Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 64
Found at i:5117857 original size:40 final size:40
Alignment explanation
Indices: 5117688--5117867 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
5117678 ATTTCCCATA
*
5117688 AATTTGTAAAGCCTTTGGGCCATTTGTAAAACCTCCGGGT
1 AATTTGTAAAGCCTTTGGGTCATTTGTAAAACCTCCGGGT
* * **
5117728 GATTTATAAAGCCTCCGGGTCATTTGTAAAACCTCCGGGT
1 AATTTGTAAAGCCTTTGGGTCATTTGTAAAACCTCCGGGT
* * * *
5117768 CATTTGTAAAGCCTCTGGCTCATTTGTAAAGCCTCCGGGT
1 AATTTGTAAAGCCTTTGGGTCATTTGTAAAACCTCCGGGT
* * ***
5117808 CATTTGTAAAGCCTTTGGGTTATTTGTAAAACCTTAAGGT
1 AATTTGTAAAGCCTTTGGGTCATTTGTAAAACCTCCGGGT
* *
5117848 AATTAGTAAATCCTTTGGGT
1 AATTTGTAAAGCCTTTGGGT
5117868 TATCTATCAG
Statistics
Matches: 120, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
AATTTGTAAAGCCTTTGGGTCATTTGTAAAACCTCCGGGT
Found at i:5118098 original size:93 final size:93
Alignment explanation
Indices: 5117937--5118160 Score: 252
Period size: 93 Copynumber: 2.4 Consensus size: 93
5117927 AGTAGTGAAG
* * **
5117937 TAGTCATTTTTAACCTTCACGAAAGAGTAGTGAAGTAACCCAACCTCGAATCTGATATTCACGTA
1 TAGTCATTTTTAACCTTCACGGAAGAGTAGTGAAGTAACACAACCTCGAATCTGATATTCACAAA
** * *
5118002 AGAGTAGTGAAATGGATTCT-TCTTAAGT
66 AGAGTAGTGAAACAGATTCTGT-TCAAGC
** * * * *
5118030 TAGTCATTTTTAACCTTCACGGAAGAGTAGTGAAGTATTACAATCTTGAGTCTGATCTTCACAAA
1 TAGTCATTTTTAACCTTCACGGAAGAGTAGTGAAGTAACACAACCTCGAATCTGATATTCACAAA
5118095 AGAGTAGTGAAACAGATTCTGTTCAAGC
66 AGAGTAGTGAAACAGATTCTGTTCAAGC
* * * ** *
5118123 CATTTAAATTCAACCTTCACGGAAGAGTAGTGAAGTAA
1 TAGTCATTTTTAACCTTCACGGAAGAGTAGTGAAGTAA
5118161 TGCAATTCAA
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
93 108 0.99
94 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (93 bp):
TAGTCATTTTTAACCTTCACGGAAGAGTAGTGAAGTAACACAACCTCGAATCTGATATTCACAAA
AGAGTAGTGAAACAGATTCTGTTCAAGC
Found at i:5118304 original size:37 final size:36
Alignment explanation
Indices: 5118128--5118301 Score: 246
Period size: 37 Copynumber: 4.8 Consensus size: 36
5118118 CAAGCCATTT
**
5118128 AAATTCAACCTTCACGGAAGAGTAGTGAAGTAATGC
1 AAATTCAACCTTCACAAAAGAGTAGTGAAGTAATGC
* **
5118164 -AATTCAACCATCA-GGAAGAGTAGTGAAGTAATGC
1 AAATTCAACCTTCACAAAAGAGTAGTGAAGTAATGC
5118198 AAATTCAACCTTCACGAAAA-AGTAGTGAAGTAATGC
1 AAATTCAACCTTCAC-AAAAGAGTAGTGAAGTAATGC
*
5118234 AAATTCAAGCCTTCACAAAAGAGTAGTGAAGCAATGC
1 AAATTCAA-CCTTCACAAAAGAGTAGTGAAGTAATGC
5118271 AAATTCAAGCCTTCACAAAAGAGTAGTGAAG
1 AAATTCAA-CCTTCACAAAAGAGTAGTGAAG
5118302 CAAGATCAGG
Statistics
Matches: 128, Mismatches: 5, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
34 21 0.16
35 24 0.19
36 28 0.22
37 55 0.43
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.21
Consensus pattern (36 bp):
AAATTCAACCTTCACAAAAGAGTAGTGAAGTAATGC
Found at i:5118519 original size:14 final size:14
Alignment explanation
Indices: 5118490--5118531 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
5118480 TTGTTATAAG
**
5118490 TATTATATTATTAT
1 TATTATATTACAAT
5118504 TATTATATTACAAT
1 TATTATATTACAAT
*
5118518 TAAT-TATTACAAT
1 TATTATATTACAAT
5118531 T
1 T
5118532 TTACAGGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATATTACAAT
Found at i:5119664 original size:2 final size:2
Alignment explanation
Indices: 5119657--5119686 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5119647 TGATCATTGT
5119657 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5119687 GGGTAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5120763 original size:63 final size:63
Alignment explanation
Indices: 5120690--5120812 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
5120680 AGATATTTAT
* * *
5120690 TATCTATTTAACTTTGAATAGTAAAAATA-ATTATTTTCTTTTGAATATTTCATATTAAAATAA
1 TATCTATTTAACTTTGAATAGTAAAAAGAGATTA-TATCTTTTGAATATTTCAAATTAAAATAA
* * * *
5120753 TATCTATTTAAGTTTGAATTGTAAAAAGAGCTTATATCTTTTGAATATTTTAAATTAAAA
1 TATCTATTTAACTTTGAATAGTAAAAAGAGATTATATCTTTTGAATATTTCAAATTAAAA
5120813 GATATTATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 49 0.94
64 3 0.06
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (63 bp):
TATCTATTTAACTTTGAATAGTAAAAAGAGATTATATCTTTTGAATATTTCAAATTAAAATAA
Found at i:5126702 original size:131 final size:131
Alignment explanation
Indices: 5126479--5126715 Score: 318
Period size: 131 Copynumber: 1.8 Consensus size: 131
5126469 CGATATTGAG
* * **
5126479 AATAGTAATATATTTTCATTTCAATCTGAGTGATAAATGTCTGCTTTAAGGTATGAAAGAACATT
1 AATAGTAATATATTTTCATTTCAATCTGAGTAATAAATGTCTGCTTTAAGGAACAAAAGAACATT
* * * *
5126544 TATTCTGGATTGGAAATCATTAGATATTATCGTTTTTACTCGAATCGATATTGAAATTTAAGACA
66 TATTCTCGATTAGAAATAATTAAATATTATCGTTTTTACTCGAATCGATATTGAAATTTAAGACA
5126609 A
131 A
* * **
5126610 AATAGTAATATATCTTT-ATTTCAAT-TGGAGTAATAAATGAT-TGTTTTAATGAACAAAAGGTC
1 AATAGTAATATAT-TTTCATTTCAATCT-GAGTAATAAATG-TCTGCTTTAAGGAACAAAAGAAC
5126672 ATTTATTCTCGATTAGAAATAATTAAATATTATCGTTTTTACTC
63 ATTTATTCTCGATTAGAAATAATTAAATATTATCGTTTTTACTC
5126716 TTAAAATTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
130 1 0.01
131 86 0.95
132 4 0.04
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.41
Consensus pattern (131 bp):
AATAGTAATATATTTTCATTTCAATCTGAGTAATAAATGTCTGCTTTAAGGAACAAAAGAACATT
TATTCTCGATTAGAAATAATTAAATATTATCGTTTTTACTCGAATCGATATTGAAATTTAAGACA
A
Found at i:5132849 original size:24 final size:24
Alignment explanation
Indices: 5132821--5132868 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
5132811 AGCACACTAG
5132821 AATGCCTTATTGAAAGTCTTGAAT
1 AATGCCTTATTGAAAGTCTTGAAT
* *
5132845 AATGCCTTGTTGAAATTCTTGAAT
1 AATGCCTTATTGAAAGTCTTGAAT
5132869 CAGACTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (24 bp):
AATGCCTTATTGAAAGTCTTGAAT
Found at i:5136775 original size:45 final size:45
Alignment explanation
Indices: 5136672--5137073 Score: 484
Period size: 45 Copynumber: 8.8 Consensus size: 45
5136662 TTCATTGAGA
* * * * *
5136672 GCATCCATTCATG-CTTATAATGCACCATTATGCATTTTTATTTATG
1 GCATCCTTTCATGCCTT-TTATACACCATTATACA-TTTCATTTATG
* * * *
5136718 GCAACCGTTCATGCCTTTTATACACTATTATACATTTCATTTATA
1 GCATCCTTTCATGCCTTTTATACACCATTATACATTTCATTTATG
**
5136763 GCATCCTTTCATGCCTTTTATACTTTATTTATTATACATTTCATTTATG
1 GCATCCTTTCATGCCTTTTATAC---A-CCATTATACATTTCATTTATG
* * * *
5136812 GCATCATTTCATGACTTTTATGCACCATTATACGTTTCATTTATG
1 GCATCCTTTCATGCCTTTTATACACCATTATACATTTCATTTATG
* *
5136857 GCATCCTTTCAAGCCTTTTATACACCATTATACATTTCATATATG
1 GCATCCTTTCATGCCTTTTATACACCATTATACATTTCATTTATG
*
5136902 GCATCCTTTCATGCTTTTTATACACCATTATACATTTCATTTATG
1 GCATCCTTTCATGCCTTTTATACACCATTATACATTTCATTTATG
* *
5136947 G-AACCATTTCATGCCTTTTATACACCATTATACATTTCATCTATG
1 GCATCC-TTTCATGCCTTTTATACACCATTATACATTTCATTTATG
*
5136992 GCATCCTTTCATGCCTTTTATACACTATTATACATTTCATTTATG
1 GCATCCTTTCATGCCTTTTATACACCATTATACATTTCATTTATG
* * * * * *
5137037 GCATCATTTTATGCATGTTATATATCATTATACATTT
1 GCATCCTTTCATGCCTTTTATACACCATTATACATTT
5137074 TTATACATCT
Statistics
Matches: 309, Mismatches: 40, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
44 3 0.01
45 235 0.76
46 28 0.09
47 3 0.01
48 1 0.00
49 39 0.13
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (45 bp):
GCATCCTTTCATGCCTTTTATACACCATTATACATTTCATTTATG
Found at i:5136975 original size:21 final size:21
Alignment explanation
Indices: 5136908--5136975 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
5136898 TATGGCATCC
*
5136908 TTTCATGCTTTTTATACACCA
1 TTTCATGCCTTTTATACACCA
** *
5136929 TTATACATTTCATTTATGGA-ACCA
1 TT-T-CATGCCTTTTAT--ACACCA
5136953 TTTCATGCCTTTTATACACCA
1 TTTCATGCCTTTTATACACCA
5136974 TT
1 TT
5136976 ATACATTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 1 0.03
21 8 0.23
22 10 0.29
23 9 0.26
24 6 0.17
25 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (21 bp):
TTTCATGCCTTTTATACACCA
Found at i:5137493 original size:55 final size:55
Alignment explanation
Indices: 5137268--5137494 Score: 196
Period size: 55 Copynumber: 4.1 Consensus size: 55
5137258 TTTATTAAAA
* * * * * *
5137268 TGCACACATAGTGCATATA-A-AGTAGTTCATCAACTCATGATGAACTCTGTGG-GT
1 TGCACACATAGTACATGTACAGATTA-TTCATCAACTAATGATGAATTC-GTGGATT
* * * * *
5137322 TGCACACATCGTGCCTGTAC-GATTATTCATCAACTAATTATGAATTTCGTAGATT
1 TGCACACATAGTACATGTACAGATTATTCATCAACTAATGATGAA-TTCGTGGATT
* * * *
5137377 TGCACACATAGCACATGTA-TGATTATTCATCAACAAATGATGAATTATGTGGATT
1 TGCACACATAGTACATGTACAGATTATTCATCAACTAATGATGAATT-CGTGGATT
* * *
5137432 TGCACACATAGTACATGTACAG-TTATTCATCAACTCATGATGATTTGCGTGGGTT
1 TGCACACATAGTACATGTACAGATTATTCATCAACTAATGATGAATT-CGTGGATT
*
5137487 TACACACA
1 TGCACACA
5137495 AAGTGTCGAA
Statistics
Matches: 140, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
54 38 0.27
55 101 0.72
56 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (55 bp):
TGCACACATAGTACATGTACAGATTATTCATCAACTAATGATGAATTCGTGGATT
Found at i:5137493 original size:110 final size:109
Alignment explanation
Indices: 5137293--5137494 Score: 246
Period size: 110 Copynumber: 1.8 Consensus size: 109
5137283 TATAAAGTAG
** * * * *
5137293 TTCATCAACTCATGATGAACTCTGTGGGTTGCACACATCGTGCCTGTACGATTATTCATCAACTA
1 TTCATCAACAAATGATGAACTATGTGGGTTGCACACATAGTACATGTACGATTATTCATCAACTA
* *
5137358 ATTATGAATTTCGTAGATTTGCACACATAGCACATGTATGATTA
66 ATGATGAATTTCGTAGATTTACACACATAGCACATGTATGATTA
* *
5137402 TTCATCAACAAATGATGAATTATGTGGATTTGCACACATAGTACATGTAC-AGTTATTCATCAAC
1 TTCATCAACAAATGATGAACTATGTGG-GTTGCACACATAGTACATGTACGA-TTATTCATCAAC
* * *
5137466 TCATGATG-ATTTGCGTGGGTTTACACACA
64 TAATGATGAATTT-CGTAGATTTACACACA
5137495 AAGTGTCGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
109 28 0.36
110 49 0.64
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (109 bp):
TTCATCAACAAATGATGAACTATGTGGGTTGCACACATAGTACATGTACGATTATTCATCAACTA
ATGATGAATTTCGTAGATTTACACACATAGCACATGTATGATTA
Found at i:5138644 original size:131 final size:131
Alignment explanation
Indices: 5138421--5138657 Score: 318
Period size: 131 Copynumber: 1.8 Consensus size: 131
5138411 CGATATTGAG
* * **
5138421 AATAGTAATATATTTTCATTTCAATCTGAGTGATAAATGTCTGCTTTAAGGTATGAAAGAACATT
1 AATAGTAATATATTTTCATTTCAATCTGAGTAATAAATGTCTGCTTTAAGGAACAAAAGAACATT
* * * *
5138486 TATTCTGGATTGGAAATCATTAGATATTATCGTTTTTACTCGAATCGATATTGAAATTTAAGACA
66 TATTCTCGATTAGAAATAATTAAATATTATCGTTTTTACTCGAATCGATATTGAAATTTAAGACA
5138551 A
131 A
* * **
5138552 AATAGTAATATATCTTT-ATTTCAAT-TGGAGTAATAAATGAT-TGTTTTAATGAACAAAAGGTC
1 AATAGTAATATAT-TTTCATTTCAATCT-GAGTAATAAATG-TCTGCTTTAAGGAACAAAAGAAC
5138614 ATTTATTCTCGATTAGAAATAATTAAATATTATCGTTTTTACTC
63 ATTTATTCTCGATTAGAAATAATTAAATATTATCGTTTTTACTC
5138658 TTAAAATTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
130 1 0.01
131 86 0.95
132 4 0.04
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.41
Consensus pattern (131 bp):
AATAGTAATATATTTTCATTTCAATCTGAGTAATAAATGTCTGCTTTAAGGAACAAAAGAACATT
