Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 138 of 316
Found at i:44095254 original size:29 final size:29
Alignment explanation
Indices: 44095187--44095311 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
44095177 AAGTCTACAT
*
44095187 ACATCCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
44095215 TCATTCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
44095244 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* **
44095273 ACATTCCTATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
44095302 ACATTCATAT
1 ACATTCATAT
44095312 ACATGCTTTC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 22 0.25
29 66 0.75
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:44095545 original size:16 final size:16
Alignment explanation
Indices: 44095521--44095558 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
44095511 GTAGCCAAAC
44095521 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
44095537 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
44095553 TTTCAG
1 TTTCAG
44095559 GATTTGCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.45
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:44099188 original size:10 final size:11
Alignment explanation
Indices: 44099149--44099190 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
44099139 TATTTACGAA
*
44099149 GTTAATTTAGTG
1 GTTAA-TTAGAG
44099161 GTTAATTAGAG
1 GTTAATTAGAG
*
44099172 TTTAATTA-AG
1 GTTAATTAGAG
44099182 GTTAATTAG
1 GTTAATTAG
44099191 GTATAAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 12 0.46
12 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:44099660 original size:24 final size:23
Alignment explanation
Indices: 44099633--44099685 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
44099623 TATGTATTTG
44099633 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
44099657 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
44099678 TTATTAAA
1 TTATTAAA
44099686 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:44099825 original size:16 final size:16
Alignment explanation
Indices: 44099804--44099850 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
44099794 ATGAATTAAA
44099804 TATTATTATATTATAT
1 TATTATTATATTATAT
* *
44099820 TATTATTATAATGTAT
1 TATTATTATATTATAT
*
44099836 TATTACTAATATTAT
1 TATTA-TTATATTAT
44099851 TAACTAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:44099836 original size:13 final size:12
Alignment explanation
Indices: 44099808--44099852 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
44099798 ATTAAATATT
44099808 ATTA-TATTAT-
1 ATTATTATTATA
44099818 ATTATTATTATA
1 ATTATTATTATA
44099830 ATGTATTATTACTA
1 AT-TATTATTA-TA
44099844 A-TATTATTA
1 ATTATTATTA
44099853 ACTAATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.13
11 6 0.19
12 10 0.32
13 8 0.26
14 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:44106488 original size:16 final size:16
Alignment explanation
Indices: 44106467--44106513 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
44106457 ATGAATTAAA
44106467 TATTATTATATTATAT
1 TATTATTATATTATAT
*
44106483 TATTATTATAATGA-AT
1 TATTATTAT-ATTATAT
44106499 TATTATTAATATTAT
1 TATTATT-ATATTAT
44106514 TAACTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:44106491 original size:19 final size:21
Alignment explanation
Indices: 44106465--44106515 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
44106455 TTATGAATTA
44106465 AATATTATTAT-ATTA-TATT
1 AATATTATTATAATTATTATT
* *
44106484 ATTATTATAATGAATTATTATT
1 AATATTATTAT-AATTATTATT
44106506 AATATTATTA
1 AATATTATTA
44106516 ACTAATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 9 0.36
21 4 0.16
22 12 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATATTATTATAATTATTATT
Found at i:44108397 original size:50 final size:50
Alignment explanation
Indices: 44108273--44108514 Score: 229
Period size: 50 Copynumber: 4.8 Consensus size: 50
44108263 AGCCGAAGCT
* * * * * *
44108273 ATCTGATACGCATAGTAGCCTGCACTTCGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
44108322 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * * *
44108372 ATCTGATATACGTAGTAGCCTGCACTTAGTAATACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
** * * * *
44108423 AT-TGAATATGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTG-ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
44108472 AGTATGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
44108515 TACTCACAAT
Statistics
Matches: 156, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 40 0.26
50 76 0.49
51 40 0.26
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:44117455 original size:93 final size:93
Alignment explanation
Indices: 44117341--44117513 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
44117331 CCGCCCATAA
* *
44117341 GCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 GCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
44117406 AACGAGTTCGGATGCCTAGTTACATCTC
66 AACGAGTTCGGATGCCTAGTTACATCTC
* *
44117434 GCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 GCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
44117499 AACGAGTTCGGATGC
66 AACGAGTTCGGATGC
44117514 TCAACCATCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
AACGAGTTCGGATGCCTAGTTACATCTC
Found at i:44117510 original size:46 final size:46
Alignment explanation
Indices: 44117335--44117510 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
44117325 TGTAACCCGC
* * * *
44117335 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
44117381 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
44117431 -C-T-CGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44117474 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44117511 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 63 0.57
47 30 0.27
48 1 0.01
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44117529 original size:46 final size:45
Alignment explanation
Indices: 44117386--44117529 Score: 150
Period size: 46 Copynumber: 3.1 Consensus size: 45
44117376 CGCATCCATA
44117386 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * * *
44117433 CGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCT
44117479 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
44117525 AGTGA
1 AGTGA
44117530 CATGTCACTT
Statistics
Matches: 80, Mismatches: 11, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
44 9 0.11
46 34 0.43
47 32 0.40
49 4 0.05
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:44124530 original size:93 final size:93
Alignment explanation
Indices: 44124418--44124589 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44124408 CGCCCATAAG
* *
44124418 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44124483 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44124511 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44124576 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44124590 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44124586 original size:46 final size:46
Alignment explanation
Indices: 44124411--44124586 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44124401 TGTAACCCGC
* * *
44124411 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
44124457 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
44124507 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44124550 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44124587 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44136191 original size:86 final size:85
Alignment explanation
Indices: 44136085--44136245 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 85
44136075 AGGATTTTGT
* *
44136085 TATCTGTTTTCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGACT-TTT-ATTTTACATGTAA
1 TATCTGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGA-TGTTTGA--TTACATGTAA
*
44136146 GACCATGTCTGGGACATCGGTATCG
61 GACCAGGTCTGGGACATCGGTATCG
44136171 TATCTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGATTACATGTAAGACCA
1 TATCTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGATTACATGTAAGACCA
44136236 GGTCTGGGAC
66 GGTCTGGGAC
44136246 GTTGGCATTG
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
85 26 0.38
86 40 0.59
87 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (85 bp):
TATCTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATGTTTGATTACATGTAAGACCA
GGTCTGGGACATCGGTATCG
Found at i:44136233 original size:43 final size:42
Alignment explanation
Indices: 44136136--44136245 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
44136126 GACTTTTATT
*
44136136 TTACATGTAAGACCATGTCTGGGACATCGGTATCGTATCTGA
1 TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATCTGA
* * * * * *
44136178 TTTCGTGTAAGACCCTGTCTGGGATAGT-GGCATCGATGTTTGA
1 TTACATGTAAGACCATGTCTGGGACA-TCGGCATCG-TATCTGA
*
44136221 TTACATGTAAGACCAGGTCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
44136246 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATCTGA
Found at i:44136252 original size:43 final size:42
Alignment explanation
Indices: 44136097--44136253 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
44136087 TCTGTTTTCG
*
44136097 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTTT-ATTTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TTTTGA--TTACA
* * * * * *
44136141 TGTAAGACCATGTCTGGGACATCGGTATCG-TATCTGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGAT-TTTGATTACA
* *
44136183 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGA-CGTTGGCATCGAT-TTTGATTACA
*
44136226 TGTAAGACCAGGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
44136254 TGTATATGTT
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 29 0.33
43 33 0.37
44 27 0.30
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATTTTGATTACA
Found at i:44158070 original size:130 final size:131
Alignment explanation
Indices: 44157725--44158285 Score: 543
Period size: 131 Copynumber: 4.3 Consensus size: 131
44157715 ATATAACAAT
* * * * * * * * * *
44157725 AAAATAAATTGTTACTAAATATTATATTATTAGGAACGACTTTAAAATGTTGTTACATAATTTAA
