Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 348 of 356
Found at i:111455627 original size:22 final size:22
Alignment explanation
Indices: 111455602--111455664 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
111455592 AAATATCTTT
111455602 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACTCCAACC
*
111455624 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAACC
*
111455646 ACCCCACTAAACCACTCCA
1 ACTCCACTAAACCACTCCA
111455665 CTGAACCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.37, C:0.52, G:0.00, T:0.11
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAACC
Found at i:111455660 original size:35 final size:35
Alignment explanation
Indices: 111455620--111455688 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
111455610 AAACCACTCC
111455620 AACCACTCCACTAAACCACCCCAACCACCCCACTA
1 AACCACTCCACTAAACCACCCCAACCACCCCACTA
* *
111455655 AACCACTCCACTGAACCACCCCAACCACTCCACT
1 AACCACTCCACTAAACCACCCCAACCACCCCACT
111455689 TGCCTACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.54, G:0.01, T:0.10
Consensus pattern (35 bp):
AACCACTCCACTAAACCACCCCAACCACCCCACTA
Found at i:111456087 original size:3 final size:3
Alignment explanation
Indices: 111456055--111456103 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
111456045 GGAGAGAGTG
* * * *
111456055 TTA TTT TTA ATA TTG TTA TTA TTT TCTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
111456101 TTA
1 TTA
111456104 CTAATACCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:111456092 original size:19 final size:18
Alignment explanation
Indices: 111456055--111456096 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
111456045 GGAGAGAGTG
*
111456055 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
111456073 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
111456092 TTATT
1 TTATT
111456097 ATTATTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:111456198 original size:23 final size:23
Alignment explanation
Indices: 111456128--111456199 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
111456118 ATCATCATTA
*
111456128 TTACTATTA-TATTATAATACCTTT
1 TTACTATTATTATTATTATA--TTT
* * * * *
111456152 TCATTATTATTACTATTGTGTTT
1 TTACTATTATTATTATTATATTT
111456175 TTACTATTATTATTATTATATTT
1 TTACTATTATTATTATTATATTT
111456198 TT
1 TT
111456200 TTTGTATTTA
Statistics
Matches: 36, Mismatches: 11, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
23 23 0.64
24 7 0.19
25 6 0.17
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (23 bp):
TTACTATTATTATTATTATATTT
Found at i:111462355 original size:206 final size:206
Alignment explanation
Indices: 111461997--111462959 Score: 1675
Period size: 206 Copynumber: 4.7 Consensus size: 206
111461987 GATCTAGCTA
*
111461997 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
111462061 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATATCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
111462126 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGAT-CGATAGCAGATCTGGCCTTCAG
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATAC-ATAGCAGATCTGGCCTTCAG
111462190 ATGTTTATACTG
195 ATGTTTATACTG
111462202 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
** *
111462267 TTGGCTTTCATGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTTTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
111462332 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
111462397 TGTTTATACTG
196 TGTTTATACTG
*
111462408 AAGCAAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* * *
111462473 TTGGCTTTCGCGTGCTTATGCTAAAGTAAGTCTAAGATGATTTGGCATCTTTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
111462538 ACAAGTCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
111462603 TGTTTATACTG
196 TGTTTATACTG
* *
111462614 AAGCAAGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAGTAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
*
111462679 TTGGCTTTCGCGTGCTTACACTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* *
111462744 TCAAGTCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
111462809 TGTTTATACTG
196 TGTTTATACTG
111462820 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* * * * *
111462885 TTGGCTTTCACGTGCTTA-G-TGGAAG-TAGATCTAAGATGATTTGGCATCTCTGTATTTTCAGG
66 TTGGCTTTCGCGTGCTTACGCT-AAAGCAAG-TCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
111462947 GAACAAATCGAAG
129 GAACAAGTCGAAG
111462960 AAGCAGATTT
Statistics
Matches: 723, Mismatches: 31, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
204 3 0.00
205 49 0.07
206 670 0.93
207 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (206 bp):
AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACTG
Found at i:111463117 original size:45 final size:45
Alignment explanation
Indices: 111463053--111463144 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 45
111463043 GAAGAAGCAA
111463053 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAA-ATAACAG
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-AAAGATAACAG
* * *
111463098 ATTTGGCGTCTTTGTATTAGACGGGGAGTAGATCAAAGATAGCAG
1 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
111463143 AT
1 AT
111463145 ATCGCCTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 3 0.07
45 40 0.93
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.27
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAG
Found at i:111463419 original size:14 final size:15
Alignment explanation
Indices: 111463391--111463419 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
111463381 CAATCACCTA
111463391 AACCCTAATTGTGAC
1 AACCCTAATTGTGAC
111463406 AACCCTAA-TGTGAC
1 AACCCTAATTGTGAC
111463420 CCTAGTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (15 bp):
AACCCTAATTGTGAC
Found at i:111465167 original size:27 final size:27
Alignment explanation
Indices: 111465134--111465312 Score: 250
Period size: 27 Copynumber: 6.6 Consensus size: 27
111465124 TAAATTGTGC
111465134 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
111465161 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
111465189 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
111465216 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
111465243 AGCACTAAGTATGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
111465271 AGTACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
111465298 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
111465313 GACTTAATAT
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
27 89 0.64
28 49 0.36
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:111465198 original size:55 final size:54
Alignment explanation
Indices: 111465134--111465312 Score: 277
Period size: 55 Copynumber: 3.3 Consensus size: 54
111465124 TAAATTGTGC
111465134 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
111465189 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * * * *
111465243 AGCACTAAGTATGCGAGTTTGATTATGTAGTACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
111465298 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
111465313 GACTTAATAT
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 25 0.22
55 90 0.78
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:111465271 original size:82 final size:82
Alignment explanation
Indices: 111465134--111465312 Score: 286
Period size: 82 Copynumber: 2.2 Consensus size: 82
111465124 TAAATTGTGC
*
111465134 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTATGCGAGTTTGACTATGTAGCACTAAGT
*
111465199 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATAT
* * *
111465216 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTATGCGAGTTTGATTATGTAGTACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTATGCGAGTTTGACTATGTAGCACTAAGT
* *
111465281 GTGCGAGTTGATTATAT
66 GTGCGAATTGACTATAT
*
111465298 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
111465313 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 89 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTATGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAATTGACTATAT
Found at i:111473241 original size:27 final size:27
Alignment explanation
Indices: 111473208--111473386 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
111473198 TAAATTGTGC
111473208 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
111473235 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
*
111473263 AGCACTAAGTGTGCTAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
111473290 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
111473317 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
111473345 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
111473372 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
111473387 GACTTAATAT
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 90 0.64
28 50 0.36
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:111473272 original size:55 final size:54
Alignment explanation
Indices: 111473208--111473386 Score: 286
Period size: 55 Copynumber: 3.3 Consensus size: 54
111473198 TAAATTGTGC
111473208 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
*
111473263 AGCACTAAGTGTGCTAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * *
111473317 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
111473372 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
111473387 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
54 25 0.22
55 91 0.78
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:111473345 original size:82 final size:82
Alignment explanation
Indices: 111473208--111473386 Score: 295
Period size: 82 Copynumber: 2.2 Consensus size: 82
111473198 TAAATTGTGC
111473208 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
* *
111473273 GTGCTAATTGACTATGT
66 GTGCGAATTGACTATAT
* *
111473290 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
* *
111473355 GTGCGAGTTGATTATAT
66 GTGCGAATTGACTATAT
*
111473372 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
111473387 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 90 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAATTGACTATAT
Found at i:111474814 original size:13 final size:13
Alignment explanation
Indices: 111474796--111474873 Score: 91
Period size: 13 Copynumber: 6.6 Consensus size: 13
111474786 AAATATCTTT
111474796 ACTCCACTAAACC
1 ACTCCACTAAACC
111474809 ACT-C-C--AACC
1 ACTCCACTAAACC
111474818 ACTCCACTAAACC
1 ACTCCACTAAACC
*
111474831 ACCCCACTAAACC
1 ACTCCACTAAACC
111474844 ACTCCACTAAACC
1 ACTCCACTAAACC
111474857 AC-CC-C--AACC
1 ACTCCACTAAACC
111474866 ACTCCACT
1 ACTCCACT
111474874 TGCCTACAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
9 13 0.23
10 3 0.05
11 4 0.07
12 3 0.05
13 33 0.59
ACGTcount: A:0.36, C:0.51, G:0.00, T:0.13
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:111474821 original size:22 final size:22
Alignment explanation
Indices: 111474796--111474873 Score: 111
Period size: 22 Copynumber: 3.4 Consensus size: 22
111474786 AAATATCTTT
*
111474796 ACTCCACTAAACCACTCCAACC
1 ACTCCACTAAACCACCCCAACC
111474818 ACTCCACTAAACCACCCCACTAAACC
1 ACTCCACTAAACCA-CCC-C--AACC
111474844 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACCCCAACC
