Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 39 of 172
Found at i:9960163 original size:93 final size:93
Alignment explanation
Indices: 9960050--9960221 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
9960040 CGCCCATAAG
* *
9960050 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9960115 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
9960143 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9960208 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
9960222 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:9960218 original size:46 final size:46
Alignment explanation
Indices: 9960043--9960218 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
9960033 TGTAACCCGC
* * *
9960043 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
9960089 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
9960139 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
9960182 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
9960219 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:9969402 original size:13 final size:13
Alignment explanation
Indices: 9969384--9969408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9969374 TAACTAAAAC
9969384 AACACATAAATAA
1 AACACATAAATAA
9969397 AACACATAAATA
1 AACACATAAATA
9969409 TTATATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
AACACATAAATAA
Found at i:9970314 original size:41 final size:41
Alignment explanation
Indices: 9970118--9970304 Score: 320
Period size: 41 Copynumber: 4.6 Consensus size: 41
9970108 ACCGACACTT
* * *
9970118 AGCCTGCTAGACATAAAGTCTGATATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
* *
9970159 AGCCTGTTAGACGTAATGTCTGGTATGTTTCACTGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
*
9970200 AGCCTGCTAGACGTAATTTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
9970241 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
9970282 AGCCTGCTAGACGTAATGTCTGG
1 AGCCTGCTAGACGTAATGTCTGG
9970305 ATTACTTCAC
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
Found at i:9970502 original size:12 final size:12
Alignment explanation
Indices: 9970485--9970509 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9970475 AAATTCATAA
9970485 ACATATATATAT
1 ACATATATATAT
9970497 ACATATATATAT
1 ACATATATATAT
9970509 A
1 A
9970510 AAGTCGAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:9976093 original size:34 final size:34
Alignment explanation
Indices: 9976055--9976131 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
9976045 TTACATTGTT
9976055 ATTTGGTGTGCTAGATGGATTAGCTCATACGAGC
1 ATTTGGTGTGCTAGATGGATTAGCTCATACGAGC
* *
9976089 ATTTGGTGTGCTGGATGGATTAGCTCTTACGAGC
1 ATTTGGTGTGCTAGATGGATTAGCTCATACGAGC
*
9976123 ATCTGGTGT
1 ATTTGGTGT
9976132 AACACCCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.35
Consensus pattern (34 bp):
ATTTGGTGTGCTAGATGGATTAGCTCATACGAGC
Found at i:9981323 original size:60 final size:60
Alignment explanation
Indices: 9981213--9981331 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
9981203 AAAAAAAACT
* * *
9981213 AAAATAAATTTTCAAACAATAAATTTTATATATTATTACAAGATGACCATACTAGTTGAG
1 AAAATAAATTTTCAAACAATAAATTGTATATATTATCACAAGATGACCATACTAATTGAG
** **
9981273 AAAATAAATTTTCAAACAATGTATTGTATATATTATCATGAGATCG-CCATACTAATTGA
1 AAAATAAATTTTCAAACAATAAATTGTATATATTATCACAAGAT-GACCATACTAATTGA
9981332 TTTATCAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 50 0.98
61 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (60 bp):
AAAATAAATTTTCAAACAATAAATTGTATATATTATCACAAGATGACCATACTAATTGAG
Found at i:9981814 original size:12 final size:13
Alignment explanation
Indices: 9981797--9981826 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9981787 CTAAGAGACT
9981797 AAAAA-TATATTA
1 AAAAATTATATTA
9981809 AAAAATTATATTA
1 AAAAATTATATTA
9981822 AAAAA
1 AAAAA
9981827 CACTATCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAATTATATTA
Found at i:9982166 original size:20 final size:20
Alignment explanation
Indices: 9982130--9982208 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
9982120 TTAGTAAATG
9982130 TTTTTAAAATTATTAAAATTAT
1 TTTTTAAAA-TA-TAAAATTAT
9982152 TTTTTAAAATATAAAATTA-
1 TTTTTAAAATATAAAATTAT
* * * *
9982171 ---CTAAATTATTATATTAT
1 TTTTTAAAATATAAAATTAT
*
9982188 TTTTTGAAATATAAAATTAT
1 TTTTTAAAATATAAAATTAT
9982208 T
1 T
9982209 AAAATAGAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
16 12 0.27
20 21 0.48
21 2 0.05
22 9 0.20
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (20 bp):
TTTTTAAAATATAAAATTAT
Found at i:9982192 original size:37 final size:37
Alignment explanation
Indices: 9982136--9982211 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 37
9982126 AATGTTTTTA
9982136 AAATTATTAAAATTATTTTTTAAAATATAAAATTACT
1 AAATTATTAAAATTATTTTTTAAAATATAAAATTACT
* * *
9982173 AAATTATT-ATATTATTTTTTGAAATATAAAATTATT
1 AAATTATTAAAATTATTTTTTAAAATATAAAATTACT
9982209 AAA
1 AAA
9982212 ATAGAACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 28 0.78
37 8 0.22
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (37 bp):
AAATTATTAAAATTATTTTTTAAAATATAAAATTACT
Found at i:9982992 original size:28 final size:30
Alignment explanation
Indices: 9982928--9982999 Score: 114
Period size: 28 Copynumber: 2.5 Consensus size: 30
9982918 GCAACGATCT
9982928 ATTTTAATAATTTTATATTTCAAAAAAATA
1 ATTTTAATAATTTTATATTTCAAAAAAATA
*
9982958 A-TATAATAATTTTATA-TT-AAAAAAATA
1 ATTTTAATAATTTTATATTTCAAAAAAATA
9982985 ATTTTAATAATTTTA
1 ATTTTAATAATTTTA
9983000 AAATAATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 10 0.26
28 14 0.36
29 14 0.36
30 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTTAATAATTTTATATTTCAAAAAAATA
Found at i:9987857 original size:12 final size:12
Alignment explanation
Indices: 9987838--9987867 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9987828 AAGGAAAAAC
9987838 AATAATACTAAT
1 AATAATACTAAT
*
9987850 ACTAATACTAAT
1 AATAATACTAAT
9987862 AATAAT
1 AATAAT
9987868 TTATTAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAATACTAAT
Found at i:9988693 original size:26 final size:26
Alignment explanation
Indices: 9988664--9988713 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9988654 CTCTCAATAA
9988664 TTTTCTGTA-TTGATTGCTCTGTGTTT
1 TTTTCTGTATTTGATTG-TCTGTGTTT
*
9988690 TTTTTTGTATTTGATTGTCTGTGT
1 TTTTCTGTATTTGATTGTCTGTGT
9988714 AAAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (26 bp):
TTTTCTGTATTTGATTGTCTGTGTTT
Found at i:9989336 original size:25 final size:24
Alignment explanation
Indices: 9989308--9989361 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
9989298 GTTGAATAAT
* *
9989308 GGTAAGCTCATACGAGCTGAGTATC
1 GGTAAGCTCATAAGAGCT-AGAATC
*
9989333 GGTAAGCTCATAAGTGCTAGAATC
1 GGTAAGCTCATAAGAGCTAGAATC
9989357 GGTAA
1 GGTAA
9989362 CCCTAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (24 bp):
GGTAAGCTCATAAGAGCTAGAATC
Found at i:9992122 original size:41 final size:40
Alignment explanation
Indices: 9992044--9992130 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
9992034 ATTTTTGAGG
** *
9992044 TATGATTTCGTGTAAGACCATGTCTAGGACATTGGCATTGTA
1 TATG-TTTCGTGTAAGACCATGTCTAGGACAGAGGCATCG-A
* *
9992086 TATGTTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGA
1 TATGTTTCGTGTAAGACCATGTCTAGGACAGAGGCATCGA
9992126 TATGT
1 TATGT
9992131 GATAACATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 6 0.15
41 30 0.75
42 4 0.10
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
TATGTTTCGTGTAAGACCATGTCTAGGACAGAGGCATCGA
Found at i:9996033 original size:8 final size:8
Alignment explanation
Indices: 9996020--9996046 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9996010 ATAAGAATGT
9996020 ATGCATGC
1 ATGCATGC
9996028 ATGCATGC
1 ATGCATGC
9996036 ATGCATGC
1 ATGCATGC
9996044 ATG
1 ATG
9996047 TATGTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (8 bp):
ATGCATGC
Found at i:9996035 original size:12 final size:12
Alignment explanation
Indices: 9996020--9996046 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9996010 ATAAGAATGT
9996020 ATGCATGCATGC
1 ATGCATGCATGC
9996032 ATGCATGCATGC
1 ATGCATGCATGC
9996044 ATG
1 ATG
9996047 TATGTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (12 bp):
ATGCATGCATGC
Found at i:9998792 original size:26 final size:26
Alignment explanation
Indices: 9998762--9998814 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
9998752 CCTTTTATAA
9998762 ACCGTCCAAACAGTTTGGTTTAAATG
1 ACCGTCCAAACAGTTTGGTTTAAATG
9998788 ACCGTCCAAACAGTTTGGTTTAAATG
1 ACCGTCCAAACAGTTTGGTTTAAATG
9998814 A
1 A
9998815 GATCTAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (26 bp):
ACCGTCCAAACAGTTTGGTTTAAATG
Found at i:10000745 original size:29 final size:29
Alignment explanation
Indices: 10000712--10000781 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
10000702 TCTTTTTTAG
*
10000712 TCATCTAATTATGAAA-AGTTACAAAATGA
1 TCATCTAACTATGAAACA-TTACAAAATGA
10000741 TCATCTAACTATGAAACATTACAAAATGA
1 TCATCTAACTATGAAACATTACAAAATGA
10000770 TCAT-TCAACTAT