1 AAAATAAGTTGTTGCTAAATGTTAAAATATTAGCAACAACCTTAAAATATCGTTACATAATTTAA
* * * * ** *
44157790 TTGTATACTTATTCATTGCAACAACATGATTTTTCATTACAAATTCTTAATAAAATGCGTAACGA
66 TTTTATGCTTATTCATTGCAACAACATGATTTGTCATTGCAAATTCTTAATAAAATTTGTAAAGA
44157855 TC
131 -C
* * *
44157857 -AAATAAATTGTTGCTAAATGTTAAAATATTAGTAACAACCTTAAAATGTCGTTACATAATTTAA
1 AAAATAAGTTGTTGCTAAATGTTAAAATATTAGCAACAACCTTAAAATATCGTTACATAATTTAA
*
44157921 TTTTATGCTTATTCATTGCAACAATATGATTTGTCATTGCAAATTCTTAATAAAATTTGTAAAGA
66 TTTTATGCTTATTCATTGCAACAACATGATTTGTCATTGCAAATTCTTAATAAAATTTGTAAAGA
44157986 C
131 C
* * * **
44157987 AAAATAAGTTGTTG-TAAATGTTACAATATTAGCAACAGCTTTAAAATATCGTTATGTAATTTAA
1 AAAATAAGTTGTTGCTAAATGTTAAAATATTAGCAACAACCTTAAAATATCGTTACATAATTTAA
** ** * *
44158051 TTTTATGCTTATTCATTGCAATGACACAATTTTTCATTGCAAATTCTCAATAAAATTTGT-AAG-
66 TTTTATGCTTATTCATTGCAACAACATGATTTGTCATTGCAAATTCTTAATAAAATTTGTAAAGA
*
44158114 T
131 C
** ** * * * *
44158115 AAAA-AACATG-T--TAAACATTAAAATATTAGCAACAACCTTAAAATATTGATACGTAATTTAT
1 AAAATAAGTTGTTGCTAAATGTTAAAATATTAGCAACAACCTTAAAATATCGTTACATAATTTAA
* * * ** * *
44158176 TTTTCTGCTTATTAATAGCAATGACATGATTTGAT-ATTGTGAAATAC-TAATAAAATTTGTAAC
66 TTTTATGCTTATTCATTGCAACAACATGATTTG-TCATTG-CAAATTCTTAATAAAATTTGTAA-
44158239 A-AC
128 AGAC
** *
44158242 AAAATAAGTCATTGTTAAATGTT-AAATATTAGCAACAACCTTAA
1 AAAATAAGTTGTTGCTAAATGTTAAAATATTAGCAACAACCTTAA
44158286 GATGTTGTTG
Statistics
Matches: 360, Mismatches: 59, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
125 84 0.23
126 8 0.02
127 9 0.03
128 6 0.02
129 4 0.01
130 118 0.33
131 131 0.36
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (131 bp):
AAAATAAGTTGTTGCTAAATGTTAAAATATTAGCAACAACCTTAAAATATCGTTACATAATTTAA
TTTTATGCTTATTCATTGCAACAACATGATTTGTCATTGCAAATTCTTAATAAAATTTGTAAAGA
C
Found at i:44158201 original size:125 final size:130
Alignment explanation
Indices: 44157752--44158285 Score: 437
Period size: 130 Copynumber: 4.1 Consensus size: 130
44157742 AATATTATAT
* * * * * * * * ** *
44157752 TATTAGGAACGACTTTAAAATGTTGTTACATAATTTAATTGTATACTTATTCATTGCAACAACAT
1 TATTAGCAACAACCTTAAAATATCGTTACGTAATTTAATTTTATGCTTATTCATTGCAATGACAC
* * * * ** * **
44157817 GATTTTTCATTACAAATTCTTAATAAAATGCGTAACGATC-AAATAA-ATTGTTGCTAAATGTTA
66 AATTTGTCATTGCAAATTCTCAATAAAATTTGTAAAGA-CAAAATAACA-TGTTG-TAAACATTA
44157880 AAA
128 AAA
* * * ** * *
44157883 TATTAGTAACAACCTTAAAATGTCGTTACATAATTTAATTTTATGCTTATTCATTGCAACAATAT
1 TATTAGCAACAACCTTAAAATATCGTTACGTAATTTAATTTTATGCTTATTCATTGCAATGACAC
* * ** ** *
44157948 GATTTGTCATTGCAAATTCTTAATAAAATTTGTAAAGACAAAATAAGTTGTTGTAAATGTTACAA
66 AATTTGTCATTGCAAATTCTCAATAAAATTTGTAAAGACAAAATAACATGTTGTAAACATTAAAA
* * *
44158013 TATTAGCAACAGCTTTAAAATATCGTTATGTAATTTAATTTTATGCTTATTCATTGCAATGACAC
1 TATTAGCAACAACCTTAAAATATCGTTACGTAATTTAATTTTATGCTTATTCATTGCAATGACAC
* *
44158078 AATTTTTCATTGCAAATTCTCAATAAAATTTGT-AAG-TAAAA-AACATG-T-TAAACATTAAAA
66 AATTTGTCATTGCAAATTCTCAATAAAATTTGTAAAGACAAAATAACATGTTGTAAACATTAAAA
* * * * * * *
44158138 TATTAGCAACAACCTTAAAATATTGATACGTAATTTATTTTTCTGCTTATTAATAGCAATGACAT
1 TATTAGCAACAACCTTAAAATATCGTTACGTAATTTAATTTTATGCTTATTCATTGCAATGACAC
* * * *
44158203 GATTTGAT-ATTGTGAAATACT-AATAAAATTTGTAACA-ACAAAATAAGTCA--TTGTTAA-AT
66 AATTTG-TCATTG-CAAATTCTCAATAAAATTTGTAA-AGACAAAATAA--CATGTTGTAAACAT
*
44158262 GTTAAA
126 -TAAAA
44158268 TATTAGCAACAACCTTAA
1 TATTAGCAACAACCTTAA
44158286 GATGTTGTTG
Statistics
Matches: 340, Mismatches: 50, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
125 84 0.25
126 9 0.03
127 9 0.03
128 6 0.02
129 6 0.02
130 124 0.36
131 102 0.30
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.38
Consensus pattern (130 bp):
TATTAGCAACAACCTTAAAATATCGTTACGTAATTTAATTTTATGCTTATTCATTGCAATGACAC
AATTTGTCATTGCAAATTCTCAATAAAATTTGTAAAGACAAAATAACATGTTGTAAACATTAAAA
Found at i:44158232 original size:255 final size:260
Alignment explanation
Indices: 44157764--44158278 Score: 609
Period size: 255 Copynumber: 2.0 Consensus size: 260
44157754 TTAGGAACGA
* * **
44157764 CTTTAAAATGTTGTTACATAATTTAATTGTATACTTATTCATTGCAACAACATGATTTTTCATTA
1 CTTTAAAATATCGTTACATAATTTAATTGTATACTTATTCATTGCAACAACACAATTTTTCATTA
* * ** *
44157829 CAAATTCTTAATAAAATGCGTAACGATCAAATAAATTGTTGCTAAATGTTAAAATATTAGTAACA
66 CAAATTCTCAATAAAATGCGTAACGATCAAATAAAATGTT-CTAAACATTAAAATATTAGCAACA
* * * * *
44157894 ACCTTAAAATGTCGTTACATAATTTAATTTTATGCTTATTCATTGCAACAATATGATTTGTCATT
130 ACCTTAAAATATCGATACATAATTTAATTTTATGCTTATTAATAGCAACAACATGATTTGTCATT
* **
44157959 GCAAATTCTTAATAAAATTTGTAA-AGACAAAATAAGTTGTTG-TAAATGTTACAATATTAGCAA
195 GCAAATACTTAATAAAATTTGTAACA-ACAAAATAAGTCATTGTTAAATGTTA-AATATTAGCAA
44158022 CAG
258 CAG
** * * ** *
44158025 CTTTAAAATATCGTTATGTAATTTAATTTTATGCTTATTCATTGCAATGACACAATTTTTCATTG
1 CTTTAAAATATCGTTACATAATTTAATTGTATACTTATTCATTGCAACAACACAATTTTTCATTA
**
44158090 CAAATTCTCAATAAAATTTGTAA-G-T-AAA-AAACATG-T-TAAACATTAAAATATTAGCAACA
66 CAAATTCTCAATAAAATGCGTAACGATCAAATAAA-ATGTTCTAAACATTAAAATATTAGCAACA
* * * * **
44158149 ACCTTAAAATATTGATACGTAATTTATTTTTCTGCTTATTAATAGCAATGACATGATTTGAT-AT
130 ACCTTAAAATATCGATACATAATTTAATTTTATGCTTATTAATAGCAACAACATGATTTG-TCAT
*
44158213 TGTGAAATAC-TAATAAAATTTGTAACAACAAAATAAGTCATTGTTAAATGTTAAATATTAGCAA
194 TG-CAAATACTTAATAAAATTTGTAACAACAAAATAAGTCATTGTTAAATGTTAAATATTAGCAA
44158277 CA
258 CA
44158279 ACCTTAAGAT
Statistics
Matches: 216, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
255 115 0.53
256 16 0.07
257 4 0.02
258 5 0.02
259 1 0.00
260 1 0.00
261 74 0.34
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.38
Consensus pattern (260 bp):
CTTTAAAATATCGTTACATAATTTAATTGTATACTTATTCATTGCAACAACACAATTTTTCATTA
CAAATTCTCAATAAAATGCGTAACGATCAAATAAAATGTTCTAAACATTAAAATATTAGCAACAA
CCTTAAAATATCGATACATAATTTAATTTTATGCTTATTAATAGCAACAACATGATTTGTCATTG
CAAATACTTAATAAAATTTGTAACAACAAAATAAGTCATTGTTAAATGTTAAATATTAGCAACAG
Found at i:44159808 original size:45 final size:45
Alignment explanation
Indices: 44159757--44159842 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
44159747 ACAACCCAAC
*
44159757 CAGAGCAGAGCAGAACA-ACACAAAACAAAGCAGAGCAGAACAGAG
1 CAGAGCAAAGCAGAACATA-ACAAAACAAAGCAGAGCAGAACAGAG
* *
44159802 CAGAGCAAAGTAGAACATAACAAAACAAAGTAGAGCAGAAC
1 CAGAGCAAAGCAGAACATAACAAAACAAAGCAGAGCAGAAC
44159843 TGAACAGAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 36 0.97
46 1 0.03
ACGTcount: A:0.55, C:0.20, G:0.22, T:0.03
Consensus pattern (45 bp):
CAGAGCAAAGCAGAACATAACAAAACAAAGCAGAGCAGAACAGAG
Found at i:44159841 original size:25 final size:24
Alignment explanation
Indices: 44159763--44159842 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 24
44159753 CAACCAGAGC
*
44159763 AGAGCAGAACAACACAAAACAAAGC
1 AGAGCAGAACAA-ACAAAACAAAGT
* * *
44159788 AGAGCAGAACAGAGCAGAGCAAAGT
1 AGAGCAGAACA-AACAAAACAAAGT
44159813 -----AGAACATAACAAAACAAAGT
1 AGAGCAGAACA-AACAAAACAAAGT
44159833 AGAGCAGAAC
1 AGAGCAGAAC
44159843 TGAACAGAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 16 0.39
25 24 0.59
26 1 0.02
ACGTcount: A:0.56, C:0.19, G:0.21, T:0.04
Consensus pattern (24 bp):
AGAGCAGAACAAACAAAACAAAGT
Found at i:44161390 original size:131 final size:131
Alignment explanation
Indices: 44161036--44161501 Score: 541
Period size: 131 Copynumber: 3.6 Consensus size: 131
44161026 ATACGACTTA
* * **
44161036 AATTCGTAATAAAATTTGTAAAGACAAAATAAGTTGTTG-TAAATGTTAAAATATTAACAACAAC
1 AATTCTTAATAAAATTTGTAAAGACAAAATAAGTTATTGTTAAACATTAAAATATTAACAACAAC
* * * * * *
44161100 CTTAAAATATTGTTATGAAATTTAATTTTATGCTTATTCGTTGCAATGACACAATTTTTCATTGC
66 CTTAAAATATTGTTACGTAATTTAATTTTCTGCTTATTAGTTGCAATGACACAATTTATCATTGT
*
44161165 A
131 G
* * * *
44161166 AATTCTTAATAAAATTTGTAACGA-AAAA-AA-TATGTTGTTAAACATTAAAATCTTAGCAACAA
1 AATTCTTAATAAAATTTGTAAAGACAAAATAAGT-TATTGTTAAACATTAAAATATTAACAACAA
* * * *
44161228 CCTTAAAATATTGATACGTAATTTAATTTTCTGCTTATTAATAGCAATGACACGATTTAT-AGTT
65 CCTTAAAATATTGTTACGTAATTTAATTTTCTGCTTATTAGTTGCAATGACACAATTTATCA-TT
44161292 GTG
129 GTG
* *
44161295 AATTAC-TAATAAAATTTGTAACA-ACAAAATAAGTTATTGTTAAACGTTAAAATATTAGCAACA
1 AATT-CTTAATAAAATTTGTAA-AGACAAAATAAGTTATTGTTAAACATTAAAATATTAACAACA
* * * * * * * * *
44161358 ACCTTAAAATGTCGTTACCTATTTTAACTTTCTACTTATTGGTTGCAATAACATAATTTATCATT
64 ACCTTAAAATATTGTTACGTAATTTAATTTTCTGCTTATTAGTTGCAATGACACAATTTATCATT
44161423 GTG
129 GTG
* * *
44161426 AATTCTTAATAAAGTTTGTAAATGAAAAAATGAGTTATTGTTAAACATTAAAATATTAACAACAA
1 AATTCTTAATAAAATTTGTAAA-GACAAAATAAGTTATTGTTAAACATTAAAATATTAACAACAA
44161491 CCTTAAAATAT
65 CCTTAAAATAT
44161502 CATTTGATTT
Statistics
Matches: 284, Mismatches: 40, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
127 1 0.00
128 8 0.03
129 98 0.35
130 29 0.10
131 99 0.35
132 49 0.17
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (131 bp):
AATTCTTAATAAAATTTGTAAAGACAAAATAAGTTATTGTTAAACATTAAAATATTAACAACAAC
CTTAAAATATTGTTACGTAATTTAATTTTCTGCTTATTAGTTGCAATGACACAATTTATCATTGT
G
Found at i:44161913 original size:21 final size:21
Alignment explanation
Indices: 44161864--44161913 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
44161854 TAGTTAAGAA
*
44161864 AAAAGACTGATCCATTTCTAT
1 AAAAGATTGATCCATTTCTAT
** * *
44161885 AAGGGATTGATCCATTTTTCT
1 AAAAGATTGATCCATTTCTAT
44161906 AAAAGATT
1 AAAAGATT
44161914 AATCGATCTT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
AAAAGATTGATCCATTTCTAT
Found at i:44163375 original size:27 final size:27
Alignment explanation
Indices: 44163335--44163390 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
44163325 TTGTTTTGTT
*
44163335 AAGGTAAGTTTGTATTCCTTGAACTCG
1 AAGGTAAGTGTGTATTCCTTGAACTCG
44163362 AAGGTAAGTGTGTATTCCTTGAACTCG
1 AAGGTAAGTGTGTATTCCTTGAACTCG
44163389 AA
1 AA
44163391 CTTTATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (27 bp):
AAGGTAAGTGTGTATTCCTTGAACTCG
Found at i:44171343 original size:21 final size:21
Alignment explanation
Indices: 44171304--44171343 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44171294 TATTAGCCCT
*
44171304 AATAAGATCTATAAAGTTTAA
1 AATAAGATATATAAAGTTTAA
* *
44171325 AATAAGATATGTAAGGTTT
1 AATAAGATATATAAAGTTT
44171344 TAATAATTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (21 bp):