111474866 ACTCCACT
1 ACTCCACT
111474874 TGCCTACAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
22 26 0.51
23 2 0.04
24 2 0.04
25 3 0.06
26 18 0.35
ACGTcount: A:0.36, C:0.51, G:0.00, T:0.13
Consensus pattern (22 bp):
ACTCCACTAAACCACCCCAACC
Found at i:111475278 original size:19 final size:18
Alignment explanation
Indices: 111475241--111475282 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
111475231 GGAGAGAGTG
*
111475241 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
111475259 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
111475278 TTATT
1 TTATT
111475283 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:111475341 original size:33 final size:39
Alignment explanation
Indices: 111475267--111475348 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 39
111475257 TATTATTTTC
*
111475267 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
*
111475306 TATTACTATTA-TATTA-TAATA-C-CT-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
111475339 TATTACTATT
1 TATTACTATT
111475349 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 2 0.05
36 1 0.02
37 5 0.12
38 5 0.12
39 10 0.24
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (39 bp):
TATTACTATTATTATTACTAATACCACTATTATCATCAT
Found at i:111475378 original size:23 final size:23
Alignment explanation
Indices: 111475294--111475378 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
111475284 CTAATACCAC
* *
111475294 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
111475317 TATTATAATACCTTTTCATTATTAT
1 TATTATTATA--TTTTTACTATTAT
* * *
111475342 TACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
111475365 TATTATTATATTTT
1 TATTATTATATTTT
111475379 CTTTTTTTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
22 1 0.02
23 30 0.65
24 9 0.20
25 6 0.13
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:111476001 original size:61 final size:61
Alignment explanation
Indices: 111475926--111476046 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
111475916 CCTCGAAGTA
*
111475926 AGAATTTGTTTTAAAATAAAGGCAATTTTTGGTATTAGGAAATTTGAGAAAACGTGCCCTC
1 AGAATTTGTTTTAAAATAAAGGCAATTTTTGGTATTAGGAAATTCGAGAAAACGTGCCCTC
*
111475987 AGAATTTGTTTTAAAATAAAGGCAATTTTTGGTATTAGGAAATTCGAGAAAATGTGCCCT
1 AGAATTTGTTTTAAAATAAAGGCAATTTTTGGTATTAGGAAATTCGAGAAAACGTGCCCT
111476047 AACTTACTGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (61 bp):
AGAATTTGTTTTAAAATAAAGGCAATTTTTGGTATTAGGAAATTCGAGAAAACGTGCCCTC
Found at i:111477245 original size:23 final size:23
Alignment explanation
Indices: 111477219--111477287 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
111477209 TTTACCATGC
111477219 ATTAACATGTAAAGTTATAACTT
1 ATTAACATGTAAAGTTATAACTT
* * * * *
111477242 ATTAATATG-CAA-TTTTACCATGC
1 ATTAACATGTAAAGTTATAAC-T-T
111477265 ATTAACATGTAAAGTTATAACTT
1 ATTAACATGTAAAGTTATAACTT
111477288 TCAAAGAGAC
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
21 5 0.16
22 3 0.09
23 16 0.50
24 3 0.09
25 5 0.16
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.39
Consensus pattern (23 bp):
ATTAACATGTAAAGTTATAACTT
Found at i:111477264 original size:46 final size:46
Alignment explanation
Indices: 111477197--111477287 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
111477187 ATTTTGGAGG
111477197 TTAATATGCAATTTTACCATGCATTAACATGTAAAGTTATAACTTA
1 TTAATATGCAATTTTACCATGCATTAACATGTAAAGTTATAACTTA
111477243 TTAATATGCAATTTTACCATGCATTAACATGTAAAGTTATAACTT
1 TTAATATGCAATTTTACCATGCATTAACATGTAAAGTTATAACTT
111477288 TCAAAGAGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (46 bp):
TTAATATGCAATTTTACCATGCATTAACATGTAAAGTTATAACTTA
Found at i:111480856 original size:16 final size:16
Alignment explanation
Indices: 111480831--111480862 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
111480821 CAAGCTATAA
111480831 TTTCTCTTTTCTTTTT
1 TTTCTCTTTTCTTTTT
*
111480847 TTTCTTTTTTCTTTTT
1 TTTCTCTTTTCTTTTT
111480863 GTTGTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCTCTTTTCTTTTT
Found at i:111481335 original size:21 final size:21
Alignment explanation
Indices: 111481286--111481335 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
111481276 AATAAGCCCT
* *
111481286 TAAATTAAAAAAATAATTGTT
1 TAAATTAAAAAAATAAATGTA
*
111481307 TAATTTAAAAAAATAAAAT-TA
1 TAAATTAAAAAAAT-AAATGTA
111481328 TAAATTAA
1 TAAATTAA
111481336 TATATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAATTAAAAAAATAAATGTA
Found at i:111481770 original size:3 final size:3
Alignment explanation
Indices: 111481764--111481792 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
111481754 ACCATCATCA
111481764 TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
111481793 ATCATCATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.31, T:0.34
Consensus pattern (3 bp):
TCG
Found at i:111485145 original size:21 final size:23
Alignment explanation
Indices: 111485098--111485148 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
111485088 CATTCAAGAT
**
111485098 AAAATAATATATAAAACTCCTTA
1 AAAATAATATATAAAACTAATTA
*
111485121 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
111485142 AAAATAA
1 AAAATAA
111485149 ATAATGTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 4 0.16
23 12 0.48
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:111485202 original size:52 final size:49
Alignment explanation
Indices: 111485124--111485222 Score: 121
Period size: 52 Copynumber: 2.0 Consensus size: 49
111485114 CTCCTTAAAA
*
111485124 ATAATATATAAACAATTCAAAATAAATAATGTGTGAAAAAAGTTTGAAATAC
1 ATAATATATAAACAATTCAAAATAAATAATGTAT--AAAAA-TTTGAAATAC
*
111485176 ATAATATATGAAA-ATATT-AAAGTAAATAATGTATAAAAATTTGAAAT
1 ATAATATAT-AAACA-ATTCAAAATAAATAATGTATAAAAATTTGAAAT
111485223 GAGCATTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
49 8 0.19
50 5 0.12
52 24 0.56
53 6 0.14
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (49 bp):
ATAATATATAAACAATTCAAAATAAATAATGTATAAAAATTTGAAATAC
Found at i:111485276 original size:4 final size:4
Alignment explanation
Indices: 111485267--111485295 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
111485257 AAAAAATGTA
111485267 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
111485296 GAATGTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:111485392 original size:15 final size:15
Alignment explanation
Indices: 111485368--111485413 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
111485358 ATATAAATAG
*
111485368 AAATAAAAATATAAT
1 AAATAGAAATATAAT
111485383 AAATAGAAATATAAT
1 AAATAGAAATATAAT
111485398 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
111485414 ATAGGTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:111485401 original size:23 final size:25
Alignment explanation
Indices: 111485343--111485404 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 25
111485333 AAATAGTAAT
*
111485343 GAAA-ATAATATTAGTATATAAATA
1 GAAATATAATAATAGTATATAAATA
111485367 GAAATA-AA-AATA-TA-ATAAATA
1 GAAATATAATAATAGTATATAAATA
111485388 GAAATATAATAATAGTA
1 GAAATATAATAATAGTA
111485405 GAAATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 13 0.39
22 4 0.12
23 7 0.21
24 8 0.24
25 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
GAAATATAATAATAGTATATAAATA
Found at i:111485439 original size:15 final size:14
Alignment explanation
Indices: 111485360--111485446 Score: 52
Period size: 15 Copynumber: 6.0 Consensus size: 14
111485350 ATATTAGTAT
*
111485360 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
111485373 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
111485389 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
111485403 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
*
111485418 GTAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
111485433 ATAAATAATAATAG
1 ATAAATAAAAATAG
111485447 TATTAGAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
13 3 0.05
14 19 0.33
15 33 0.57
16 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:111486012 original size:5 final size:5
Alignment explanation
Indices: 111486004--111486031 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
111485994 ATAATTTAAT
111486004 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
111486032 CATATCTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:111486422 original size:26 final size:26
Alignment explanation
Indices: 111486385--111486468 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
111486375 TGATACAAAT
* *
111486385 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111486411 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111486437 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
111486463 TGATAA
1 TGATAA
111486469 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:111488189 original size:27 final size:26
Alignment explanation
Indices: 111488085--111488199 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 26
111488075 TGGAGGAAGC
* * *
111488085 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGTCAC-ATTATCT
**
111488112 AATCTGGTGGCTCT-TCCACATATATCT
1 GTTCTGGTGGCTCTGT-CACAT-TATCT
* *
111488139 GTTCTGGTGGCACTGCCACGATTATCT
1 GTTCTGGTGGCTCTGTCAC-ATTATCT
*
111488166 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGTCACATTATCT
111488193 GTTCTGG
1 GTTCTGG
111488200 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGTCACATTATCT
Found at i:111488192 original size:54 final size:54
Alignment explanation
Indices: 111488085--111488199 Score: 146
Period size: 54 Copynumber: 2.1 Consensus size: 54
111488075 TGGAGGAAGC
*
111488085 GTTCTGGTGGCTATGCCACAAATATCTAATCTGGTGGCTCTTCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTAATCTGGTGACTCTTCCACATATATCT
* * *
111488139 GTTCTGGTGGC-ACTGCCACGATTATCTGTATCTGGTGACTCTGT-CACAT-TATCT
1 GTTCTGGTGGCTA-TGCCACAAATATCT-AATCTGGTGACTCT-TCCACATATATCT
111488193 GTTCTGG
1 GTTCTGG
111488200 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
53 1 0.02
54 35 0.65
55 17 0.31
56 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTAATCTGGTGACTCTTCCACATATATCT
Found at i:111493427 original size:43 final size:43
Alignment explanation
Indices: 111493367--111493451 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
111493357 AATCAAATTT
*
111493367 TTTTATTGAAGTTATTCTACTTATAAGCTTTCACATATAACCA
1 TTTTATTGAAGTTATTCTACTTATAAGCTTTCACACATAACCA
*
111493410 TTTTATTGAAGTTATTCTACTTATAAGCTTTCAGACATAACC
1 TTTTATTGAAGTTATTCTACTTATAAGCTTTCACACATAACC
111493452 GTGCTTCTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (43 bp):
TTTTATTGAAGTTATTCTACTTATAAGCTTTCACACATAACCA
Found at i:111493470 original size:35 final size:35
Alignment explanation
Indices: 111493424--111493495 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
111493414 ATTGAAGTTA
111493424 TTCTACTTATAAGCTTTCAGACATAACCGTGCTTC
1 TTCTACTTATAAGCTTTCAGACATAACCGTGCTTC
* *
111493459 TTCTACTTATAAGCTTTCAGATATAACTGTGCTTC
1 TTCTACTTATAAGCTTTCAGACATAACCGTGCTTC
111493494 TT
1 TT
111493496 TAGATATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (35 bp):
TTCTACTTATAAGCTTTCAGACATAACCGTGCTTC
Found at i:111494957 original size:30 final size:30
Alignment explanation
Indices: 111494913--111495025 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 30