TATTCTCGATTAGAAATAATTAAATATTATCGTTTTTACTCGAATCGATATTGAAATTTAAGACA
A
Found at i:5139333 original size:14 final size:14
Alignment explanation
Indices: 5139314--5139348 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
5139304 ATTGCACAGT
5139314 GGATCTCTATTTAA
1 GGATCTCTATTTAA
5139328 GGATCTCTATTTAA
1 GGATCTCTATTTAA
5139342 GGATCTC
1 GGATCTC
5139349 GATAGTGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (14 bp):
GGATCTCTATTTAA
Found at i:5142199 original size:17 final size:18
Alignment explanation
Indices: 5142179--5142212 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
5142169 TAAATTTATA
5142179 ATTAATTTT-AATAAATG
1 ATTAATTTTAAATAAATG
5142196 ATTAATTTTAAATAAAT
1 ATTAATTTTAAATAAAT
5142213 CCTTATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAATTTTAAATAAATG
Found at i:5148409 original size:21 final size:22
Alignment explanation
Indices: 5148370--5148410 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5148360 ATTTATTTTA
*
5148370 TTTATTTAAATTGAGAATTAAG
1 TTTATTTAAATTGACAATTAAG
*
5148392 TTTATTT-ATTTGACAATTA
1 TTTATTTAAATTGACAATTA
5148411 CGACGCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (22 bp):
TTTATTTAAATTGACAATTAAG
Found at i:5152561 original size:17 final size:17
Alignment explanation
Indices: 5152536--5152570 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5152526 AAAATATTAG
5152536 TTGAGTTGATCCAACAA
1 TTGAGTTGATCCAACAA
* *
5152553 TTGATTTGATCGAACAA
1 TTGAGTTGATCCAACAA
5152570 T
1 T
5152571 CGAAACACGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (17 bp):
TTGAGTTGATCCAACAA
Found at i:5153179 original size:29 final size:30
Alignment explanation
Indices: 5153145--5153202 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
5153135 CTTTCAAAAA
* *
5153145 TTATTT-CAACACTTAGCTCTTTTTCAACG
1 TTATTTGCAACACTTACCTATTTTTCAACG
* *
5153174 TTATTTGGAATACTTACCTATTTTTCAAC
1 TTATTTGCAACACTTACCTATTTTTCAAC
5153203 TTTGAGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.47
Consensus pattern (30 bp):
TTATTTGCAACACTTACCTATTTTTCAACG
Found at i:5153218 original size:13 final size:14
Alignment explanation
Indices: 5153195--5153224 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
5153185 ACTTACCTAT
5153195 TTTTCAACTTTGAG
1 TTTTCAACTTTGAG
5153209 TTTT-AACTTTGAG
1 TTTTCAACTTTGAG
5153222 TTT
1 TTT
5153225 GTGAGTTAGG
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:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (14 bp):
TTTTCAACTTTGAG
Found at i:5156851 original size:14 final size:13
Alignment explanation
Indices: 5156823--5156847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5156813 CTAAAACATT
5156823 TTTTTTGCATGTA
1 TTTTTTGCATGTA
5156836 TTTTTTGCATGT
1 TTTTTTGCATGT
5156848 TATTGAGGCA
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:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTTTTGCATGTA
Found at i:5159909 original size:21 final size:21
Alignment explanation
Indices: 5159885--5159926 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5159875 TCTGATTCAC
*
5159885 TATTGTAGTCATCTTTATCCT
1 TATTGTAGTCATCTTCATCCT
* *
5159906 TATTTTGGTCATCTTCATCCT
1 TATTGTAGTCATCTTCATCCT
5159927 GATTATAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.21, G:0.10, T:0.52
Consensus pattern (21 bp):
TATTGTAGTCATCTTCATCCT
Found at i:5162562 original size:50 final size:50
Alignment explanation
Indices: 5162464--5162568 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
5162454 TGAATCGCGC
* *
5162464 TATACGCTGATTTGGCGTCACGTGGGTATAGCGCGTCCCCTGCCCCACGA
1 TATACGCTGATTTGGCGCCACGTGGGTATAGCGCGTCCCCTGACCCACGA
* * *
5162514 TATACGGTGATTTGGCGCCACGTGGGTATAGCGCG-CCCCTTGATCCACGC
1 TATACGCTGATTTGGCGCCACGTGGGTATAGCGCGTCCCC-TGACCCACGA
5162564 TATAC
1 TATAC
5162569 CTGGGTATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 4 0.08
50 45 0.92
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (50 bp):
TATACGCTGATTTGGCGCCACGTGGGTATAGCGCGTCCCCTGACCCACGA
Found at i:5162809 original size:17 final size:18
Alignment explanation
Indices: 5162772--5162812 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
5162762 CTATTATGTA
*
5162772 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
5162790 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
5162807 TTTACT
1 TTTACT
5162813 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:5163068 original size:111 final size:111
Alignment explanation
Indices: 5162874--5163084 Score: 386
Period size: 111 Copynumber: 1.9 Consensus size: 111
5162864 TGGAAATCAT
* *
5162874 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
5162939 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATAATTAGATTAAGAATTAA
*
5162985 ATATCTCGACACTTTGTTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
5163050 TAATTAGTTGATTTATTTAATGCATGATAATTAGA
66 TAATTAGTTGATTTATTTAATGCATGATAATTAGA
5163085 GAAATAATTT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 96 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATAATTAGATTAAGAATTAA
Found at i:5164903 original size:3 final size:3
Alignment explanation
Indices: 5164888--5164925 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
5164878 ACCTGCTCAG
*
5164888 GAC GAC GAT GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
5164926 TGACAGCGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.34, T:0.03
Consensus pattern (3 bp):
GAC
Found at i:5165122 original size:18 final size:18
Alignment explanation
Indices: 5165099--5165133 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5165089 ATACTTACTT
*
5165099 TATTTTGTTAATTTATTG
1 TATTTTGTTAATATATTG
*
5165117 TATTTTTTTAATATATT
1 TATTTTGTTAATATATT
5165134 TCAGTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATTTTGTTAATATATTG
Found at i:5165142 original size:52 final size:49
Alignment explanation
Indices: 5165044--5165142 Score: 119
Period size: 52 Copynumber: 2.0 Consensus size: 49
5165034 ATATTTGTAT
* *
5165044 TTACTTTATTTTGTTTAATTGTAATTTTTTATTATTTCTCATTTAATAC
1 TTACTTTATTTTGTTTAATTGTAATTTTTTAATATTTCTCAGTTAATAC
* *
5165093 TTACTTTATTTTGTTAATTTATTGTATTTTTTTAATATATT-TCAGTTAAT
1 TTACTTTATTTTG-T--TTAATTGTAATTTTTTAATAT-TTCTCAGTTAAT
5165143 TTTGTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 13 0.31
50 1 0.02
52 26 0.62
53 2 0.05
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.64
Consensus pattern (49 bp):
TTACTTTATTTTGTTTAATTGTAATTTTTTAATATTTCTCAGTTAATAC
Found at i:5177226 original size:141 final size:141
Alignment explanation
Indices: 5176972--5177253 Score: 564
Period size: 141 Copynumber: 2.0 Consensus size: 141
5176962 AGCTTGTGGA
5176972 ATTTGGTGTGTAGTCTCGTCGTCTTCAATCTTTCATTTTTTTGTTTGTTGAAGTTCTGTTTTCTG
1 ATTTGGTGTGTAGTCTCGTCGTCTTCAATCTTTCATTTTTTTGTTTGTTGAAGTTCTGTTTTCTG
5177037 CAACAAAAGTTCAACAAAAATGTCTTCTGCTGCAATTTCCTTCGTTTCAAGCCCAAATTCACTTA
66 CAACAAAAGTTCAACAAAAATGTCTTCTGCTGCAATTTCCTTCGTTTCAAGCCCAAATTCACTTA
5177102 GCCTCGCCCAT
131 GCCTCGCCCAT
5177113 ATTTGGTGTGTAGTCTCGTCGTCTTCAATCTTTCATTTTTTTGTTTGTTGAAGTTCTGTTTTCTG
1 ATTTGGTGTGTAGTCTCGTCGTCTTCAATCTTTCATTTTTTTGTTTGTTGAAGTTCTGTTTTCTG
5177178 CAACAAAAGTTCAACAAAAATGTCTTCTGCTGCAATTTCCTTCGTTTCAAGCCCAAATTCACTTA
66 CAACAAAAGTTCAACAAAAATGTCTTCTGCTGCAATTTCCTTCGTTTCAAGCCCAAATTCACTTA
5177243 GCCTCGCCCAT
131 GCCTCGCCCAT
5177254 GTGTTCCGAA
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (141 bp):
ATTTGGTGTGTAGTCTCGTCGTCTTCAATCTTTCATTTTTTTGTTTGTTGAAGTTCTGTTTTCTG
CAACAAAAGTTCAACAAAAATGTCTTCTGCTGCAATTTCCTTCGTTTCAAGCCCAAATTCACTTA
GCCTCGCCCAT
Found at i:5181174 original size:21 final size:21
Alignment explanation
Indices: 5181150--5181210 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
5181140 AGATATTACG
5181150 TTAATATGGTTAATGTCTACT
1 TTAATATGGTTAATGTCTACT
5181171 TTAATATGGTTAATGTCTACT
1 TTAATATGGTTAATGTCTACT
*
5181192 TTAATATGGGTAATGTCTA
1 TTAATATGGTTAATGTCTA
5181211 AAAGCTTACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (21 bp):
TTAATATGGTTAATGTCTACT
Found at i:5181343 original size:15 final size:15
Alignment explanation
Indices: 5181323--5181363 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5181313 AGGACAGGCT
5181323 GTCCGACCCGACCCG
1 GTCCGACCCGACCCG
**
5181338 GTCCGACCTAACCCG
1 GTCCGACCCGACCCG
*
5181353 GTTCGACCCGA
1 GTCCGACCCGA
5181364 GCCGACCAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.46, G:0.24, T:0.12
Consensus pattern (15 bp):
GTCCGACCCGACCCG
Found at i:5181790 original size:168 final size:171
Alignment explanation
Indices: 5181512--5181852 Score: 636
Period size: 168 Copynumber: 2.0 Consensus size: 171
5181502 AGCTGTTTTC
5181512 ACTAATTTATCACTCGATTCGATCCGTTTTTTCGAAATTAAGCTCCGTTTTTGATGAAATTTCTA
1 ACTAATTTATCACTCGATTCGATCCGTTTTTTCGAAATTAAGCTCCGTTTTTGATGAAATTTCTA
5181577 TTGTTATGTATTTGAGGATTTATTGGAAGTTGAATTAAAGATCAAGGGCGTTCTAATGGAATAT-
66 TTGTTATGTATTTGAGGATTTATTGGAAGTTGAATTAAAGATCAAGGGCGTTCTAATGGAATATA
5181641 AATGGTCTATCTGC-GGCATAAAAATCG-GGAAA-ATTATTA
131 AATGGTCTATCTGCAGGCATAAAAATCGAGGAAATA-TATTA
5181680 ACTAATTTATCACTCGATTCGATCCGTTTTTTCGAAATTAAGCTCCGTTTTTGATGAAATTTCTA
1 ACTAATTTATCACTCGATTCGATCCGTTTTTTCGAAATTAAGCTCCGTTTTTGATGAAATTTCTA
5181745 TTGTTATGTATTTGAGGATTTATTGGAAGTTGAATTAAAGATCAAGGGCGTTCTAATGGAATATA
66 TTGTTATGTATTTGAGGATTTATTGGAAGTTGAATTAAAGATCAAGGGCGTTCTAATGGAATATA
5181810 AATGGTCTATCTGCATGGCATAAAAATCGAGGAAATATATTA
131 AATGGTCTATCTGCA-GGCATAAAAATCGAGGAAATATATTA
5181852 A
1 A
5181853 TACCTCTTTA
Statistics
Matches: 168, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
168 129 0.77
169 14 0.08
171 13 0.08
172 11 0.07
173 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (171 bp):
ACTAATTTATCACTCGATTCGATCCGTTTTTTCGAAATTAAGCTCCGTTTTTGATGAAATTTCTA
TTGTTATGTATTTGAGGATTTATTGGAAGTTGAATTAAAGATCAAGGGCGTTCTAATGGAATATA
AATGGTCTATCTGCAGGCATAAAAATCGAGGAAATATATTA
Found at i:5185873 original size:22 final size:22
Alignment explanation
Indices: 5185847--5185889 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
5185837 TAATAAATTA
5185847 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
5185869 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
5185890 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:5185898 original size:22 final size:22
Alignment explanation
Indices: 5185849--5185897 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
5185839 ATAAATTATT
**
5185849 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
5185871 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
5185894 TAAA
1 TAAA
5185898 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:5185901 original size:54 final size:54
Alignment explanation
Indices: 5185837--5187077 Score: 783
Period size: 54 Copynumber: 23.0 Consensus size: 54
5185827 ACAACTACAA
5185837 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*** * * *