AATAAGATATATAAAGTTTAA
Found at i:44175416 original size:32 final size:32
Alignment explanation
Indices: 44175380--44175445 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
44175370 AAACAAAGAT
*
44175380 AGCCACAATAGGCAAAATATCTTAAGAAAGGG
1 AGCCACAATAAGCAAAATATCTTAAGAAAGGG
44175412 AGCCACAATAAGCAAAATATCTTAAGAAAGGG
1 AGCCACAATAAGCAAAATATCTTAAGAAAGGG
44175444 AG
1 AG
44175446 GAAGGGAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.15
Consensus pattern (32 bp):
AGCCACAATAAGCAAAATATCTTAAGAAAGGG
Found at i:44176842 original size:34 final size:34
Alignment explanation
Indices: 44176799--44176863 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
44176789 ATTGGTCCTT
44176799 ATGTGGACCCGGACTAAATCAGAGAAACATGCTC
1 ATGTGGACCCGGACTAAATCAGAGAAACATGCTC
44176833 ATGTGGACCCGGACTAAATCAGAGAAACATG
1 ATGTGGACCCGGACTAAATCAGAGAAACATG
44176864 TGTCTGGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.17
Consensus pattern (34 bp):
ATGTGGACCCGGACTAAATCAGAGAAACATGCTC
Found at i:44177743 original size:5 final size:5
Alignment explanation
Indices: 44177733--44177769 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
44177723 GAAAAGTAAT
*
44177733 AATAA AATAA AATAA AATAA GATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
44177770 AGTAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:44178913 original size:22 final size:21
Alignment explanation
Indices: 44178881--44178945 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 21
44178871 TTCAAATGAT
44178881 GTGTTACTCAGGCTTAGTGCC
1 GTGTTACTCAGGCTTAGTGCC
* *
44178902 AGTGTTATTCAGGCTTAGAGCC
1 -GTGTTACTCAGGCTTAGTGCC
44178924 GATGTTACTCAGGCTTAGTGCC
1 G-TGTTACTCAGGCTTAGTGCC
44178946 TAACAGGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.32
Consensus pattern (21 bp):
GTGTTACTCAGGCTTAGTGCC
Found at i:44178968 original size:38 final size:38
Alignment explanation
Indices: 44178911--44178993 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
44178901 CAGTGTTATT
* *
44178911 CAGGCTTAGAGCCGATGTTACTCAGGCTTAGTGCCTAA
1 CAGGCTTAGAGCCGATGTTAATCAAGCTTAGTGCCTAA
* *
44178949 CAGGCTTA-ATGCCGGTGTTAATCAAGCTTAGTGCCTAG
1 CAGGCTTAGA-GCCGATGTTAATCAAGCTTAGTGCCTAA
44178987 CAGGCTT
1 CAGGCTT
44178994 TGAGTCAGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (38 bp):
CAGGCTTAGAGCCGATGTTAATCAAGCTTAGTGCCTAA
Found at i:44178983 original size:22 final size:22
Alignment explanation
Indices: 44178881--44178983 Score: 92
Period size: 22 Copynumber: 5.0 Consensus size: 22
44178871 TTCAAATGAT
* *
44178881 GTGTTACTCAGGCTTAGTGCCA
1 GTGTTAATCAGGCTTAGTGCCG
* *
44178903 GTGTTATTCAGGCTTAGAGCCG
1 GTGTTAATCAGGCTTAGTGCCG
* *
44178925 ATGTTACTCAGGCTTAGTGCC-
1 GTGTTAATCAGGCTTAGTGCCG
*
44178946 ----TAA-CAGGCTTAATGCCG
1 GTGTTAATCAGGCTTAGTGCCG
*
44178963 GTGTTAATCAAGCTTAGTGCC
1 GTGTTAATCAGGCTTAGTGCC
44178984 TAGCAGGCTT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
16 12 0.18
17 2 0.03
21 3 0.05
22 48 0.74
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (22 bp):
GTGTTAATCAGGCTTAGTGCCG
Found at i:44182073 original size:10 final size:10
Alignment explanation
Indices: 44182060--44182085 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
44182050 TAAAATTTTT
44182060 GTATATTTGG
1 GTATATTTGG
44182070 GTATATTTGG
1 GTATATTTGG
44182080 GTATAT
1 GTATAT
44182086 CTGAAAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (10 bp):
GTATATTTGG
Found at i:44195804 original size:125 final size:124
Alignment explanation
Indices: 44195666--44195914 Score: 462
Period size: 125 Copynumber: 2.0 Consensus size: 124
44195656 TTCATTTACA
*
44195666 GGTTCGGCTATGGTATAATGGAATTAAACGTATATGATTGCTTATTAGATTATTTAATATATTTT
1 GGTTCGGCTATGGTATAATGGAATTAAACGTATATGATTGCTTATTAGATTATTTAATATATTTG
*
44195731 TATCCGTAAGCTTGGTTACTATGAAATTGTTGTATGAGCTAGGTCAAGAATGATAATATG
66 TATCCGTAAGCTTGGTTACT-TGAAATTGCTGTATGAGCTAGGTCAAGAATGATAATATG
44195791 GGTTCGGCTATGGTATAATGGAATTAAACGTATATGATTGCTTATTAGATTATTTAATATATTTG
1 GGTTCGGCTATGGTATAATGGAATTAAACGTATATGATTGCTTATTAGATTATTTAATATATTTG
*
44195856 TATGCGTAAGCTTGGTTACTTGAAATTGCTGTATGAGCTAGGTCAAGAATGATAATATG
66 TATCCGTAAGCTTGGTTACTTGAAATTGCTGTATGAGCTAGGTCAAGAATGATAATATG
44195915 TGATTAAAAG
Statistics
Matches: 121, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
124 38 0.31
125 83 0.69
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (124 bp):
GGTTCGGCTATGGTATAATGGAATTAAACGTATATGATTGCTTATTAGATTATTTAATATATTTG
TATCCGTAAGCTTGGTTACTTGAAATTGCTGTATGAGCTAGGTCAAGAATGATAATATG
Found at i:44196278 original size:29 final size:30
Alignment explanation
Indices: 44196246--44196307 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
44196236 GAATTATGGC
*
44196246 TTATTAAATTAT-AAGAATGTGTACATGAT
1 TTATTAAACTATCAAGAATGTGTACATGAT
***
44196275 TTA-TCGGCTATCAAGAATGTGTACATGAT
1 TTATTAAACTATCAAGAATGTGTACATGAT
44196304 TTAT
1 TTAT
44196308 CGGCTATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.40
Consensus pattern (30 bp):
TTATTAAACTATCAAGAATGTGTACATGAT
Found at i:44196308 original size:29 final size:29
Alignment explanation
Indices: 44196258--44196314 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
44196248 ATTAAATTAT
44196258 AAGAATGTGTACATGATTTATCGGCTATC
1 AAGAATGTGTACATGATTTATCGGCTATC
44196287 AAGAATGTGTACATGATTTATCGGCTAT
1 AAGAATGTGTACATGATTTATCGGCTAT
44196315 ATGCATAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (29 bp):
AAGAATGTGTACATGATTTATCGGCTATC
Found at i:44198419 original size:48 final size:47
Alignment explanation
Indices: 44198365--44198681 Score: 235
Period size: 48 Copynumber: 6.7 Consensus size: 47
44198355 TACGATAGCC
*
44198365 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAAAGATGAGTACT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTAAAGATGAGTACT
*
44198413 AGTGTAAGACATGTCTGGGGACATGGCATCGGCGTAAAGATGAGTACT
1 AGTGTAAGACATGTCT-GGGACATGGCATCGGCCTAAAGATGAGTACT
* * *
44198461 AGTGTAAGACATGTCTGGGACAT-GCATTC-ACCTCAATGATG-GTAGCC
1 AGTGTAAGACATGTCTGGGACATGGCA-TCGGCCT-AAAGATGAGTA-CT
* * ** * ** * ** *
44198508 ATTGTAAAATGTGTTTGGGACAT-GCATC-GAATAAA-CTTCGTGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTAAAGATGAGTACT
*
44198552 AGTGTAAGACATGTCTGGGACAT-GCATCAGCACTTATACACGA-GAG-A-T
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC-C-TA-A-A-GATGAGTACT
* * *
44198600 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCT--TGATGAAGATAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTAAAGATG-AG-TA-CT
44198649 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
44198682 AACTTAACCC
Statistics
Matches: 216, Mismatches: 33, Indels: 39
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 26 0.12
45 7 0.03
46 11 0.05
47 47 0.22
48 68 0.31
49 47 0.22
50 8 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTAAAGATGAGTACT
Found at i:44198623 original size:49 final size:49
Alignment explanation
Indices: 44198551--44198687 Score: 165
Period size: 49 Copynumber: 2.8 Consensus size: 49
44198541 AACTTCGTGC
*
44198551 TAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACTTAT-ACACGAGAGA
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTATGA-A-GAGAGA
* * *
44198599 TAGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTTGATGAAGATAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTT-ATGAAGAGAGA
*
44198648 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAACTTA
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTTA
44198688 ACCCATGTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
48 10 0.13
49 52 0.68
50 11 0.14
51 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTATGAAGAGAGA
Found at i:44199544 original size:55 final size:55
Alignment explanation
Indices: 44199429--44199551 Score: 149
Period size: 55 Copynumber: 2.2 Consensus size: 55
44199419 CTTAAACTTT
* * * * *
44199429 TAAGTTAGTATTGTCCATGGGTAGGCCACACGAGCGTGTGCCATAGTCGTGTCTA
1 TAAGTCAGTGTTGTCCATGGGTAGGCCACACAAGCGTGTGCCATAGCCGTGCCTA
* * *
44199484 TAAGTCAGTGTTGTCCATGGGTAGGCTACACAAGCGTGTGTCATGGCCGTGCCCTA
1 TAAGTCAGTGTTGTCCATGGGTAGGCCACACAAGCGTGTGCCATAGCCGTG-CCTA
*
44199540 -AAGTCAATGTTG
1 TAAGTCAGTGTTG
44199552 CACACGGGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 55 0.95
56 3 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (55 bp):
TAAGTCAGTGTTGTCCATGGGTAGGCCACACAAGCGTGTGCCATAGCCGTGCCTA
Found at i:44201075 original size:2 final size:2
Alignment explanation
Indices: 44201068--44201093 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44201058 CTGAGATGGA
44201068 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
44201094 GAAGCAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44203744 original size:21 final size:20
Alignment explanation
Indices: 44203716--44203768 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
44203706 AATAGCGGTG
* *
44203716 GCAGTGAGATTGGTTATTGTA
1 GCAGTGAGATT-GATACTGTA
*
44203737 GCGGTGAGAATTGATACTGTA
1 GCAGTGAG-ATTGATACTGTA
44203758 GCAGTGAGATT
1 GCAGTGAGATT
44203769 AGAAACAACG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.26, C:0.08, G:0.34, T:0.32
Consensus pattern (20 bp):
GCAGTGAGATTGATACTGTA
Found at i:44205837 original size:32 final size:32
Alignment explanation
Indices: 44205786--44205932 Score: 231
Period size: 32 Copynumber: 4.6 Consensus size: 32
44205776 TATCTTAAGG
* *
44205786 TTTACTTATAAAAAGGTAGATCATACATTAGT
1 TTTACATATAAAAAAGTAGATCATACATTAGT
* *
44205818 TTTGCATATAAAAAAGTAGATCATACATTAGG
1 TTTACATATAAAAAAGTAGATCATACATTAGT
*
44205850 TTCACATATAAAAAAGTAGATCATACATTAGT
1 TTTACATATAAAAAAGTAGATCATACATTAGT
* *
44205882 TTTGCATATGAAAAAGTAGATCATACATTAGT
1 TTTACATATAAAAAAGTAGATCATACATTAGT
44205914 TTTACATATAAAAAAGTAG
1 TTTACATATAAAAAAGTAG
44205933 CATAGTTATA
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 103 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (32 bp):
TTTACATATAAAAAAGTAGATCATACATTAGT
Found at i:44205860 original size:64 final size:64
Alignment explanation
Indices: 44205783--44205932 Score: 255
Period size: 64 Copynumber: 2.3 Consensus size: 64
44205773 AAATATCTTA
* *