111494903 TTTAACGAAC
* *
111494913 TTGCTCACATAAGCTGACTTTATATTAGAA
1 TTGCTCACACAAGCTGACTTTATAATAGAA
*
111494943 TTGTTCACACAAGCTGACTTTATAATAGAA
1 TTGCTCACACAAGCTGACTTTATAATAGAA
** *
111494973 TTGCTCACACAAATTGAC-TT-T-GT-GAA
1 TTGCTCACACAAGCTGACTTTATAATAGAA
* * *
111494999 TTGCTCACATAAGTTGACTTTGTAATA
1 TTGCTCACACAAGCTGACTTTATAATA
111495026 TTTCCATACA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
26 19 0.28
27 3 0.04
28 2 0.03
29 3 0.04
30 42 0.61
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (30 bp):
TTGCTCACACAAGCTGACTTTATAATAGAA
Found at i:111494999 original size:26 final size:26
Alignment explanation
Indices: 111494970--111495021 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
111494960 CTTTATAATA
111494970 GAATTGCTCACACAAATTGACTTTGT
1 GAATTGCTCACACAAATTGACTTTGT
* *
111494996 GAATTGCTCACATAAGTTGACTTTGT
1 GAATTGCTCACACAAATTGACTTTGT
111495022 AATATTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (26 bp):
GAATTGCTCACACAAATTGACTTTGT
Found at i:111497535 original size:28 final size:28
Alignment explanation
Indices: 111497500--111497554 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
111497490 TAAAATTATA
111497500 AATAATATTGGTAATCCCCCAAAAAAAT
1 AATAATATTGGTAATCCCCCAAAAAAAT
*
111497528 AATAATATTGGTAATCCCCCCAAAAAA
1 AATAATATTGGTAATCCCCCAAAAAAA
111497555 CAAGCTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (28 bp):
AATAATATTGGTAATCCCCCAAAAAAAT
Found at i:111503792 original size:21 final size:21
Alignment explanation
Indices: 111503766--111503806 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111503756 AGACGAGCGA
* *
111503766 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
111503787 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
111503807 TTGAGCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:111508456 original size:23 final size:23
Alignment explanation
Indices: 111508426--111508475 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
111508416 AATTTCAATA
111508426 AAAATCATTAAATAATAATAATG
1 AAAATCATTAAATAATAATAATG
111508449 AAAATCATTAAATAATAATAATG
1 AAAATCATTAAATAATAATAATG
111508472 AAAA
1 AAAA
111508476 CATAAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAATCATTAAATAATAATAATG
Found at i:111512314 original size:13 final size:14
Alignment explanation
Indices: 111512298--111512339 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
111512288 TTTCAATTTT
111512298 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
111512311 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
111512326 ATTTTAAATAATAT
1 ATTTT-AATAATAT
111512340 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:111512324 original size:16 final size:16
Alignment explanation
Indices: 111512302--111512338 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
111512292 AATTTTATTT
111512302 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
111512319 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
111512334 TAATA
1 TAATA
111512339 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:111515807 original size:17 final size:18
Alignment explanation
Indices: 111515794--111515916 Score: 96
Period size: 18 Copynumber: 6.8 Consensus size: 18
111515784 TAATCTTCAA
111515794 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
111515813 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
111515830 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
111515849 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
111515865 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
111515884 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
111515902 TGATATACAATCTTA
1 TGATATGCAATCTTA
111515917 AAAGATATGA
Statistics
Matches: 89, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 24 0.27
18 28 0.31
19 28 0.31
20 4 0.04
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:111515863 original size:35 final size:35
Alignment explanation
Indices: 111515801--111515916 Score: 196
Period size: 35 Copynumber: 3.2 Consensus size: 35
111515791 CAATGATATG
*
111515801 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
111515837 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
111515872 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
111515909 CAATCTTA
1 CAATCTTA
111515917 AAAGATATGA
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 51 0.66
36 15 0.19
37 11 0.14
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:111516420 original size:17 final size:17
Alignment explanation
Indices: 111516400--111516455 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
111516390 CCAATATATT
111516400 TTATATATTTTATATAA
1 TTATATATTTTATATAA
111516417 TTAT-TATTCTTATA-AA
1 TTATATATT-TTATATAA
111516433 -TATAT-TTTTATTATATA
1 TTATATATTTTA-TATA-A
111516450 TTATAT
1 TTATAT
111516456 TTTAAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
14 3 0.09
15 7 0.21
16 8 0.24
17 10 0.30
18 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATATTTTATATAA
Found at i:111516458 original size:17 final size:16
Alignment explanation
Indices: 111516403--111516469 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
111516393 ATATATTTTA
111516403 TATATTTTATATA-AT
1 TATATTTTATATATAT
*
111516418 TATTATTCTTATAAATA-
1 TA-TATT-TTATATATAT
111516435 TAT-TTTTATTATATAT
1 TATATTTTA-TATATAT
* *
111516451 TATATTTTAAATTTAT
1 TATATTTTATATATAT
111516467 TAT
1 TAT
111516470 TAAATATCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 3 0.07
15 9 0.21
16 16 0.38
17 13 0.31
18 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATTTTATATATAT
Found at i:111516483 original size:26 final size:25
Alignment explanation
Indices: 111516436--111516484 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
111516426 TTATAAATAT
* * *
111516436 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
111516461 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
111516485 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:111523738 original size:205 final size:205
Alignment explanation
Indices: 111523366--111524121 Score: 1181
Period size: 205 Copynumber: 3.7 Consensus size: 205
111523356 GATCTGGCTA
* *
111523366 AAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCCTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGAT
* * *
111523431 TTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCCCTGTATTGTCAGAGA
65 TTGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * * * *
111523496 ACAAATCAAAGTCTGGCATCTCCATTTCGACAGAGAGTAGATACATAGCAAATCT-AGCCTTCAG
130 ACAAATCGAAGTCTGGCATCTCCAATTCAATAGAGAGTAGATACATAGCAGATCTCA-CCTTCAG
*
111523560 ATGTTTATACTG
194 ATGTTTATGCTG
* *
111523572 AAACAGATCCAAGCTGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
* * * *
111523637 TGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTATGTAATGTCAGAGAA
66 TGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
* *
111523702 CAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGTAGATACATAGCAGATCTCACCTTCAGAT
131 CAAATCGAAGTCTGGCATCTCCAATTCAATAGAGAGTAGATACATAGCAGATCTCACCTTCAGAT
111523767 GTTTATGCTG
196 GTTTATGCTG
* *
111523777 AAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGATATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
* * * * *
111523842 TGGCTTTCATGTATTTACGATGAAGCAAATCTAAGATAATTTGTCGTCTCTGTAGTGTCAGAGAA
66 TGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
* *
111523907 CAAATCGAAGTCTGGCATCTCCAATTCAATAGAGAGCAGATACATGGCAGATCTCACCTTCAGAT
131 CAAATCGAAGTCTGGCATCTCCAATTCAATAGAGAGTAGATACATAGCAGATCTCACCTTCAGAT
111523972 GTTTATGCTG
196 GTTTATGCTG
*
111523982 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
** * * *
111524047 TGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAA
66 TGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
111524112 CAAATCGAAG
131 CAAATCGAAG
111524122 AAGTTAATTT
Statistics
Matches: 506, Mismatches: 43, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
205 502 0.99
206 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATT
TGGCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
CAAATCGAAGTCTGGCATCTCCAATTCAATAGAGAGTAGATACATAGCAGATCTCACCTTCAGAT
GTTTATGCTG
Found at i:111524496 original size:17 final size:19
Alignment explanation
Indices: 111524474--111524604 Score: 56
Period size: 17 Copynumber: 7.3 Consensus size: 19
111524464 ATGGAAATAT
111524474 AATCTTTA-A-TGATATGC
1 AATCTTTAGAGTGATATGC
111524491 AATC-TTAGATGTGATATGC
1 AATCTTTAGA-GTGATATGC
*
111524510 AATC-TTAGA-T-ATGATAC
1 AATCTTTAGAGTGAT-ATGC
*
111524527 AATC-TTAGATATGAT-TGC
1 AATCTTTAGA-GTGATATGC
*
111524545 AATC-TTAGA-T-ATGATAC
1 AATCTTTAGAGTGAT-ATGC
*
111524562 AATC-TTAGATATGAT-TGC
1 AATCTTTAGA-GTGATATGC
* *
111524580 AATC-TTAGATATGATATAC
1 AATCTTTAGA-GTGATATGC
111524599 AATCTT
1 AATCTT
111524605 AGAAGATATG
Statistics
Matches: 95, Mismatches: 5, Indels: 25
0.76 0.04 0.20
Matches are distributed among these distances:
15 2 0.02
16 6 0.06
17 29 0.31
18 28 0.29
19 25 0.26
20 5 0.05
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
AATCTTTAGAGTGATATGC
Found at i:111524552 original size:35 final size:35
Alignment explanation
Indices: 111524490--111524607 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
111524480 TAATGATATG
*
111524490 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
111524526 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
111524561 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
111524598 CAATCTTAGA
1 CAATCTTAGA
111524608 AGATATGATT
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 51 0.65
36 15 0.19
37 13 0.16
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:111525100 original size:17 final size:17
Alignment explanation
Indices: 111525080--111525145 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
111525070 TTCTAAACCA
*
111525080 ATATATTTTATATTTTT
1 ATATATATTATATTTTT
*
111525097 ATATA-ATTATTATTCTT
1 ATATATATTA-TATTTTT
*
111525114 ATAAATA-TAT-TTTTT
1 ATATATATTATATTTTT
111525129 ATTATATATTATATTTT
1 A-TATATATTATATTTT
111525146 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.13
16 9 0.23
17 20 0.51
18 5 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATATATTATATTTTT
Found at i:111525121 original size:38 final size:37
Alignment explanation
Indices: 111525045--111525131 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 37
111525035 ATTCTTTTAC
* *
111525045 ATATTTGATA-TTTTATATATTATTTTTCTAAACCAAT
1 ATATTTTATATTTTTATATATTATTATTCTAAA-CAAT
*
111525082 ATATTTTATATTTTTATATAATTATTATTCTTATA-AAT
1 ATATTTTATATTTTTATAT-ATTATTATTC-TAAACAAT
*
111525120 ATATTTTTTATT
1 ATATTTTATATT
111525132 ATATATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
37 9 0.21
38 22 0.51
39 9 0.21
40 3 0.07
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (37 bp):
ATATTTTATATTTTTATATATTATTATTCTAAACAAT
Found at i:111525170 original size:26 final size:26
Alignment explanation
Indices: 111525122--111525171 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
111525112 TTATAAATAT
* * * *
111525122 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
111525148 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