1 TCATCT-AACTAT
10000782 TTAATTTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 1 0.03
29 36 0.95
30 1 0.03
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (29 bp):
TCATCTAACTATGAAACATTACAAAATGA
Found at i:10007389 original size:17 final size:18
Alignment explanation
Indices: 10007367--10007400 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10007357 AAATATGTAA
*
10007367 CATATGTATATA-AGATG
1 CATATGCATATATAGATG
10007384 CATATGCATATATAGAT
1 CATATGCATATATAGAT
10007401 AAATATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (18 bp):
CATATGCATATATAGATG
Found at i:10009202 original size:44 final size:44
Alignment explanation
Indices: 10009152--10009306 Score: 148
Period size: 44 Copynumber: 3.5 Consensus size: 44
10009142 ACCAATATAG
* *
10009152 GAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * * * * * ***
10009196 GAAGACACGATCTGTTTTCTTTGACCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACAT
* * *
10009241 GGAGACAAGATCTGGTATCTATGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
* * *
10009285 AAAGACATGATCTGTTATCTTT
1 GAAGACAAGATCTGCTATCTTT
10009307 TAACCTGCTC
Statistics
Matches: 83, Mismatches: 27, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
44 50 0.60
45 33 0.40
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:10019588 original size:17 final size:18
Alignment explanation
Indices: 10019566--10019599 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10019556 AAATATGTAA
*
10019566 CATATGTATATA-AGATG
1 CATATGCATATATAGATG
10019583 CATATGCATATATAGAT
1 CATATGCATATATAGAT
10019600 AAATATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (18 bp):
CATATGCATATATAGATG
Found at i:10042259 original size:11 final size:11
Alignment explanation
Indices: 10042243--10042267 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10042233 TTGCTTATAA
10042243 TGATGAATGTG
1 TGATGAATGTG
10042254 TGATGAATGTG
1 TGATGAATGTG
10042265 TGA
1 TGA
10042268 AATGGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (11 bp):
TGATGAATGTG
Found at i:10046433 original size:25 final size:26
Alignment explanation
Indices: 10046382--10046449 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
10046372 AAGAAAATCC
* **
10046382 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
10046408 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
10046433 AAAATGAATGCAAAAAT
1 AAAA-GAATGAAAAAAT
10046450 GTATTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 10 0.28
26 26 0.72
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.22
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:10050713 original size:19 final size:19
Alignment explanation
Indices: 10050688--10050779 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
10050678 AATCATATCT
10050688 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
10050707 ACTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
10050726 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
10050745 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
10050764 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10050780 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10050736 original size:38 final size:38
Alignment explanation
Indices: 10050681--10050779 Score: 175
Period size: 38 Copynumber: 2.7 Consensus size: 38
10050671 ATTACAAAAT
10050681 CATATC-T-TCTAAGATTGCATATCATAACTAAGATTA
1 CATATCATATCTAAGATTGCATATCATAACTAAGATTA
*
10050717 CATATCATATCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATAACTAAGATTA
10050755 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
10050780 CTTGAAGATT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 53 0.88
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.36
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATAACTAAGATTA
Found at i:10050912 original size:15 final size:14
Alignment explanation
Indices: 10050881--10050911 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10050871 AATTTTGGAC
*
10050881 TTTGTTTTATTATT
1 TTTGGTTTATTATT
10050895 TTTGGTTTATTATT
1 TTTGGTTTATTATT
10050909 TTT
1 TTT
10050912 TATGAGCCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTGGTTTATTATT
Found at i:10051145 original size:50 final size:51
Alignment explanation
Indices: 10051005--10051146 Score: 162
Period size: 51 Copynumber: 2.8 Consensus size: 51
10050995 GTGGCCATCA
* * *
10051005 CTATCCAATGCACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAG
1 CTATCCGATACACGTAGTAGCCTGCACATAGTACTACACACGCGATCGAAG
* * * ** *
10051056 CTATCCGATACGCATAGTAGCCTGCACATAGTACTACACATGCGA-CTTAT
1 CTATCCGATACACGTAGTAGCCTGCACATAGTACTACACACGCGATCGAAG
* *
10051106 C-ATTCTGGTACACGTAGTAGCCTGCACATAGTACTACACAC
1 CTA-TCCGATACACGTAGTAGCCTGCACATAGTACTACACAC
10051147 ATGACCATAA
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.01
50 36 0.47
51 39 0.51
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
CTATCCGATACACGTAGTAGCCTGCACATAGTACTACACACGCGATCGAAG
Found at i:10051173 original size:101 final size:102
Alignment explanation
Indices: 10050958--10051187 Score: 243
Period size: 101 Copynumber: 2.3 Consensus size: 102
10050948 TTTAATGATA
* * *
10050958 CCGATTCACATAGTAGCCTGCACACAGCACTACACATGTGGCCATCACTATCCAATGCACGTAGT
1 CCGATTCACATAGTAGCCTGCACACAGCACTACACATGCGACCATCACTATCCAATACACGTAGT
* * *
10051023 AGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
66 AGCCTGCACATAGTACTACACACATGATCCAAACTAT
* * * * * ***
10051060 CCGATACGCATAGTAGCCTGCACATAGTACTACACATGCGACTTATCA-T-TCTGGTACACGTAG
1 CCGATTCACATAGTAGCCTGCACACAGCACTACACATGCGAC-CATCACTATCCAATACACGTAG
*
10051123 TAGCCTGCACATAGTACTACACACATGA-CCATAACTTT
65 TAGCCTGCACATAGTACTACACACATGATCCA-AACTAT
* * *
10051161 CAC-TTTCACATAGTGGCCTACACACAG
1 C-CGATTCACATAGTAGCCTGCACACAG
10051188 TCCATGCCAC
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
100 2 0.02
101 60 0.58
102 38 0.37
103 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (102 bp):
CCGATTCACATAGTAGCCTGCACACAGCACTACACATGCGACCATCACTATCCAATACACGTAGT
AGCCTGCACATAGTACTACACACATGATCCAAACTAT
Found at i:10053975 original size:42 final size:42
Alignment explanation
Indices: 10053895--10053976 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
10053885 CATTTTCTCT
* **
10053895 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
10053937 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
10053977 CACACCGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:10056784 original size:16 final size:16
Alignment explanation
Indices: 10056763--10056794 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10056753 GTTTTGTTGC
*
10056763 TAATTTTATTTTTTCA
1 TAATTTTACTTTTTCA
10056779 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
10056795 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TAATTTTACTTTTTCA
Found at i:10057077 original size:51 final size:51
Alignment explanation
Indices: 10057022--10057212 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 51
10057012 CCGGTTCACA
* * *
10057022 TAGTAGTCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
* * * * *
10057073 TAGTAGCCTGCACATAGTACTACAGACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTACACG
* * *
10057124 TAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACACG
* *
10057174 TAATAGCCTGCACATAGTAATACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
10057213 TTCAATTTCA
Statistics
Matches: 113, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
49 4 0.04
50 39 0.35
51 67 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
Found at i:10057138 original size:102 final size:101
Alignment explanation
Indices: 10057020--10057204 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
10057010 TACCGGTTCA
* *
10057020 CATAGTAGTCTGCACATAGTACTACACATGTGACC-ATCACTATCTGATACACGTAGTAGCCTGC
1 CATAGTAGTCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGATACACGTAATAGCCTGC
* *
10057084 ACATAGTACTACAGACGTGATCGAAGCTATCCGGTACG
64 ACATAGTAATACACACGTGATCGAAGCTATCCGGTACG
*
10057122 CATAGTAG-CTTGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAATAGCCTGCA
1 CATAGTAGTC-TGCACATAGTACTACACATGCGACCTATCATTCTGATACACGTAATAGCCTGCA
10057186 CATAGTAATACACACGTGA
65 CATAGTAATACACACGTGA
10057205 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 39 0.51
102 33 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGTCTGCACATAGTACTACACATGCGACCTATCATTCTGATACACGTAATAGCCTGCAC
ATAGTAATACACACGTGATCGAAGCTATCCGGTACG
Found at i:10062191 original size:35 final size:35
Alignment explanation
Indices: 10062152--10062230 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
10062142 TATCACCTAA
* *
10062152 AAGGACCTGATAACCTTTTCCAT-AGTGTTGCCCCG
1 AAGGACCTGATAACCGTTTCC-TCAGTGTCGCCCCG
10062187 AAGGACCTGATAACCGTTTCCTCAGTGTCGCCCCG
1 AAGGACCTGATAACCGTTTCCTCAGTGTCGCCCCG
*
10062222 AAAGACCTG
1 AAGGACCTG
10062231 TCGAATACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (35 bp):
AAGGACCTGATAACCGTTTCCTCAGTGTCGCCCCG
Found at i:10063984 original size:23 final size:22
Alignment explanation