44205783 AGGTTTACTTATAAAAAGGTAGATCATACATTAGTTTTGCATATAAAAAAGTAGATCATACATT
1 AGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAGATCATACATT
* *
44205847 AGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGTAGATCATACATT
1 AGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAGATCATACATT
*
44205911 AGTTTTACATATAAAAAAGTAG
1 AGGTTTACATATAAAAAAGTAG
44205933 CATAGTTATA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 80 1.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (64 bp):
AGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAGATCATACATT
Found at i:44207041 original size:13 final size:13
Alignment explanation
Indices: 44207023--44207048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44207013 CAACGTCAGC
44207023 TCATCATCCCAAA
1 TCATCATCCCAAA
44207036 TCATCATCCCAAA
1 TCATCATCCCAAA
44207049 CAGCTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (13 bp):
TCATCATCCCAAA
Found at i:44214685 original size:55 final size:55
Alignment explanation
Indices: 44214578--44214686 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 55
44214568 TTTAAGTTAG
* * *
44214578 TATTGTCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTATAAGTCAC
1 TATTGTCCACGAGTAGGCCACACGGGCGTATGCCATAGCCGTGCCTATAAGTCAC
*
44214633 TATTGTCCACGAGTAGGCCACACGGGCGTATGTCAT-GACCGTGCCCTA-AAGTCA
1 TATTGTCCACGAGTAGGCCACACGGGCGTATGCCATAG-CCGTG-CCTATAAGTCA
44214687 TGTTACACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 1 0.02
55 44 0.92
56 3 0.06
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.23
Consensus pattern (55 bp):
TATTGTCCACGAGTAGGCCACACGGGCGTATGCCATAGCCGTGCCTATAAGTCAC
Found at i:44218510 original size:12 final size:11
Alignment explanation
Indices: 44218473--44218510 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
44218463 CTGCAATTTA
44218473 AATTTTATTCT
1 AATTTTATTCT
*
44218484 AAATTTATTCT
1 AATTTTATTCT
44218495 AATTTTATTACT
1 AATTTTATT-CT
44218507 AATT
1 AATT
44218511 CTTCTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTTTATTCT
Found at i:44221224 original size:47 final size:45
Alignment explanation
Indices: 44221171--44221291 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 45
44221161 TGGCCATGAT
*
44221171 ATGTGATAAGGCCAAATGGCCAATGTGATGA-ATGTGGAAGTGCATAC
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATATGTGGAAGTG-A-AC
* ** * * *
44221218 ATGTGATAAGGCCGGATGGTTAATGTGATATATGTGTACGTGAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
*
44221263 ATGTGATAAGGCCGAATGACCAATTGTGA
1 ATGTGATAAGGCCGAATGGCCAA-TGTGA
44221292 AAAGTGTGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
45 20 0.33
46 7 0.11
47 34 0.56
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (45 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATATATGTGGAAGTGAAC
Found at i:44221425 original size:39 final size:40
Alignment explanation
Indices: 44221366--44221450 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
44221356 ATATGAATTG
* * * * *
44221366 TGCTGAGATTGTATCTGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
44221405 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
44221445 TGCTGG
1 TGCTGG
44221451 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.31
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:44249110 original size:27 final size:26
Alignment explanation
Indices: 44249079--44249256 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
44249069 TAAATTGTAC
*
44249079 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
44249106 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
44249132 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
44249160 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
44249188 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
44249215 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
44249242 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44249257 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:44249194 original size:82 final size:81
Alignment explanation
Indices: 44249080--44249235 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
44249070 AAATTGTACA
* *
44249080 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44249144 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
44249161 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44249226 TGCGAGTTGA
65 TGCGAATTGA
44249236 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44249247 original size:82 final size:81
Alignment explanation
Indices: 44249076--44249256 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
44249066 GATTAAATTG
* * *
44249076 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44249141 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
44249157 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44249221 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44249239 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44249257 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44249267 original size:27 final size:27
Alignment explanation
Indices: 44249161--44249267 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
44249151 TGACCATGCG
* * * *
44249161 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
44249189 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
44249216 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
44249243 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
44249268 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:44251537 original size:13 final size:13
Alignment explanation
Indices: 44251519--44251553 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
44251509 CCTCACACAC
44251519 GGGCGTGTGACTT
1 GGGCGTGTGACTT
44251532 GGGCGTGTGACTT
1 GGGCGTGTGACTT
*
44251545 GGCCGTGTG
1 GGGCGTGTG
44251554 GCATAAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.17, G:0.49, T:0.29
Consensus pattern (13 bp):
GGGCGTGTGACTT
Found at i:44253078 original size:23 final size:23
Alignment explanation
Indices: 44253032--44253078 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
44253022 AATCAAACGA
* * *
44253032 CATAATTCATTGTAGGGTTTATT
1 CATAATTCATCGTAGGATTCATT
44253055 CATAATTCATCGTAGGATTCATT
1 CATAATTCATCGTAGGATTCATT
44253078 C
1 C
44253079 CCCCTAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (23 bp):
CATAATTCATCGTAGGATTCATT
Found at i:44260616 original size:28 final size:28
Alignment explanation
Indices: 44260584--44260667 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
44260574 AACACACCAG
* *
44260584 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
44260612 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
44260640 TATAATCCATCCAAAATACACTAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
44260668 GCACAGAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 33 0.67
29 16 0.33
ACGTcount: A:0.46, C:0.29, G:0.04, T:0.21
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:44260639 original size:23 final size:23
Alignment explanation
Indices: 44260570--44260640 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
44260560 AAATGTCCAA
*
44260570 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
44260593 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
44260621 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
44260641 ATAATCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
28 21 0.51
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:44260731 original size:13 final size:14
Alignment explanation
Indices: 44260708--44260737 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
44260698 GGATATAAAC
44260708 ATCAGCATCTCCAA
1 ATCAGCATCTCCAA
44260722 ATCA-CATCTCCAA
1 ATCAGCATCTCCAA
44260735 ATC
1 ATC
44260738 CCTTCTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.37, C:0.37, G:0.03, T:0.23
Consensus pattern (14 bp):
ATCAGCATCTCCAA
Found at i:44260744 original size:13 final size:13
Alignment explanation
Indices: 44260713--44260751 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
44260703 TAAACATCAG
*
44260713 CATCTCCAAATCA
1 CATCTCCAAATCC
44260726 CATCTCCAAATCC
1 CATCTCCAAATCC
* *
44260739 CTTCTCAAAATCC
1 CATCTCCAAATCC
44260752 TATGGCATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (13 bp):
CATCTCCAAATCC
Found at i:44260847 original size:17 final size:17
Alignment explanation
Indices: 44260825--44260863 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
44260815 TTATTTTATT
*
44260825 TCAATTTCATTTCCATA
1 TCAATTTCAATTCCATA
*
44260842 TCAATTTCAATTCCATT
1 TCAATTTCAATTCCATA
44260859 TCAAT
1 TCAAT
44260864 ATACAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (17 bp):
TCAATTTCAATTCCATA
Found at i:44260849 original size:23 final size:24
Alignment explanation
Indices: 44260822--44260870 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
44260812 TTTTTATTTT
* *
44260822 ATTTCAATTTCATTTCCATAT-CA
1 ATTTCAATTCCATTTCAATATACA
44260845 ATTTCAATTCCATTTCAATATACA
1 ATTTCAATTCCATTTCAATATACA
44260869 AT
1 AT
44260871 CAATTCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTTCAATTCCATTTCAATATACA
Found at i:44260890 original size:16 final size:17
Alignment explanation
Indices: 44260851--44260896 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
44260841 ATCAATTTCA
*
44260851 ATTCCATTTCAATATAC
1 ATTCCAATTCAATATAC
*
44260868 AAT-CAATTCAATATAC
1 ATTCCAATTCAATATAC
44260884 -TTCCAATCTCAAT
1 ATTCCAAT-TCAAT
44260897 CCACATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 16 0.67
17 7 0.29
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTCCAATTCAATATAC
Found at i:44262558 original size:40 final size:40
Alignment explanation
Indices: 44262468--44262728 Score: 289
Period size: 40 Copynumber: 6.5 Consensus size: 40
44262458 CTCAAGTAAT
* * * *
44262468 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
44262506 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
44262546 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
44262586 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
44262626 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