111525172 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:111530214 original size:23 final size:23
Alignment explanation
Indices: 111530186--111530237 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
111530176 TAGATCTTTC
*
111530186 CTAAATATTATCACTAGATAATT
1 CTAAATATTATCACTAAATAATT
111530209 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
111530232 CAAAAT
1 CTAAAT
111530238 TTAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:111532551 original size:29 final size:29
Alignment explanation
Indices: 111532518--111532609 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 29
111532508 TTAATCGAAA
111532518 TAAATAACAAGAGTTTACAAAAAGACAAG
1 TAAATAACAAGAGTTTACAAAAAGACAAG
* **
111532547 TAAATAA-ACGAAG-TTAC-AAAATTCACA-
1 TAAATAACAAG-AGTTTACAAAAAGACA-AG
111532574 TAAATAACAAGAGTTTACAAAAAGACAAG
1 TAAATAACAAGAGTTTACAAAAAGACAAG
111532603 TAAATAA
1 TAAATAA
111532610 ACAACACTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
27 15 0.29
28 14 0.27
29 22 0.43
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.20
Consensus pattern (29 bp):
TAAATAACAAGAGTTTACAAAAAGACAAG
Found at i:111532591 original size:28 final size:28
Alignment explanation
Indices: 111532516--111532609 Score: 95
Period size: 28 Copynumber: 3.3 Consensus size: 28
111532506 GATTAATCGA
*
111532516 AATAAATAACAAGAGTTTACAAAAAGAC
1 AATAAATAACAAGAGTTTACAAAAACAC
* *
111532544 AAGTAAATAA-ACGAAG-TTACAAAATTCAC
1 AA-TAAATAACAAG-AGTTTACAAAA-ACAC
*
111532573 -ATAAATAACAAGAGTTTACAAAAAGAC
1 AATAAATAACAAGAGTTTACAAAAACAC
111532600 AAGTAAATAA
1 AA-TAAATAA
111532610 ACAACACTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
27 11 0.21
28 24 0.45
29 18 0.34
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.19
Consensus pattern (28 bp):
AATAAATAACAAGAGTTTACAAAAACAC
Found at i:111532620 original size:29 final size:28
Alignment explanation
Indices: 111532532--111532620 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
111532522 TAACAAGAGT
* *
111532532 TTACAAAAAGACAAGTAAATAAACGAAG
1 TTACAAAAAGACAAGTAAATAAACAAAC
** *
111532560 TTAC-AAAATTCACA-TAAAT-AACAAGAGT
1 TTACAAAAAGACA-AGTAAATAAACAA-A-C
111532588 TTACAAAAAGACAAGTAAATAAACAACAC
1 TTACAAAAAGACAAGTAAATAAACAA-AC
111532617 TTAC
1 TTAC
111532621 TTTGGTTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
26 4 0.09
27 12 0.26
28 10 0.21
29 15 0.32
30 6 0.13
ACGTcount: A:0.57, C:0.15, G:0.09, T:0.19
Consensus pattern (28 bp):
TTACAAAAAGACAAGTAAATAAACAAAC
Found at i:111533476 original size:15 final size:15
Alignment explanation
Indices: 111533456--111533491 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
111533446 ATAAGCCCTC
111533456 AAATTAAAAAAATAA
1 AAATTAAAAAAATAA
111533471 AAATTAAAAAAATAA
1 AAATTAAAAAAATAA
111533486 AAATTA
1 AAATTA
111533492 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATTAAAAAAATAA
Found at i:111533519 original size:23 final size:23
Alignment explanation
Indices: 111533474--111533516 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
111533464 AAAATAAAAA
111533474 TTAAAAAAATAAAAATTATAATT
1 TTAAAAAAATAAAAATTATAATT
111533497 TTAAAAAAAT-AAAATTATAA
1 TTAAAAAAATAAAAATTATAA
111533517 ATTAATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAAAAAATAAAAATTATAATT
Found at i:111538678 original size:26 final size:26
Alignment explanation
Indices: 111538619--111538683 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
111538609 AGCGAGTCGT
*
111538619 ATCAGGAAGCTCACAAAGAGCCAATT
1 ATCAGGAAGCTCACAAAGAGCCAATG
* * * *
111538645 AACGGGAAGCTCACGAAGAGCCTATG
1 ATCAGGAAGCTCACAAAGAGCCAATG
111538671 ATCAGGAAGCTCA
1 ATCAGGAAGCTCA
111538684 TAAGAGCTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (26 bp):
ATCAGGAAGCTCACAAAGAGCCAATG
Found at i:111538779 original size:25 final size:24
Alignment explanation
Indices: 111538749--111538810 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
111538739 CAAAGAGCAT
*
111538749 TAACGGGAAGCTCGCAAGAACCATA
1 TAACGGGAAGCTCACAAGAACCA-A
* *
111538774 TAACGGGAAGCTCACAAGAGCTAA
1 TAACGGGAAGCTCACAAGAACCAA
*
111538798 TAACGGGACGCTC
1 TAACGGGAAGCTC
111538811 TTTTGAGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (24 bp):
TAACGGGAAGCTCACAAGAACCAA
Found at i:111538805 original size:24 final size:23
Alignment explanation
Indices: 111538741--111538810 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
111538731 GGATGCTTCA
* *
111538741 AAGAGCATTAACGGGAAGCTCGC
1 AAGAGCAATAACGGGAAGCTCAC
*
111538764 AAGAACCATATAACGGGAAGCTCAC
1 AAG-AGCA-ATAACGGGAAGCTCAC
*
111538789 AAGAGCTAATAACGGGACGCTC
1 AAGAGC-AATAACGGGAAGCTC
111538811 TTTTGAGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.08
24 18 0.46
25 18 0.46
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.13
Consensus pattern (23 bp):
AAGAGCAATAACGGGAAGCTCAC
Found at i:111543335 original size:31 final size:31
Alignment explanation
Indices: 111543300--111543361 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
111543290 TTTACAATTC
*
111543300 CTCAATTATTTGGATTAGATTGAAAAACAAT
1 CTCAATTATTTGGATTAGATTCAAAAACAAT
111543331 CTCAATTATTTGGATTAGATTCAAAAACAAT
1 CTCAATTATTTGGATTAGATTCAAAAACAAT
111543362 TGACACTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (31 bp):
CTCAATTATTTGGATTAGATTCAAAAACAAT
Found at i:111545595 original size:3 final size:3
Alignment explanation
Indices: 111545587--111545611 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
111545577 TTTCTGCATT
111545587 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
111545612 ATAGTAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:111548649 original size:42 final size:41
Alignment explanation
Indices: 111548491--111548742 Score: 334
Period size: 42 Copynumber: 6.1 Consensus size: 41
111548481 TTAAAAAAAA
* * * *
111548491 GCCGCTAAAGTCATAGCCTTTAGCAGCGTTTGAAAAAAAAGC
1 GCCGCTAAAGTCGT-GGCTTTAGCGGCGTTTGAAGAAAAAGC
*
111548533 GCCGCTAAAGTCGT-GCCTTAGCGGCGTTTGAAG-AAAA-C
1 GCCGCTAAAGTCGTGGCTTTAGCGGCGTTTGAAGAAAAAGC
111548571 GCCGCTAAAGTCGTGGCCTTTAGCGGCGTTTG-AGAAAAAGC
1 GCCGCTAAAGTCGTGG-CTTTAGCGGCGTTTGAAGAAAAAGC
111548612 GCCGCTAAAAGTCGTGGCTTTAGCGGCGTTTGAAGAAAAAGC
1 GCCGCT-AAAGTCGTGGCTTTAGCGGCGTTTGAAGAAAAAGC
*
111548654 GCCGCTAAAAGTCGTGACCTTTAGCGGCGTTTGAAG-AAAAGC
1 GCCGCT-AAAGTCGTG-GCTTTAGCGGCGTTTGAAGAAAAAGC
* * *
111548696 ACCGCTAAAGTCATGGCTTTTAGCGGCGTTTGAAGAAAAAGT
1 GCCGCTAAAGTCGTGGC-TTTAGCGGCGTTTGAAGAAAAAGC
111548738 GCCGC
1 GCCGC
111548743 CAATTTTGCA
Statistics
Matches: 189, Mismatches: 12, Indels: 18
0.86 0.05 0.08
Matches are distributed among these distances:
38 15 0.08
39 7 0.04
40 34 0.18
41 47 0.25
42 68 0.36
43 18 0.10
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GCCGCTAAAGTCGTGGCTTTAGCGGCGTTTGAAGAAAAAGC
Found at i:111549123 original size:15 final size:16
Alignment explanation
Indices: 111549103--111549132 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111549093 TCCTCGCTGC
111549103 TGCTGCCTCC-CTCTT
1 TGCTGCCTCCGCTCTT
111549118 TGCTGCCTCCGCTCT
1 TGCTGCCTCCGCTCT
111549133 AAGTTGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.47, G:0.17, T:0.37
Consensus pattern (16 bp):
TGCTGCCTCCGCTCTT
Found at i:111549123 original size:18 final size:17
Alignment explanation
Indices: 111549063--111549112 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
111549053 CTTTTTCCTA
111549063 TGCT-CTGCCTCCCTCGC
1 TGCTGCTGCCT-CCTCGC
111549080 TGCTGTCGCTGCCTCCTCGC
1 TGC--T-GCTGCCTCCTCGC
111549100 TGCTGCTGCCTCC
1 TGCTGCTGCCTCC
111549113 CTCTTTGCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 12 0.41
18 1 0.03
19 1 0.03
20 9 0.31
21 6 0.21
ACGTcount: A:0.00, C:0.48, G:0.22, T:0.30
Consensus pattern (17 bp):
TGCTGCTGCCTCCTCGC
Found at i:111561952 original size:26 final size:25
Alignment explanation
Indices: 111561894--111561964 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
111561884 AGCGAGTCGT
*
111561894 ATCAGGAAGCTCACAAGAGCCAATT
1 ATCAGGAAGCTCACAAGAGCCAATG
* * *
111561919 AACGGGAAGCTCACGAAGAGCCTATG
1 ATCAGGAAGCTCAC-AAGAGCCAATG
*
111561945 ATCAGGAAGCTCATAAGAGC
1 ATCAGGAAGCTCACAAGAGC
111561965 TAAGGTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (25 bp):
ATCAGGAAGCTCACAAGAGCCAATG
Found at i:111562078 original size:24 final size:25
Alignment explanation
Indices: 111562021--111562083 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
111562011 TTCAAAGAGC
*
111562021 ATAACGGGAAGCTCGCAAGAACCAT
1 ATAACGGGAAGCTCACAAGAACCAT
* *
111562046 ATAACGGGAAGCTCACAAGAGCTA-
1 ATAACGGGAAGCTCACAAGAACCAT
*
111562070 ATAACGGGACGCTC
1 ATAACGGGAAGCTC
111562084 TTTTGAGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.38
25 21 0.62
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.13
Consensus pattern (25 bp):
ATAACGGGAAGCTCACAAGAACCAT
Found at i:111566510 original size:31 final size:31
Alignment explanation
Indices: 111566475--111566536 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
111566465 TTTACAATTC
*
111566475 CTCAATTATTTGGATTAGATTGAAAAACAAT
1 CTCAATTATTTGGATTAGATTCAAAAACAAT
111566506 CTCAATTATTTGGATTAGATTCAAAAACAAT
1 CTCAATTATTTGGATTAGATTCAAAAACAAT
111566537 TGACACTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (31 bp):
CTCAATTATTTGGATTAGATTCAAAAACAAT
Found at i:111571698 original size:43 final size:43
Alignment explanation
Indices: 111571652--111571921 Score: 450
Period size: 43 Copynumber: 6.3 Consensus size: 43
111571642 GTTAATTAAA
* * * *
111571652 AAAAAGCGCCGCTAAAAGTCATAGCCTTTAGCAGCGTTTGAAA
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
111571695 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
*
111571738 AAAAAACGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
111571781 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
*
111571824 AAAAAGCGCCGCTAAAAGTCGTGACCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
* * *
111571867 AAAAAGCACCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
*
111571910 AAAAAGTGCCGC
1 AAAAAGCGCCGC
111571922 CAATTTTGGC
Statistics
Matches: 214, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 214 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
Found at i:111572304 original size:15 final size:16
Alignment explanation
Indices: 111572286--111572315 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111572276 CCCTCGCTGC
111572286 TGCTGCCTCC-CTCTT
1 TGCTGCCTCCGCTCTT
111572301 TGCTGCCTCCGCTCT
1 TGCTGCCTCCGCTCT
111572316 AAGTTGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.47, G:0.17, T:0.37
Consensus pattern (16 bp):
TGCTGCCTCCGCTCTT
Found at i:111572306 original size:18 final size:18
Alignment explanation
Indices: 111572245--111572298 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 18
111572235 CTTTTTCCTA
111572245 TGCT-CTGCCTCCCTCGC
1 TGCTGCTGCCTCCCTCGC
111572262 TGCTGTCGCTGCCTCCCTCGC
1 TGC--T-GCTGCCTCCCTCGC
111572283 TGCTGCTGCCTCCCTC
1 TGCTGCTGCCTCCCTC
111572299 TTTGCTGCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
17 3 0.09
18 12 0.36
19 2 0.06
21 16 0.48
ACGTcount: A:0.00, C:0.50, G:0.20, T:0.30
Consensus pattern (18 bp):
TGCTGCTGCCTCCCTCGC
Found at i:111572743 original size:13 final size:14
Alignment explanation
Indices: 111572718--111572746 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
