCCATATTTTAGCCGAATGAA
* *
96672515 AAATTGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTT
1 AAATTGAAACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATT
* * * *
96672580 TTATTTTAAGAACACGTGGATGAAATTTCAAAAAAAGGATATTCCATATCTTAGTCGAATGAAA
66 TTATTTTAAGAAAACATGGATGAAATTTC---AAAAGGATATTCCATATTTTAGCCGAATG-AA
* * * *
96672644 AAAATGAAACCCAGCACGATTGGGCACGA-TCTCTCAAACTCCCCAAATACGAAATATTGCCTCA
1 AAATTGAAACCCAGCACGATTGGGCACGACT-TCCCAAACT-TCCAAACACGAAATATTGCCTCA
* * * * * *
96672708 TTTTAATTTTAAAAAAAACATGGACGAAATTTCCAAAGGATATTCCGTATTTTAGCTGAACGAA
64 TTTT-ATTTT-AAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGCCGAATGAA
* * * *
96672772 AAATCGAAACCCAGCACGATTGGGCACGAC-CCCTCGAACTCCCAAACACGAAATATT
1 AAATTGAAACCCAGCACGATTGGGCACGACTTCC-CAAACTTCCAAACACGAAATATT
96672829 TCCTTATGTC
Statistics
Matches: 384, Mismatches: 45, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
124 70 0.18
125 11 0.03
126 41 0.11
127 93 0.24
128 63 0.16
129 59 0.15
130 24 0.06
131 5 0.01
132 18 0.05
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (125 bp):
AAATTGAAACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATT
TTATTTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGCCGAATGAA
Found at i:96672787 original size:257 final size:250
Alignment explanation
Indices: 96672258--96672828 Score: 689
Period size: 257 Copynumber: 2.3 Consensus size: 250
96672248 ATTCGGCCCA
* * * ** * * *
96672258 AACGATAAATCGAAACCCAACACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGC
1 AACGAAAAATCGAAACCCAGCACGATTGGGCACGACTTCCCGAACTTCCAAACACGAAATATTGC
* *** * *
96672323 CTCATTTTAATTTGAGAAAACATGGATGAAATTTCAAAAGGATATTTTGTATTTTAGTCGAATGG
66 CTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATCTTAGTCGAATGA
* * *
96672388 AAAATTGAAGCCCACACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCATT
131 AAAAATGAAACCCACACGATTGGGCACGACTTCCCAAACTCCCAAACACGAAATATTGCCTCATT
* * * *
96672453 TTATTTTAAGAAAATATGGATGAAATTTCAAAAAAGGATATTTCATATTTTAGCCG
196 TTATTTTAAAAAAACATGGACGAAATTTC-AAAAAGGATATTCCATATTTTAGCCG
* * * * *
96672509 AATGGAAAATTGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGC
1 AACGAAAAATCGAAACCCAGCACGATTGGGCACGACTTCCCGAACTTCCAAACACGAAATATTGC
* * * *
96672574 CTCGTTTTATTTTAAGAACACGTGGATGAAATTTCAAAAAAAGGATATTCCATATCTTAGTCGAA
66 CTCATTTTAATTTAAGAAAACATGGATGAAATTTC---AAAAGGATATTCCATATCTTAGTCGAA
* *
96672639 TGAAAAAAATGAAACCCAGCACGATTGGGCACGA-TCTCTCAAACTCCCCAAATACGAAATATTG
128 TG-AAAAAATGAAACCCA-CACGATTGGGCACGACT-TCCCAAACT-CCCAAACACGAAATATTG
* * *
96672703 CCTCATTTTAATTTTAAAAAAAACATGGACGAAATTTC-CAAAGGATATTCCGTATTTTAGCTG
189 CCTCATTTT-ATTTT-AAAAAAACATGGACGAAATTTCAAAAAGGATATTCCATATTTTAGCCG
* *
96672766 AACGAAAAATCGAAACCCAGCACGATTGGGCACGAC-CCCTCGAACTCCCAAACACGAAATATT
1 AACGAAAAATCGAAACCCAGCACGATTGGGCACGACTTCC-CGAACTTCCAAACACGAAATATT
96672829 TCCTTATGTC
Statistics
Matches: 268, Mismatches: 42, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
251 82 0.31
254 25 0.09
255 13 0.05
256 25 0.09
257 99 0.37
258 5 0.02
259 19 0.07
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (250 bp):
AACGAAAAATCGAAACCCAGCACGATTGGGCACGACTTCCCGAACTTCCAAACACGAAATATTGC
CTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATCTTAGTCGAATGA
AAAAATGAAACCCACACGATTGGGCACGACTTCCCAAACTCCCAAACACGAAATATTGCCTCATT
TTATTTTAAAAAAACATGGACGAAATTTCAAAAAGGATATTCCATATTTTAGCCG
Found at i:96673714 original size:5 final size:5
Alignment explanation
Indices: 96673704--96673729 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
96673694 GTAAATTTTA
96673704 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
96673730 TTAACCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:96674292 original size:2 final size:2
Alignment explanation
Indices: 96674285--96674310 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
96674275 CCCTGGTAAG
96674285 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
96674311 GTGCTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:96677757 original size:22 final size:22
Alignment explanation
Indices: 96677728--96677795 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
96677718 TGCACAAACG
96677728 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
96677750 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
* *
96677772 AATAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
96677795 A
1 A
96677796 TAATAGTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:96678978 original size:7 final size:7
Alignment explanation
Indices: 96678968--96679066 Score: 57
Period size: 7 Copynumber: 14.3 Consensus size: 7
96678958 TTCTTATGTT
96678968 TTATATA
1 TTATATA
96678975 -T-TATA
1 TTATATA
96678980 TTATAT-
1 TTATATA
96678986 TATATAATA