44262666 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
44262707 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44262729 CATTCGAATA
Statistics
Matches: 189, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
38 11 0.06
39 18 0.10
40 131 0.69
41 26 0.14
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:44262599 original size:80 final size:80
Alignment explanation
Indices: 44262468--44262728 Score: 321
Period size: 80 Copynumber: 3.3 Consensus size: 80
44262458 CTCAAGTAAT
* * * * * *
44262468 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
44262531 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* *
44262546 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
44262610 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
44262626 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* *
44262691 CACCTAGCATAAAAGC
66 CA-CTAGCACAAATGC
44262707 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44262729 CATTCGAATA
Statistics
Matches: 157, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 97 0.62
81 32 0.20
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:44262639 original size:120 final size:121
Alignment explanation
Indices: 44262468--44262728 Score: 329
Period size: 120 Copynumber: 2.2 Consensus size: 121
44262458 CTCAAGTAAT
* * * * *
44262468 CTTCGGGATTTAG-CCGGATATAA-CTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGG
1 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
* *
44262530 TC-ACTAGCAC-AGATGCCTTCGGGA-CTTAGCCCGGATATAGTC-GCTAGCACAAATGC
65 -CAACTAGCACGA-ATGCCTTC-GGATCTTAGCCCGGATATAGTCACCTAGCACAAAAGC
*
44262586 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
* * * *
44262651 AACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCATAAAAGC
66 AACTAGCACGAATGCCTTCGGATCTTAGCCCGGATATAGTCACCTAGCACAAAAGC
44262707 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44262729 CATTCGAATA
Statistics
Matches: 123, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
118 11 0.09
119 20 0.16
120 59 0.48
121 33 0.27
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (121 bp):
CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACGAATGCCTTCGGATCTTAGCCCGGATATAGTCACCTAGCACAAAAGC
Found at i:44269689 original size:25 final size:25
Alignment explanation
Indices: 44269657--44269704 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
44269647 TTATAACATG
44269657 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCGTTTTACCCCTAGGTA
*
44269682 AAAATGACCGTTTTGCCCCTAGG
1 AAAATGACCGTTTTACCCCTAGG
44269705 GTTTATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAATGACCGTTTTACCCCTAGGTA
Found at i:44269770 original size:20 final size:20
Alignment explanation
Indices: 44269741--44269787 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
44269731 ATTTTGATAA
*
44269741 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
44269761 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
44269781 ACATGAT
1 ACATGAT
44269788 GTAATCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:44269867 original size:23 final size:23
Alignment explanation
Indices: 44269837--44269931 Score: 147
Period size: 23 Copynumber: 4.1 Consensus size: 23
44269827 AGGAAGTGAA
44269837 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44269860 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44269883 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
44269905 AAAAGGGCTTTTGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
44269929 AAA
1 AAA
44269932 AGAGGCTAGG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
22 9 0.14
23 48 0.73
24 9 0.14
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:44269910 original size:46 final size:46
Alignment explanation
Indices: 44269837--44269931 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
44269827 AGGAAGTGAA
44269837 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATT
*
44269883 AAAGGGCTTATG-CCCAGTTATTAAAAGGGCTTTTGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCTAGTTATT
44269929 AAA
1 AAA
44269932 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 10 0.21
46 37 0.79
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTATT
Found at i:44269950 original size:25 final size:24
Alignment explanation
Indices: 44269836--44269952 Score: 125
Period size: 23 Copynumber: 5.0 Consensus size: 24
44269826 GAGGAAGTGA
*
44269836 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
44269860 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
*
44269883 -AAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
** *
44269905 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
44269929 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
44269953 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.11
23 45 0.55
24 18 0.22
25 10 0.12
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:44274110 original size:16 final size:16
Alignment explanation
Indices: 44274091--44274123 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44274081 ATTATAGTAG
44274091 AATGACTTTATAATTA
1 AATGACTTTATAATTA
*
44274107 AATGAGTTTATAATTA
1 AATGACTTTATAATTA
44274123 A
1 A
44274124 TAGGCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (16 bp):
AATGACTTTATAATTA
Found at i:44274513 original size:17 final size:17
Alignment explanation
Indices: 44274487--44274526 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
44274477 ACGAAATTAA
*
44274487 AATTTGATTGAGAAAA-T
1 AATTTAATTGA-AAAATT
44274504 AATTTAATTGAAAAATT
1 AATTTAATTGAAAAATT
44274521 AATTTA
1 AATTTA
44274527 TCTAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (17 bp):
AATTTAATTGAAAAATT
Found at i:44274610 original size:13 final size:13
Alignment explanation
Indices: 44274592--44274617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44274582 ATTGAGTTAG
44274592 ATTAAATTATAAA
1 ATTAAATTATAAA
44274605 ATTAAATTATAAA
1 ATTAAATTATAAA
44274618 GTGTAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAAATTATAAA
Found at i:44292927 original size:45 final size:45
Alignment explanation
Indices: 44292868--44293077 Score: 144
Period size: 45 Copynumber: 4.7 Consensus size: 45
44292858 AATCCTACAG
44292868 ATCCTG-CTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACAA
1 ATCCTGACTT-CCTGAAGTTGCAGTGGAGCAGATCGAAGACGACAA
* * * ** * *
44292913 ATCTTGACTTCCTGAAGTTGCAGTGAAGTAGATTTAAGTC-ACTA
1 ATCCTGACTTCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACAA
* * * * * * **** *
44292957 A-CCT-AGCTCCCTAAAGTTGTAGTGGAGTAGGTTG-AGATTTTAG
1 ATCCTGA-CTTCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACAA
* * * *
44293000 ATCCT-ACTTCCCTGAAGTTACAGTGGAGCAGATCAAAAACGACGA
1 ATCCTGACTT-CCTGAAGTTGCAGTGGAGCAGATCGAAGACGACAA
*
44293045 ATCCTGACTTCCTGAAGTTGCAGTGAAGCAGAT
1 ATCCTGACTTCCTGAAGTTGCAGTGGAGCAGAT
44293078 TTAAGTCACT
Statistics
Matches: 121, Mismatches: 37, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
42 3 0.02
43 27 0.22
44 26 0.21
45 58 0.48
46 7 0.06
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
ATCCTGACTTCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACAA
Found at i:44293079 original size:132 final size:130
Alignment explanation
Indices: 44292874--44293690 Score: 1080
Period size: 132 Copynumber: 6.2 Consensus size: 130
44292864 ACAGATCCTG
* *
44292874 CTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACAAATCTTGACTTCCTGAAGTTGCAGTGA
1 CTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCCTGACTTCCTGAAGTTGCAGTGA
* * *
44292939 AGTAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAGATTTTAGATCC
66 AGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGAT-C
44293004 T
130 T
* * *
44293005 ACTTCCCTGAAGTTACAGTGGAGCAGATCAAAAACGACGAATCCTGACTTCCTGAAGTTGCAGTG
1 -CTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCCTGACTTCCTGAAGTTGCAGTG
* * * *
44293070 AAGCAGATTTAAGTCACTAACCTTGTTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGATC
65 AAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATC
44293135 T
130 T
* * * * * *
44293136 CGTTTCCCTGAAGTTGCAGTGGAGTAAATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAGC
1 C--TTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCCTGACTTCCTGAAGTTGCAGT
* * *
44293201 AAAGCAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTCGAT
64 GAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGAT
44293266 CT
129 CT
* *
44293268 CGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAAT-CTGAGCTTCTTGAAGTTGCAG
1 C--TTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCCTGA-CTTCCTGAAGTTGCAG
* *
44293332 TGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAGAGTTGTAGTAGAGTAGGTTGAAATTTTAGA
63 TGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGA
44293397 TCT
128 TCT
*
44293400 CGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAAT-CTGAGCTTCCTGAAGTTGCAG
1 C--TTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCCTGA-CTTCCTGAAGTTGCAG
* * *
44293464 TGAAGTAGATTTAAGCCACCAACCCAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGA
63 TGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGA
*
44293529 TTTT
128 -TCT
* * * ** * * * *
44293533 GTTTCCCTGAAGTTGCAGTGAAACAGATCGAAGACGGTGAATCTTGACTTCTTGAAATTGCAATG
1 -CTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCCTGACTTCCTGAAGTTGCAGTG
* * * * *
44293598 AAGTAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGCGGAGTAGGTTGAAGATTGTAGAT
65 AAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAA-ATTTTAGAT
44293663 CTT
129 C-T
*
44293666 GTCTCCCTGAAGTTGCAGTGGAGCA
1 CT-TCCCTGAAGTTGCAGTGGAGCA
44293691 TATTGAAGCT
Statistics
Matches: 618, Mismatches: 58, Indels: 17
0.89 0.08 0.02
Matches are distributed among these distances:
130 1 0.00
131 5 0.01
132 579 0.94
133 33 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (130 bp):
CTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCCTGACTTCCTGAAGTTGCAGTGA
AGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCT
Found at i:44293457 original size:45 final size:44
Alignment explanation
Indices: 44293274--44293465 Score: 131