5185891 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAAT-CA-AT
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
*
5185943 TCAT--A-T-TTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT-A-T-TTTAAAATAAATCAATCCATAC
** * * * ** * *
5186001 TTTTAAAATA-AT-CAATCCATTAAT--AAATTATTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATT-TTAAAATAAATCAATCCATAC
*
5186052 -AACTACA--A--T--AA-AAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
5186099 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** *
5186153 TCTTAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
5186207 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* ** * *
5186271 TAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* * * *
5186330 T-ATACAACTA--CAATAATAAATCAATCAATATTTTAAAATAAGTC-ATCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
****
5186382 TAATAAATTATTTAAAATAAATCAATCCATACAACAACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * **
5186439 TTTTAAAATAAAT-CAATCAATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
5186494 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
5186542 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * **
5186600 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
**
5186655 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
*
5186718 -AACTACA--A--T--AATAAATCAATCCATA-TTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * **
5186765 TAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
* * ** * ** **
5186822 T-TTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* *
5186876 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
5186924 TAATAAATTATTTAAAATAAATTAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
5186978 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
5187032 TAATAAATTATTTAAAAT-AA-C--T---TATTTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
5187078 TTTTATAATA
Statistics
Matches: 944, Mismatches: 131, Indels: 231
0.72 0.10 0.18
Matches are distributed among these distances:
46 5 0.01
47 75 0.08
48 84 0.09
49 14 0.01
50 37 0.04
51 13 0.01
52 20 0.02
53 58 0.06
54 312 0.33
55 32 0.03
56 33 0.03
57 45 0.05
58 111 0.12
59 8 0.01
60 25 0.03
61 2 0.00
62 8 0.01
63 12 0.01
64 50 0.05
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:5185942 original size:80 final size:80
Alignment explanation
Indices: 5185852--5186662 Score: 811
Period size: 80 Copynumber: 9.9 Consensus size: 80
5185842 AATTATTTAA
5185852 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
5185917 CCATACAACTACAAT
66 CCATACAACTACAAT
*
5185932 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAAT-AATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*** *
5185996 CCATA-TTTTAAAAT
66 CCATACAACTACAAT
* * ** *
5186010 AATCAATCCATTAATAAATTATTAAAATAAATCAATCCATAC-AACTACA--A--T--AA-AAAT
1 AATAAATCAATCCAT--ATT-TTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAAT
*** *
5186067 CAATCCATA-TTTTAAAAT
62 CAATCCATACAACTACAAT
* * * **
5186085 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATA
1 -AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATA
* * *
5186144 AATTC-ATACTCTTA-AATTATTTAA-
59 AA-TCAAT-C-CATACAACTA--CAAT
*
5186168 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
5186233 CCATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
*
5186252 AAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTA
1 --AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTA
*
5186317 AAATAAATCAATCTATACAACTACAAT
54 AAATAAATCAATCCATACAACTACAAT
* *
5186344 AATAAATCAATCAATATTTTAAAATAAGTC-ATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
5186408 CCATACAACAACAAT
66 CCATACAACTACAAT
*
5186423 AATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
5186488 CCATACAACTACAAT
66 CCATACAACTACAAT
5186503 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
5186568 CCATACAACTACAAT
66 CCATACAACTACAAT
5186583 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
5186648 ATAAATCAATCCATA
56 ATAAATCAATCCATA
5186663 TTTTAAAATA
Statistics
Matches: 638, Mismatches: 37, Indels: 102
0.82 0.05 0.13
Matches are distributed among these distances:
75 22 0.03
76 33 0.05
77 6 0.01
78 30 0.05
79 125 0.20
80 208 0.33
81 35 0.05
82 28 0.04
84 5 0.01
86 13 0.02
87 1 0.00
88 1 0.00
89 2 0.00
90 65 0.10
92 3 0.00
94 2 0.00
95 3 0.00
96 56 0.09
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:5186013 original size:21 final size:22
Alignment explanation
Indices: 5185980--5186097 Score: 103
Period size: 22 Copynumber: 5.0 Consensus size: 22
5185970 CTAATAATTA
5185980 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
5186002 TTTAAAAT-AATCAATCCATTAATAAAT
1 TTTAAAATAAATCAATCC----AT--AT
*
5186029 TATTAAAATAAATCAATCCATACA
1 T-TTAAAATAAATCAATCCATA-T
** *
5186053 ACTACAATAAAAATCAATCCATAT
1 TTTA-AA-ATAAATCAATCCATAT
5186077 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
5186098 CTAATAAATT
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
21 9 0.12
22 22 0.29
23 5 0.06
24 4 0.05
25 18 0.23
27 3 0.04
28 7 0.09
29 9 0.12
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:5186066 original size:79 final size:83
Alignment explanation
Indices: 5185869--5186954 Score: 823
Period size: 79 Copynumber: 13.3 Consensus size: 83
5185859 CAATCCATAT
*** *
5185869 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-A
1 TTTAAAATAAATCAATCCATACTAATAAATTA--TAAAATAAATCAATCCATA-TTTTAAAATAA
* * *
5185933 ATAAATCAAT-TCAT--A-T-
63 ATCAATCCATATAATAAATTA
5185949 TTTAAAATAAATCAATCCATACTAAT-AATTATTTAAAATAAATCAATCCATATTTTAAAAT-AA
1 TTTAAAATAAATCAATCCATACTAATAAATTA--TAAAATAAATCAATCCATATTTTAAAATAAA
5186012 TCAATCCAT-TAATAAATTA
64 TCAATCCATATAATAAATTA
*
5186031 -TTAAAATAAATCAATCCATAC-AACTACA--AT--AA-AAATCAATCCATATTTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATAAAATAAATCAATCCATATTTTAAAATAAAT
5186089 CAATCCATACTAATAAATTA
65 CAATCCATA-TAATAAATTA
** * *
5186109 TTTAAAATAAATCAATCCATA-TTTTAAA--AT-AAATAAATTCATACTCTTAAATTATTTAAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATAAAATAAA-TCA-A-TC-CATA-T-TTTAAAA
5186170 TAAATCAATCC-----AT--A-T-
60 TAAATCAATCCATATAATAAATTA
*
5186185 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTA--TAAAATAAATCAAT-C---C--AT--A-T-T
5186250 TTAAAATAAATCAATCCATACTAATAAATTA
54 TTAAAATAAATCAATCCATA-TAATAAATTA
* * *** *
5186281 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAAT-A
1 TTTAAAATAAATCAATCCATACTAATAAATTA--TAAAATAAATCAATCCATA-TTTTAAAATAA
*
5186345 ATAAAT-CA-ATCAAT--A-T-
63 ATCAATCCATAT-AATAAATTA
* ****
5186361 TTTAAAATAAGTC-ATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACAACAAT-A
1 TTTAAAATAAATCAATCCATACTAATAAATTA--TAAAATAAATCAATCCATATTTTAA-AATAA
* *
5186424 ATAAAT-CA-ATCCAT--A-T-
63 ATCAATCCATAT-AATAAATTA
* *** *
5186440 TTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-A
1 TTTAAAATAAATCAATCCATACTAATAAATTA--TAAAATAAATCAATCCATA-TTTTAAAATAA
* *
5186504 ATAAAT-CA-ATCCAT--A-T-
63 ATCAATCCATAT-AATAAATTA
* **
5186520 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTA--TAAAATAAATCAATCCAT---ATTTTAA-AA
5186585 TAAATCAATCCATACTAATAAATTA
60 TAAATCAATCCATA-TAATAAATTA
5186610 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTA--TAAAATAAATCAATCCATATTTTAAAATAAA
5186675 TCAATCCATACTAATAAATTA
64 TCAATCCATA-TAATAAATTA
*
5186696 TTTAAAATAAATCAATCCATAC-AACTACA--AT--AATAAATCAATCCATA-TTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATAAAATAAATCAATCCATATTTTAAAATAAAT
5186755 CAATCCATACTAATAAATTA
65 CAATCCATA-TAATAAATTA
* *
5186775 TTTAAAATAAATCAATCAATAC-AACTACA--AT--AATAAATCAATCCATA-TTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATAAAATAAATCAATCCATATTTTAAAATAAAT
5186834 CAATCCATACTAATAAATTA
65 CAATCCATA-TAATAAATTA
*
5186854 TTTAAAATAAATCAATCCATAC-AACTACA--AT--AATAAATCAATCCATATTTTAAAATAAAT
1 TTTAAAATAAATCAATCCATACTAA-TAAATTATAAAATAAATCAATCCATATTTTAAAATAAAT
*
5186914 CAATCTATACTAATAAATTA
65 CAATCCATA-TAATAAATTA
*
5186934 TTTAAAATAAATTAATCCATA
1 TTTAAAATAAATCAATCCATA
5186955 TTTTAAAATA
Statistics
Matches: 890, Mismatches: 56, Indels: 120
0.83 0.05 0.11
Matches are distributed among these distances:
75 22 0.02
76 33 0.04
77 6 0.01
78 36 0.04
79 274 0.31
80 225 0.25
81 33 0.04
82 12 0.01
83 7 0.01
84 14 0.02
85 7 0.01
86 101 0.11
87 10 0.01
88 2 0.00
89 1 0.00
90 54 0.06
92 2 0.00
94 1 0.00
95 2 0.00
96 48 0.05
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (83 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATAAAATAAATCAATCCATATTTTAAAATAAATC
AATCCATATAATAAATTA
Found at i:5186106 original size:22 final size:22
Alignment explanation
Indices: 5186034--5186106 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
5186024 TAAATTATTA
5186034 AAATAAATCAATCCATAC-AACT
1 AAATAAATCAATCCATACTAA-T
**
5186056 ACAATAAAAATCAATCCATA-TTTT
1 A-AAT--AAATCAATCCATACTAAT
5186080 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATCCATACTAAT
5186103 AAAT
1 AAAT
5186107 TATTTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
22 18 0.44
23 5 0.12
24 4 0.10
25 14 0.34
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:5186116 original size:32 final size:32
Alignment explanation
Indices: 5186077--5187051 Score: 438
Period size: 32 Copynumber: 33.3 Consensus size: 32
5186067 CAATCCATAT
5186077 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186109 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * **
5186131 TTTAAAATAAATAAATTCATACTCTTAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186163 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186185 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186217 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186249 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186281 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186313 TTTAAAATAAATCAATCTATAC-AACTACAA-TA
1 TTTAAAATAAATCAATCCATACTAA-TA-AATTA
* * ** * *
5186345 -AT-AAATCAATCAAT--ATTTTAAAATAAGTCA
1 TTTAAAATAAATCAATCCATACT--AATAAATTA
* * * * * *
5186375 TCCATACTAATAAAT-TAT--TTA-AAATAAATCA
1 T--TTA-AAATAAATCAATCCATACTAATAAATTA
* ** * * * * * **
5186406 ATCCATACAACAACAAT-AATAAATCAATCCATAT-
1 TTTAAAATAA-ATCAATCCAT-ACT-AATAAAT-TA
*
5186440 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186472 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
5186502 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186520 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186552 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
5186582 --T--AATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186610 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186642 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186664 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186696 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* *
5186726 --T--AATAAATCAATCCATATTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATA-CT--AATAAAT-TA
* * * * * *
5186758 TCCATACTAATAAAT-TAT--TTA-AAATAAATCA
1 T--TTA-AAATAAATCAATCCATACTAATAAATTA
* * * * * * *
5186789 ATCAATACAACTACAAT-AATA--AATCAATCCATA
1 TTTAAAATAAAT-CAATCCATACTAATAAAT---TA
5186822 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186854 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
5186884 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186902 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
5186934 TTTAAAATAAATTAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186956 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5186988 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5187010 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
5187042 TTTAAAATAA
1 TTTAAAATAA
5187052 CTTATTTTAA
Statistics
Matches: 731, Mismatches: 78, Indels: 268
0.68 0.07 0.25
Matches are distributed among these distances:
20 2 0.00
22 105 0.14
23 12 0.02
24 9 0.01
25 2 0.00
26 80 0.11
27 2 0.00
28 28 0.04
29 6 0.01
30 36 0.05
31 35 0.05
32 352 0.48
33 22 0.03
34 16 0.02
35 12 0.02
36 3 0.00
38 2 0.00
39 7 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:5186135 original size:22 final size:22
Alignment explanation
Indices: 5186109--5186151 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5186099 TAATAAATTA
*
5186109 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCCATAT
*
5186131 TTTAAAATAAATAAATTCATA
1 TTTAAAATAAATAAATCCATA
5186152 CTCTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:5186160 original size:22 final size:22
Alignment explanation
Indices: 5186110--5186159 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
5186100 AATAAATTAT
* *
5186110 TTAAAATAAATCAATCCATATT
1 TTAAAATAAATAAATCCATATC
*
5186132 TTAAAATAAATAAATTCATACTC
1 TTAAAATAAATAAATCCATA-TC
5186155 TTAAA
1 TTAAA
5186160 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAAAATAAATAAATCCATATC
Found at i:5186182 original size:86 final size:87
Alignment explanation
Indices: 5186077--5187008 Score: 427
Period size: 80 Copynumber: 11.2 Consensus size: 87
5186067 CAATCCATAT
*
5186077 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT-TTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATATTTAAAATAA
* **
5186141 ATAAATTCATACTCTTAAATTA
66 ATAAATCCATACTAATAAATTA
** * ** * * *
5186163 TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATACATACTAATAAAT-TATTTAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATACATATATTTAAAAT
*
5186225 AAATCAATCCATACTAATAAATTA
64 AAATAAATCCATACTAATAAATTA
*
5186249 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATACTA-ATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATA-TATTTAAA--A
* *
5186313 TTTAAAATAAATCAAT-CT-ATACAACTA
63 --T-AAATAAATCCATACTAATA-AATTA
* * ** * ** * ** *
5186340 --CAATAATAAATCAATCAATA-TTTTAAAATAAGT--CATCCATACTAATAAAT-TATTTAAAA
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATACATATATTTAAAA
* *
5186399 TAAATCAATCCATAC-AACAACA--A
63 TAAATAAATCCATACTAATAA-ATTA
** * ** * * *
5186422 --T--AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCAATACTAATAAAT-TATTTAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATACATATATTTAAAAT
* *
5186480 AAATCAATCCATAC-AACTACA--A
64 AAATAAATCCATACTAA-TAAATTA
** * ** * ** *
5186502 --T--AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATACATATATTTAAAAT
* *
5186560 AAATCAATCCATAC-AACTACA--A
64 AAATAAATCCATACTAA-TAAATTA
* * *
5186582 --T--AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTA-ATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATA-TATTTAAAATA
** ** **
5186642 TTTAAAATAAAT-C-AATCCA-TA
65 AAT-AAATCCATACTAATAAATTA
* * ** *
5186663 TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATATTTAAAATA
**
5186727 AAT-AA---AT-C-AATCCA-TA
65 AATAAATCCATACTAATAAATTA
* *
5186743 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CA-ATA---CAACTAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATATTTAAAATA-
** **
5186803 AAT-AATAAAT-C-AATCCA-TA
65 AATAAATCCATACTAATAAATTA
* * ** *
5186822 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-A
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATATTTAAAATAA
* *
5186886 ATAAATCAAT-C-CAT--A-T-
66 ATAAATCCATACTAATAAATTA
* * *
5186902 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATTAATCCATAT-TTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATATTTAAAATAA
*
5186966 ATCAATCCATACTAATAAATTA
66 ATAAATCCATACTAATAAATTA
5186988 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
5187009 TTTTAAAATA
Statistics
Matches: 702, Mismatches: 92, Indels: 104
0.78 0.10 0.12
Matches are distributed among these distances:
74 2 0.00
76 5 0.01
77 2 0.00
78 2 0.00
79 139 0.20
80 220 0.31
81 26 0.04
82 18 0.03
83 22 0.03
84 15 0.02
85 13 0.02
86 154 0.22
87 19 0.03
88 13 0.02
89 17 0.02
90 18 0.03
91 7 0.01
92 10 0.01
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (87 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATATTTAAAATAA
ATAAATCCATACTAATAAATTA
Found at i:5186214 original size:22 final size:22
Alignment explanation
Indices: 5186165--5186213 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
5186155 TTAAATTATT
* **
5186165 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
5186187 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
5186210 TAAA
1 TAAA
5186214 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:5186430 original size:26 final size:26
Alignment explanation
Indices: 5186397--5186900 Score: 148
Period size: 26 Copynumber: 18.6 Consensus size: 26
5186387 AATTATTTAA
*
5186397 AATAAATCAATCCATACAACAACAAT
1 AATAAATCAATCCATACAATAACAAT
***
5186423 AATAAATCAATCCATATTTTAA-AAT
1 AATAAATCAATCCATACAATAACAAT
* * **
5186448 AAATCAATCAATACTAATA-AATTATTTAA-
1 -AATAAATCAAT-C-CATACAA-TA-ACAAT
5186477 AATAAATCAATCCATACAACT-ACAAT
1 AATAAATCAATCCATACAA-TAACAAT
***
5186503 AATAAATCAATCCAT---ATTTTAA-
1 AATAAATCAATCCATACAATAACAAT
5186525 AATAAATCAATCCATACTAATAA-ATTATTT
1 AATAAATCAATCCATAC-AATAACA--A--T
5186555 AAAATAAATCAATCCATACAACT-ACAAT
1 --AATAAATCAATCCATACAA-TAACAAT
5186583 AATAAATCAATCCATACTAATAA-ATTATTT
1 AATAAATCAATCCATAC-AATAACA--A--T
*
5186613 AAAATAAATCAATCCATACTAATAA-ATT
1 --AATAAATCAATCCATAC-AATAACAAT
* * * * ***
5186641 ATTTAAAATAAATCAATCCATATTTTAA-
1 A-AT-AAATCAATCCATACA-ATAACAAT
5186669 AATAAATCAATCCATACTAATAA-ATTATTT
1 AATAAATCAATCCATAC-AATAACA--A--T
5186699 AAAATAAATCAATCCATACAACT-ACAAT
1 --AATAAATCAATCCATACAA-TAACAAT
**
5186727 AATAAATCAATCCAT---AT-TTAA-
1 AATAAATCAATCCATACAATAACAAT
5186748 AATAAATCAATCCATACTAATAA-ATTATTT
1 AATAAATCAATCCATAC-AATAACA--A--T
*
5186778 AAAATAAATCAATCAATACAACT-ACAAT
1 --AATAAATCAATCCATACAA-TAACAAT
**
5186806 AATAAATCAATCCAT---AT-TTAA-
1 AATAAATCAATCCATACAATAACAAT
5186827 AATAAATCAATCCATACTAATAA-ATTATTT
1 AATAAATCAATCCATAC-AATAACA--A--T
5186857 AAAATAAATCAATCCATACAACT-ACAAT
1 --AATAAATCAATCCATACAA-TAACAAT
5186885 AATAAATCAATCCATA
1 AATAAATCAATCCATA
5186901 TTTTAAAATA
Statistics
Matches: 366, Mismatches: 40, Indels: 144
0.67 0.07 0.26
Matches are distributed among these distances:
21 30 0.08
22 22 0.06
23 5 0.01
25 13 0.04
26 126 0.34
27 16 0.04
28 35 0.10
29 1 0.00
30 7 0.02
31 12 0.03
32 99 0.27
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.31
Consensus pattern (26 bp):
AATAAATCAATCCATACAATAACAAT
Found at i:5186549 original size:22 final size:23
Alignment explanation
Indices: 5186474--5186548 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
5186464 ATAAATTATT
5186474 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
5186496 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
5186522 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
5186545 TAAA
1 TAAA
5186549 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:5186668 original size:22 final size:22
Alignment explanation
Indices: 5186642--5186684 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
5186632 TAATAAATTA
5186642 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
5186664 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
5186685 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:5186693 original size:22 final size:22
Alignment explanation
Indices: 5186644--5186692 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
5186634 ATAAATTATT
**
5186644 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
5186666 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
5186689 TAAA
1 TAAA
5186693 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:5186699 original size:144 final size:144
Alignment explanation
Indices: 5186445--5186791 Score: 541
Period size: 144 Copynumber: 2.5 Consensus size: 144
5186435 CATATTTTAA
* *
5186445 AATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
5186503 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
65 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
5186568 CCATACAACTACAAT
130 CCATACAACTACAAT
5186583 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
5186648 ATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
66 ATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
5186713 CATACAACTACAAT
131 CATACAACTACAAT
5186727 AATAAATCAAT-C---C------A-TATTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
5186781 ATAAATCAATC
66 ATAAATCAATC
5186792 AATACAACTA
Statistics
Matches: 200, Mismatches: 2, Indels: 19
0.90 0.01 0.09
Matches are distributed among these distances:
133 51 0.25
134 1 0.00
138 51 0.25
139 2 0.01
140 2 0.01
142 1 0.00
143 1 0.00
144 91 0.46
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (144 bp):
AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
ATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
CATACAACTACAAT
Found at i:5186949 original size:22 final size:22
Alignment explanation
Indices: 5186924--5186967 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5186914 CAATCTATAC
5186924 TAATAAAT-TATTTAAAATAAAT
1 TAATAAATAT-TTTAAAATAAAT
**
5186946 TAATCCATATTTTAAAATAAAT
1 TAATAAATATTTTAAAATAAAT
5186968 CAATCCATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATAAATATTTTAAAATAAAT
Found at i:5186972 original size:22 final size:22
Alignment explanation
Indices: 5186934--5186976 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5186924 TAATAAATTA
*
5186934 TTTAAAATAAATTAATCCATAT
1 TTTAAAATAAATCAATCCATAT
5186956 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
5186977 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:5186985 original size:22 final size:22
Alignment explanation
Indices: 5186936--5186984 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