Indices: 10063958--10064002 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
10063948 TTTCTTGAAA
10063958 TTTTAGTG-TTTAGCTTTCATTTC
1 TTTTAG-GCTTTAGCTTT-ATTTC
*
10063981 TTTTAGGCTTTAGGTTTATTTC
1 TTTTAGGCTTTAGCTTTATTTC
10064003 AGTTCTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.13, C:0.11, G:0.16, T:0.60
Consensus pattern (22 bp):
TTTTAGGCTTTAGCTTTATTTC
Found at i:10065753 original size:23 final size:21
Alignment explanation
Indices: 10065733--10065802 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
10065723 CCGCTATCAA
10065733 TTTTTTTTATCTTTCTTTATC
1 TTTTTTTTATCTTTCTTTATC
10065754 TTTTTTTT-T-TTTGC--TATC
1 TTTTTTTTATCTTT-CTTTATC
10065772 AATTTTTTTTATCTTTCTTTATC
1 --TTTTTTTTATCTTTCTTTATC
10065795 TTTTTTTT
1 TTTTTTTT
10065803 CCTTAAGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
18 4 0.10
19 3 0.07
20 10 0.24
21 18 0.43
22 3 0.07
23 4 0.10
ACGTcount: A:0.10, C:0.11, G:0.01, T:0.77
Consensus pattern (21 bp):
TTTTTTTTATCTTTCTTTATC
Found at i:10065770 original size:41 final size:41
Alignment explanation
Indices: 10065725--10065802 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
10065715 AAATAAATCC
10065725 GCTATCAATTTTTTTTATCTTTCTTTATCTTTTTTTTTTTT
1 GCTATCAATTTTTTTTATCTTTCTTTATCTTTTTTTTTTTT
10065766 GCTATCAATTTTTTTTATCTTTCTTTATCTTTTTTTT
1 GCTATCAATTTTTTTTATCTTTCTTTATCTTTTTTTT
10065803 CCTTAAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (41 bp):
GCTATCAATTTTTTTTATCTTTCTTTATCTTTTTTTTTTTT
Found at i:10065860 original size:15 final size:16
Alignment explanation
Indices: 10065840--10065871 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10065830 TTAAAACAAA
10065840 ATTAAA-CCAAATTTT
1 ATTAAAGCCAAATTTT
10065855 ATTAAAGCCAAATTTT
1 ATTAAAGCCAAATTTT
10065871 A
1 A
10065872 CTTTCAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTAAAGCCAAATTTT
Found at i:10068498 original size:83 final size:81
Alignment explanation
Indices: 10068411--10068611 Score: 210
Period size: 82 Copynumber: 2.4 Consensus size: 81
10068401 TTAAGGCTTT
** * * *
10068411 CGCCGCTAATGGTCGGGGGTTTTAGTGGCGTTTTTGATCAACCGCCGCTAAAGTTAAG-GTATTT
1 CGCCGCTAAT-GTTAGGGGTTTTAGCGGCGTTTTTGAT-AACCGACGCTAAAGTTAAGACT-TTT
*
10068475 AGCGGCGATTTCTTTG-AAG
63 AGCGGCG-TTTCTATGAAAG
* * ** *
10068494 CGCCGCTAATATTTGGTCTTTTAGCGGCGTTTGTAT-ATAAGCGACGCTAAAGTTAAGACTTTTA
1 CGCCGCTAATGTTAGGGGTTTTAGCGGCGTTT-T-TGATAACCGACGCTAAAGTTAAGACTTTTA
10068558 GCGGCGTTTCTATGATAAG
64 GCGGCGTTTCTATGA-AAG
*
10068577 CGTCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTG
1 CGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTG
10068612 TTGAAGCGCC
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
81 8 0.08
82 44 0.45
83 44 0.45
84 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (81 bp):
CGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTGATAACCGACGCTAAAGTTAAGACTTTTAGC
GGCGTTTCTATGAAAG
Found at i:10068599 original size:42 final size:42
Alignment explanation
Indices: 10068426--10068608 Score: 155
Period size: 41 Copynumber: 4.4 Consensus size: 42
10068416 CTAATGGTCG
* *
10068426 GGGGTTTTAGTGGCGTTT-T-TGATCAACCGCCGCTAAAGTTA
1 GGGGTTTTAGCGGCGTTTCTATGAT-AAGCGCCGCTAAAGTTA
* * *
10068467 -AGGTATTTAGCGGCGATTTCTTTG--AAGCGCCGCTAATA-TTT
1 GGGGT-TTTAGCGGCG-TTTCTATGATAAGCGCCGCTAA-AGTTA
** * *
10068508 GGTCTTTTAGCGGCGTTTGTAT-ATAAGCGACGCTAAAGTTA
1 GGGGTTTTAGCGGCGTTTCTATGATAAGCGCCGCTAAAGTTA
* ** * *
10068549 AGACTTTTAGCGGCGTTTCTATGATAAGCGTCGCTAATGTTA
1 GGGGTTTTAGCGGCGTTTCTATGATAAGCGCCGCTAAAGTTA
10068591 GGGGTTTTAGCGGCGTTT
1 GGGGTTTTAGCGGCGTTT
10068609 TTGTTGAAGC
Statistics
Matches: 113, Mismatches: 19, Indels: 19
0.75 0.13 0.13
Matches are distributed among these distances:
40 9 0.08
41 64 0.57
42 37 0.33
43 1 0.01
44 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.36
Consensus pattern (42 bp):
GGGGTTTTAGCGGCGTTTCTATGATAAGCGCCGCTAAAGTTA
Found at i:10069600 original size:7 final size:7
Alignment explanation
Indices: 10069588--10069704 Score: 72
Period size: 7 Copynumber: 15.9 Consensus size: 7
10069578 GATATAAGGT
10069588 TTAGGGG
1 TTAGGGG
*
10069595 TTAGGGAT
1 TTAGGG-G
10069603 TTAGGGG
1 TTAGGGG
10069610 TTAGGGG
1 TTAGGGG
*
10069617 TTAAGGG
1 TTAGGGG
**
10069624 TTAAGGAT
1 TT-AGGGG
10069632 TTAGGGG
1 TTAGGGG
*
10069639 TTAAGGG
1 TTAGGGG
**
10069646 TTAGGAAT
1 TTAGG-GG
10069654 TTAGGGG
1 TTAGGGG
* **
10069661 CTATGAGAT
1 TTA-G-GGG
10069670 TTAGGGG
1 TTAGGGG
10069677 TTAGGGG
1 TTAGGGG
*
10069684 TTAGGGAT
1 TTAGGG-G
*
10069692 TTAGGGT
1 TTAGGGG
10069699 TTAGGG
1 TTAGGG
10069705 TGTCAAGGGT
Statistics
Matches: 83, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
7 57 0.69
8 23 0.28
9 3 0.04
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:10069601 original size:22 final size:22
Alignment explanation
Indices: 10069570--10069704 Score: 100
Period size: 22 Copynumber: 6.1 Consensus size: 22
10069560 GTATGGATTA
* *
10069570 GGGTTTGGGATATAAGGTTTAG
1 GGGTTAGGGATTTAAGGTTTAG
* *
10069592 GGGTTAGGGATTTAGGGGTTAG
1 GGGTTAGGGATTTAAGGTTTAG
10069614 GGGTTAAGGG--TTAAGGATTTAG
1 GGGTT-AGGGATTTAAGG-TTTAG
10069636 GGGTTAAGGG--TT-AGGAATTTAG
1 GGGTT-AGGGATTTAAGG--TTTAG
* * * *
10069658 GGGCTATGAGATTTAGGGGTTAG
1 GGGTTA-GGGATTTAAGGTTTAG
*
10069681 GGGTTAGGGATTTAGGGTTTAG
1 GGGTTAGGGATTTAAGGTTTAG
10069703 GG
1 GG
10069705 TGTCAAGGGT
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
21 9 0.10
22 67 0.72
23 13 0.14
24 2 0.02
25 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.33
Consensus pattern (22 bp):
GGGTTAGGGATTTAAGGTTTAG
Found at i:10069642 original size:15 final size:15
Alignment explanation
Indices: 10069582--10069644 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
10069572 GTTTGGGATA
10069582 TAAGG-TTTAGGGGT
1 TAAGGATTTAGGGGT
*
10069596 TAGGGATTTAGGGGT
1 TAAGGATTTAGGGGT
** *
10069611 T-AGGGGTTAAGGGT
1 TAAGGATTTAGGGGT
10069625 TAAGGATTTAGGGGT
1 TAAGGATTTAGGGGT
10069640 TAAGG
1 TAAGG
10069645 GTTAGGAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 14 0.36
15 25 0.64
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (15 bp):
TAAGGATTTAGGGGT
Found at i:10069705 original size:7 final size:7
Alignment explanation
Indices: 10069567--10069705 Score: 66
Period size: 7 Copynumber: 19.0 Consensus size: 7
10069557 GGGGTATGGA
10069567 TTAGGGT
1 TTAGGGT
10069574 TT-GGGAT
1 TTAGGG-T
* *
10069581 ATAAGGT
1 TTAGGGT
*
10069588 TTAGGGG
1 TTAGGGT
10069595 TTAGGGAT
1 TTAGGG-T
*
10069603 TTAGGGG
1 TTAGGGT
10069610 TTAGGGGT
1 TTA-GGGT
*
10069618 TAAGGGT
1 TTAGGGT
* *
10069625 TAAGGAT
1 TTAGGGT
10069632 TTAGGGGT
1 TTA-GGGT
*
10069640 TAAGGG-
1 TTAGGGT
*
10069646 TTAGGAAT
1 TTAGG-GT
*
10069654 TTAGGGG
1 TTAGGGT
* *
10069661 CTATGAGAT
1 TTA-G-GGT
*
10069670 TTAGGGG
1 TTAGGGT
*
10069677 TTAGGGG
1 TTAGGGT
10069684 TTAGGGAT
1 TTAGGG-T
10069692 TTAGGGT
1 TTAGGGT
10069699 TTAGGGT
1 TTAGGGT
10069706 GTCAAGGGTA
Statistics
Matches: 98, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
6 7 0.07
7 57 0.58
8 31 0.32
9 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.43, T:0.34
Consensus pattern (7 bp):
TTAGGGT
Found at i:10072469 original size:13 final size:13
Alignment explanation
Indices: 10072451--10072480 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10072441 AAAGTTGTTA
10072451 AATATTTGATATT
1 AATATTTGATATT
*
10072464 AATATTTGGTATT
1 AATATTTGATATT
10072477 AATA
1 AATA
10072481 ATGAAGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
AATATTTGATATT
Found at i:10075324 original size:21 final size:21
Alignment explanation
Indices: 10075298--10075365 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
10075288 AACTTAAAAT
* * *
10075298 AGAGGCGGCAGCGAGGGAAAC
1 AGAGGCCGCAGCGAGAGAAGC
* *
10075319 AGAGGCTGTAGCGAGAGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
*
10075340 AGATGCCGCAGCGAGAGAAGC
1 AGAGGCCGCAGCGAGAGAAGC
10075361 AGAGG
1 AGAGG
10075366 TTCAAAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.44, T:0.04
Consensus pattern (21 bp):
AGAGGCCGCAGCGAGAGAAGC
Found at i:10075832 original size:43 final size:42
Alignment explanation
Indices: 10075785--10075916 Score: 165
Period size: 43 Copynumber: 3.1 Consensus size: 42
10075775 ATCATATAGT
* *
10075785 GGCGTTTGTGAAATAAGCGCCGCGAAAGAACACTACTTTTAGC
1 GGCGTTTGT-AAATAAGCGCCGCTAAAGAACATTACTTTTAGC
* *
10075828 GGCGTTTGTAGATGAAGCGACGCTAAAGAACATTACTTTTAGC
1 GGCGTTTGTAAAT-AAGCGCCGCTAAAGAACATTACTTTTAGC
* * ** *
10075871 GGCGTTTTTTACCAAGCGCCGCTATAGAACATTACTTTTAGC
1 GGCGTTTGTAAATAAGCGCCGCTAAAGAACATTACTTTTAGC
10075913 GGCG
1 GGCG
10075917 AAGATCATGT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 34 0.44
43 43 0.56
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (42 bp):
GGCGTTTGTAAATAAGCGCCGCTAAAGAACATTACTTTTAGC
Found at i:10075901 original size:42 final size:43
Alignment explanation
Indices: 10075799--10075916 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 43
10075789 TTTGTGAAAT
* * **
10075799 AAGCGCCGCGAAAGAACACTACTTTTAGCGGCGTTTGTAGATG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTAGACC
* **
10075842 AAGCGACGCTAAAGAACATTACTTTTAGCGGCGTTT-TTTACC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTAGACC
*
10075884 AAGCGCCGCTATAGAACATTACTTTTAGCGGCG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCG
10075917 AAGATCATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTAGACC
Found at i:10075994 original size:42 final size:42
Alignment explanation
Indices: 10075930--10076089 Score: 194
Period size: 42 Copynumber: 3.8 Consensus size: 42
10075920 ATCATGTTCT
* * *
10075930 TTAGCGGCGTGTTTTCCCAAGCGCCGCTAAAGAACATGATCA
1 TTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* *
10075972 TTAGCAGCATTTTTTCCTAAGCGCTGCTAAAGAACATGATCA
1 TTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* * * *
10076014 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACTTGACCT
1 TTAGCGGC-ATTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* * *
10076057 TTAGCGGCGTTTTTTCTGTAAGCGCCGCAAAAG
1 TTAGCGGCATTTTTTC-CTAAGCGCCGCTAAAG
10076090 TTAGCGACGT
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
42 51 0.50
43 51 0.50
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (42 bp):
TTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
Found at i:10076044 original size:43 final size:42
Alignment explanation
Indices: 10075930--10076089 Score: 212
Period size: 43 Copynumber: 3.8 Consensus size: 42
10075920 ATCATGTTCT
* *
10075930 TTAGCGGCGTGTTTTCCCAAGCGCCGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* * *
10075972 TTAGCAGCATTTTTTCCTAAGCGCTGCTAAAGAACATGATCA
1 TTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* * *
10076014 TTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACTTGACCT
1 TTAGCGGCG-TTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
* *
10076057 TTAGCGGCGTTTTTTCTGTAAGCGCCGCAAAAG
1 TTAGCGGCGTTTTTTC-CTAAGCGCCGCTAAAG
10076090 TTAGCGACGT
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
42 51 0.50
43 52 0.50
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATCA
Found at i:10078327 original size:343 final size:342
Alignment explanation
Indices: 10077695--10078379 Score: 1334
Period size: 343 Copynumber: 2.0 Consensus size: 342
10077685 AGATTCATGA
*
10077695 TAGAAACAAAGAGAAACACTTACTGAAACTAAGCGAGCACTAACCGCGTGCGAAAATGAAGGAAA
1 TAGAAACAAAGAGAAACACTTACTGAAACTAAGCGAGCACTAACCGCATGCGAAAATGAAGGAAA
10077760 ATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGAAAAGAAAGAGGGAAAAACTCAGAGAAT
66 ATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGAAAAGAAAGAGGGAAAAACTCAGAGAAT
10077825 TTCGGTAAGAGGAGAGGGAGAAGAATAGACGACAAAATTTTTTTAAAAAAAAGAGAGTCAAAATT
131 TTCGGTAAGAGGAGAGGGAGAAGAATAGACGACAAAATTTTTTTAAAAAAAAGAGAGTCAAAATT
10077890 CGGTTATGAGAAAAAATAAAATAAAATCTCGATAACCCCCAAAATCTCTTAATCTTCTCCCCTAA
196 CGGTTATGAGAAAAAATAAAATAAAATCTCGATAACCCCCAAAATCTCTTAATCTTCTCCCCTAA
*
10077955 TTCCCACTACACATCCACTACTTAGAACTCCCCTATTACACAACTTTATCAAGAAATCTGAGCAA
261 TTCCCACTACACATCCACTACTCAGAACTCCCCTATTACACAACTTTATCAAGAAATCTGAGC-A
10078020 AAAAAAAAATACCCTTGC
325 AAAAAAAAATACCCTTGC
10078038 TAGAAACAAAGAGAAACACTTACTGAAACTAAGCGAGCACTAACCGCATGCGAAAATGAAGGAAA
1 TAGAAACAAAGAGAAACACTTACTGAAACTAAGCGAGCACTAACCGCATGCGAAAATGAAGGAAA
10078103 ATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGAAAAGAAAGAGGGAAAAACTCAGAGAAT
66 ATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGAAAAGAAAGAGGGAAAAACTCAGAGAAT
*
10078168 TTCGGTAAGAGGAGAGGGAGAAGAATAGACGACAAAATTTTTTTTAAAAAAAGAGAGTCAAAATT
131 TTCGGTAAGAGGAGAGGGAGAAGAATAGACGACAAAATTTTTTTAAAAAAAAGAGAGTCAAAATT
10078233 CGGTTATGAGAAAAAATAAAATAAAATCTCGATAACCCCCAAAATCTCTTAATCTTCTCCCCTAA
196 CGGTTATGAGAAAAAATAAAATAAAATCTCGATAACCCCCAAAATCTCTTAATCTTCTCCCCTAA
10078298 TTCCCACTACACATCCACTACTCAGAACTCCCCTATTACACAACTTTATCAAGAAATCTGAGCAA
261 TTCCCACTACACATCCACTACTCAGAACTCCCCTATTACACAACTTTATCAAGAAATCTGAGCAA
10078363 AAAAAAAATACCCTTGC
326 AAAAAAAATACCCTTGC
10078380 CTGCATAGGG
Statistics
Matches: 339, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
342 19 0.06
343 320 0.94
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (342 bp):
TAGAAACAAAGAGAAACACTTACTGAAACTAAGCGAGCACTAACCGCATGCGAAAATGAAGGAAA
ATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGAAAAGAAAGAGGGAAAAACTCAGAGAAT
TTCGGTAAGAGGAGAGGGAGAAGAATAGACGACAAAATTTTTTTAAAAAAAAGAGAGTCAAAATT
CGGTTATGAGAAAAAATAAAATAAAATCTCGATAACCCCCAAAATCTCTTAATCTTCTCCCCTAA
TTCCCACTACACATCCACTACTCAGAACTCCCCTATTACACAACTTTATCAAGAAATCTGAGCAA
AAAAAAAATACCCTTGC
Found at i:10081265 original size:73 final size:74
Alignment explanation
Indices: 10081173--10081317 Score: 184
Period size: 73 Copynumber: 2.0 Consensus size: 74
10081163 TTTAACATTG
* * ** * * *
10081173 TTTTCTTACCAAATTAATATTTAAATACTATTTTGTATTTGTTTTTCAAATTAAACTAAAAATGT
1 TTTTCTTACCAAATCAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAACAAAAAATAT
10081238 TACCAAACA
66 TACCAAACA
* **
10081247 TTTT-TTATCAAATCAATATTTAGCTACTACTTTGTATTAATTTATCAAATTAAACAAAAAATAT
1 TTTTCTTACCAAATCAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAACAAAAAATAT
*
10081311 TTCCAAA
66 TACCAAA
10081318 TTTGTAAACT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
73 56 0.93
74 4 0.07
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.43
Consensus pattern (74 bp):
TTTTCTTACCAAATCAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAACAAAAAATAT
TACCAAACA
Found at i:10088755 original size:22 final size:23
Alignment explanation
Indices: 10088730--10088772 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10088720 CTTGAGCAAA
*
10088730 TTTTATAATG-TAATATTTATCT
1 TTTTAAAATGTTAATATTTATCT
*
10088752 TTTTAAAATGTTAATTTTTAT
1 TTTTAAAATGTTAATATTTAT
10088773 ACTTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTTAAAATGTTAATATTTATCT
Found at i:10092049 original size:24 final size:24
Alignment explanation
Indices: 10091916--10092052 Score: 89
Period size: 24 Copynumber: 5.6 Consensus size: 24
10091906 CCGTAATCGA
*
10091916 GAAGCTCATGCGAGCTAATAACGG
1 GAAGCTCATGAGAGCTAATAACGG
** * *
10091940 GTAA-CTCCGGAGAGCCATTAATCGG
1 G-AAGCTCATGAGAGCTAATAA-CGG
* * **
10091965 GAAGCTC-CGAAGAGCTATATATCAA
1 GAAGCTCATG-AGAGCTA-ATAACGG
* * * *
10091990 GAAGCTCAAGAAAGCCAATATCGG
1 GAAGCTCATGAGAGCTAATAACGG
*
10092014 GATGCTCATGAGAGCTAATAACGG
1 GAAGCTCATGAGAGCTAATAACGG
*
10092038 GAAGCTCGTGAGAGC
1 GAAGCTCATGAGAGC
10092053 CTATTATCGG
Statistics
Matches: 84, Mismatches: 23, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
24 53 0.63
25 28 0.33
26 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (24 bp):
GAAGCTCATGAGAGCTAATAACGG
Found at i:10092061 original size:49 final size:47
Alignment explanation
Indices: 10091911--10092064 Score: 132
Period size: 49 Copynumber: 3.1 Consensus size: 47
10091901 AAAAGCCGTA
* *
10091911 ATCGAGAAGCTCATGCGAGCTAATAACGGGTAA-CTCCGGAGAGCCATT
1 ATCGGGAAGCTCATGAGAGCTAATAACGGG-AAGCT-CGGAGAGCCATT
* * ** * * *
10091959 AATCGGGAAGCTC-CGAAGAGCTATATATCAAGAAGCTCAAGAAAGCCAAT
1 -ATCGGGAAGCTCATG-AGAGCTA-ATAACGGGAAGCTC-GGAGAGCCATT
*
10092009 ATCGGGATGCTCATGAGAGCTAATAACGGGAAGCTCGTGAGAGCCTATT
1 ATCGGGAAGCTCATGAGAGCTAATAACGGGAAGCTCG-GAGAGCC-ATT
10092058 ATCGGGA
1 ATCGGGA
10092065 CACTCATAAG
Statistics
Matches: 81, Mismatches: 17, Indels: 14
0.72 0.15 0.12
Matches are distributed among these distances:
48 18 0.22
49 47 0.58
50 16 0.20
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (47 bp):
ATCGGGAAGCTCATGAGAGCTAATAACGGGAAGCTCGGAGAGCCATT
Found at i:10102352 original size:17 final size:17
Alignment explanation
Indices: 10102330--10102385 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
10102320 GGTTTCGTGG
*
10102330 CCACACGGGCGTCTGCC
1 CCACACGGGCGTGTGCC
* *
10102347 CCACACGGGCTTGTTCC
1 CCACACGGGCGTGTGCC
10102364 CCACACGGGCGTGTGCC
1 CCACACGGGCGTGTGCC
10102381 CCACA
1 CCACA
10102386 TGGGTGGCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (17 bp):
CCACACGGGCGTGTGCC
Found at i:10108476 original size:24 final size:25
Alignment explanation
Indices: 10108413--10108482 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
10108403 CATGTAGCGG
* * *
10108413 GAAGCTCATTCGAGCTGTATAATGGA
1 GAAGCTCATGCGAGCCG-ATAATCGA
10108439 -AAGCTCATAG-GAGCCG-TAATCGA
1 GAAGCTCAT-GCGAGCCGATAATCGA
*
10108462 GAAGCTCATGCGAGCCAATAA
1 GAAGCTCATGCGAGCCGATAA
10108483 CGGGTAACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
23 7 0.19
24 13 0.36
25 16 0.44
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
GAAGCTCATGCGAGCCGATAATCGA
Found at i:10112714 original size:40 final size:40
Alignment explanation
Indices: 10112655--10112740 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
10112645 TTATTGTATG
10112655 AATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTA
1 AATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTA
* * *
10112695 AATGCACATATGTGTCCCTGTTTGTACTTCGGTACCCCTG
1 AATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTA
10112735 AATGCA
1 AATGCA
10112741 TATCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (40 bp):
AATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTA
Found at i:10126128 original size:17 final size:18
Alignment explanation
Indices: 10126103--10126136 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10126093 AATAATTTTC
*
10126103 ATAATTTCAAAA-AAATA
1 ATAAATTCAAAATAAATA
10126120 ATAAATTCAAAATAAAT
1 ATAAATTCAAAATAAAT
10126137 TCTCAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATTCAAAATAAATA
Found at i:10127741 original size:40 final size:41
Alignment explanation
Indices: 10127635--10127741 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 41
10127625 TAAAGAGAAA
10127635 AAAAAAGACATACACATGGGTTTACATGAAATTATAAAGAG
1 AAAAAAGACATACACATGGGTTTACATGAAATTATAAAGAG
* ** * * *
10127676 AAAAAAAAGGTACAAAAT--ATATACATGAAATTATAAAGA-
1 AAAAAAGACATAC-ACATGGGTTTACATGAAATTATAAAGAG
*
10127715 ATAAAAGACATACACATGGGTTTACAT
1 AAAAAAGACATACACATGGGTTTACAT
10127742 ATAAAATTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
38 3 0.06
39 9 0.18
40 25 0.50
41 10 0.20
42 3 0.06
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.22
Consensus pattern (41 bp):
AAAAAAGACATACACATGGGTTTACATGAAATTATAAAGAG
Found at i:10128146 original size:16 final size:15
Alignment explanation
Indices: 10128121--10128153 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
10128111 GCGCATGAAT
10128121 ATAAAAATAATAATA
1 ATAAAAATAATAATA
10128136 ATAATAAATAATAATA
1 ATAA-AAATAATAATA
10128152 AT
1 AT
10128154 GATACAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAAATAATAATA
Found at i:10128147 original size:13 final size:13
Alignment explanation
Indices: 10128129--10128153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10128119 ATATAAAAAT
10128129 AATAATAATAATA
1 AATAATAATAATA
10128142 AATAATAATAAT
1 AATAATAATAAT
10128154 GATACAAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:10128625 original size:19 final size:19
Alignment explanation
Indices: 10128601--10128689 Score: 142
Period size: 19 Copynumber: 4.7 Consensus size: 19
10128591 CATATCTTCC
*
10128601 AAGATTGCATATCATATCA
1 AAGATTGCATATCATATCT
*
10128620 AAGATTACATATCATATCT
1 AAGATTGCATATCATATCT
10128639 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
* *
10128658 AAGATTACATATCATATTT
1 AAGATTGCATATCATATCT
10128677 AAGATTGCATATC
1 AAGATTGCATATC
10128690 CTTAAAGATT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:10128647 original size:38 final size:38
Alignment explanation
Indices: 10128578--10128689 Score: 161
Period size: 38 Copynumber: 2.8 Consensus size: 38
10128568 ATCAACGGCT
*
10128578 AAGATTACAAAATCATATCTTCCAAGATTGCATATCATATCA
1 AAGATTAC-ATATCATATC-T--AAGATTGCATATCATATCA
*
10128620 AAGATTACATATCATATCTAAGATTGCATATCATATCT
1 AAGATTACATATCATATCTAAGATTGCATATCATATCA
*
10128658 AAGATTACATATCATATTTAAGATTGCATATC
1 AAGATTACATATCATATCTAAGATTGCATATC
10128690 CTTAAAGATT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 49 0.73
40 1 0.01
41 9 0.13
42 8 0.12
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (38 bp):
AAGATTACATATCATATCTAAGATTGCATATCATATCA
Found at i:10131527 original size:18 final size:20
Alignment explanation
Indices: 10131504--10131544 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
10131494 AGTAAAACAT
*
10131504 CATGTTTAG-GT-TCATTTG
1 CATGTTTAGTGTCACATTTG
10131522 CATGTTTAGTGTCACATTTG
1 CATGTTTAGTGTCACATTTG
10131542 CAT
1 CAT
10131545 ATATTAGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (20 bp):
CATGTTTAGTGTCACATTTG
Found at i:10132928 original size:13 final size:13
Alignment explanation
Indices: 10132910--10132939 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10132900 GAGAATAGAT
10132910 TACTCCTCATATC
1 TACTCCTCATATC
10132923 TACTCCTCATATC
1 TACTCCTCATATC
10132936 TACT
1 TACT
10132940 TCATAAGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (13 bp):
TACTCCTCATATC
Found at i:10134954 original size:25 final size:26
Alignment explanation
Indices: 10134906--10134955 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
10134896 TGATTGGTTG
**
10134906 GATATTTTATTATTATTTTATTATAA
1 GATATTTTATTATTAAATTATTATAA
*
10134932 GATATTTTA-TATTAAATTGTTATA
1 GATATTTTATTATTAAATTATTATA
10134956 TTTTATTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
GATATTTTATTATTAAATTATTATAA
Found at i:10136166 original size:16 final size:14
Alignment explanation
Indices: 10136135--10136174 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
10136125 ATTACTATAT
10136135 AATAAAATTATTTA
1 AATAAAATTATTTA
10136149 AATAAAATATATTTTA
1 AATAAAAT-TA-TTTA
*
10136165 AATTAAATTA
1 AATAAAATTA
10136175 AGTAATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 4 0.17
16 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATAAAATTATTTA
Found at i:10144491 original size:49 final size:49
Alignment explanation
Indices: 10144381--10144511 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 49
10144371 CTAGGTATCA
10144381 AGGTCCACTGGTAGGGCATGTTAGTTGCTAACCAGATTGGAGTGCATGAG
1 AGGT-CACTGGTAGGGCATGTTAGTTGCTAACCAGATTGGAGTGCATGAG
* * * * **
10144431 GGGTCACTGGTAGCGCATGTTAGTTGCTAACTAGATTGGCGTG-AGTGCT
1 AGGTCACTGGTAGGGCATGTTAGTTGCTAACCAGATTGGAGTGCA-TGAG
*** *
10144480 AGGTTTTTGGTAGGGCATGTTAGTTGTTAACC
1 AGGTCACTGGTAGGGCATGTTAGTTGCTAACC
10144512 TGTTTAGCGA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
48 1 0.01
49 63 0.94
50 3 0.04
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.31
Consensus pattern (49 bp):
AGGTCACTGGTAGGGCATGTTAGTTGCTAACCAGATTGGAGTGCATGAG
Found at i:10151830 original size:15 final size:14
Alignment explanation
Indices: 10151810--10151839 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
10151800 CCAATCGTTC
10151810 TCTTTTTTTATTCCT
1 TCTTTTTTT-TTCCT
10151825 TCTTTTTTTTTCCT
1 TCTTTTTTTTTCCT
10151839 T
1 T
10151840 TTTACAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTTTTTCCT
Found at i:10151970 original size:22 final size:21
Alignment explanation
Indices: 10151935--10152049 Score: 71
Period size: 19 Copynumber: 5.7 Consensus size: 21
10151925 AAAGGGTATC
* *
10151935 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
10151956 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
10151979 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
10151998 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
10152017 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
10152036 TGCATATCATATCT
1 TACAAATCATATCT
10152050 AAGATTGCAT
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.03
19 45 0.57
21 7 0.09
22 15 0.19
23 10 0.13
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:10151978 original size:23 final size:22
Alignment explanation
Indices: 10151935--10151992 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10151925 AAAGGGTATC
* *
10151935 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
10151956 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
10151979 TGCATATCATATCT
1 TACAAATCATATCT
10151993 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:10151995 original size:19 final size:19
Alignment explanation
Indices: 10151971--10152061 Score: 137
Period size: 19 Copynumber: 4.8 Consensus size: 19
10151961 AATCATATCT
10151971 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
10151990 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
** *
10152009 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
10152028 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10152047 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
10152062 TCATGAAGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10152062 original size:38 final size:38
Alignment explanation
Indices: 10151948--10152062 Score: 140
Period size: 38 Copynumber: 2.9 Consensus size: 38
10151938 AAATTAAATC
* *
10151948 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATTATA
* **
10151990 TCTAAGATTATATATCATATCTAAGATTATATATTATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATTATA
*
10152028 TCTAAGATTGCATATCATATCTAAGATTGCATATT
1 TCTAAGATTACATATCATATCTAAGATTGCATATT
10152063 CATGAAGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 47 0.73
41 7 0.11
42 10 0.16
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATTATA
Found at i:10152778 original size:132 final size:132
Alignment explanation
Indices: 10152403--10152930 Score: 914
Period size: 132 Copynumber: 4.0 Consensus size: 132
10152393 TTCAACCTAT
*
10152403 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * *
10152468 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGCCATCTTCTATTT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
10152533 GC
131 GC
*
10152535 TCCACTACTGCTTAGGGAGATAAGACCTGAAATCTT-AATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* *
10152599 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCTAGCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
10152664 GC
131 GC
10152666 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * * *
10152731 AGAATTACTGGCTTTAATTTAGTCCACTCTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
10152796 GC
131 GC
*