1 T-TAT-ATA
96678995 TTATATA
1 TTATATA
*
96679002 TAATAATA
1 TTAT-ATA
*
96679010 TAATATA
1 TTATATA
96679017 TTATATA
1 TTATATA
96679024 TTA-ATA
1 TTATATA
*
96679030 CTTAAATA
1 -TTATATA
96679038 TTA-AGT-
1 TTATA-TA
*
96679044 TAATATA
1 TTATATA
*
96679051 ATATATA
1 TTATATA
*
96679058 ATATATA
1 TTATATA
96679065 TT
1 TT
96679067 TTTATATAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
5 4 0.05
6 10 0.13
7 45 0.60
8 15 0.20
9 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
TTATATA
Found at i:96678981 original size:5 final size:5
Alignment explanation
Indices: 96678971--96679022 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
96678961 TTATGTTTTA
* * *
96678971 TATAT TATAT TATAT TATAT AATAT TATAT ATAATAA TATAA TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT -T-ATAT TATAT TATAT TATAT
96679023 ATTAATACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 36 0.88
6 2 0.05
7 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (5 bp):
TATAT
Found at i:96678985 original size:12 final size:12
Alignment explanation
Indices: 96678968--96679063 Score: 63
Period size: 12 Copynumber: 7.7 Consensus size: 12
96678958 TTCTTATGTT
96678968 TTATATATTATA
1 TTATATATTATA
96678980 TTATATTATATAATA
1 TTATA-TAT-T-ATA
96678995 TTATATA-TA-A
1 TTATATATTATA
* *
96679005 TAATATAATATA
1 TTATATATTATA
96679017 TTATATATTAATA
1 TTATATATT-ATA
*
96679030 CTTAAATATTA-A
1 -TTATATATTATA
*
96679042 GTTAATATAATATA
1 -TT-ATATATTATA
*
96679056 TAATATAT
1 TTATATAT
96679064 ATTTTTATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
10 7 0.11
11 3 0.05
12 22 0.33
13 14 0.21
14 12 0.18
15 8 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
TTATATATTATA
Found at i:96679028 original size:15 final size:15
Alignment explanation
Indices: 96678968--96679029 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 15
96678958 TTCTTATGTT
96678968 TTATATATTATATTATA
1 TTATATATTA-A-TATA
* *
96678985 TTATATAATATTATA
1 TTATATATTAATATA
96679000 -TATAATAATATAATATA
1 TTAT-AT-AT-TAATATA
96679017 TTATATATTAATA
1 TTATATATTAATA
96679030 CTTAAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 3 0.08
15 11 0.30
16 3 0.08
17 17 0.46
18 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATATATTAATATA
Found at i:96684122 original size:30 final size:31
Alignment explanation
Indices: 96684060--96684123 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 31
96684050 TACACTTATT
96684060 TTCACCTATGCCGAATGCATTCACATAAATATA
1 TTCACCTATGCCGAATGCA-T-ACATAAATATA
*
96684093 TTCACCTATGCCGAATGCA-ACATATATATA
1 TTCACCTATGCCGAATGCATACATAAATATA
96684123 T
1 T
96684124 ATATATATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 11 0.37
33 19 0.63
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (31 bp):
TTCACCTATGCCGAATGCATACATAAATATA
Found at i:96684542 original size:41 final size:41
Alignment explanation
Indices: 96684346--96684533 Score: 281
Period size: 41 Copynumber: 4.6 Consensus size: 41
96684336 ACCGGCTCTT
*
96684346 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
96684387 AGCCTGCTAGACTTATAGTCTAAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
96684428 AGCCTGCTAGGCTTATAGCCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
96684469 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* *
96684510 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACTTATAGTCTGAA
96684534 TTATTTCACT
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 128 0.95
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:96695270 original size:23 final size:23
Alignment explanation
Indices: 96695188--96695274 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 23
96695178 CCTGATCAGT
96695188 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** * *
96695210 A-ACGACACACGAGGTGCTTG--
1 ATACGACACATAAAGTGCCTGAA
*
96695230 ATACGACACACT-AGGTGCCTGAA
1 ATACGACACA-TAAAGTGCCTGAA
96695253 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
96695275 TCGATAAAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 30 0.58
22 2 0.04
23 19 0.37
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:96695673 original size:15 final size:15
Alignment explanation
Indices: 96695647--96695703 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
96695637 CATATATATT
96695647 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
96695661 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
96695676 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
96695691 ATATAAATTCAAT
1 ATATAATTTCAAT
96695704 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:96696811 original size:5 final size:5
Alignment explanation
Indices: 96696801--96696856 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