5186926 ATAAATTATT
* **
5186936 TAAAATAAATTAATCCATATTT
1 TAAAATAAATCAATCCATATAA
5186958 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
5186981 TAAA
1 TAAA
5186985 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:5187014 original size:22 final size:22
Alignment explanation
Indices: 5186988--5187088 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
5186978 TAATAAATTA
5186988 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
5187010 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * * *
5187033 AATAAATTATTTAAAATAACTTAT
1 TTTAAAATAAAT-CAAT-CCATAT
5187057 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
5187079 TTTATAATAA
1 TTTAAAATAA
5187089 TTTATTTTAA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 34 0.58
23 11 0.19
24 11 0.19
25 3 0.05
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:5187062 original size:15 final size:15
Alignment explanation
Indices: 5187033--5187149 Score: 112
Period size: 15 Copynumber: 7.5 Consensus size: 15
5187023 AATCCATACT
5187033 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
5187047 AATAACTTATTTTAA
1 AATAAATTATTTTAA
*
5187062 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
5187084 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
5187099 AATAAATTATTTTAT
1 AATAAATTATTTTAA
5187114 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
5187128 AATAAATTATTCTAA
1 AATAAATTATTTTAA
5187143 AATAAAT
1 AATAAAT
5187150 AACCTTATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
14 21 0.25
15 48 0.56
17 1 0.01
18 2 0.02
19 2 0.02
20 1 0.01
22 10 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:5187132 original size:44 final size:42
Alignment explanation
Indices: 5187079--5187177 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 42
5187069 CAATCCATAT
* * * **
5187079 TTTATAATAATTTATTTTAAAATAAATTATTTTATAATAAATTA
1 TTTAAAATAATTTATTCTAAAATAAATAACCTTAT--TAAATTA
*
5187123 TTTAAAATAAATTATTCTAAAATAAATAACCTTATTAAATTA
1 TTTAAAATAATTTATTCTAAAATAAATAACCTTATTAAATTA
*
5187165 TTTAAAATTATTT
1 TTTAAAATAATTT
5187178 TAATAAATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 18 0.38
44 29 0.62
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (42 bp):
TTTAAAATAATTTATTCTAAAATAAATAACCTTATTAAATTA
Found at i:5187136 original size:29 final size:30
Alignment explanation
Indices: 5187076--5187149 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
5187066 AATCAATCCA
*
5187076 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
5187106 TATTTTATAATAAATTA-TTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
* *
5187135 TATTCTAAAATAAAT
1 TATTTTATAATAAAT
5187150 AACCTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:5189459 original size:3 final size:3
Alignment explanation
Indices: 5189453--5189483 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
5189443 TTAAGAAGAG
5189453 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
5189484 ATTGTGTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:5190133 original size:20 final size:20
Alignment explanation
Indices: 5190108--5190160 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
5190098 TTTTCCTAAT
5190108 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
5190128 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
5190148 TCGCAATGCGAAT
1 TCGCAATGCGAAT
5190161 CGCAACGCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:5190395 original size:22 final size:22
Alignment explanation
Indices: 5190370--5190435 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
5190360 GGCGACATCC
5190370 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
5190392 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
*
5190414 GTCTCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
5190436 TTCACGGTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:5190811 original size:33 final size:34
Alignment explanation
Indices: 5190760--5190832 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
5190750 ACTATCGCAA
* ** *
5190760 TGCGATTCTGTCGTTGCGATTTTC-ATTTCGCGT
1 TGCGATTCTGTCGCTGCGATAGTCAAATTCGCGT
5190793 TGCGATTCT-TGCGCTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CGCTGCGATAGTCAAATTCGCGT
5190827 TGCGAT
1 TGCGAT
5190833 AGTCATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 19 0.56
34 14 0.41
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (34 bp):
TGCGATTCTGTCGCTGCGATAGTCAAATTCGCGT
Found at i:5190832 original size:20 final size:20
Alignment explanation
Indices: 5190807--5190852 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
5190797 ATTCTTGCGC
5190807 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTCAAATTCGCGT
** *
5190827 TGCGATAGTCATTTTCGTGT
1 TGCGATAGTCAAATTCGCGT
5190847 TGCGAT
1 TGCGAT
5190853 TTTCATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
TGCGATAGTCAAATTCGCGT
Found at i:5190858 original size:20 final size:20
Alignment explanation
Indices: 5190820--5190875 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
5190810 GATAGTCAAA
* **
5190820 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
5190840 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
5190860 TTTGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
5190876 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:5192873 original size:20 final size:20
Alignment explanation
Indices: 5192845--5192913 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
5192835 CAACAACAAA
*
5192845 ATCGTAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
5192865 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * **
5192885 ATTGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
5192905 ATCGCAACG
1 ATCGCAACG
5192914 AAAGAATCGC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:5192926 original size:34 final size:34
Alignment explanation
Indices: 5192778--5192932 Score: 125
Period size: 34 Copynumber: 4.4 Consensus size: 34
5192768 ATAGTTTACT
* * *
5192778 ATCGCAATGTGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
* ** *
5192812 ATCGCAATACG-AAATGAAAATCGCAAC-AACAAA
1 ATCGCAATGCGAAAATGACTATCGCAACGAA-AGA
* *
5192845 ATCGTAACGCGAAAATGACTATCGCAACGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA
* **
5192883 CTATTGCAATGCGAATTTGACTATCGCAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
5192919 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
5192933 TGAAAATCGC
Statistics
Matches: 92, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
32 1 0.01
33 23 0.25
34 34 0.37
36 3 0.03
37 4 0.04
38 5 0.05
40 22 0.24
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:5193021 original size:20 final size:20
Alignment explanation
Indices: 5192956--5193014 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
5192946 GTGATTCTCT
**
5192956 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
5192976 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
5192996 CGTTGCGATAGTCATTTTC
1 CGTTGCGATAGTCATTTTC
5193015 TCTTTGCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:5193591 original size:21 final size:21
Alignment explanation
Indices: 5193500--5193604 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
5193490 GACTCACCTG
* *
5193500 TCATTGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
5193522 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
5193542 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
5193563 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
5193584 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
5193605 CCAACATTCT
Statistics
Matches: 62, Mismatches: 20, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 3 0.05
21 58 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:5193597 original size:42 final size:42
Alignment explanation
Indices: 5193525--5193607 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
5193515 CCTCCCCTAT
*
5193525 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
5193567 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
5193608 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:5195105 original size:14 final size:14
Alignment explanation
Indices: 5195086--5195139 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
5195076 CATTTTCACA
5195086 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
5195100 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
5195117 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
5195133 TTGCGAT
1 TTGCGAT
5195140 AGTCATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:5195126 original size:33 final size:33
Alignment explanation
Indices: 5195064--5195159 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
5195054 ACTAAATTCG
*
5195064 CGTTGCGATTTTCATTTTCACATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
5195098 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
5195131 CGTTGCGATAGTCATTTCTGCGTTGCGAT
1 CGTTGCGATTTTCATTTC-GCATTGCGAT
5195160 AGTCATTTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 34 0.60
34 23 0.40
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:5195156 original size:20 final size:20
Alignment explanation
Indices: 5195131--5195244 Score: 158
Period size: 20 Copynumber: 5.7 Consensus size: 20
5195121 GCGATTCTCT
*
5195131 CGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
*
5195151 CGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
*
5195171 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
5195191 TGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
5195211 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
5195231 CATTGCGATAGTCA
1 CGTTGCGATAGTCA
5195245 AATGAATGTC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 85 0.98
21 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:5195225 original size:60 final size:60
Alignment explanation
Indices: 5195132--5195244 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
5195122 CGATTCTCTC
*
5195132 GTTGCGATAGTCATTTCTGCGTTGCGATAGTCAT-TTCTGCATTGCGATAGTCATTTCCGT
1 GTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTC-GCATTGCGATAGTCATTTCCGT
*
5195192 GTTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCGCATTGCGATAGTCA
1 GTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCATTGCGATAGTCA
5195245 AATGAATGTC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
60 47 0.94
61 3 0.06
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (60 bp):
GTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCATTGCGATAGTCATTTCCGT
Found at i:5195498 original size:22 final size:22
Alignment explanation
Indices: 5195470--5195513 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5195460 GATTGTGATG
5195470 GCACTGGTGATCCACATGTCAA
1 GCACTGGTGATCCACATGTCAA
5195492 GCACTGGTGATCCACATGTCAA