111572708 TGATGAATTG
111572718 AATTAAACAATTAT
1 AATTAAACAATTAT
111572732 AATTAAAC-ATTAT
1 AATTAAACAATTAT
111572745 AA
1 AA
111572747 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:111572950 original size:16 final size:17
Alignment explanation
Indices: 111572913--111572951 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
111572903 AAAATATTAT
*
111572913 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
111572930 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
111572946 TTAATA
1 TTAATA
111572952 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:111577967 original size:9 final size:9
Alignment explanation
Indices: 111577953--111578142 Score: 98
Period size: 9 Copynumber: 20.6 Consensus size: 9
111577943 TATTTAAGTA
111577953 TTATGTAAG
1 TTATGTAAG
111577962 TTATGTAAG
1 TTATGTAAG
*
111577971 TTATGATATG
1 TTATG-TAAG
* * *
111577981 ATATAT-AT
1 TTATGTAAG
*
111577989 TTATGTAAA
1 TTATGTAAG
* *
111577998 TTATAT-AT
1 TTATGTAAG
* *
111578006 TTATCTGAG
1 TTATGTAAG
*
111578015 TTATATAAG
1 TTATGTAAG
111578024 TTATGTAAG
1 TTATGTAAG
*
111578033 TTATGTAAA
1 TTATGTAAG
*
111578042 TTATGATATAAAA
1 TTATG---T-AAG
*
111578055 TATATTTAAG
1 T-TATGTAAG
111578065 TATTATGTAAG
1 --TTATGTAAG
111578076 TTATGTAAG
1 TTATGTAAG
* *
111578085 TTATAT-AT
1 TTATGTAAG
*
111578093 TTATCTAAG
1 TTATGTAAG
*
111578102 TTATATAAG
1 TTATGTAAG
*
111578111 TTATGTACG
1 TTATGTAAG
*
111578120 TTTTGTAAG
1 TTATGTAAG
* *
111578129 TTATATAAA
1 TTATGTAAG
111578138 TTATG
1 TTATG
111578143 ATATCAAATA
Statistics
Matches: 138, Mismatches: 32, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
8 16 0.12
9 97 0.70
10 8 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:111578035 original size:71 final size:69
Alignment explanation
Indices: 111577953--111578115 Score: 193
Period size: 71 Copynumber: 2.3 Consensus size: 69
111577943 TATTTAAGTA
* * * * *
111577953 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTGAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
111578017 ATATAAG
64 ATAT-AG
* * *
111578024 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
111578089 ATAT
66 ATAG
* *
111578093 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
111578116 TACGTTTTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 27 0.34
70 14 0.18
71 38 0.48
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:111578091 original size:87 final size:90
Alignment explanation
Indices: 111577989--111578173 Score: 250
Period size: 96 Copynumber: 2.0 Consensus size: 90
111577979 TGATATATAT
* *
111577989 TTATGTAAATTATATATTTATCTGAGTTATATAAG-T-TA-TGTAAGTTATGTAAATTATGATAT
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
111578051 AAAATATATTTAAGTATTATGTAAG
66 AAAATATATTTAAGTATTATGTAAG
*
111578076 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TGTA----TTGTAAGTTATATAAATTA
* *
111578141 TGATATCAAATATATTTATGTATTATGTAAG
60 TGATATAAAATATATTTAAGTATTATGTAAG
111578172 TT
1 TT
111578174 TTTTATTTCA
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
87 33 0.39
90 1 0.01
91 2 0.02
96 48 0.57
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (90 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
AAAATATATTTAAGTATTATGTAAG
Found at i:111578131 original size:114 final size:114
Alignment explanation
Indices: 111577929--111578142 Score: 281
Period size: 114 Copynumber: 1.9 Consensus size: 114
111577919 ACTAGTTATG
* * * *
111577929 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
* *
111577994 TAAATTATATATTTATCTGAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
111578043 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
111578106 ATAAGTTATGTACGTTT-TGTAAGTTATATAAATTATG
65 ATAAATTATATA--TTTATCTAAGTTATATAAATTATG
111578143 ATATCAAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
112 4 0.05
113 18 0.21
114 61 0.71
115 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:111578181 original size:87 final size:87
Alignment explanation
Indices: 111577989--111578173 Score: 225
Period size: 87 Copynumber: 2.1 Consensus size: 87
111577979 TGATATATAT
* *
111577989 TTATGTAAATTATATATTTATCTGAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
111578054 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* * *
111578076 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AAT
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-
*
111578139 TATGATATCAAATATATTTATGT-A-
65 AAT-ATATCAAA-ATA-TTATGTAAG
111578163 TTATGTAAGTT
1 TTATGTAAGTT
111578174 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 69 0.81
88 3 0.04
89 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Found at i:111578267 original size:15 final size:15
Alignment explanation
Indices: 111578247--111578302 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
111578237 AAGTAGCGGG
111578247 ATTAAATAATATTTA
1 ATTAAATAATATTTA
111578262 ATTAAATAATATTT-
1 ATTAAATAATATTTA
111578276 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
111578291 ATTAAGTAATAT
1 ATTAAATAATAT
111578303 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:111579280 original size:358 final size:357
Alignment explanation
Indices: 111578628--111579308 Score: 1283
Period size: 358 Copynumber: 1.9 Consensus size: 357
111578618 TTGAATCTTT
*
111578628 AAAATATTTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATA
1 AAAATATTTAAATATTAAAATCAAACATTATTAATACAAAAAATAGTAATTTGAATATAATAATA
* *
111578693 TAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTGAATGAGC
66 TAAAAAAGAATCGTAGTTTAAATTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGC
111578758 TCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACAC
131 TCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACAC
111578823 CTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATAT
196 CTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATAT
*
111578888 ACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCCATTGTTGTAATTTTGA
261 ACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGACAGCCATTGTTGTAATTTTGA
111578953 TAAAAATTAGTTATAACTTTTAAAGACATTTA
326 TAAAAATTAGTTATAACTTTTAAAGACATTTA
*
111578985 AAAATA-TTAAATATTAAAATCAAACATTATTAATGCAAAAAATTAGTAATTTGAATATAATAAT
1 AAAATATTTAAATATTAAAATCAAACATTATTAATACAAAAAA-TAGTAATTTGAATATAATAAT
111579049 ATAAAAAAAGAATCGTAGTTTAAATTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
65 AT-AAAAAAGAATCGTAGTTTAAATTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGA
111579114 GCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTAC
129 GCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTAC
111579179 ACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTAT
194 ACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTAT
*
111579244 ATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGACATCCATTGTTGTAATTTT
259 ATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGACAGCCATTGTTGTAATTTT
111579309 AATGGACAAG
Statistics
Matches: 316, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
356 34 0.11
357 29 0.09
358 253 0.80
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (357 bp):
AAAATATTTAAATATTAAAATCAAACATTATTAATACAAAAAATAGTAATTTGAATATAATAATA
TAAAAAAGAATCGTAGTTTAAATTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGC
TCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACAC
CTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATAT
ACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGACAGCCATTGTTGTAATTTTGA
TAAAAATTAGTTATAACTTTTAAAGACATTTA
Found at i:111582592 original size:16 final size:17
Alignment explanation
Indices: 111582573--111582608 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
111582563 ATTATTTAAT
111582573 ATATAAA-TAAAAAACA
1 ATATAAATTAAAAAACA
111582589 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
111582606 ATA
1 ATA
111582609 AGTTATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:111582765 original size:16 final size:16
Alignment explanation
Indices: 111582721--111582769 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
111582711 TACATAAAAT
*
111582721 TTAAAATCTTGAAAATTA
1 TTAAAAT-TTG-AAATCA
*
111582739 TTGACAATTTGAAATCA
1 TT-AAAATTTGAAATCA
111582756 TTAAAATTTGAAAT
1 TTAAAATTTGAAAT
111582770 TATTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 11 0.41
17 7 0.26
18 5 0.19
19 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (16 bp):
TTAAAATTTGAAATCA
Found at i:111582925 original size:8 final size:8
Alignment explanation
Indices: 111582884--111582938 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
111582874 CACTAATTAT
111582884 CCTAAA-C
1 CCTAAACC
*
111582891 CCTTAACC
1 CCTAAACC
*
111582899 CCTATATCC
1 CCTA-AACC
* *
111582908 CATTAACC
1 CCTAAACC
111582916 CCTAAACC
1 CCTAAACC
111582924 CCTAAA-C
1 CCTAAACC
111582931 CCTAAACC
1 CCTAAACC
111582939 ATTAACCCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
7 12 0.32
8 20 0.54
9 5 0.14
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (8 bp):
CCTAAACC
Found at i:111582935 original size:15 final size:15
Alignment explanation
Indices: 111582884--111582946 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
111582874 CACTAATTAT
111582884 CCTAAACCCTTAACC
1 CCTAAACCCTTAACC
*
111582899 CCTATATCCCATTAACC
1 CCTA-AACCC-TTAACC
* *
111582916 CCTAAACCCCTAAAC
1 CCTAAACCCTTAACC
*
111582931 CCTAAACCATTAACC
1 CCTAAACCCTTAACC
111582946 C
1 C
111582947 TTAATCCCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 21 0.54
16 8 0.21
17 10 0.26
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (15 bp):
CCTAAACCCTTAACC
Found at i:111583019 original size:73 final size:72
Alignment explanation
Indices: 111582914--111583081 Score: 194
Period size: 73 Copynumber: 2.3 Consensus size: 72
111582904 ATCCCATTAA
* * *
111582914 CCCCTAAACCCCTAAACCCTAAACCATTAACCCTTAATCCCTAAAATTTAAACACTAAACCTTAA
1 CCCCTAAACCCCTAAACCCTAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCTAA
*
111582979 ACAATGT
66 ACAATAT
* * * * *
111582986 CCCCTTAACTCCC-AAACCCATAAACCCTAAACCCTTAATCCATAGACTTTGAACACTAAACCCT
1 CCCCTAAAC-CCCTAAACCC-TAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCT
*
111583050 AAACTATAT
64 AAACAATAT
* *
111583059 CCCCTCAACCCCTTAACTCCTAA
1 CCCCTAAACCCCTAAAC-CCTAA
111583082 CCTTTGACCC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
72 17 0.21
73 61 0.76
74 2 0.03
ACGTcount: A:0.38, C:0.37, G:0.02, T:0.23
Consensus pattern (72 bp):
CCCCTAAACCCCTAAACCCTAAACCATAAACCCTTAATCCATAAAATTTAAACACTAAACCCTAA
ACAATAT
Found at i:111583307 original size:7 final size:7
Alignment explanation
Indices: 111583295--111583333 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
111583285 ATTAACTTGT
*
111583295 CATAATC
1 CATAAAC
*
111583302 CATAATC
1 CATAAAC
111583309 CATAAAC
1 CATAAAC
111583316 CATAAAC
1 CATAAAC
111583323 CATAAAC
1 CATAAAC
111583330 CATA
1 CATA
111583334 TATACCCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (7 bp):
CATAAAC
Found at i:111584152 original size:41 final size:42
Alignment explanation
Indices: 111584048--111584168 Score: 194
Period size: 42 Copynumber: 2.9 Consensus size: 42
111584038 GATCTTTAGT
*
111584048 GGCGTTTTTCCAAAAAGCACCGCTGAAACTCATATCTATTGC