10152798 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * *
10152863 AGAATTACTGGCTTCAATGTACTCCGCTGTAACCACAAGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
10152928 GC
131 GC
10152930 T
1 T
10152931 TCGCTGTCAA
Statistics
Matches: 374, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
131 124 0.33
132 250 0.67
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
GC
Found at i:10152813 original size:263 final size:264
Alignment explanation
Indices: 10152403--10152930 Score: 914
Period size: 263 Copynumber: 2.0 Consensus size: 264
10152393 TTCAACCTAT
*
10152403 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * *
10152468 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATTCGCCATCTTCTATTT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
10152533 GCTCCACTACTGCTTAGGGAGATAAGACCTGAAATCTT-AATCTATTCCACTGTTGTCCAGGGAA
131 GCTCCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAA
* *
10152597 GTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCTAGCTTCGAT
196 GTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCAGCTTCGAT
10152662 CTGC
261 CTGC
10152666 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * * *
10152731 AGAATTACTGGCTTTAATTTAGTCCACTCTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
* *
10152796 GCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAA
131 GCTCCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAA
* * *
10152861 GTAGAATTACTGGCTTCAATGTACTCCGCTGTAACCACAAGGAGGTAAAATCCGCCATCTTCGAT
196 GTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCAGCTTCGAT
10152926 CTGC
261 CTGC
10152930 T
1 T
10152931 TCGCTGTCAA
Statistics
Matches: 249, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
263 159 0.64
264 90 0.36
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (264 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
GCTCCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAA
GTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCAGCTTCGAT
CTGC
Found at i:10158470 original size:22 final size:21
Alignment explanation
Indices: 10158435--10158568 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
10158425 AAAGGGTATC
* *
10158435 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
10158456 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
10158479 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
10158498 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
10158517 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
10158536 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
10158555 TGCATATCATATCT
1 TACAAATCATATCT
10158569 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:10158478 original size:23 final size:22
Alignment explanation
Indices: 10158435--10158492 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10158425 AAAGGGTATC
* *
10158435 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
10158456 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
10158479 TGCATATCATATCT
1 TACAAATCATATCT
10158493 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:10158495 original size:19 final size:19
Alignment explanation
Indices: 10158471--10158581 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
10158461 AATCATATCT
10158471 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
10158490 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
10158509 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
10158528 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
10158547 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10158566 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10158582 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10158518 original size:38 final size:38
Alignment explanation
Indices: 10158471--10158574 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
10158461 AATCATATCT
10158471 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
10158509 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
10158547 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
10158575 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:10167606 original size:50 final size:51
Alignment explanation
Indices: 10167531--10167666 Score: 186
Period size: 50 Copynumber: 2.7 Consensus size: 51
10167521 GTGAAGATGC
10167531 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATG-A
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GCA
* * * * *
10167581 TAGGTCGCATGTGTAGTACTATGTGCAAGCTACTATGTGTACCGGATAGCT
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCA
* *
10167632 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTA
10167667 TGTGAACTGG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
50 43 0.58
51 31 0.42
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (51 bp):
TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGCA
Found at i:10176957 original size:20 final size:20
Alignment explanation
Indices: 10176932--10176971 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10176922 AAGTGTGACT
10176932 GAGTTGGTGTCGAGAGTCAA
1 GAGTTGGTGTCGAGAGTCAA
10176952 GAGTTGGTGTCGAGAGTCAA
1 GAGTTGGTGTCGAGAGTCAA
10176972 CTTGACAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.40, T:0.25
Consensus pattern (20 bp):
GAGTTGGTGTCGAGAGTCAA
Found at i:10194287 original size:33 final size:34
Alignment explanation
Indices: 10194248--10194327 Score: 90
Period size: 37 Copynumber: 2.3 Consensus size: 34
10194238 AACTATAAAG
*
10194248 GCCGAATGCACA-TATTCACTTATACCCACCTAT
1 GCCGAATGCACACTATACACTTATACCCACCTAT
* * *
10194281 GCCGAATGCATACATCTATACACTTATATCTATCTAT
1 GCCGAATGC--ACA-CTATACACTTATACCCACCTAT
10194318 GCCGAATGCA
1 GCCGAATGCA
10194328 TACAAATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
33 9 0.23
35 4 0.10
37 26 0.67
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (34 bp):
GCCGAATGCACACTATACACTTATACCCACCTAT
Found at i:10194715 original size:41 final size:41
Alignment explanation
Indices: 10194552--10194721 Score: 250
Period size: 41 Copynumber: 4.1 Consensus size: 41
10194542 TCATATTCGG
* * * *
10194552 ATCACCGGCACCTAGCCTGCTAGGCTTATAGCCTAATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
* *
10194593 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
* *
10194634 ATCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAA
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
*
10194675 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAA
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
*
10194716 TTCACC
1 ATCACC
10194722 AATTCCAAAC
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 116 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
Found at i:10194721 original size:82 final size:82
Alignment explanation
Indices: 10194552--10194714 Score: 290
Period size: 82 Copynumber: 2.0 Consensus size: 82
10194542 TCATATTCGG
* *
10194552 ATCACCGGCACCTAGCCTGCTAGGCTTATAGCCTAATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGACACCTAGCCTGCTAGGCTTATAGCCTAATTCAAATCACCGGCACTTAGCCTGCTAGG
10194617 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
* *
10194634 ATCACCGACACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGACACCTAGCCTGCTAGGCTTATAGCCTAATTCAAATCACCGGCACTTAGCCTGCTAGG
10194699 TTTATAACCTGATTCA
66 TTTATAACCTGATTCA
10194715 ATTCACCAAT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (82 bp):
ATCACCGACACCTAGCCTGCTAGGCTTATAGCCTAATTCAAATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:10194962 original size:15 final size:16
Alignment explanation
Indices: 10194935--10194986 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
10194925 TTGTTCGATC
*
10194935 CACATATATATATATTA
1 CACACATATATATA-TA
*
10194952 CACACATATATATATT
1 CACACATATATATATA
*
10194968 CACACAT-TATATAAA
1 CACACATATATATATA
10194983 CACA
1 CACA
10194987 ACCATAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 10 0.32
16 8 0.26
17 13 0.42
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (16 bp):
CACACATATATATATA
Found at i:10194979 original size:19 final size:17
Alignment explanation
Indices: 10194935--10194980 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
10194925 TTGTTCGATC
10194935 CACATATATATATATTA
1 CACATATATATATATTA
*
10194952 CACACATATATATATTCA
1 CACATATATATATATT-A
10194970 CACAT-TATATA
1 CACATATATATA
10194981 AACACAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
CACATATATATATATTA
Found at i:10197725 original size:12 final size:12
Alignment explanation
Indices: 10197708--10197787 Score: 88
Period size: 12 Copynumber: 6.7 Consensus size: 12
10197698 CCTCACACGC
10197708 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
10197720 CCGTGTGCTAGG
1 CCGTGTGCCAGG
* *
10197732 TCGTGTGCTAGG
1 CCGTGTGCCAGG
* *
10197744 CTGTGTGCCAAG
1 CCGTGTGCCAGG
*
10197756 CCATGTGCCAGG
1 CCGTGTGCCAGG
* *
10197768 CTGTGTGCTAGG
1 CCGTGTGCCAGG
10197780 CCGTGTGC
1 CCGTGTGC
10197788 AACCTTTTGA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.10, C:0.26, G:0.39, T:0.25