Period size: 45 Copynumber: 4.3 Consensus size: 44
44293264 ATCTCGTTTC
44293274 CCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTGAGCTT
1 CCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCT-AGCTT
* * ** ** * * *
44293319 CTTGAAGTTGCAGTGAAGCAGATTTAAG-CCACTAACCTAGCTC
1 CCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGCTT
* * * * * **** * *
44293362 CCT-AGAGTTGTAGTAGAGTAGGTTGAA-A-TTTTAGATCTCGTTT
1 CCTGA-AGTTGCAGTGGAGCAGATCGAAGACGGCGA-ATCTAGCTT
44293405 CCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTGAGCTT
1 -CCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCT-AGCTT
44293451 CCTGAAGTTGCAGTG
1 CCTGAAGTTGCAGTG
44293466 AAGTAGATTT
Statistics
Matches: 105, Mismatches: 34, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
42 3 0.03
43 27 0.26
44 26 0.25
45 45 0.43
46 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (44 bp):
CCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGCTT
Found at i:44296506 original size:131 final size:131
Alignment explanation
Indices: 44296251--44296508 Score: 338
Period size: 131 Copynumber: 2.0 Consensus size: 131
44296241 AAATTCTTTA
* * * * *
44296251 AAAACGAAGGCAAGATTCGATGTTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCGA
1 AAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * **
44296316 TTTCGCGTTTGCTCAAAATAATCGAATATCACTTCGAAATTTCACTCATGCCTTTTAAAATTCCT
66 TTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATACCTCCTAAAATTCCT
44296381 C
131 C
* *
44296382 AAAACGAAGACGAGGTTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* ** * * *
44296447 TTTTGCGTTTGCTCAAAATAATCGGGCT-TCCCTTCAAAATTCCATTCATATCTCCTAAAATT
66 TTTCGCGTTTGCTCAAAATAATC-GAATATCACTTCAAAATTCCACTCATACCTCCTAAAATT
44296509 TTTTAAACGA
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
131 106 0.98
132 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (131 bp):
AAAACGAAGACAAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCATACCTCCTAAAATTCCT
C
Found at i:44300831 original size:45 final size:45
Alignment explanation
Indices: 44300731--44300857 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
44300721 TTTTCTCAAA
* *
44300731 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
44300773 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * * *
44300817 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCGGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
44300858 ATCAAGTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 39 0.53
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:44301235 original size:43 final size:43
Alignment explanation
Indices: 44301174--44301362 Score: 249
Period size: 43 Copynumber: 4.4 Consensus size: 43
44301164 ACATATCATT
* *
44301174 TCACCGGCATTACGCCTGCTAGGCACAAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACAAAGGCCCGAATACACA
* *
44301217 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACAAAGGCCCGAATACACA
* * * *
44301260 TCACTGACATTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACAAAGGCCCGAATACACA
*
44301303 TCACCGGCACTAAGCCTGCTAGGCACGAAA-GCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCAC-AAAGGCCCGAATACACA
* *
44301345 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
44301363 AGGATTTATC
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 111 0.85
44 2 0.02
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACAAAGGCCCGAATACACA
Found at i:44301326 original size:86 final size:86
Alignment explanation
Indices: 44301181--44301341 Score: 286
Period size: 86 Copynumber: 1.9 Consensus size: 86
44301171 ATTTCACCGG
*
44301181 CATTACGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAA
1 CATTAAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAA
*
44301246 GGCCCGAATACACATCACTGA
66 AGCCCGAATACACATCACTGA
* *
44301267 CATTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTGCTAGGCACGAA
1 CATTAAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAA
44301332 AGCCCGAATA
66 AGCCCGAATA
44301342 TAATACCAGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.32, C:0.33, G:0.22, T:0.13
Consensus pattern (86 bp):
CATTAAGCCTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAA
AGCCCGAATACACATCACTGA
Found at i:44305772 original size:53 final size:53
Alignment explanation
Indices: 44305704--44305968 Score: 296
Period size: 53 Copynumber: 5.0 Consensus size: 53
44305694 AGTATTGTAG
* *
44305704 GACCATATCTTGTAAGACCGTAACTGGTGGGTTATGGTATCATATGGGAAGAA
1 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGGAAGAA
* * * * * *
44305757 GACTATATTGTGTAAGACTGTAACTAGTGGGTTATGACATCATATGGGAAAAA
1 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGGAAGAA
* * * ** *
44305810 TACCATAGCGTGTAAAACTATAACTGGTGGGTTATGACATCATATGGGAAGAA
1 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGGAAGAA
* * * ** *
44305863 GACCATATCATATAAGACCGTAACTGATGGGTTATGGCATCATATAAGTAGAA
1 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGGAAGAA
* * * ** *
44305916 GACCATATTGTGTAAAATCGTAACTGGCAGGTTATGGCATCATATAGGAAGAA
1 GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGGAAGAA
44305969 CTAAAGGAAA
Statistics
Matches: 174, Mismatches: 38, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 174 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (53 bp):
GACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGGGAAGAA
Found at i:44306160 original size:61 final size:60
Alignment explanation
Indices: 44306084--44306249 Score: 170
Period size: 61 Copynumber: 2.7 Consensus size: 60
44306074 AGAAAAAAAG
* * * *
44306084 ATGCCTTTGTGGTAAAACTCTAGACAGGAAAGCCTTTGTGGCAAGTATTGGATTTAAAGGA
1 ATGCCTTTGTGGTAAAACT-TAGAAAGGAAAGCCTTTGTGGCAAGTACTAGATGTAAAGGA
* * * * *
44306145 CTGCCTTTGTGGTAAAACATTGGATAGGAAAGCATTTGTGGCGAGTACTAGATGTAAAGGA
1 ATGCCTTTGTGGTAAAAC-TTAGAAAGGAAAGCCTTTGTGGCAAGTACTAGATGTAAAGGA
** *** *
44306206 AAACCTTTGTGGCGGAACTTTAGAAAGGTAAGCCTTTGTGGCAA
1 ATGCCTTTGTGGTAAAAC-TTAGAAAGGAAAGCCTTTGTGGCAA
44306250 CCTCTGTTTA
Statistics
Matches: 84, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
61 83 0.99
62 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (60 bp):
ATGCCTTTGTGGTAAAACTTAGAAAGGAAAGCCTTTGTGGCAAGTACTAGATGTAAAGGA
Found at i:44309559 original size:16 final size:16
Alignment explanation
Indices: 44309539--44309593 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
44309529 GTTTGGTTCA
44309539 CTGTAATTGAATA-AG
1 CTGTAATTGAATAGAG
44309554 ACTGTAATTGAATAGAG
1 -CTGTAATTGAATAGAG
*
44309571 CTGTAATGGAATAGAG
1 CTGTAATTGAATAGAG
44309587 CTGTAAT
1 CTGTAAT
44309594 CAGTAATTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
16 35 0.95
17 2 0.05
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (16 bp):
CTGTAATTGAATAGAG
Found at i:44309668 original size:44 final size:46
Alignment explanation
Indices: 44309575--44309668 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
44309565 ATAGAGCTGT
*
44309575 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGCTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGCTTGAATGG
*** *
44309621 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGCTTGAATGG
44309665 AATG
1 AATG
44309669 ATGTTGGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGCTTGAATGG
Found at i:44309782 original size:22 final size:24
Alignment explanation
Indices: 44309755--44309799 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
44309745 ATTGTTATTG
44309755 TTATT-AAAT-TTTAATAAAATTA
1 TTATTAAAATATTTAATAAAATTA
44309777 TTATTAAAATAATTTAATAAAAT
1 TTATTAAAAT-ATTTAATAAAAT
44309800 AATAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 4 0.20
25 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTAAAATATTTAATAAAATTA
Found at i:44309799 original size:13 final size:13
Alignment explanation
Indices: 44309764--44309802 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
44309754 GTTATTAAAT
*
44309764 TTTAATAAAATTA
1 TTTAATAAAATAA
*
44309777 -TTATTAAAATAA
1 TTTAATAAAATAA
44309789 TTTAATAAAATAA
1 TTTAATAAAATAA
44309802 T
1 T
44309803 AAATAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAATAAAATAA
Found at i:44309867 original size:57 final size:56
Alignment explanation
Indices: 44309760--44309896 Score: 193
Period size: 57 Copynumber: 2.4 Consensus size: 56
44309750 TATTGTTATT
* * *
44309760 AAATTTTAATAAAATTATTATTAAAATAATTTAATAAAATAATAAATAATTTAACC
1 AAATTTTAATATAATTATTATTAAAATAACTTAATAAAATAATAAATAATTTAACA
* * * *
44309816 ATATTTTAACATAATTATTATTAAATATAACTTAATAAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAA-ATAACTTAATAAAATAATAAATAATTTAACA
44309873 AAATTCTTAATATAATTATTATTA
1 AAATT-TTAATATAATTATTATTA
44309897 TAAAATTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
56 22 0.31
57 31 0.44
58 17 0.24
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (56 bp):
AAATTTTAATATAATTATTATTAAAATAACTTAATAAAATAATAAATAATTTAACA
Found at i:44313703 original size:26 final size:26
Alignment explanation
Indices: 44313660--44313710 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
44313650 GTCTCTAAAC
* * *
44313660 TTATCCTAATTTTGCCTCAAAGGCAA
1 TTATCCAAATCTTACCTCAAAGGCAA
*
44313686 TTATCCAAATCTTACCTCAAGGGCA
1 TTATCCAAATCTTACCTCAAAGGCA
44313711 TCATAGAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (26 bp):
TTATCCAAATCTTACCTCAAAGGCAA
Found at i:44313776 original size:23 final size:23
Alignment explanation
Indices: 44313715--44313807 Score: 75
Period size: 23 Copynumber: 4.0 Consensus size: 23
44313705 AGGGCATCAT
*
44313715 AGAATACGCCACACAA-G-TATCAC
1 AGAATACGCCACA-AAGGCT-TTAC
* * * *
44313738 AGAATAGGCTAGAAAGGCTTTAT
1 AGAATACGCCACAAAGGCTTTAC
*
44313761 AGAATATGCCACAAAGTG-TTTAC
1 AGAATACGCCACAAAG-GCTTTAC
*
44313784 AGAATACGCCACAAAAGCTTTAC
1 AGAATACGCCACAAAGGCTTTAC
44313807 A
1 A
44313808 AAATGTTATG
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
22 3 0.05
23 50 0.91
24 2 0.04
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (23 bp):
AGAATACGCCACAAAGGCTTTAC
Found at i:44313804 original size:46 final size:46
Alignment explanation
Indices: 44313713--44313805 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 46