1 GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
111584090 GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
1 GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
*
111584132 GGCG-TTTTCTAAAAAGCGCCGCT-AATACTCA-ATCTAT
1 GGCGTTTTTCCAAAAAGCGCCGCTGAA-ACTCATATCTAT
111584169 AGTGGTGTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
40 8 0.11
41 23 0.30
42 45 0.59
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
GGCGTTTTTCCAAAAAGCGCCGCTGAAACTCATATCTATTGC
Found at i:111584179 original size:40 final size:42
Alignment explanation
Indices: 111584039--111584180 Score: 182
Period size: 42 Copynumber: 3.4 Consensus size: 42
111584029 AATAGTTTAG
* * *
111584039 ATCTTTAGTGGCGTTTTTCCAAAAAGCACCGCTGAAACTCAT
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
*
111584081 ATCTATTGCGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
* *
111584123 ATCTATTGCGGCG-TTTTCTAAAAAGCGCCGCT-AATACTCA-
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCTGAA-ACTCAT
* *
111584163 ATCTATAGTGGTGTTTTT
1 ATCTATAGCGGCGTTTTT
111584181 GCGCAAGCGC
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
40 12 0.13
41 27 0.30
42 51 0.57
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCTGAAACTCAT
Found at i:111584433 original size:154 final size:154
Alignment explanation
Indices: 111584137--111584503 Score: 495
Period size: 154 Copynumber: 2.4 Consensus size: 154
111584127 ATTGCGGCGT
* * * ***
111584137 TTTCTAAAAAGCGCCGCTAATACTCAATCTATAGTGGTGTTTTTGCGCAAGCGCCGCTATTGCCA
1 TTTCTAAAAAACGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCCA
* * * *
111584202 GTGAAGCTCAAAATAAACGACGCCGTTCGGTTTAATTTTTTAGCTGCGTTTCTATAAAAACGCCG
66 CTGAAGCTCAAAATAAACGACGCCGTTCGATCTAATCTTTTAGCTGCGTTTCTATAAAAACGCCG
111584267 CTATAGGCCGACCTATAGCGGCAC
131 CTATAGGCCGACCTATAGCGGCAC
* * *
111584291 TTTCTAAAAAATGCCGCTAATACTCAAACCTATAGCGGCGTTTTTGATAAAGCGCCGCTATTGCC
1 TTTCTAAAAAACGCCGCTAATACTC-AATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCC
* *
111584356 ACTGAAGCTCACAATAAACGACGCCGTTC-ATCTAATCTTTTAG-TGGCGTTTTTATAAAAACGC
65 ACTGAAGCTCAAAATAAACGACGCCGTTCGATCTAATCTTTTAGCT-GCGTTTCTATAAAAACGC
* *
111584419 CGCTATATGTCGACCTATAGCGGCAC
129 CGCTATAGGCCGACCTATAGCGGCAC
* * * * * *
111584445 TTCCTTAAAAACGCTGCTAATTCTCGATCTATAGCGGCGTTTTTGAAAAAACGCCGCTA
1 TTTCTAAAAAACGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTA
111584504 ATACTCAATT
Statistics
Matches: 186, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
153 31 0.17
154 95 0.51
155 60 0.32
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (154 bp):
TTTCTAAAAAACGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCCA
CTGAAGCTCAAAATAAACGACGCCGTTCGATCTAATCTTTTAGCTGCGTTTCTATAAAAACGCCG
CTATAGGCCGACCTATAGCGGCAC
Found at i:111586369 original size:10 final size:9
Alignment explanation
Indices: 111586354--111586382 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
111586344 AGACAGATTC
111586354 AAAAAAAAG
1 AAAAAAAAG
111586363 AAAAAAAAG
1 AAAAAAAAG
111586372 AAAAAAAAG
1 AAAAAAAAG
111586381 AA
1 AA
111586383 GAATACTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:111588229 original size:66 final size:66
Alignment explanation
Indices: 111588148--111588279 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
111588138 ATTCATATAT
*
111588148 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGAC
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
111588213 A
66 A
* *
111588214 CATTCATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATCATTTGAC
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
111588279 A
66 A
111588280 TAAGCATAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (66 bp):
CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
A
Found at i:111588585 original size:68 final size:68
Alignment explanation
Indices: 111588475--111589621 Score: 1535
Period size: 68 Copynumber: 16.9 Consensus size: 68
111588465 ATTACAAATT
* *
111588475 TCTTCTTCCCTGAAATAGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTG
1 TCTTCTT-CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111588540 GATC
65 GATC
* *
111588544 TCTTCTTCTTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTGG
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
111588609 ATC
66 ATC
* * *
111588612 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAACCACAGCAGATCTCCTTGAAGTTTCAATGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
111588677 ATC
66 ATC
* *
111588680 TTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
111588745 ATC
66 ATC
* *
111588748 TCTTCTTCCTGAAATTGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
111588813 ATC
66 ATC
* * * *
111588816 TCTTCTTCCTGAAATGGCGTTGGAGCAGCTAAAAGCCATAGTAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
111588881 ATC
66 ATC
* *
111588884 TTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
111588949 ATC
66 ATC
* * * *
111588952 TCTTCTTCCTAAAATGGCGTTGGAGTGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
111589017 ATC
66 ATC
* * * * * * *
111589020 TCCTTC-CCCTGAAATAGCGTTGGAGTGGCTAAAAGCCATAACAAATCTCCTTGAAGTTTCAGCG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111589084 GATC
65 GATC
* * * * * * * *
111589088 TCCTTC-CCCTGAAGTGGCATTGGAACGGCT-GAAGTCACAGCAGACCTCCTTGAAGTTTCAGCG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111589151 GATC
65 GATC
* * * * * * *
111589155 TCCTTC-CCCTAAAATGGCGTTGGAGCGGCTAAAAGCCATAAC-GATGTCCTTGAAGTTTTAGCG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111589218 GATC
65 GATC
* * *
111589222 TCCTT-TCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAACAGATCTCCTTGAAGTTTCAG-G
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111589285 GATC
65 GATC
*
111589289 TCTT-TTCCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGTG
1 TCTTCTT-CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111589353 GATC
65 GATC
*
111589357 TCCTTC-CCCTGAAATGGCGTTGGAGCGGCTAAAAGCCAC-GCAGATCTCCTTGAAGTTTCAGTG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111589420 GATC
65 GATC
* * * * *
111589424 TCCTTC-CCCTGAAATGGTGTTGGAGCGGCTAAAAGCCATAACAGATCTCCTTGAAGTTTCAGCG
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111589488 GATC
65 GATC
* * * * * *
111589492 TCCTTC-CCCTAAAATGGTGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTAAAGTTTTAGTA
1 T-CTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTG
111589556 GATC
65 GATC
* ** ** * *
111589560 TCTTCTTCCTGAAATGGCGTTGGAACTACTAAAAGTTACAGCAGGTTTCCTTGAAGTTTCAG
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
111589622 CGAAAGAAGA
Statistics
Matches: 983, Mismatches: 85, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
66 4 0.00
67 247 0.25
68 718 0.73
69 14 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (68 bp):
TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGG
ATC
Found at i:111589749 original size:44 final size:42
Alignment explanation
Indices: 111589696--111591156 Score: 393
Period size: 44 Copynumber: 33.1 Consensus size: 42
111589686 TTCTGACATT
*
111589696 CCTGTGCTTACAGTGAAGCAGATCGAAAACTTCAGCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * * ** *
111589740 CCTATGCTTATAGGGAA-CAGATCGAAGATAGCAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
111589784 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGAATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * *
111589828 CCTGTGCTTATAGGGAA-CA-AGTTGAAAGCA-GCAGATTTGGCATC
1 CCTGTGCTTACAGTGAAGCAGA-TCG-AAG-ATTCAGA--TGGCATC
* * * ** ** *
111589872 CCTGTGCTTATAGGGAA-CAGATCAAAGATAGAAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
111589916 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * * * **
111589960 TCTGTGCTTATAGGGAA-CTAG-TTGAAAACAGCAGATTTGGCATC
1 CCTGTGCTTACAGTGAAGC-AGATCGAAGA-TTCAGA--TGGCATC
* * * ** *
111590004 CCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
111590048 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * * **
111590092 CCT-TGCTTATAGGGAA-CA-AGTTGAAAACAGCAGATTTGGCATC
1 CCTGTGCTTACAGTGAAGCAGA-TCGAAGA-TTCAGA--TGGCATC
* * * ** *
111590135 CCTGTGCTTATAGGGAA-CAGATCGAAGATAACAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
* *
111590179 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACATGGAATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTC-AGATGGCATC
* * * * **
111590223 CCTGTGCTTATAGGGAA-CA-AGTTGAAAACAGCAGATTTGGCATC
1 CCTGTGCTTACAGTGAAGCAGA-TCGAAGA-TTCAGA--TGGCATC
* * * * ** *
111590267 CCTGTGCTTATAGGGAA-CAGATCAAAGATAGCAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
111590311 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * ** * **
111590355 CCTGTGTTTATAGGGAA-CTAG-TTAAAAACAGCAGAATTTGGCATC
1 CCTGTGCTTACAGTGAAGC-AGATCGAAGA-TTCAG-A--TGGCATC
* * * ** ** *
111590400 CCTGTGCTTATAGGGAA-TAGATCGAAGATAGAAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
* *
111590444 CTTGTGCTTACAGTGAAACAGATCGAAGATTTCAGCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * ** *
111590488 CCTGTGCTTATACG-GAA-CA-AGTTGAAAACAGCAGAATTTGGCATA
1 CCTGTGCTTACA-GTGAAGCAGA-TCGAAGA-TTCAG-A--TGGCATC
* * * * ** *
111590533 CCTATGCTTATAGGGAA-CAGATCGAAGATAGCAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
111590577 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * * * *
111590621 CCTGTGTTTATAGGGAA-CA-AGTTGAAAATAGCAGATTTGGCATC
1 CCTGTGCTTACAGTGAAGCAGA-TCGAAGAT-TCAGA--TGGCATC
* * * ** *
111590665 CTTGTGCTTATAGGGAA-CAGATCGAAGATAGT-AGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT--TCAGA--TGGCATC
*
111590709 CCTGTGTTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * * **
111590753 CCTTTGCTTATACG-GAA-CTAG-TTGAAAACAGCAGAATTTGGCATC
1 CCTGTGCTTACA-GTGAAGC-AGATCGAAGA-TTCAG-A--TGGCATC
* * * * ** *
111590798 CCTGTGCTTATAGGGAA-CAGATCGAATATAGCAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
111590842 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * * ** * *
111590886 CCTGTGCTTATAGGGAA-CA-AGTTGAAAACAGCAAAATTTGGCATA
1 CCTGTGCTTACAGTGAAGCAGA-TCGAAGA-TTC-AGA--TGGCATC
* * * * ** *
111590931 CCTATGCTTATAGGGAA-CAGATCGAAGATAGCAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
*
111590975 CCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCAG-ATGGCATC
* * * * **
111591019 CCTGTGCTTATAGGGAA-CA-AGTTGAAAACAGCAGATTTGGCATC
1 CCTGTGCTTACAGTGAAGCAGA-TCGAAGA-TTCAGA--TGGCATC
* * * ** *
111591063 CCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAGATCTGATATT
1 CCTGTGCTTACAGTGAAGCAGATCGAAGAT-TCAGA--TGGCATC
* * *
111591107 CTTGTGCTTACAATGAAGCAGATCGAAGATTTCATCATGGCATC
1 CCTGTGCTTACAGTGAAGCAGATCGAAGA-TTCA-GATGGCATC
111591151 CCTGTG
1 CCTGTG
111591157 TTTATAGGGA
Statistics
Matches: 1068, Mismatches: 252, Indels: 194
0.71 0.17 0.13
Matches are distributed among these distances:
41 2 0.00
42 26 0.02
43 122 0.11
44 618 0.58
45 275 0.26
46 25 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (42 bp):
CCTGTGCTTACAGTGAAGCAGATCGAAGATTCAGATGGCATC
Found at i:111589779 original size:88 final size:87
Alignment explanation
Indices: 111589675--111591166 Score: 948
Period size: 88 Copynumber: 16.9 Consensus size: 87
111589665 GGAGCAGACT
* * * * * *
111589675 GAAGATAGCAGTTCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAAACTTCAGCA-TGGCAT