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:10197744 original size:24 final size:24
Alignment explanation
Indices: 10197708--10197787 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
10197698 CCTCACACGC
*
10197708 CCGTGTGCCAGGCCGTGTGCTAGG
1 CCGTGTGCCAGGCTGTGTGCTAGG
* * * *
10197732 TCGTGTGCTAGGCTGTGTGCCAAG
1 CCGTGTGCCAGGCTGTGTGCTAGG
*
10197756 CCATGTGCCAGGCTGTGTGCTAGG
1 CCGTGTGCCAGGCTGTGTGCTAGG
10197780 CCGTGTGC
1 CCGTGTGC
10197788 AACCTTTTGA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.10, C:0.26, G:0.39, T:0.25
Consensus pattern (24 bp):
CCGTGTGCCAGGCTGTGTGCTAGG
Found at i:10197763 original size:36 final size:36
Alignment explanation
Indices: 10197708--10197787 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
10197698 CCTCACACGC
* * *
10197708 CCGTGTGCCAGGCCGTGTGCTAGGTC-GTGTGCTAGG
1 CCGTGTGCCAAGCCATGTGCCAGG-CTGTGTGCTAGG
*
10197744 CTGTGTGCCAAGCCATGTGCCAGGCTGTGTGCTAGG
1 CCGTGTGCCAAGCCATGTGCCAGGCTGTGTGCTAGG
10197780 CCGTGTGC
1 CCGTGTGC
10197788 AACCTTTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.10, C:0.26, G:0.39, T:0.25
Consensus pattern (36 bp):
CCGTGTGCCAAGCCATGTGCCAGGCTGTGTGCTAGG
Found at i:10198976 original size:25 final size:25
Alignment explanation
Indices: 10198915--10198994 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
10198905 TACATGTATT
* * *
10198915 CTCATACGAGCTATGAATCGGTATG
1 CTCATACAAGCTATAAATCGGTAAG
* *
10198940 TTC-TCACTAGCTATAAATCGGTAAG
1 CTCAT-ACAAGCTATAAATCGGTAAG
* *
10198965 CTCATACAAGCT-GAAATCGATAAG
1 CTCATACAAGCTATAAATCGGTAAG
10198989 CTCATA
1 CTCATA
10198995 TGACTTGAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
24 17 0.38
25 27 0.60
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (25 bp):
CTCATACAAGCTATAAATCGGTAAG
Found at i:10202937 original size:22 final size:22
Alignment explanation
Indices: 10202903--10202958 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
10202893 CCTCAGCTAG
* *
10202903 AAGGGTGCA-GTACCTCTTGAAA
1 AAGGGTG-AGGTACCCCATGAAA
*
10202925 AAGGGTGAGGTACCCCATGAAT
1 AAGGGTGAGGTACCCCATGAAA
10202947 AA-GGTGAGGTAC
1 AAGGGTGAGGTAC
10202959 TTGGGTCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (22 bp):
AAGGGTGAGGTACCCCATGAAA
Found at i:10205593 original size:2 final size:2
Alignment explanation
Indices: 10205588--10205660 Score: 83
Period size: 2 Copynumber: 36.5 Consensus size: 2
10205578 TTCCCACACA
* * *
10205588 TC TC TC TC TC AC AC TC TC TT TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * *
10205630 TC TC TC TC TC TC AC TC AC TC AC TT TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10205661 TCCATTCCCT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.07, C:0.47, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:10212248 original size:15 final size:16
Alignment explanation
Indices: 10212228--10212257 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10212218 TAACAAATAA
10212228 TATATAAT-TATATTT
1 TATATAATATATATTT
10212243 TATATAATATATATT
1 TATATAATATATATT
10212258 AATTGTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:10216915 original size:50 final size:50
Alignment explanation
Indices: 10216807--10217053 Score: 185
Period size: 50 Copynumber: 4.8 Consensus size: 50
10216797 ATTTGGGTAA
* *
10216807 AGAGATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
* * *
10216863 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * * *
10216913 AGAGGTCCC-TCGTAAGACCATGTTTGGGAGATGGCATGGGCACCGATATG
1 AGAGATCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * * * * *
10216963 AGA-ACTCCCATGTTAGACAATATCTGGGATATGGAATTGGCAAT-AAAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * *
10217012 AAACATCCCATCTAAGACCATGTCTGGGACATGTCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10217054 TGTTATTATC
Statistics
Matches: 154, Mismatches: 33, Indels: 15
0.76 0.16 0.07
Matches are distributed among these distances:
49 35 0.23
50 76 0.49
51 1 0.01
53 4 0.03
55 1 0.01
56 37 0.24
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:10222617 original size:38 final size:38
Alignment explanation
Indices: 10222566--10222642 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
10222556 TCCACCTTGG
*
10222566 AATAGTAGCATTCTATTGTTCATGGAGGCCTCAGTTCA
1 AATAGTAGCATTCTATTGTTCATGAAGGCCTCAGTTCA
*
10222604 AATAGTAGCATTCTATTGTTCGTGAAGGCCTCAGTTCA
1 AATAGTAGCATTCTATTGTTCATGAAGGCCTCAGTTCA
10222642 A
1 A
10222643 CACAATGAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (38 bp):
AATAGTAGCATTCTATTGTTCATGAAGGCCTCAGTTCA
Found at i:10230742 original size:21 final size:19
Alignment explanation
Indices: 10230718--10230787 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 19
10230708 AAAAAAAAGG
10230718 AAAAAGAAAAGAAAAACACAA
1 AAAAAGAAAA-AAAAA-ACAA
* *
10230739 AAAATGAACAAAAAAACAA
1 AAAAAGAAAAAAAAAACAA
*
10230758 AAAACA-AAAATAAAAAAGAA
1 AAAA-AGAAAA-AAAAAACAA
10230778 ACAAAA-AAAA
1 A-AAAAGAAAA
10230788 CCTCGACCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
19 11 0.27
20 19 0.46
21 11 0.27
ACGTcount: A:0.83, C:0.09, G:0.06, T:0.03
Consensus pattern (19 bp):
AAAAAGAAAAAAAAAACAA
Found at i:10230754 original size:27 final size:26
Alignment explanation
Indices: 10230710--10230785 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
10230700 CGGATTTAAA
*
10230710 AAAAAAGGAAAAAGAAAAGAAAAACAC
1 AAAAAAGGAAAAAGAAAACAAAAA-AC
*
10230737 AAAAAATGAACAAA-AAAACAAAAAAC
1 AAAAAAGGAA-AAAGAAAACAAAAAAC
10230763 AAAAATA--AAAAAG-AAACAAAAAA
1 AAAAA-AGGAAAAAGAAAACAAAAAA
10230786 AACCTCGACC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 13 0.30
25 2 0.05
26 7 0.16
27 19 0.43
28 3 0.07
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (26 bp):
AAAAAAGGAAAAAGAAAACAAAAAAC
Found at i:10230766 original size:24 final size:24
Alignment explanation
Indices: 10230718--10230785 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 24
10230708 AAAAAAAAGG
*
10230718 AAAAAGAAAAGAAAAACACAAAAAATGA
1 AAAAAG-AAACAAAAA-AC-AAAAAT-A
10230746 ACAAAA-AAACAAAAAACAAAAATA
1 A-AAAAGAAACAAAAAACAAAAATA
10230770 AAAAAGAAACAAAAAA
1 AAAAAGAAACAAAAAA
10230786 AACCTCGACC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 4 0.11
24 12 0.32
25 6 0.16
26 2 0.05
27 8 0.22
28 1 0.03
29 4 0.11
ACGTcount: A:0.82, C:0.09, G:0.06, T:0.03
Consensus pattern (24 bp):
AAAAAGAAACAAAAAACAAAAATA
Found at i:10230783 original size:11 final size:10
Alignment explanation
Indices: 10230718--10230787 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 10
10230708 AAAAAAAAGG
*
10230718 AAAAAGAAAA
1 AAAAACAAAA
10230728 GAAAAACACAAA
1 -AAAAACA-AAA
10230740 AAATGAACAAAA
1 AAA--AACAAAA
10230752 AAACAA-AAAA
1 AAA-AACAAAA
*
10230762 CAAAAATAAAA
1 -AAAAACAAAA
10230773 AAGAAACAAAA
1 AA-AAACAAAA
10230784 AAAA
1 AAAA
10230788 CCTCGACCGG
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
10 10 0.20
11 27 0.54
12 9 0.18
13 4 0.08
ACGTcount: A:0.83, C:0.09, G:0.06, T:0.03
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:10231309 original size:20 final size:21
Alignment explanation
Indices: 10231286--10231326 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10231276 GAAAAATATG
*
10231286 TGAAAAT-AATAATGGAAAAA
1 TGAAAATAAAAAATGGAAAAA
10231306 TGAAAATAAAAAATGGAAAAA
1 TGAAAATAAAAAATGGAAAAA
10231327 AGTAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (21 bp):
TGAAAATAAAAAATGGAAAAA
Found at i:10232682 original size:88 final size:88
Alignment explanation
Indices: 10232566--10233354 Score: 1211
Period size: 88 Copynumber: 9.0 Consensus size: 88
10232556 GGTGAAACTT
*
10232566 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAAATCTTGCCTTCCTGTACTG
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
* *
10232631 ACAGCGAAGCAGATCAAAGATAC
66 ACAGAGAAGCAGATCGAAGATAC
* * * *
10232654 TAGCCTTGTCTCCCTAGGCAGTAGTGGAGTAGGTTAAAAATGGCAGATCTTGCCTTTCTGTACTG
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
*
10232719 ACAGAGAAGCAGATCAAAGATAC
66 ACAGAGAAGCAGATCGAAGATAC
10232742 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
10232807 ACAGAGAAGCAGATCGAAGATAC
66 ACAGAGAAGCAGATCGAAGATAC
** * *
10232830 CAGCCTTGTCTCCCTGGGCAGTAAAGGAGTAGGTTGAAAATAGCAGATATTGCCTTCCTGTACTG
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
10232895 ACAGAGAAGCAGATCGAAGATAC
66 ACAGAGAAGCAGATCGAAGATAC
* * * *
10232918 CAGCCTTGTCTCCCTCGGCAGCAATGGAGTAGGTTGAAAATGGCAGATATTGCCTTCCTGTACTG
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
10232983 ACAGAGAAGCAGATCGAAGATAC
66 ACAGAGAAGCAGATCGAAGATAC
* * * *
10233006 CAGCCTTGTCTCCTTGGGCAGTAGAGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTT
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
10233071 ACAGAGAAGCAGATCGAAGATAC
66 ACAGAGAAGCAGATCGAAGATAC
* * *
10233094 CAGCCTTGTCTCCCTGGGAAGTAGTGGAGTAGGTTGAAAATAGTAGATCTTGCCTTCCTGTACTG
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
10233159 ACAGAGAAGCAGATCGAAGATAC
66 ACAGAGAAGCAGATCGAAGATAC
* * * * * *
10233182 CAGCCTTGTCTTCTTGGGAAGTAGTGGAGTAGGTTGAAAATAGCATATCTTGCCTTTCTGTACTG
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