1 GCACTGGTGATCCACATGTCAA
5195514 CCTTGTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (22 bp):
GCACTGGTGATCCACATGTCAA
Found at i:5198595 original size:20 final size:20
Alignment explanation
Indices: 5198571--5198677 Score: 128
Period size: 20 Copynumber: 5.3 Consensus size: 20
5198561 AAATTCAGTA
*
5198571 TTGCGATAGTCAGAATTGCA
1 TTGCGATAGTCAGAATTGCG
*
5198591 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATTGCG
5198611 TTGCGATAGTCAGAATCT-CG
1 TTGCGATAGTCAGAAT-TGCG
* * **
5198631 TTACGATAGTCATAATCACG
1 TTGCGATAGTCAGAATTGCG
5198651 TTGCGATAGTCAG-ATTCGCG
1 TTGCGATAGTCAGAATT-GCG
5198671 TTGCGAT
1 TTGCGAT
5198678 TTATGTATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.03
20 72 0.97
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATTGCG
Found at i:5198617 original size:40 final size:40
Alignment explanation
Indices: 5198571--5198677 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
5198561 AAATTCAGTA
* *
5198571 TTGCGATAGTCAGAATTGCATTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATTGCGTTGCGATAGTCAGAATCACG
* *
5198611 TTGCGATAGTCAGAATCT-CGTTACGATAGTCATAATCACG
1 TTGCGATAGTCAGAAT-TGCGTTGCGATAGTCAGAATCACG
5198651 TTGCGATAGTCAG-ATTCGCGTTGCGAT
1 TTGCGATAGTCAGAATT-GCGTTGCGAT
5198678 TTATGTATTC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 2 0.03
40 55 0.93
41 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (40 bp):
TTGCGATAGTCAGAATTGCGTTGCGATAGTCAGAATCACG
Found at i:5198687 original size:20 final size:20
Alignment explanation
Indices: 5198664--5198756 Score: 159
Period size: 20 Copynumber: 4.7 Consensus size: 20
5198654 CGATAGTCAG
* *
5198664 ATTCGCGTTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
5198684 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
5198704 ATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
5198724 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
5198744 ATTCGCATTGCGA
1 ATTCGCATTGCGA
5198757 ATTAGGAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:5198777 original size:21 final size:21
Alignment explanation
Indices: 5198753--5198793 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5198743 TATTCGCATT
5198753 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
5198774 GCGAATTTGGAAACTCGCAA
1 GCGAATTAGGAAAATCGCAA
5198794 TGTGATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:5199058 original size:34 final size:34
Alignment explanation
Indices: 5199020--5199094 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
5199010 AACTGTCGCT
5199020 AAATGTTGTGAGATATAGATGCGTTTGTTATAAA
1 AAATGTTGTGAGATATAGATGCGTTTGTTATAAA
5199054 AAATGTTGTGAGATATAGATGCGTTTGTTATAAA
1 AAATGTTGTGAGATATAGATGCGTTTGTTATAAA
5199088 AACATGT
1 AA-ATGT
5199095 CGGTAAAGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 36 0.90
35 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (34 bp):
AAATGTTGTGAGATATAGATGCGTTTGTTATAAA
Found at i:5199081 original size:19 final size:19
Alignment explanation
Indices: 5199025--5199081 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
5199015 TCGCTAAATG
5199025 TTGTGAGATATAGATGCGT
1 TTGTGAGATATAGATGCGT
* * * *
5199044 TTGTTATA-AAAAAT--G-
1 TTGTGAGATATAGATGCGT
5199059 TTGTGAGATATAGATGCGT
1 TTGTGAGATATAGATGCGT
5199078 TTGT
1 TTGT
5199082 TATAAAAACA
Statistics
Matches: 26, Mismatches: 8, Indels: 8
0.62 0.19 0.19
Matches are distributed among these distances:
15 6 0.23
16 5 0.19
18 5 0.19
19 10 0.38
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.40
Consensus pattern (19 bp):
TTGTGAGATATAGATGCGT
Found at i:5199383 original size:21 final size:21
Alignment explanation
Indices: 5199341--5199384 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5199331 CATGACATCT
*
5199341 ATAACAACAAACTTTAATTCC
1 ATAACAACAAACTTTAAATCC
*
5199362 ATAACAACCAA-TTTCAAATCC
1 ATAACAACAAACTTT-AAATCC
5199383 AT
1 AT
5199385 TATAGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAACAACAAACTTTAAATCC
Found at i:5207450 original size:120 final size:120
Alignment explanation
Indices: 5207237--5207476 Score: 480
Period size: 120 Copynumber: 2.0 Consensus size: 120
5207227 GAGTATTTTT
5207237 GTGGCGTTTTATCAATAAAATGCCACTAAAAAAGACAATATACAACAAATGTCACCATTATTTAT
1 GTGGCGTTTTATCAATAAAATGCCACTAAAAAAGACAATATACAACAAATGTCACCATTATTTAT
5207302 AGTATATCATATTTGGTCATCCATTGGAAAAAAATACACTTGTTTCATTGCAGCA
66 AGTATATCATATTTGGTCATCCATTGGAAAAAAATACACTTGTTTCATTGCAGCA
5207357 GTGGCGTTTTATCAATAAAATGCCACTAAAAAAGACAATATACAACAAATGTCACCATTATTTAT
1 GTGGCGTTTTATCAATAAAATGCCACTAAAAAAGACAATATACAACAAATGTCACCATTATTTAT
5207422 AGTATATCATATTTGGTCATCCATTGGAAAAAAATACACTTGTTTCATTGCAGCA
66 AGTATATCATATTTGGTCATCCATTGGAAAAAAATACACTTGTTTCATTGCAGCA
5207477 TTTGATGGAT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (120 bp):
GTGGCGTTTTATCAATAAAATGCCACTAAAAAAGACAATATACAACAAATGTCACCATTATTTAT
AGTATATCATATTTGGTCATCCATTGGAAAAAAATACACTTGTTTCATTGCAGCA
Found at i:5210958 original size:77 final size:77
Alignment explanation
Indices: 5210864--5211017 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
5210854 AAAAATTAAG
5210864 TTCAATCACCATGTGACTTGACTTATTGTTAATTAGTCTTAAATAATATCAATTCATTCAATTAT
1 TTCAATCACCATGTGACTTGACTTATTGTTAATTAGTCTTAAATAATATCAATTCATTCAATTAT
5210929 TTTTCCAACAAT
66 TTTTCCAACAAT
5210941 TTCAATCACCATGTGACTTGACTTATTGTTAATTAGTCTTAAATAATATCAATTCATTCAATTAT
1 TTCAATCACCATGTGACTTGACTTATTGTTAATTAGTCTTAAATAATATCAATTCATTCAATTAT
5211006 TTTTCCAACAAT
66 TTTTCCAACAAT
5211018 CCCCCACTTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (77 bp):
TTCAATCACCATGTGACTTGACTTATTGTTAATTAGTCTTAAATAATATCAATTCATTCAATTAT
TTTTCCAACAAT
Found at i:5219457 original size:65 final size:65
Alignment explanation
Indices: 5219353--5219487 Score: 234
Period size: 65 Copynumber: 2.1 Consensus size: 65
5219343 ATCCACTGAG
5219353 TAAACACCGGGAGCTAGTTCTTCACGAGTTCCACATCCTCTGGCACCGACAGCGAACGATGATCC
1 TAAACACCGGGAGCTAGTTCTTCACGAGTTCCACATCCTCTGGCACCGACAGCGAACGATGATCC
* * *
5219418 TAAACATCGGGAGCTAGTTCTTCACGAGTTCCACCTCCTCTGGCACCGACAGCGGACGATGATCC
1 TAAACACCGGGAGCTAGTTCTTCACGAGTTCCACATCCTCTGGCACCGACAGCGAACGATGATCC
*
5219483 AAAAC
1 TAAAC
5219488 TTCTAGAGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.20
Consensus pattern (65 bp):
TAAACACCGGGAGCTAGTTCTTCACGAGTTCCACATCCTCTGGCACCGACAGCGAACGATGATCC
Found at i:5220607 original size:65 final size:65
Alignment explanation
Indices: 5220536--5220670 Score: 191
Period size: 65 Copynumber: 2.1 Consensus size: 65
5220526 TACCCATTTT
* *
5220536 GAATGCATTTTGTGTACTGATTCACA-AGCCATGCATCGATGCACTCATGAATATTTTGAAACAT
1 GAATGCATTTTGTGTACCGATGCACATA-CCATGCATCGATGCACTCATGAATATTTTGAAACAT
5220600 C
65 C
* ** *
5220601 GAATGCATTTTGTGTACCGATGCACATACCATGCATCGATGCACTCCTGGCTCTTTTGAAACATC
1 GAATGCATTTTGTGTACCGATGCACATACCATGCATCGATGCACTCATGAATATTTTGAAACATC
*
5220666 AAATG
1 GAATG
5220671 TAATTAGTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 61 0.98
66 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (65 bp):
GAATGCATTTTGTGTACCGATGCACATACCATGCATCGATGCACTCATGAATATTTTGAAACATC
Found at i:5220681 original size:65 final size:65
Alignment explanation
Indices: 5220537--5220690 Score: 168
Period size: 65 Copynumber: 2.4 Consensus size: 65
5220527 ACCCATTTTG
* * * * *
5220537 AATGCATTTTGTGTACTGATTCACAAGCCATGCATCGATGCACTCATGAATATTTTGAAACATCG
1 AATGCAATTAGTGTACCGATGCACAAGCCATGCATCGATGCACTCATGAATATTTTGAAACATCA
* * * ** *
5220602 AATGCATTTTGTGTACCGATGCACATA-CCATGCATCGATGCACTCCTGGCTCTTTTGAAACATC
1 AATGCAATTAGTGTACCGATGCACA-AGCCATGCATCGATGCACTCATGAATATTTTGAAACATC
5220666 A
65 A
*
5220667 AATGTAATTAGTGTACTC-ATGCAC
1 AATGCAATTAGTGTAC-CGATGCAC
5220691 CCTAGTGTAC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 75 0.97
66 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (65 bp):
AATGCAATTAGTGTACCGATGCACAAGCCATGCATCGATGCACTCATGAATATTTTGAAACATCA
Found at i:5231051 original size:21 final size:20
Alignment explanation
Indices: 5231026--5231064 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5231016 TATCAAAATA
*
5231026 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCAT-AAATCT
*
5231047 TTTGTCGATGCCATAAAT
1 TTTGTCGAAGCCATAAAT
5231065 TCCTGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:5233472 original size:13 final size:13
Alignment explanation
Indices: 5233454--5233478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5233444 ATGGTGTTGC
5233454 AAAAGTATCATCA
1 AAAAGTATCATCA
5233467 AAAAGTATCATC
1 AAAAGTATCATC
5233479 GTTTAGTAGA
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAGTATCATCA
Found at i:5235289 original size:21 final size:20
Alignment explanation
Indices: 5235265--5235337 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
5235255 GGGATAAGAA
5235265 CTTTGGATGAAAGGACTTAAC
1 CTTT-GATGAAAGGACTTAAC
** *
5235286 CTTTCGATTG-AAGGTTTTATC
1 CTTT-GA-TGAAAGGACTTAAC
*
5235307 CTTTGATGAAAGGGCTTAAC
1 CTTTGATGAAAGGACTTAAC
* *
5235327 TTTTTATGAAA
1 CTTTGATGAAA
5235338 TGGATTGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.05
20 19 0.46
21 18 0.44
22 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
CTTTGATGAAAGGACTTAAC
Found at i:5238457 original size:27 final size:27
Alignment explanation
Indices: 5238427--5238519 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
5238417 CTTTAGAACC
* * * *
5238427 TCAAGGGTATCTCAGTCATTTTAGAGT
1 TCAAGGGTATTTCAATCATTTTACAAT
*
5238454 TCAATGGTATTTCAATCATTTTACAAT
1 TCAAGGGTATTTCAATCATTTTACAAT
* *
5238481 TTAGGGGTATTTCAATCATTTTACAAT
1 TCAAGGGTATTTCAATCATTTTACAAT
*
5238508 TCAAGAGTATTT
1 TCAAGGGTATTT
5238520 TTGGAAATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (27 bp):
TCAAGGGTATTTCAATCATTTTACAAT
Found at i:5238575 original size:28 final size:28
Alignment explanation
Indices: 5238498--5238564 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
5238488 TATTTCAATC
*
5238498 ATTTTACAATTCAAGAGTATTTTTGGAA
1 ATTTTACAATTCAAGAGTATTTCTGGAA
5238526 ATTTTACAATTCAAGAGTATTTCTGGAA
1 ATTTTACAATTCAAGAGTATTTCTGGAA
5238554 ATTTTACAATT
1 ATTTTACAATT
5238565 TAGGGGTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (28 bp):
ATTTTACAATTCAAGAGTATTTCTGGAA
Found at i:5242212 original size:21 final size:21
Alignment explanation
Indices: 5242188--5242240 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
5242178 TAACAAAGGA
5242188 AGTACCGATACTTGCTATAGG
1 AGTACCGATACTTGCTATAGG
5242209 AGTACCGATACTTGCTATAGG
1 AGTACCGATACTTGCTATAGG
5242230 AGTACCGATAC
1 AGTACCGATAC
5242241 CCTCTGTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (21 bp):
AGTACCGATACTTGCTATAGG
Found at i:5244079 original size:19 final size:19
Alignment explanation
Indices: 5244055--5244102 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
5244045 AATGATTTGG
* *
5244055 TTTTGAAAGCAAAAATT-GA