1 GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAGATCGAAGACTGCAG-ATTGGCAT
*
111589739 CCCTATGCTTATAGGGAACAGATC
64 CCCTGTGCTTATAGGGAACAGATC
** * * * * *
111589763 GAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGAATGGCATC
1 GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAGATCGAAGACTGCAGATTGGCATC
*
111589828 CCTGTGCTTATAGGGAACA-AGTT
65 CCTGTGCTTATAGGGAACAGA-TC
* * * * * **
111589851 GAA-AGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGA-TAGAAGATCTGATA
1 GAAGA-TAGCAGATCTGGCATTCCTGTGCTTATAGGGAACAGATCGAAGACT-GCAGAT-TGGCA
* * *
111589914 TTCCTGTGCTTACAGTGAAGCAGATC
63 TCCCTGTGCTTATAGGGAA-CAGATC
** * * *
111589940 GAAGATTTCAG--CATGGCA-TCTCTGTGCTTATAGGGAACTAG-TTGAAAACAGCAGATTTGGC
1 GAAGATAGCAGATC-TGGCATTC-CTGTGCTTATAGGGAAC-AGATCGAAGACTGCAGA-TTGGC
111590001 ATCCCTGTGCTTATAGGGAACAGATC
62 ATCCCTGTGCTTATAGGGAACAGATC
** * * * *
111590027 GAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA-TGGCAT
1 GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAGATCGAAGACTGCAG-ATTGGCAT
*
111590091 CCCT-TGCTTATAGGGAACA-AGTT
64 CCCTGTGCTTATAGGGAACAGA-TC
* * * * * **
111590114 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGA-TAACAGATCTGATAT
1 GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAACAGATCGAAGACT-GCAGAT-TGGCAT
* * *
111590178 TCCTGTGCTTACAGTGAAGCAGATC
64 CCCTGTGCTTATAGGGAA-CAGATC
** * * * * *
111590203 GAAGATTTCA-A-CATGGAATCCCTGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCA
1 GAAGATAGCAGATC-TGGCATTCCTGTGCTTATAGGGAACAGA-TCGAAGACTGCAGA-TTGGCA
111590265 TCCCTGTGCTTATAGGGAACAGATC
63 TCCCTGTGCTTATAGGGAACAGATC
* ** * * * *
111590290 AAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA-TGGCAT
1 GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAGATCGAAGACTGCAG-ATTGGCAT
* *
111590354 CCCTGTGTTTATAGGGAACTAG-TT
64 CCCTGTGCTTATAGGGAAC-AGATC
* * * * * * * **
111590378 AAAAACAGCAGAATTTGGCATCCCTGTGCTTATAGGGAATAGATCGAAGA-TAGAAGATCTGATA
1 GAAGATAGCAG-ATCTGGCATTCCTGTGCTTATAGGGAACAGATCGAAGACT-GCAGAT-TGGCA
* * * *
111590442 TTCTTGTGCTTACAGTGAAACAGATC
63 TCCCTGTGCTTATAG-GGAACAGATC
** * * * * *
111590468 GAAGATTTCAG--CATGGCATCCCTGTGCTTATACGGAACA-AGTTGAAAACAGCAGAATTTGGC
1 GAAGATAGCAGATC-TGGCATTCCTGTGCTTATAGGGAACAGA-TCGAAGACTGCAG-A-TTGGC
* *
111590530 ATACCTATGCTTATAGGGAACAGATC
62 ATCCCTGTGCTTATAGGGAACAGATC
** * * * *
111590556 GAAGATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA-TGGCAT
1 GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAGATCGAAGACTGCAG-ATTGGCAT
* *
111590620 CCCTGTGTTTATAGGGAACA-AGTT
64 CCCTGTGCTTATAGGGAACAGA-TC
* * * **
111590644 GAAAATAGCAGATTTGGCA-TCCTTGTGCTTATAGGGAACAGATCGAAGA-TAGTAGATCTGATA
1 GAAGATAGCAGATCTGGCATTCC-TGTGCTTATAGGGAACAGATCGAAGACT-GCAGAT-TGGCA
* * * *
111590707 TTCCTGTGTTTACAGTGAAGCAGATC
63 TCCCTGTGCTTATAGGGAA-CAGATC
** * * * * * *
111590733 GAAGATTTCAG--CATGGCATCCCTTTGCTTATACGGAACTAG-TTGAAAACAGCAGAATTTGGC
1 GAAGATAGCAGATC-TGGCATTCCTGTGCTTATAGGGAAC-AGATCGAAGACTGCAG-A-TTGGC
111590795 ATCCCTGTGCTTATAGGGAACAGATC
62 ATCCCTGTGCTTATAGGGAACAGATC
* ** * * * *
111590821 GAATATAGCAGATCTGATATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA-TGGCAT
1 GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAGATCGAAGACTGCAG-ATTGGCAT
*
111590885 CCCTGTGCTTATAGGGAACA-AGTT
64 CCCTGTGCTTATAGGGAACAGA-TC
* * * * * * **
111590909 GAAAACAGCAAAATTTGGCATACCTATGCTTATAGGGAACAGATCGAAGA-TAGCAGATCTGATA
1 GAAGATAGC-AGATCTGGCATTCCTGTGCTTATAGGGAACAGATCGAAGACT-GCAGAT-TGGCA
* * *
111590973 TTCCTGTGCTTACAGTGAAGCAGATC
63 TCCCTGTGCTTATAGGGAA-CAGATC
** * * *
111590999 GAAGATTTCAG--CATGGCATTCCTGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCA
1 GAAGATAGCAGATC-TGGCATTCCTGTGCTTATAGGGAACAGA-TCGAAGACTGCAGA-TTGGCA
111591061 TCCCTGTGCTTATAGGGAACAGATC
63 TCCCTGTGCTTATAGGGAACAGATC
** * * ** * * *
111591086 GAAGATAGCAGATCTGATATTCTTGTGCTTACAATGAAGCAGATCGAAGATTTCATCA-TGGCAT
1 GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAGATCGAAGACTGCA-GATTGGCAT
*
111591150 CCCTGTGTTTATAGGGA
64 CCCTGTGCTTATAGGGA
111591167 TCAAAGAGGA
Statistics
Matches: 1073, Mismatches: 247, Indels: 168
0.72 0.17 0.11
Matches are distributed among these distances:
85 2 0.00
86 18 0.02
87 138 0.13
88 638 0.59
89 222 0.21
90 53 0.05
91 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (87 bp):
GAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAACAGATCGAAGACTGCAGATTGGCATCC
CTGTGCTTATAGGGAACAGATC
Found at i:111590476 original size:133 final size:132
Alignment explanation
Indices: 111589733--111591166 Score: 2483
Period size: 132 Copynumber: 10.8 Consensus size: 132
111589723 AACTTCAGCA
*
111589733 TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111589798 GAAGCAGATCGAAGATTTCAGAATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
111589863 TT
131 TT
* *
111589865 TGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGAAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111589930 GAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGCTTATAGGGAACTAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
111589995 TT
131 TT
111589997 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
111590062 GAAGCAGATCGAAGATTTCAGCATGGCATCCCT-TGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
111590126 TT
131 TT
*
111590128 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111590193 GAAGCAGATCGAAGATTTCAACATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
111590258 TT
131 TT
*
111590260 TGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* * *
111590325 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACTAGTTAAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG-
111590390 ATT
130 ATT
* * *
111590393 TGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAGAAGATCTGATATTCTTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111590458 GAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG-
111590523 ATT
130 ATT
* *
111590526 TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111590591 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
111590656 TT
131 TT
* * *
111590658 TGGCATCCTTGTGCTTATAGGGAACAGATCGAAGATAGTAGATCTGATATTCCTGTGTTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* * *
111590723 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTTTGCTTATACGGAACTAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG-
111590788 ATT
130 ATT
*
111590791 TGGCATCCCTGTGCTTATAGGGAACAGATCGAATATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
*
111590856 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAAA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGC-AG
111590921 ATT
130 ATT
* *
111590924 TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
*
111590989 GAAGCAGATCGAAGATTTCAGCATGGCATTCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
111591054 TT
131 TT
* *
111591056 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCTTGTGCTTACAAT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111591121 GAAGCAGATCGAAGATTTCATCATGGCATCCCTGTGTTTATAGGGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGA
111591167 TCAAAGAGGA
Statistics
Matches: 1229, Mismatches: 69, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
131 127 0.10
132 605 0.49
133 496 0.40
134 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:111590673 original size:398 final size:398
Alignment explanation
Indices: 111589733--111591166 Score: 2550
Period size: 398 Copynumber: 3.6 Consensus size: 398
111589723 AACTTCAGCA
*
111589733 TGGCATCCCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111589798 GAAGCAGATCGAAGATTTCAGAATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
*
111589863 TTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGAAGATCTGATATTCCTGTGCTTACA
131 TTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACA
*
111589928 GTGAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGCTTATAGGGAACTAGTTGAAAACAGCA
196 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACTAGTTGAAAACAGCA
111589993 G-ATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTT
261 GAATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTT
111590057 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCT-TGCTTATAGGGAACAAGTTGAAAACA
326 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
111590121 GCAG-ATT
391 GCAGAATT
* * *
111590128 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111590193 GAAGCAGATCGAAGATTTCAACATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
111590258 TTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACA
131 TTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACA
* *
111590323 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACTAGTTAAAAACAGCA
196 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACTAGTTGAAAACAGCA
* * *
111590388 GAATTTGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAGAAGATCTGATATTCTTGTGCTT
261 GAATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTT
* *
111590453 ACAGTGAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATACGGAACAAGTTGAAAACA
326 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
111590518 GCAGAATT
391 GCAGAATT
111590526 TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
* *
111590591 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
* * * *
111590656 TTTGGCATCCTTGTGCTTATAGGGAACAGATCGAAGATAGTAGATCTGATATTCCTGTGTTTACA
131 TTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACA
* *
111590721 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTTTGCTTATACGGAACTAGTTGAAAACAGCA
196 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACTAGTTGAAAACAGCA
*
111590786 GAATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAATATAGCAGATCTGATATTCCTGTGCTT
261 GAATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTT
111590851 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
326 ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
*
111590916 GCAAAATT
391 GCAGAATT
111590924 TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
1 TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
*
111590989 GAAGCAGATCGAAGATTTCAGCATGGCATTCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
* *
111591054 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCTTGTGCTTACA
131 TTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACA
* * *
111591119 ATGAAGCAGATCGAAGATTTCATCATGGCATCCCTGTGTTTATAGGGA
196 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGA
111591167 TCAAAGAGGA
Statistics
Matches: 987, Mismatches: 49, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
395 251 0.25
396 97 0.10
397 29 0.03
398 610 0.62
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (398 bp):
TGGCATACCTATGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGATATTCCTGTGCTTACA
GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACTAGTTGAAAACAGCA
GAATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTT
ACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
GCAGAATT
Found at i:111591214 original size:44 final size:45
Alignment explanation
Indices: 111591165--111591262 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
111591155 TGTTTATAGG
* * * *