**
10233247 ATGGAGAAGCAGATCGAAGATAC
66 ACAGAGAAGCAGATCGAAGATAC
* * * * * *
10233270 CAGTCTTGTCTCCCTCGGCAGCAGTTGAGTAGGTCGAAAATGGCAGATCTTGCCTTTCTGTACTG
1 CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
* *
10233335 GCA-ACGAAGCAGATCAAAGA
66 ACAGA-GAAGCAGATCGAAGA
10233355 CATCAATCTT
Statistics
Matches: 647, Mismatches: 53, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
87 1 0.00
88 646 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (88 bp):
CAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATGGCAGATCTTGCCTTCCTGTACTG
ACAGAGAAGCAGATCGAAGATAC
Found at i:10233601 original size:50 final size:50
Alignment explanation
Indices: 10233547--10233683 Score: 132
Period size: 50 Copynumber: 2.7 Consensus size: 50
10233537 TTTAGCATTA
* *
10233547 CAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTC-CCTGGCGGTG
1 CAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCTCC-GACAGTG
** * * * ***
10233597 CAGTGGAGCAGATTGAAGTCACAACGTCAGATCTGGTTTCTCCGACAGTG
1 CAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCTCCGACAGTG
* ** *
10233647 CAATTAAAAAGATTGAAGCCACAATGGCGGATCTTAC
1 CAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTAC
10233684 CTCCTTAAAA
Statistics
Matches: 64, Mismatches: 22, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
50 62 0.97
51 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (50 bp):
CAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCTCCGACAGTG
Found at i:10235004 original size:7 final size:8
Alignment explanation
Indices: 10234987--10235016 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
10234977 ATTTATGTAA
10234987 TTTTTATT
1 TTTTTATT
10234995 TTTTTATT
1 TTTTTATT
10235003 TTTTTATT
1 TTTTTATT
10235011 TTTTTA
1 TTTTTA
10235017 GTACACCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:10235905 original size:12 final size:11
Alignment explanation
Indices: 10235876--10235904 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10235866 TCTGAAGTTG
10235876 AATTTTTAGTA
1 AATTTTTAGTA
10235887 AATTTTTAGTA
1 AATTTTTAGTA
10235898 AATTTTT
1 AATTTTT
10235905 TGTATTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (11 bp):
AATTTTTAGTA
Found at i:10242038 original size:17 final size:18
Alignment explanation
Indices: 10242011--10242046 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10242001 AAATTTGAGA
*
10242011 ATTTATTTTGAATTTATT
1 ATTTATTTTGAAATTATT
10242029 ATTT-TTTTGAAATTATT
1 ATTTATTTTGAAATTATT
10242046 A
1 A
10242047 CAAAAACCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
ATTTATTTTGAAATTATT
Found at i:10249419 original size:17 final size:15
Alignment explanation
Indices: 10249390--10249428 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
10249380 CAGTAATTTT
10249390 TTTTTTATTTTGTTG
1 TTTTTTATTTTGTTG
10249405 TTTTTTAGTTGTTGTTG
1 TTTTTTA-TT-TTGTTG
*
10249422 TTATTTA
1 TTTTTTA
10249429 AGGACCACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 2 0.10
17 12 0.57
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTGTTG
Found at i:10249627 original size:6 final size:6
Alignment explanation
Indices: 10249616--10249649 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
10249606 TGTATGGTTT
10249616 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
10249650 TAAGCACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:10253487 original size:13 final size:13
Alignment explanation
Indices: 10253469--10253495 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10253459 AGGGATTTTC
10253469 TATGTGTTCAATT
1 TATGTGTTCAATT
10253482 TATGTGTTCAATT
1 TATGTGTTCAATT
10253495 T
1 T
10253496 CTCAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TATGTGTTCAATT
Found at i:10259406 original size:20 final size:21
Alignment explanation
Indices: 10259376--10259415 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
10259366 TCCTCTTTGG
10259376 AAGGTGGATATCACGATACCT
1 AAGGTGGATATCACGATACCT
10259397 AAGG-GGATATCACGATACC
1 AAGGTGGATATCACGATACC
10259416 ACTGAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (21 bp):
AAGGTGGATATCACGATACCT
Found at i:10264295 original size:20 final size:18
Alignment explanation
Indices: 10264245--10264296 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
10264235 CTACAAGATA
10264245 AATATTAAATTAA-ATGT
1 AATATTAAATTAATATGT
*
10264262 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TGT
10264282 AATATTAAATTAATA
1 AATATTAAATTAATA
10264297 AAACACATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATATGT
Found at i:10265930 original size:16 final size:16
Alignment explanation
Indices: 10265909--10265939 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10265899 CTATGCATGC
*
10265909 AAAATATAAAAGATAG
1 AAAATACAAAAGATAG
10265925 AAAATACAAAAGATA
1 AAAATACAAAAGATA
10265940 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.03, G:0.10, T:0.16
Consensus pattern (16 bp):
AAAATACAAAAGATAG
Found at i:10276739 original size:27 final size:27
Alignment explanation
Indices: 10276680--10276731 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
10276670 AGCTACCTGT
10276680 ACAGT-ATATGTGGCAAAGCCACCAGCA
1 ACAGTAAT-TGTGGCAAAGCCACCAGCA
10276707 ACAGTAATTGTGGCAGAA-CCACCAG
1 ACAGTAATTGTGGCA-AAGCCACCAG
10276732 AAGTAGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (27 bp):
ACAGTAATTGTGGCAAAGCCACCAGCA
Found at i:10276898 original size:27 final size:28
Alignment explanation
Indices: 10276868--10276930 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
10276858 TTTCCCTAAT
10276868 GGGGTATTAT-GGTAGA-TTTACCCATCG
1 GGGGTATTATAGGTA-ATTTTACCCATCG
*
10276895 GGGGTATTTTAGGTAATTTTACCCATCG
1 GGGGTATTATAGGTAATTTTACCCATCG
*
10276923 AGGGTATT
1 GGGGTATT
10276931 GGGGTACAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 10 0.31
28 22 0.69
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.37
Consensus pattern (28 bp):
GGGGTATTATAGGTAATTTTACCCATCG
Found at i:10278901 original size:62 final size:59
Alignment explanation
Indices: 10278788--10278904 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 59
10278778 ATAACTTTAA
* ** * **
10278788 TATTAAATTAATATAATACTTATCAAGATAAATATTGGATTGAATTTAATATTAAATAC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATACAATATTAAATAC
*
10278847 TATTAAATTAATAGAATATTTATGTACAAGATAAATATTAAATTAAATACAATATTAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATACAATATTAA
10278905 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 20 0.42
61 1 0.02
62 27 0.56
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.39
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATACAATATTAAATAC
Found at i:10285327 original size:24 final size:24
Alignment explanation
Indices: 10285300--10285355 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
10285290 TAATTATGGA
**
10285300 AATAAATAACAAAAATTTTATGCT
1 AATAAATAACAAAAATACTATGCT
* * *
10285324 AATAAACATCAAATATACTATGCT
1 AATAAATAACAAAAATACTATGCT
10285348 AATAAATA
1 AATAAATA
10285356 GTAAATGTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.30
Consensus pattern (24 bp):
AATAAATAACAAAAATACTATGCT
Found at i:10287532 original size:26 final size:26
Alignment explanation
Indices: 10287477--10287541 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
10287467 CGGAGGAAGT
* * *
10287477 ATACTGTACTGGTAGCTTTACTACAT
1 ATACTGTACTGGAAACTTTACTACAG
*
10287503 ATACTGTTACTGGAAACTTTACTGC-G
1 ATACTG-TACTGGAAACTTTACTACAG
10287529 ATACTGATACTGG
1 ATACTG-TACTGG
10287542 CAGCATCGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (26 bp):
ATACTGTACTGGAAACTTTACTACAG
Found at i:10287720 original size:33 final size:33
Alignment explanation
Indices: 10287678--10287743 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
10287668 GTTGCATTAT
* * *
10287678 TGCACTGTACTATTATTGTATTGGGCTAAGGCC
1 TGCACTGTACTATTACTGAATAGGGCTAAGGCC
*
10287711 TGCACTGTACTATTACTGAATAGGGCTCAGGCC
1 TGCACTGTACTATTACTGAATAGGGCTAAGGCC
10287744 CAGATTGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (33 bp):
TGCACTGTACTATTACTGAATAGGGCTAAGGCC
Found at i:10294947 original size:33 final size:33
Alignment explanation
Indices: 10294890--10294953 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
10294880 TGCATTATTG
* *
10294890 CACTATACTATTACTGTATTGGGCTAAGGCCTA
1 CACTATACTATTACTGAATAGGGCTAAGGCCTA
* * *
10294923 CACTGTACTGTTACTGAATAGGGCTTAGGCC
1 CACTATACTATTACTGAATAGGGCTAAGGCC
10294954 CAGACTGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (33 bp):
CACTATACTATTACTGAATAGGGCTAAGGCCTA
Found at i:10294961 original size:33 final size:33
Alignment explanation
Indices: 10294890--10294961 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
10294880 TGCATTATTG
* * * *
10294890 CACTATACTATTACTGTATTGGGCTAAGGCCTA
1 CACTGTACTATTACTGAATAGGGCTAAGGCCCA
* *
10294923 CACTGTACTGTTACTGAATAGGGCTTAGGCCCA
1 CACTGTACTATTACTGAATAGGGCTAAGGCCCA
*
10294956 GACTGT
1 CACTGT
10294962 TATTGCATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (33 bp):
CACTGTACTATTACTGAATAGGGCTAAGGCCCA
Done.