1 TTTTGAAAAC-AAAATTAAA
5244074 TTTTGATAAACAAAATTAAA
1 TTTTGA-AAACAAAATTAAA
5244094 TTTTGAAAA
1 TTTTGAAAA
5244103 TGTTTTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (19 bp):
TTTTGAAAACAAAATTAAA
Found at i:5248629 original size:24 final size:24
Alignment explanation
Indices: 5248575--5248727 Score: 227
Period size: 24 Copynumber: 6.3 Consensus size: 24
5248565 TAGAAAATGG
*
5248575 ACACAAAGTGACTCATAGAATATGC
1 ACACAAAGTGCCTCATAGAAT-TGC
*
5248600 ACACAAAGTGCCTCGTAGAATTGC
1 ACACAAAGTGCCTCATAGAATTGC
*
5248624 ACACAAAGTTCCTCATAGAATTGC
1 ACACAAAGTGCCTCATAGAATTGC
5248648 ACACAAAGTGCCTCATAGAATTGC
1 ACACAAAGTGCCTCATAGAATTGC
* *
5248672 ACACAATA-TTCCTCGTAGAATATGC
1 ACACAA-AGTGCCTCATAGAAT-TGC
5248697 ACACAAAGTGCCTCATAGAATTGC
1 ACACAAAGTGCCTCATAGAATTGC
5248721 ACACAAA
1 ACACAAA
5248728 TAATGCTCTA
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
24 76 0.66
25 40 0.34
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (24 bp):
ACACAAAGTGCCTCATAGAATTGC
Found at i:5248642 original size:49 final size:49
Alignment explanation
Indices: 5248575--5248727 Score: 247
Period size: 49 Copynumber: 3.1 Consensus size: 49
5248565 TAGAAAATGG
** *
5248575 ACACAAAGTGACTCATAGAATATGCACACAAAGTGCCTCGTAGAATTGC
1 ACACAAAGTTCCTCATAGAATATGCACACAAAGTGCCTCATAGAATTGC
5248624 ACACAAAGTTCCTCATAGAAT-TGCACACAAAGTGCCTCATAGAATTGC
1 ACACAAAGTTCCTCATAGAATATGCACACAAAGTGCCTCATAGAATTGC
*
5248672 ACACAATA-TTCCTCGTAGAATATGCACACAAAGTGCCTCATAGAATTGC
1 ACACAA-AGTTCCTCATAGAATATGCACACAAAGTGCCTCATAGAATTGC
5248721 ACACAAA
1 ACACAAA
5248728 TAATGCTCTA
Statistics
Matches: 98, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
48 45 0.46
49 53 0.54
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (49 bp):
ACACAAAGTTCCTCATAGAATATGCACACAAAGTGCCTCATAGAATTGC
Found at i:5248655 original size:73 final size:73
Alignment explanation
Indices: 5248575--5248727 Score: 247
Period size: 73 Copynumber: 2.1 Consensus size: 73
5248565 TAGAAAATGG
*
5248575 ACACAAAGTGACTCATAGAATATGCACACAA-AGTGCCTCGTAGAAT-TGCACACAAAGTTCCTC
1 ACACAAAGTGACTCATAGAAT-TGCACACAATA-TGCCTCGTAGAATATGCACACAAAGTGCCTC
5248638 ATAGAATTGC
64 ATAGAATTGC
* *
5248648 ACACAAAGTGCCTCATAGAATTGCACACAATATTCCTCGTAGAATATGCACACAAAGTGCCTCAT
1 ACACAAAGTGACTCATAGAATTGCACACAATATGCCTCGTAGAATATGCACACAAAGTGCCTCAT
5248713 AGAATTGC
66 AGAATTGC
5248721 ACACAAA
1 ACACAAA
5248728 TAATGCTCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
72 21 0.28
73 54 0.72
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (73 bp):
ACACAAAGTGACTCATAGAATTGCACACAATATGCCTCGTAGAATATGCACACAAAGTGCCTCAT
AGAATTGC
Found at i:5252055 original size:3 final size:3
Alignment explanation
Indices: 5252047--5252145 Score: 91
Period size: 3 Copynumber: 34.0 Consensus size: 3
5252037 CATTTCTCAT
* * * *
5252047 TTA TTA TTA TT- TTT TTA TCA TTTA TTA TTA TTA TT- GTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* *
5252091 TTA TTA -TA TTA CTA TTA TTTC TTA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
5252135 TTA TT- TTA TTA
1 TTA TTA TTA TTA
5252146 AATAATAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
2 9 0.12
3 65 0.83
4 4 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5252092 original size:14 final size:13
Alignment explanation
Indices: 5252047--5252145 Score: 107
Period size: 14 Copynumber: 7.7 Consensus size: 13
5252037 CATTTCTCAT
5252047 TTATTATTATTT-
1 TTATTATTATTTA
*
5252059 TT-TTATCATTTA
1 TTATTATTATTTA
5252071 TTATTATTATTGTA
1 TTATTATTATT-TA
*
5252085 TTACTATTATTATA
1 TTATTATTATT-TA
* *
5252099 TTACTATTATTTC
1 TTATTATTATTTA
5252112 TTATTATTATATTA
1 TTATTATTAT-TTA
5252126 TTATTATTA-TTA
1 TTATTATTATTTA
5252138 TT-TTATTA
1 TTATTATTA
5252146 AATAATAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
11 14 0.18
12 9 0.12
13 17 0.22
14 36 0.47
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:5252116 original size:41 final size:41
Alignment explanation
Indices: 5252048--5252138 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
5252038 ATTTCTCATT
* **
5252048 TATTATTATTTTTTTATCATTTATTATTATTAT-TGTATTAC
1 TATTATTATATTACTATCATTTATTATTATTATAT-TATTAC
* * *
5252089 TATTATTATATTACTATTATTTCTTATTATTATATTATTAT
1 TATTATTATATTACTATCATTTATTATTATTATATTATTAC
5252130 TATTATTAT
1 TATTATTAT
5252139 TTTATTAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (41 bp):
TATTATTATATTACTATCATTTATTATTATTATATTATTAC
Found at i:5253506 original size:4 final size:4
Alignment explanation
Indices: 5253497--5253521 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
5253487 AATATAGTAC
5253497 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
5253522 CTTTTATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:5253739 original size:16 final size:15
Alignment explanation
Indices: 5253697--5253744 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
5253687 ATTTACTTCA
*
5253697 ATTTTATTTAA-ATT
1 ATTTTTTTTAATATT
5253711 ATTTTCTTATTAATATAT
1 ATTTT-TT-TTAATAT-T
5253729 ATTTTTTTTAATATT
1 ATTTTTTTTAATATT
5253744 A
1 A
5253745 AAGAAATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 11 0.38
17 4 0.14
18 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTTTTTTAATATT
Found at i:5256744 original size:8 final size:7
Alignment explanation
Indices: 5256720--5256760 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 7
5256710 TTTTCATACA
5256720 TGCATTT
1 TGCATTT
5256727 T-CATTT
1 TGCATTT
5256733 TGCATCTT
1 TGCAT-TT
5256741 TGCATTT
1 TGCATTT
5256748 T-CATTAT
1 TGCATT-T
5256755 TGCATT
1 TGCATT
5256761 CTTACTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
6 10 0.33
7 9 0.30
8 11 0.37
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:5262114 original size:54 final size:54
Alignment explanation
Indices: 5261942--5262146 Score: 242
Period size: 54 Copynumber: 3.9 Consensus size: 54
5261932 AGAAATCTGG
* * *
5261942 GCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTATACGAACATCTTT
1 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAT
* * ** **
5261996 GCATAAACCACAGGAAAGGATGAATATGTTAACAAAAATTTTAC-AA-A--TA-
1 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAT
* ** *
5262045 GCATAAACCACAGGAAATTATGAATGTGTTGTCAAACGTTTTACGAACATCTAT
1 GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAT
5262099 GCAGAAACCACAGG-AAGTGATGAATGTGTTGTCAAATGTTTTACGAAC
1 GCAGAAACCACAGGAAAG-GATGAATGTGTTGTCAAATGTTTTACGAAC
5262147 CAGTAATTAT
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
49 37 0.30
50 3 0.02
51 1 0.01
52 1 0.01
53 6 0.05
54 77 0.62
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.26
Consensus pattern (54 bp):
GCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAT
Found at i:5262593 original size:38 final size:38
Alignment explanation
Indices: 5262546--5262626 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
5262536 TTCAAAGATG
5262546 ATAGATTCTCTCTTCAAAGATGATAGATTCTATTTTCA
1 ATAGATTCTCTCTTCAAAGATGATAGATTCTATTTTCA
5262584 ATAGATTCTCTCTTCAAAGATGATAGATTCTATTTTCA
1 ATAGATTCTCTCTTCAAAGATGATAGATTCTATTTTCA
5262622 A-AGAT
1 ATAGAT
5262627 GAAAGATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (38 bp):
ATAGATTCTCTCTTCAAAGATGATAGATTCTATTTTCA
Found at i:5262609 original size:22 final size:22
Alignment explanation
Indices: 5262512--5262634 Score: 134
Period size: 22 Copynumber: 5.9 Consensus size: 22
5262502 ACATCTACAT
*
5262512 TCTTCAAAGATAATAGATT-TA
1 TCTTCAAAGATGATAGATTCTA
*
5262533 TTCTTCAAAGATGATAGATTCTC
1 -TCTTCAAAGATGATAGATTCTA
5262556 TCTTCAAAGATGATAGATTCTA
1 TCTTCAAAGATGATAGATTCTA
* *
5262578 TTTTC----A--ATAGATTCTC
1 TCTTCAAAGATGATAGATTCTA
5262594 TCTTCAAAGATGATAGATTCTA
1 TCTTCAAAGATGATAGATTCTA
* *
5262616 TTTTCAAAGATGAAAGATT
1 TCTTCAAAGATGATAGATT
5262635 TATAATATTT
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
16 13 0.15
18 1 0.01
20 1 0.01
22 69 0.81
23 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTA
Found at i:5263538 original size:116 final size:117
Alignment explanation
Indices: 5263305--5264253 Score: 1493
Period size: 116 Copynumber: 8.2 Consensus size: 117
5263295 CTATTTCCCA
*
5263305 CATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTT-AAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
*
5263369 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTAAGGGC
66 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
*
5263421 CATCCATAAGACCTACAGTGCAGGATATTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
* *
5263486 GCCTCTGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGA-CTCAAGGC
66 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
* * * *
5263537 CATCCATAAGACCTATAGTGCATGATATTTTCAAAAAGCCTCCGGGAGC-TTTTGATATTT-AAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
* *
5263600 GCCTCTGGGTCATCTGTAAGGCCTACAGTGCAAGATGATAAGACCTCAGGGC
66 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
* * *
5263652 CATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCAGGTGCTTTTTGATATTTAAAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
* *
5263717 GCCTTCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAA-ACCTCAGGGC
66 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
*
5263768 CATCTATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
**
5263833 -CCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAAAGC
66 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
* *
5263884 CATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATATTT-AAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
*** *
5263948 GCCTCTAAGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACTTCAGGGC
66 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
* *
5264000 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTCTTGATAGTTAAAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
*
5264065 -CCTCCGGGTCATTTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
66 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
* * * * *
5264116 CATCCATATGACCTACAGTGCATGATGTTTTCAAGAAGCCTTCGGGAGCTTCTTGATAGTTAAAA
1 CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
** * * *
5264181 -CCTCCAAGTCATATGTATGACCTAAAGTGCAAGATGATAAGACCTCAGGGC
66 GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
5264232 CATCCATAAGACCTACAGTGCA
1 CATCCATAAGACCTACAGTGCA
5264254 ATCCATAAAA
Statistics
Matches: 772, Mismatches: 54, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
114 45 0.06
115 103 0.13
116 536 0.69
117 88 0.11
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (117 bp):
CATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAA
GCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGC
Found at i:5263873 original size:22 final size:22
Alignment explanation
Indices: 5263848--5263910 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 22