111591165 GATCAAAGAGGACAGATTTTGTGTCTCTGTATT-GTCAGAGAGCA
1 GATCAAAGAGAACAGATTTGGCGTCTCTGTATTAGACAGAGAGCA
* * * *
111591209 GATCAAAGATAACAGATTTGGCGTCTTTGTATTAGACGGGGAGCA
1 GATCAAAGAGAACAGATTTGGCGTCTCTGTATTAGACAGAGAGCA
111591254 GATCAAAGA
1 GATCAAAGA
111591263 TAGTAGATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 28 0.62
45 17 0.38
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (45 bp):
GATCAAAGAGAACAGATTTGGCGTCTCTGTATTAGACAGAGAGCA
Found at i:111596362 original size:26 final size:26
Alignment explanation
Indices: 111596326--111596409 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
111596316 CATGAAATTC
111596326 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
111596352 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
111596378 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
111596404 TTATCA
1 TTATCA
111596410 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:111601491 original size:16 final size:16
Alignment explanation
Indices: 111601470--111601521 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
111601460 CATTTAATTA
111601470 AAAATATTTAAACATT
1 AAAATATTTAAACATT
*
111601486 AAAATAATT--A-ATT
1 AAAATATTTAAACATT
111601499 AAATATATTTAAACATT
1 AAA-ATATTTAAACATT
111601516 AAAATA
1 AAAATA
111601522 ATCAAAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 6 0.20
14 6 0.20
16 12 0.40
17 6 0.20
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATATTTAAACATT
Found at i:111601499 original size:30 final size:30
Alignment explanation
Indices: 111601463--111601523 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
111601453 ATTGACACAT
111601463 TTAATTAAAAATATTTAAACATTAAAATAA
1 TTAATTAAAAATATTTAAACATTAAAATAA
*
111601493 TTAATTAAATATATTTAAACATTAAAATAA
1 TTAATTAAAAATATTTAAACATTAAAATAA
111601523 T
1 T
111601524 CAAAAAGTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (30 bp):
TTAATTAAAAATATTTAAACATTAAAATAA
Found at i:111607557 original size:21 final size:21
Alignment explanation
Indices: 111607532--111607595 Score: 119
Period size: 21 Copynumber: 3.0 Consensus size: 21
111607522 TATTCACATG
111607532 CCAAACAACCAATTTATTATT
1 CCAAACAACCAATTTATTATT
111607553 CCAAACAACCAATTTATTATT
1 CCAAACAACCAATTTATTATT
*
111607574 CCAACCAACCAATTTATTATT
1 CCAAACAACCAATTTATTATT
111607595 C
1 C
111607596 ACATGCCAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.33
Consensus pattern (21 bp):
CCAAACAACCAATTTATTATT
Found at i:111609173 original size:30 final size:29
Alignment explanation
Indices: 111609138--111609272 Score: 134
Period size: 30 Copynumber: 4.7 Consensus size: 29
111609128 TTTAACGAAC
*
111609138 TTGCTCACACAAGTTGACTTTATATTAAAA
1 TTGCTCACACAAGCTGACTTTATA-TAAAA
* * * *
111609168 TTGCTCACATAAGTTGACTTTGTA-ATAA
1 TTGCTCACACAAGCTGACTTTATATAAAA
*
111609196 TTGCTCACACAAGCTAACTTTATAATAAAA
1 TTGCTCACACAAGCTGACTTTAT-ATAAAA
* * * *
111609226 TTGTTCACACATGCTGAC-TT-TGTGAAA
1 TTGCTCACACAAGCTGACTTTATATAAAA
111609253 -TGCTCACACAAGCTGACTTT
1 TTGCTCACACAAGCTGACTTT
111609273 GTAATACTTC
Statistics
Matches: 87, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.17
27 6 0.07
28 23 0.26
29 3 0.03
30 40 0.46
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (29 bp):
TTGCTCACACAAGCTGACTTTATATAAAA
Found at i:111609176 original size:28 final size:27
Alignment explanation
Indices: 111609145--111609234 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 27
111609135 AACTTGCTCA
111609145 CACAAGTTGACTTTATATTAAAATTGCT
1 CACAAGTTGACTTTATA-TAAAATTGCT
* *
111609173 CACATAAGTTGACTTTGTA-ATAATTGCT
1 CAC--AAGTTGACTTTATATAAAATTGCT
* * *
111609201 CACACAAGCTAACTTTATAATAAAATTGTT
1 --CACAAGTTGACTTTAT-ATAAAATTGCT
111609231 CACA
1 CACA
111609235 CATGCTGACT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
28 25 0.51
29 1 0.02
30 23 0.47
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (27 bp):
CACAAGTTGACTTTATATAAAATTGCT
Found at i:111609216 original size:58 final size:57
Alignment explanation
Indices: 111609138--111609278 Score: 185
Period size: 58 Copynumber: 2.5 Consensus size: 57
111609128 TTTAACGAAC
* * * *
111609138 TTGCTCACACAAGTTGACTTTATATTAAAATTGCTCACATAAGTTGACTTTGTAATAA
1 TTGCTCACACAAGCTGACTTTATAATAAAATTGCTCACACAAGCTGACTTTGTAA-AA
* * * *
111609196 TTGCTCACACAAGCTAACTTTATAATAAAATTGTTCACACATGCTGACTTTGTGAAA
1 TTGCTCACACAAGCTGACTTTATAATAAAATTGCTCACACAAGCTGACTTTGTAAAA
*
111609253 -TGCTCACACAAGCTGACTTTGTAATA
1 TTGCTCACACAAGCTGACTTTATAATA
111609279 CTTCCATACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 24 0.33
57 2 0.03
58 47 0.64
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (57 bp):
TTGCTCACACAAGCTGACTTTATAATAAAATTGCTCACACAAGCTGACTTTGTAAAA
Found at i:111610751 original size:12 final size:13
Alignment explanation
Indices: 111610728--111610757 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
111610718 AATATTATGT
111610728 AATATATAATATA
1 AATATATAATATA
111610741 AATATAT-ATATA
1 AATATATAATATA
111610753 AATAT
1 AATAT
111610758 CAAGTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATATAATATA
Found at i:111611997 original size:28 final size:28
Alignment explanation
Indices: 111611965--111612032 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
111611955 AAATTTTGGG
* * *
111611965 TTTGGGCTTTGTGGGTTAGAAGATAGGT
1 TTTGGGCTTAGGGGGTTAGAAAATAGGT
*
111611993 TTTGGG-TTAGGGGGTTAGAAAATTGGT
1 TTTGGGCTTAGGGGGTTAGAAAATAGGT
111612020 TTTGGGC-TAGGGG
1 TTTGGGCTTAGGGG
111612033 CCAAACGGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 29 0.83
28 6 0.17
ACGTcount: A:0.18, C:0.03, G:0.43, T:0.37
Consensus pattern (28 bp):
TTTGGGCTTAGGGGGTTAGAAAATAGGT
Found at i:111612891 original size:14 final size:14
Alignment explanation
Indices: 111612872--111612900 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
111612862 GTTCTTTTGA
111612872 GTGTCTTGTGATGT
1 GTGTCTTGTGATGT
111612886 GTGTCTTGTGATGT
1 GTGTCTTGTGATGT
111612900 G
1 G
111612901 AAGTATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.38, T:0.48
Consensus pattern (14 bp):
GTGTCTTGTGATGT
Found at i:111614000 original size:57 final size:57
Alignment explanation
Indices: 111613926--111614094 Score: 311
Period size: 57 Copynumber: 3.0 Consensus size: 57
111613916 TCAATCCAAC
* *
111613926 ATAATCCGAGCAACATTTGGTAAAATATAATTTTTATTTTATCATTTTGAAAAGTAT
1 ATAATCCAAACAACATTTGGTAAAATATAATTTTTATTTTATCATTTTGAAAAGTAT
111613983 ATAATCCAAACAACATTTGGTAAAATATAATTTTTATTTTATCATTTTGAAAAGTAT
1 ATAATCCAAACAACATTTGGTAAAATATAATTTTTATTTTATCATTTTGAAAAGTAT
*
111614040 ATAATCCAAACAACATTTGGTAAAATATAATTTTTATTTTACCATTTTGAAAAGT
1 ATAATCCAAACAACATTTGGTAAAATATAATTTTTATTTTATCATTTTGAAAAGT
111614095 TAGATTTGAA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 109 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (57 bp):
ATAATCCAAACAACATTTGGTAAAATATAATTTTTATTTTATCATTTTGAAAAGTAT
Found at i:111614040 original size:29 final size:28
Alignment explanation
Indices: 111613947--111614040 Score: 66
Period size: 28 Copynumber: 3.3 Consensus size: 28
111613937 AACATTTGGT
111613947 AAAATATAATTTTTATTTTATCATTTTG
1 AAAATATAATTTTTATTTTATCATTTTG
* ** *** * *
111613975 AAAAGTAT-ATAATCCA-AACAACATTTGG
1 AAAA-TATAAT-TTTTATTTTATCATTTTG
111614003 TAAAATATAATTTTTATTTTATCATTTTG
1 -AAAATATAATTTTTATTTTATCATTTTG
111614032 AAAAGTATA
1 AAAA-TATA
111614041 TAATCCAAAC
Statistics
Matches: 44, Mismatches: 16, Indels: 11
0.62 0.23 0.15
Matches are distributed among these distances:
28 22 0.50
29 22 0.50
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (28 bp):
AAAATATAATTTTTATTTTATCATTTTG
Found at i:111614068 original size:28 final size:29
Alignment explanation
Indices: 111613975--111614068 Score: 70
Period size: 28 Copynumber: 3.3 Consensus size: 29
111613965 TATCATTTTG
111613975 AAAAGTATATAATCCAAACAACATTTGGT
1 AAAAGTATATAATCCAAACAACATTTGGT
* ** *** * *
111614004 AAAA-TATA-ATTTTTATTTTATCATTTTG-
1 AAAAGTATATA-ATCCA-AACAACATTTGGT
111614032 AAAAGTATATAATCCAAACAACATTTGGT
1 AAAAGTATATAATCCAAACAACATTTGGT
111614061 AAAA-TATA
1 AAAAGTATA
111614069 ATTTTTATTT
Statistics
Matches: 44, Mismatches: 16, Indels: 11
0.62 0.23 0.15
Matches are distributed among these distances:
27 1 0.02
28 21 0.48
29 21 0.48
30 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (29 bp):
AAAAGTATATAATCCAAACAACATTTGGT
Found at i:111614414 original size:10 final size:10
Alignment explanation
Indices: 111614390--111614432 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
111614380 ACCCGTATTA
*
111614390 ATTTTTTAAT
1 ATTTTTAAAT
*
111614400 TTTTTTAAAT
1 ATTTTTAAAT
*
111614410 ATTTTTATAT
1 ATTTTTAAAT
111614420 AATTTTTAAAT
1 -ATTTTTAAAT
111614431 AT
1 AT
111614433 ATATAATACA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:111614753 original size:21 final size:22
Alignment explanation
Indices: 111614713--111614760 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
111614703 CATGTCTATA
*
111614713 TTTTTACTCAAACCCTTCAATT
1 TTTTTACTCAAACCCTTCAAAT
111614735 TTTTTACTCAAACCC-TCAAAT
1 TTTTTACTCAAACCCTTCAAAT
111614756 TTTTT
1 TTTTT
111614761 CGAGCTGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTTACTCAAACCCTTCAAAT
Found at i:111619556 original size:16 final size:16
Alignment explanation
Indices: 111619537--111619568 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
111619527 AAGAATCATA
*
111619537 CTTTAAAAAATCTTTT
1 CTTTAAAAAACCTTTT
111619553 CTTTAAAAAACCTTTT
1 CTTTAAAAAACCTTTT
111619569 GGTATAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (16 bp):
CTTTAAAAAACCTTTT
Found at i:111652867 original size:26 final size:26
Alignment explanation
Indices: 111652811--111652891 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
111652801 ATGAAATTCC
111652811 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
*
111652836 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111652862 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111652888 ATCA
1 ATCA
111652892 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
25 19 0.36
26 34 0.64
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:111659915 original size:26 final size:26
Alignment explanation
Indices: 111659885--111659985 Score: 184
Period size: 26 Copynumber: 3.9 Consensus size: 26
111659875 CCAATTATGG
111659885 AACATTTACCTAACCCATTATCATGA
1 AACATTTACCTAACCCATTATCATGA
111659911 AACATTTACCTAACCCATTATCATGA
1 AACATTTACCTAACCCATTATCATGA
* *
111659937 AACATTTACCTAACTCATTATCATGG
1 AACATTTACCTAACCCATTATCATGA
111659963 AACATTTACCTAACCCATTATCA
1 AACATTTACCTAACCCATTATCA
111659986 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.32
Consensus pattern (26 bp):
AACATTTACCTAACCCATTATCATGA
Found at i:111661125 original size:28 final size:26
Alignment explanation
Indices: 111661084--111661145 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
111661074 CTACAATGAG
*
111661084 TATAATTTAAAAATTAAATGGAGTACAAA
1 TATAATTTAAAAA-T-AAT-GAGTAAAAA
*
111661113 -ATAATTTTAAAATAATGAGTAAAAA
1 TATAATTTAAAAATAATGAGTAAAAA
111661138 TATAATTT
1 TATAATTT
111661146 GAGATAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 8 0.27
26 10 0.33
27 1 0.03
28 11 0.37
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (26 bp):
TATAATTTAAAAATAATGAGTAAAAA
Done.