44313703 CAAGGGCATC
* * * *
44313713 ATAGAATACGCCACACAAGTATCACAGAATAGGCTAGAAAGGCTTT
1 ATAGAATACGCCACACAAGTATCACAGAATACGCCACAAAAGCTTT
* * *
44313759 ATAGAATATGCCACA-AAGTGTTTACAGAATACGCCACAAAAGCTTT
1 ATAGAATACGCCACACAAGT-ATCACAGAATACGCCACAAAAGCTTT
44313805 A
1 A
44313806 CAAAATGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 4 0.10
46 35 0.90
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (46 bp):
ATAGAATACGCCACACAAGTATCACAGAATACGCCACAAAAGCTTT
Found at i:44317172 original size:35 final size:35
Alignment explanation
Indices: 44317127--44317199 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
44317117 TGGTCGAACT
44317127 AAAAACCAATGGTTTGATCACAATTCTGATTCTAA
1 AAAAACCAATGGTTTGATCACAATTCTGATTCTAA
*
44317162 AAAAATCAATGGTTTGATCACAATTCTGATTCTAA
1 AAAAACCAATGGTTTGATCACAATTCTGATTCTAA
44317197 AAA
1 AAA
44317200 CATTATTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (35 bp):
AAAAACCAATGGTTTGATCACAATTCTGATTCTAA
Found at i:44320141 original size:18 final size:19
Alignment explanation
Indices: 44320110--44320147 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
44320100 TAATATTATA
44320110 AAATAAAATAATTAT-TTT
1 AAATAAAATAATTATGTTT
* *
44320128 AAATATAATTATTATGTTT
1 AAATAAAATAATTATGTTT
44320147 A
1 A
44320148 TATGTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AAATAAAATAATTATGTTT
Found at i:44320278 original size:22 final size:22
Alignment explanation
Indices: 44320270--44320335 Score: 132
Period size: 22 Copynumber: 3.0 Consensus size: 22
44320260 TATCCAGAGT
44320270 TGGATATCGCAATATCATTGTC
1 TGGATATCGCAATATCATTGTC
44320292 TGGATATCGCAATATCATTGTC
1 TGGATATCGCAATATCATTGTC
44320314 TGGATATCGCAATATCATTGTC
1 TGGATATCGCAATATCATTGTC
44320336 ATCAAGGGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (22 bp):
TGGATATCGCAATATCATTGTC
Found at i:44320300 original size:44 final size:44
Alignment explanation
Indices: 44320250--44320335 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
44320240 TACTGACAAT
*
44320250 GATATCGCGATATCCAGAGT-TGGATATCGCAATATCATTGTCTG
1 GATATCGCAATAT-CAGAGTCTGGATATCGCAATATCATTGTCTG
**
44320294 GATATCGCAATATCATTGTCTGGATATCGCAATATCATTGTC
1 GATATCGCAATATCAGAGTCTGGATATCGCAATATCATTGTC
44320336 ATCAAGGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 4 0.11
44 34 0.89
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (44 bp):
GATATCGCAATATCAGAGTCTGGATATCGCAATATCATTGTCTG
Found at i:44326715 original size:14 final size:14
Alignment explanation
Indices: 44326696--44326730 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
44326686 AATGACATTG
*
44326696 CACACGGTCGTGGA
1 CACACGGCCGTGGA
44326710 CACACGGCCGTGGA
1 CACACGGCCGTGGA
44326724 CACACGG
1 CACACGG
44326731 GTGCATCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.23, C:0.34, G:0.34, T:0.09
Consensus pattern (14 bp):
CACACGGCCGTGGA
Found at i:44329032 original size:40 final size:40
Alignment explanation
Indices: 44328948--44329132 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
44328938 TCGAATGATG
* *
44328948 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
44328987 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
44329028 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
44329067 TCTGGGTTAAGTCCCGAAGGTATTTGTACGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44329106 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44329133 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:44329154 original size:79 final size:78
Alignment explanation
Indices: 44328949--44329167 Score: 214
Period size: 79 Copynumber: 2.8 Consensus size: 78
44328939 CGAATGATGT
* * *
44328949 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGTATT
* *
44329012 TGTGCGAGTTACTAATT
62 TGTACGAGTTACTAATA
* * *
44329029 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCA-CTAAATCTGGGTTAAGTCCCGAAGGTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AGCTATATC-CGGTTAAGT-CCGAAGGTATTT
44329092 GTACGAGTTACT-ATAA
63 GTACGAGTTACTAAT-A
* ** *
44329108 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGGTA
44329168 CGTGATTCGG
Statistics
Matches: 115, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 67 0.58
80 45 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGTATTTGTA
CGAGTTACTAATA
Found at i:44336685 original size:40 final size:40
Alignment explanation
Indices: 44336601--44336785 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
44336591 TCGAATGATG
* *
44336601 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
44336640 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
44336681 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
44336720 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44336759 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44336786 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:44336737 original size:79 final size:81
Alignment explanation
Indices: 44336601--44336783 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
44336591 TCGAATGATG
* * *
44336601 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
44336665 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* **
44336680 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCA
44336742 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
44336760 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44336784 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:44336807 original size:79 final size:78
Alignment explanation
Indices: 44336602--44336818 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
44336592 CGAATGATGT
* *
44336602 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
44336665 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
44336682 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AGCTATATCC-GGTTAAGT-CCGAAGGCATTT
44336745 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
44336761 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
44336819 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:44337806 original size:16 final size:16
Alignment explanation
Indices: 44337771--44337811 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
44337761 TTATTTTCCT
* **
44337771 TTATTTACTTCTTTCT
1 TTATTTATTTCTTTAG
44337787 TTATTTATTTCTTTAG
1 TTATTTATTTCTTTAG
44337803 TTATTTATT
1 TTATTTATT
44337812 CATTTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTTATTTCTTTAG
Found at i:44339419 original size:5 final size:5
Alignment explanation
Indices: 44339409--44339443 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
44339399 ATTGAGTCTG
44339409 TTTTA TTTTA TTTTA TTTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTT
44339444 TCTGATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:44339430 original size:16 final size:16
Alignment explanation
Indices: 44339409--44339444 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
44339399 ATTGAGTCTG
44339409 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
44339425 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
44339441 TTTT
1 TTTT
44339445 CTGATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:44346402 original size:6 final size:6
Alignment explanation
Indices: 44346387--44346443 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
44346377 TGGTTTTCTA
* * * *
44346387 AAAATT AAAATG AAAA-A AGAAATG AAAATG AAAATA AAAATA AAAATG
1 AAAATG AAAATG AAAATG A-AAATG AAAATG AAAATG AAAATG AAAATG
44346435 AGAAATG AA
1 A-AAATG AA
44346444 TTCATTTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 1 0.02
6 35 0.81
7 7 0.16
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:44346414 original size:18 final size:18
Alignment explanation
Indices: 44346385--44346440 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
44346375 TGTGGTTTTC
*
44346385 TAAAAATTAAAATGAAAA
1 TAAAAATAAAAATGAAAA
*
44346403 -AAGAAATGAAAATGAAAA
1 TAA-AAATAAAAATGAAAA
44346421 TAAAAATAAAAATGAGAAA
1 TAAAAATAAAAATGA-AAA
44346440 T
1 T
44346441 GAATTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 2 0.06
18 25 0.76
19 6 0.18
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (18 bp):
TAAAAATAAAAATGAAAA
Found at i:44346622 original size:26 final size:26
Alignment explanation
Indices: 44346592--44346661 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
44346582 TTGTCTCGAA
*
44346592 AATTTTATCAAGGGTAAAGTTGTCAT
1 AATTTTACCAAGGGTAAAGTTGTCAT
*
44346618 AATTTTACCAGGGGTAAAGTTGTCAT
1 AATTTTACCAAGGGTAAAGTTGTCAT
* *
44346644 TATTTTACCAAAGGTAAA
1 AATTTTACCAAGGGTAAA
44346662 ATTGGGATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (26 bp):
AATTTTACCAAGGGTAAAGTTGTCAT
Found at i:44379260 original size:40 final size:40
Alignment explanation
Indices: 44379198--44379495 Score: 449
Period size: 40 Copynumber: 7.5 Consensus size: 40
44379188 AAGCCAAGTA
* * * *
44379198 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
44379237 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
44379277 CCTTCGGGGCTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
44379317 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
44379357 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
44379397 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
44379437 CCTTCAGGACTTAGCCCGGA-ACTAGTCACTAGCGCGAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
44379477 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44379496 TTATCATCCA
Statistics
Matches: 239, Mismatches: 17, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
39 13 0.05
40 226 0.95
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:44387483 original size:40 final size:40
Alignment explanation
Indices: 44387439--44387703 Score: 426
Period size: 40 Copynumber: 6.6 Consensus size: 40
44387429 GCTACTTGCT
*
44387439 CGAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCA
1 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
44387479 CGAATGCCTTCGGGGCTTAGCCCGGATATAGTAACTCGCA
1 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
44387519 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