96696791 TTACTTATTT
* *
96696801 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
96696849 ATATA ATA
1 ATATA ATA
96696857 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:96696817 original size:12 final size:12
Alignment explanation
Indices: 96696800--96696853 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
96696790 TTTACTTATT
96696800 TATATAATATAA
1 TATATAATATAA
96696812 TATATAATATAATA
1 TATATAATAT-A-A
96696826 TACTATAATATAA
1 TA-TATAATATAA
*
96696839 TA-ATAATATCA
1 TATATAATATAA
96696850 TATA
1 TATA
96696854 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:96696988 original size:21 final size:22
Alignment explanation
Indices: 96696949--96697001 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
96696939 CATACAATTG
*
96696949 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
96696971 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
96696991 ATAAAATAATA
1 TTAAAATAATA
96697002 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:96700185 original size:7 final size:7
Alignment explanation
Indices: 96700175--96700268 Score: 61
Period size: 7 Copynumber: 13.3 Consensus size: 7
96700165 TTCTTATGTT
96700175 TTATATA
1 TTATATA
96700182 TTATAT-
1 TTATATA
96700188 TATATTATA
1 T-TA-TATA
96700197 TTATATA
1 TTATATA
*
96700204 TAATAATA
1 TTAT-ATA
*
96700212 TAATATA
1 TTATATA
96700219 TTATATA
1 TTATATA
96700226 TTA-ATA
1 TTATATA
*
96700232 CTTAAATA
1 -TTATATA
96700240 TTA-AGT-
1 TTATA-TA
*
96700246 TAATATA
1 TTATATA
*
96700253 ATATATA
1 TTATATA
*
96700260 ATATATA
1 TTATATA
96700267 TT
1 TT
96700269 TTTATATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
6 8 0.11
7 48 0.67
8 15 0.21
9 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (7 bp):
TTATATA
Found at i:96700188 original size:5 final size:5
Alignment explanation
Indices: 96700178--96700224 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
96700168 TTATGTTTTA
* *
96700178 TATAT TATAT TATAT TATAT TATAT ATAATAA TATAA TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT -T-ATAT TATAT TATAT TATAT
96700225 ATTAATACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 33 0.87
6 2 0.05
7 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:96700200 original size:22 final size:22
Alignment explanation
Indices: 96700175--96700228 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
96700165 TTCTTATGTT
* *
96700175 TTATATATTATATTATATTATA
1 TTATATATTATAATATAATATA
*
96700197 TTATATATAATAATATAATATA
1 TTATATATTATAATATAATATA
96700219 TTATATATTA
1 TTATATATTA
96700229 ATACTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATATATTATAATATAATATA
Found at i:96701002 original size:41 final size:41
Alignment explanation
Indices: 96700956--96701038 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
96700946 AAATGTAAGA
96700956 ATAATGGTTCATGATGTTTATGTGATAATGAATAAATTGTG
1 ATAATGGTTCATGATGTTTATGTGATAATGAATAAATTGTG
96700997 ATAATGGTTCATGATGTTTATGTGATAATGAATAAATTGTG
1 ATAATGGTTCATGATGTTTATGTGATAATGAATAAATTGTG
96701038 A
1 A
96701039 ATAAGAATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (41 bp):
ATAATGGTTCATGATGTTTATGTGATAATGAATAAATTGTG
Found at i:96708208 original size:52 final size:52
Alignment explanation
Indices: 96708129--96708299 Score: 279
Period size: 52 Copynumber: 3.2 Consensus size: 52
96708119 TACTTCTGAT
*
96708129 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
96708182 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
96708234 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
96708286 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
96708300 GCTACACTTA
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
52 94 0.85
53 17 0.15
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:96708309 original size:37 final size:37
Alignment explanation
Indices: 96708262--96708371 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
96708252 TGATAGCTTC
*
96708262 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
96708299 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
96708336 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
96708371 G
1 G
96708372 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:96718755 original size:13 final size:13
Alignment explanation
Indices: 96718739--96718780 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
96718729 AACGTTTTTT
*
96718739 TATTTATTTACAA
1 TATTTATTTAAAA
96718752 TATTTAAATTTAAAA
1 TATTT--ATTTAAAA
96718767 T-TTTATTTAAAA
1 TATTTATTTAAAA
96718779 TA
1 TA
96718781 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 9 0.36
13 5 0.20
14 3 0.12
15 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTTATTTAAAA
Done.