5263838 GGGTCATCTG
5263848 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGCAAGATGA
** * *
5263870 TAAGACCT-CAAAGC--CATCCA
1 TAAGACCTACAGTGCAAGAT-GA
5263890 TAAGACCTACAGTGCAAGATG
1 TAAGACCTACAGTGCAAGATG
5263911 TTTTCAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 8 0.28
22 8 0.28
23 2 0.07
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (22 bp):
TAAGACCTACAGTGCAAGATGA
Found at i:5264259 original size:21 final size:21
Alignment explanation
Indices: 5264217--5264274 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
5264207 GTGCAAGATG
* *
5264217 ATAAGACCT-CAGGGCCATCC
1 ATAAGACCTACAGTGCAATCC
5264237 ATAAGACCTACAGTGCAATCC
1 ATAAGACCTACAGTGCAATCC
* *
5264258 ATAAAACCTATAGTGCA
1 ATAAGACCTACAGTGCA
5264275 GGATGTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 9 0.27
21 24 0.73
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (21 bp):
ATAAGACCTACAGTGCAATCC
Found at i:5264657 original size:3 final size:3
Alignment explanation
Indices: 5264649--5264740 Score: 86
Period size: 3 Copynumber: 32.0 Consensus size: 3
5264639 CATTTCTCAT
* * * * *
5264649 TTA TTA TTA TT- TTT TTA TCA TTTA TTA ATA TTA TT- GTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
5264693 TTA TTA -TA TTA TTC TTA TTA TTA TTA -TA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5264738 TTA
1 TTA
5264741 AATAATAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
2 9 0.12
3 61 0.85
4 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5264694 original size:14 final size:13
Alignment explanation
Indices: 5264671--5264740 Score: 68
Period size: 14 Copynumber: 5.0 Consensus size: 13
5264661 TTTTATCATT
*
5264671 TATTAATATTATTG
1 TATT-ATATTATTA
5264685 TATTACTATTATTA
1 TATTA-TATTATTA
*
5264699 TATTATTCTTATTA
1 TATTA-TATTATTA
5264713 TTATTATATTATTA
1 -TATTATATTATTA
*
5264727 TTATTATTTTATTA
1 -TATTATATTATTA
5264741 AATAATAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
13 1 0.02
14 43 0.88
15 5 0.10
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:5264699 original size:17 final size:16
Alignment explanation
Indices: 5264677--5264740 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 16
5264667 CATTTATTAA
5264677 TATTATTGTATTACTAT
1 TATTATT-TATTACTAT
5264694 TATTATATTATT-CTTAT
1 TATTAT-TTATTAC-TAT
*
5264711 TATTATTATATTATTAT
1 TATTATT-TATTACTAT
5264728 TATTATTTTATTA
1 TATTA-TTTATTA
5264741 AATAATAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 2 0.05
17 36 0.88
18 3 0.07
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTATTTATTACTAT
Found at i:5264714 original size:20 final size:20
Alignment explanation
Indices: 5264649--5264738 Score: 89
Period size: 20 Copynumber: 4.5 Consensus size: 20
5264639 CATTTCTCAT
5264649 TTATTATTAT-TT-TT-TTA
1 TTATTATTATATTATTATTA
*
5264666 TCATTTATTAATATTATTGTATTA
1 TTA-TTATT-ATATTA-T-TATTA
* *
5264690 CTATTATTATATTATTCTTA
1 TTATTATTATATTATTATTA
5264710 TTATTATTATATTATTATTA
1 TTATTATTATATTATTATTA
5264730 TTATT-TTAT
1 TTATTATTAT
5264739 TAAATAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.03
18 5 0.08
19 6 0.10
20 29 0.48
21 1 0.02
22 7 0.12
23 6 0.10
24 4 0.07
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (20 bp):
TTATTATTATATTATTATTA
Found at i:5270322 original size:20 final size:20
Alignment explanation
Indices: 5270297--5270341 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
5270287 TAATAAAAAA
5270297 AACTTAAGGTGGTCGGATAC
1 AACTTAAGGTGGTCGGATAC
*
5270317 AACTTAAGGTGGTCGGATGC
1 AACTTAAGGTGGTCGGATAC
5270337 AACTT
1 AACTT
5270342 TCGGCCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (20 bp):
AACTTAAGGTGGTCGGATAC
Found at i:5273590 original size:19 final size:18
Alignment explanation
Indices: 5273550--5273591 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
5273540 TTTAAGTTTA
*
5273550 TAAA-TTTAAAATTAATT
1 TAAATTTTAAAATGAATT
*
5273567 AAAATTTTAAATATGAATT
1 TAAATTTTAAA-ATGAATT
5273586 TAAATT
1 TAAATT
5273592 GACTCAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 6 0.30
19 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAATTTTAAAATGAATT
Found at i:5273858 original size:24 final size:25
Alignment explanation
Indices: 5273821--5273869 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
5273811 TTTTTTATTT
* *
5273821 TTAAAGTTTATAAATTTAAAATTAA
1 TTAAAATTTATAAATATAAAATTAA
*
5273846 TTAAAATTT-TAAATATAAATTTAA
1 TTAAAATTTATAAATATAAAATTAA
5273870 ATTGACTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TTAAAATTTATAAATATAAAATTAA
Found at i:5273869 original size:281 final size:278
Alignment explanation
Indices: 5272987--5273932 Score: 1468
Period size: 281 Copynumber: 3.4 Consensus size: 278
5272977 ACACAAGTAC
* *
5272987 TTTTTTA--TTTAAAGTTTATAAATTTAAAATTAAATAAAATTTCAAATATGAATTTAAATTGAC
1 TTTTTTATTTTTAAAGTTTATAAATTTAAAATTAATTAAAATTTTAAATATGAATTTAAATTGAC
*
5273050 TCAAATAATTCTAACAATTTAAATTTAACTAGAATTAAAAAAAAAGTAG-TTTTGTTAAGTTTAT
66 TCAAATAATTCTAACAATTTAAATTTAACTAGAATTAAAAAAAAAGT-GCTTGTGTTAAGTTTAT
5273114 AAAAAAAATAAAATGATTTAATCTTTTAGTCATAAGACTAAAATAAATAAAATTAAGAGATTAAA
130 --AAAAAATAAAATGATTTAATCTTTTAGTCATAAGACTAAAATAAATAAAATTAAGAGATTAAA
*
5273179 TTATAAAAGAAATATATTCGTAATTAGAGAGTATGTGATTTAAATTTAATAAAAAATAAACTTAA
193 TTATAAAAGAAATATATTTGTAATTAGAGAGTATGTGATTTAAATTTAATAAAAAATAAACTTAA
*
5273244 AATTATAGATTAAATCAATTTA
258 AATTAGAGATTAAATC-ATTTA
5273266 TTTTTTATTTTTTTAAA-TTTATAAATTTAAAATTAATTAAAATTTT-AATATGAATTTAAATTG
1 TTTTTTA--TTTTTAAAGTTTATAAATTTAAAATTAATTAAAATTTTAAATATGAATTTAAATTG
5273329 ACTCAAATAATTCTAACAATTT--ATTTAACTAGAATTAAAAAAAAAGTGCTTGTGTTAAGTTTA
64 ACTCAAATAATTCTAACAATTTAAATTTAACTAGAATTAAAAAAAAAGTGCTTGTGTTAAGTTTA
*
5273392 TAAAAAATAAAATGATTTAATCTTTTAGTAATAAGACTAAAATAAATAAAATTAAGAGATTAAAT
129 TAAAAAATAAAATGATTTAATCTTTTAGTCATAAGACTAAAATAAATAAAATTAAGAGATTAAAT
* * *
5273457 TATAAAAGAAATATATTTGTAATTAGAGAGTATGTCATTCAAATTTAA-AAAAAATAAACCTAAA
194 TATAAAAGAAATATATTTGTAATTAGAGAGTATGTGATTTAAATTTAATAAAAAATAAACTTAAA
5273521 ATTAGAGATTAAATC----A
259 ATTAGAGATTAAATCATTTA
5273537 -----T-TTTTT-AAGTTTATAAATTTAAAATTAATTAAAATTTTAAATATGAATTTAAATTGAC
1 TTTTTTATTTTTAAAGTTTATAAATTTAAAATTAATTAAAATTTTAAATATGAATTTAAATTGAC
*
5273595 TCAAATAATTCTAACAATTTAAATTTAACTAGAATTTTAAAAAAAAGTGCTTGTGTTAAGTTTAT
66 TCAAATAATTCTAACAATTTAAATTTAACTAGAA-TTAAAAAAAAAGTGCTTGTGTTAAGTTTAT
* *
5273660 AAAAAATAAAACGATTTAATCTTTTAGTCATCA-ACTAAAATAAATAAAATTAAGAGATTAAATT
130 AAAAAATAAAATGATTTAATCTTTTAGTCATAAGACTAAAATAAATAAAATTAAGAGATTAAATT
*
5273724 ATAAAAGAAATATATTTGTACTTAGAGAGTATGTGATTTAAATTTAATAAAAAATTTAAACTTAA
195 ATAAAAGAAATATATTTGTAATTAGAGAGTATGTGATTTAAATTTAATAAAAAA--TAAACTTAA
5273789 AATTAGAGATTAAATCATTTTA
258 AATTAGAGATTAAATCA-TTTA
*
5273811 TTTTTTATTTTTAAAGTTTATAAATTTAAAATTAATTAAAATTTTAAATATAAATTTAAATTGAC
1 TTTTTTATTTTTAAAGTTTATAAATTTAAAATTAATTAAAATTTTAAATATGAATTTAAATTGAC
* * ** *
5273876 TCAAATAATTATAACAATTTAAATCTAACTATG-ATTTTAAAAAAA-TGCTTGTTTTAA
66 TCAAATAATTCTAACAATTTAAATTTAACTA-GAATTAAAAAAAAAGTGCTTGTGTTAA
5273933 TGGTGGTTTC
Statistics
Matches: 619, Mismatches: 22, Indels: 52
0.89 0.03 0.08
Matches are distributed among these distances:
262 2 0.00
263 34 0.05
264 39 0.06
266 88 0.14
267 65 0.11
269 24 0.04
271 1 0.00
274 1 0.00
276 29 0.05
277 108 0.17
278 1 0.00
279 58 0.09
280 15 0.02
281 120 0.19
282 28 0.05
283 6 0.01
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (278 bp):
TTTTTTATTTTTAAAGTTTATAAATTTAAAATTAATTAAAATTTTAAATATGAATTTAAATTGAC
TCAAATAATTCTAACAATTTAAATTTAACTAGAATTAAAAAAAAAGTGCTTGTGTTAAGTTTATA
AAAAATAAAATGATTTAATCTTTTAGTCATAAGACTAAAATAAATAAAATTAAGAGATTAAATTA
TAAAAGAAATATATTTGTAATTAGAGAGTATGTGATTTAAATTTAATAAAAAATAAACTTAAAAT
TAGAGATTAAATCATTTA
Found at i:5274998 original size:2 final size:2
Alignment explanation
Indices: 5274991--5275042 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
5274981 TATTATGCCA
5274991 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5275033 AT AT AT AT AT
1 AT AT AT AT AT
5275043 GATTAGAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5277832 original size:23 final size:24
Alignment explanation
Indices: 5277805--5277875 Score: 87
Period size: 23 Copynumber: 3.1 Consensus size: 24
5277795 TTAAGTTGAG
* *
5277805 CTTGAATCGAGGTCACAATCGA-T
1 CTTGAATCGAGCTCAAAATCGAGT
5277828 CTTGAATCGAGCTCAAAATCGAGT
1 CTTGAATCGAGCTCAAAATCGAGT
5277852 -TTGAATCGAGCTTC--AATCGAGT
1 CTTGAATCGAGC-TCAAAATCGAGT
5277874 CT
1 CT
5277876 CGAGCTTCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.19
23 32 0.74
24 3 0.07
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
CTTGAATCGAGCTCAAAATCGAGT
Found at i:5280054 original size:17 final size:18
Alignment explanation
Indices: 5280018--5280056 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
5280008 AAGTATTAAA
5280018 AATATAAATATTATAATT
1 AATATAAATATTATAATT
5280036 AATATAAA-ATT-TGAATT
1 AATATAAATATTAT-AATT
5280053 AATA
1 AATA
5280057 GTATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 11 0.55
18 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AATATAAATATTATAATT
Found at i:5280632 original size:11 final size:11
Alignment explanation
Indices: 5280618--5280660 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
5280608 TGCATGATGC
5280618 ATGCAAGATTT
1 ATGCAAGATTT
5280629 ATGCAAGATTT
1 ATGCAAGATTT
*
5280640 ATGCAAGATTC
1 ATGCAAGATTT
5280651 ATGCAAGATT
1 ATGCAAGATT
5280661 CAATGACACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ATGCAAGATTT
Found at i:5280661 original size:11 final size:11
Alignment explanation
Indices: 5280607--5280662 Score: 76
Period size: 11 Copynumber: 5.1 Consensus size: 11
5280597 CATCCTTGTT
* *
5280607 ATGCATGATGC
1 ATGCAAGATTC
*
5280618 ATGCAAGATTT
1 ATGCAAGATTC
*
5280629 ATGCAAGATTT
1 ATGCAAGATTC
5280640 ATGCAAGATTC
1 ATGCAAGATTC
5280651 ATGCAAGATTC
1 ATGCAAGATTC
5280662 A
1 A
5280663 ATGACACACG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGCAAGATTC
Found at i:5280950 original size:15 final size:15
Alignment explanation
Indices: 5280930--5280961 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5280920 TTATTGAACT
5280930 AAAATCAAGAAACAA
1 AAAATCAAGAAACAA
5280945 AAAATCAAGAAACAA
1 AAAATCAAGAAACAA
5280960 AA
1 AA
5280962 CTAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.12, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAATCAAGAAACAA
Found at i:5289597 original size:21 final size:21
Alignment explanation
Indices: 5289573--5289625 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
5289563 CATCGATACA
*
5289573 TATGTATCGATTCATCCTCGC
1 TATGTATCGATGCATCCTCGC
5289594 TATGTATCGATGCATCCTCGC
1 TATGTATCGATGCATCCTCGC
5289615 TATGTATCGAT
1 TATGTATCGAT
5289626 ACACTATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (21 bp):
TATGTATCGATGCATCCTCGC
Done.