44387559 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
44387599 CGAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
44387639 CGAATGCCTTCAGGACTTAGCCCGGA-ACTAGTCACTAGCGA
1 CGAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGC-A
44387680 -GAATGCCTTCGGGACTTAGCCCGG
1 CGAATGCCTTCGGGACTTAGCCCGG
44387704 TTATCATCCA
Statistics
Matches: 210, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
39 1 0.00
40 208 0.99
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CGAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:44399028 original size:21 final size:20
Alignment explanation
Indices: 44399000--44399039 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
44398990 AGTCACACAA
44399000 CCTAACCACAC-GAGCGTGTC
1 CCTAACCACACAG-GCGTGTC
44399020 CCTAGACCACACAGGCGTGT
1 CCTA-ACCACACAGGCGTGT
44399040 GGGTACTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.15
Consensus pattern (20 bp):
CCTAACCACACAGGCGTGTC
Found at i:44409686 original size:16 final size:17
Alignment explanation
Indices: 44409665--44409701 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
44409655 TATAAATTAA
44409665 TTTTTGTTTTA-CAATT
1 TTTTTGTTTTAGCAATT
*
44409681 TTTTTGTTTTAGTAATT
1 TTTTTGTTTTAGCAATT
44409698 TTTT
1 TTTT
44409702 ATTGATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.73
Consensus pattern (17 bp):
TTTTTGTTTTAGCAATT
Found at i:44411441 original size:47 final size:46
Alignment explanation
Indices: 44411318--44411684 Score: 225
Period size: 47 Copynumber: 7.8 Consensus size: 46
44411308 TTGGGTGATT
* * * * *
44411318 TGAGTGCCAGTGTAAGA-CATGTCTGGGACATGCTTTGGCCA-CATTA
1 TGAGAGCCAGTGTAAGACCATATCTGGGACATGCATCGG-CATCA-GA
44411364 TGAGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCCAGA
1 TGAGAGCCAGTGTAAGACCATATCTGGGACAT-GCATCGGCAT-CAGA
* * * * * * *
44411412 CGAGGGCTAGTGTAAGA-CATGTCTAGGACATGCATCAGCCAT-ACTA
1 TGAGAGCCAGTGTAAGACCATATCTGGGACATGCATC-GGCATCA-GA
* *
44411458 TGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAGGGA
1 TGAGAGCCAGTGTAAGACCATATCTGGGACAT-GCATCGGCATCA--GA
* *
44411506 TGAGTGCCAGTGTAAGA-CATATCTGGGACATGCATCGGCCTTGACAGA
1 TGAGAGCCAGTGTAAGACCATATCTGGGACATGCATCGG-CAT--CAGA
* * * * * *
44411554 -GATAGCCAGTGTAAGA-CGTGTCTGGGACACGTATCGGC-TAAGAA
1 TGAGAGCCAGTGTAAGACCATATCTGGGACATGCATCGGCATCAG-A
* * * * * * *
44411598 T-TGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCACGCGTATA
1 TGAGAGCCAGTGTAAGACCATATCTGGGACATGCATCGGCA-TC--AGA
* *
44411645 TGAGAGCCAGTGTAAGACCATGTCAGGGACATGGCATCGG
1 TGAGAGCCAGTGTAAGACCATATCTGGGACAT-GCATCGG
44411685 TAATATATCC
Statistics
Matches: 251, Mismatches: 47, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
43 2 0.01
44 30 0.12
45 2 0.01
46 43 0.17
47 95 0.38
48 56 0.22
49 15 0.06
50 8 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
TGAGAGCCAGTGTAAGACCATATCTGGGACATGCATCGGCATCAGA
Found at i:44411487 original size:94 final size:93
Alignment explanation
Indices: 44411319--44411684 Score: 386
Period size: 94 Copynumber: 3.9 Consensus size: 93
44411309 TGGGTGATTT
* * ** * *
44411319 GAGTGCCAGTGTAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGAGCCAGTGTAAGACCA
1 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCA
* *
44411384 TATCTGGGACATGGCATCGGCATCCAGAC
66 TGTCTGGGACATGGCATCGGCAT-CAGAA
* * *
44411413 GAGGGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCA
1 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCA
*
44411478 TGTCTGGGACATGGCATCGGCA-CAGGGAT
66 TGTCTGGGACATGGCATCGGCATCA--GAA
* * * *
44411507 GAGTGCCAGTGTAAGACATATCTGGGACATGCATCGGCCTTGAC-A-GAGATAGCCAGTGTAAGA
1 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ACTATGAG--AGCCAGTGTAAGA
* * * *
44411570 -CGTGTCTGGGACA-CGTATCGGC-TAAGAA
63 CCATGTCTGGGACATGGCATCGGCATCAGAA
** *
44411598 TTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGA
1 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGAGAGCCAGTGTAAGA
*
44411662 CCATGTCAGGGACATGGCATCGG
63 CCATGTCTGGGACATGGCATCGG
44411685 TAATATATCC
Statistics
Matches: 226, Mismatches: 33, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
91 34 0.15
92 15 0.07
93 24 0.11
94 138 0.61
95 15 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (93 bp):
GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGGCATCGGCATCAGAA
Found at i:44411576 original size:141 final size:138
Alignment explanation
Indices: 44411321--44411684 Score: 389
Period size: 141 Copynumber: 2.6 Consensus size: 138
44411311 GGTGATTTGA
* * *
44411321 GTGCCAGTGTAAGACATGTCTGGGACATGCTTTGGCCACA-TTATGAGAGCCAGTGTAAGACCAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGGTATGAGAGCCAGTGTAAGACCAT
* * * *
44411385 ATCTGGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTAGGACATGCATCAG
65 ATCTGGGACATGGCATCGGCATACAGACGAGAGCCAGTGTAAGACATGTCTAGGACACGCATCAG
*
44411450 CCATACTA-T
130 CCA-ACAATT
* *
44411459 GATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGGGATGAGTGCCAGTGTAAGA-
1 G-T-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGGTATGAGAGCCAGTGTAAGAC
* * * * *
44411523 CATATCTGGGACAT-GCATCGGCCTTGACAGA-GATAGCCAGTGTAAGACGTGTCTGGGACACGT
62 CATATCTGGGACATGGCATCGG-CAT-ACAGACGAGAGCCAGTGTAAGACATGTCTAGGACACGC
* * *
44411586 ATCGGCTAAGAATT
125 ATCAGCCAACAATT
* *
44411600 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAC-GCGTATATGAGAGCCAGTGTAAGACC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAG-G--TATGAGAGCCAGTGTAAGACC
* *
44411664 ATGTCAGGGACATGGCATCGG
63 ATATCTGGGACATGGCATCGG
44411685 TAATATATCC
Statistics
Matches: 189, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
136 1 0.01
137 10 0.05
138 15 0.08
139 29 0.15
140 34 0.18
141 74 0.39
142 26 0.14
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (138 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGGTATGAGAGCCAGTGTAAGACCATA
TCTGGGACATGGCATCGGCATACAGACGAGAGCCAGTGTAAGACATGTCTAGGACACGCATCAGC
CAACAATT
Found at i:44419133 original size:22 final size:22
Alignment explanation
Indices: 44419108--44419152 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
44419098 GTTCTTAATA
**
44419108 TTGTATATAAACGTGATTCTTG
1 TTGTATATAAACCAGATTCTTG
44419130 TTGTATATAAACCAGATTCTTG
1 TTGTATATAAACCAGATTCTTG
44419152 T
1 T
44419153 CCAAAACGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (22 bp):
TTGTATATAAACCAGATTCTTG
Found at i:44422141 original size:25 final size:25
Alignment explanation
Indices: 44422112--44422162 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
44422102 TAAAAATAAT
44422112 TATATTAAAATATTATTAAATTATA
1 TATATTAAAATATTATTAAATTATA
*** *
44422137 TATATTATTTTTTTATTAAATTATA
1 TATATTAAAATATTATTAAATTATA
44422162 T
1 T
44422163 TAAATAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATATTAAAATATTATTAAATTATA
Found at i:44422170 original size:59 final size:55
Alignment explanation
Indices: 44422105--44422215 Score: 168
Period size: 59 Copynumber: 1.9 Consensus size: 55
44422095 TTTAATATAA
* *
44422105 AAATAATTATATTAAAATATTATTAAATTATATATATTATTTTTTTATTAAATTATATT
1 AAATAATAATATTAAAATATGATTAAATTAT-T-TATTA--TTTTTATTAAATTATATT
44422164 AAATAATAATATTAAAATATGATTAAATTATTTATTATTTTTATTAAATTAT
1 AAATAATAATATTAAAATATGATTAAATTATTTATTATTTTTATTAAATTAT
44422216 TTTTAATAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
55 15 0.30
57 5 0.10
58 1 0.02
59 29 0.58
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (55 bp):
AAATAATAATATTAAAATATGATTAAATTATTTATTATTTTTATTAAATTATATT
Found at i:44422199 original size:23 final size:22
Alignment explanation
Indices: 44422148--44422200 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
44422138 ATATTATTTT
*
44422148 TTTATTAAATTATATTAAATAA
1 TTTATTAAAATATATTAAATAA
* *
44422170 TAATATTAAAATATGATTAAATTA
1 T-TTATTAAAATAT-ATTAAATAA
44422194 TTTATTA
1 TTTATTA
44422201 TTTTTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 15 0.60
24 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTATTAAAATATATTAAATAA
Found at i:44422428 original size:16 final size:16
Alignment explanation
Indices: 44422407--44422444 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
44422397 TGAATTACTG
44422407 ATTACAACCCTATTTC
1 ATTACAACCCTATTTC
*
44422423 ATTACAACTCTATTTC
1 ATTACAACCCTATTTC
44422439 ATTACA
1 ATTACA
44422445 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACCCTATTTC
Found at i:44423689 original size:12 final size:11
Alignment explanation
Indices: 44423666--44423700 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
44423656 ATATTGTATA
44423666 ATTATTATTTT
1 ATTATTATTTT
*
44423677 ATTGTTAATTTT
1 ATTATT-ATTTT
44423689 ATTATTATTTT
1 ATTATTATTTT
44423700 A
1 A
44423701 GAGATATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:44435427 original size:29 final size:31
Alignment explanation
Indices: 44435385--44435449 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
44435375 GTGGATTTAT
* *
44435385 ATTATATTTATATAA-AAAATTTA-AAAAAA
1 ATTATAATAATATAATAAAATTTATAAAAAA
* *
44435414 ATTATAATAATATAATTAATTTTATAAAAAA
1 ATTATAATAATATAATAAAATTTATAAAAAA
44435445 ATTAT
1 ATTAT
44435450 TTTTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.43
30 6 0.20
31 11 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
ATTATAATAATATAATAAAATTTATAAAAAA
Found at i:44437803 original size:15 final size:15
Alignment explanation
Indices: 44437702--44437813 Score: 58
Period size: 15 Copynumber: 7.8 Consensus size: 15
44437692 CTTTTTTCGT
*
44437702 TTATTTTCATTTCT-
1 TTATTTTCATTACTA
* *
44437716 TTTTTTTACA-TATTA
1 TTATTTT-CATTACTA
* *
44437731 TTAATATCATTACTA
1 TTATTTTCATTACTA
*
44437746 TTATTTT-ATTTCTA
1 TTATTTTCATTACTA
*
44437760 TTATTATC-TT--TA
1 TTATTTTCATTACTA
* * *
44437772 TTA-TTACTGTTAGTA
1 TTATTTTC-ATTACTA
44437787 TTATTTTCATTACTA
1 TTATTTTCATTACTA
*
44437802 TTATTTTTATTA
1 TTATTTTCATTA
44437814 ACATATTAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 17
0.68 0.16 0.16
Matches are distributed among these distances:
11 2 0.03
12 5 0.07
13 2 0.03
14 24 0.33
15 36 0.50
16 3 0.04
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATTTTCATTACTA
Done.