Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 144 of 204
Found at i:44112184 original size:21 final size:19
Alignment explanation
Indices: 44112138--44112185 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
44112128 GATTGGTTGA
44112138 TGAAATTATGATATGAAAT
1 TGAAATTATGATATGAAAT
*
44112157 TGAGAAATTGATTATAATGAAAT
1 T--GAAATT-ATGAT-ATGAAAT
44112180 TGAAAT
1 TGAAAT
44112186 AAGGATGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
21 11 0.46
22 4 0.17
23 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (19 bp):
TGAAATTATGATATGAAAT
Found at i:44129729 original size:19 final size:19
Alignment explanation
Indices: 44129705--44129742 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44129695 TGAAAATGTT
44129705 AGTATGTTCTCATAGTAAA
1 AGTATGTTCTCATAGTAAA
44129724 AGTATGTTCTCATAGTAAA
1 AGTATGTTCTCATAGTAAA
44129743 TTGCGTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
AGTATGTTCTCATAGTAAA
Found at i:44134422 original size:41 final size:41
Alignment explanation
Indices: 44134362--44134439 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
44134352 TTTATGAGAA
* * * *
44134362 AAACACCGCTACTGTTTTACATT-TTGCTGCGTTTTTCTCAT
1 AAACACCACTACTGCTTTAC-TTATTGCGGCATTTTTCTCAT
*
44134403 AAACACCACTATTGCTTTACTTATTGCGGCATTTTTC
1 AAACACCACTACTGCTTTACTTATTGCGGCATTTTTC
44134440 GATTAATGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 2 0.06
41 29 0.94
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (41 bp):
AAACACCACTACTGCTTTACTTATTGCGGCATTTTTCTCAT
Found at i:44136473 original size:20 final size:20
Alignment explanation
Indices: 44136450--44136555 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
44136440 GTGCTTCTGA
*
44136450 TAGCACATTCATGCTCATGT
1 TAGCACATTCGTGCTCATGT
* *
44136470 TAGCAC-TACGGTGCTCATGA
1 TAGCACATTC-GTGCTCATGT
* * *
44136490 TAGAACATTCGTGCTCCTAT
1 TAGCACATTCGTGCTCATGT
* * * *
44136510 TTGCAC-TATGGTGTTCATGA
1 TAGCACAT-TCGTGCTCATGT
* *
44136530 TAGCACATTCATGCTCTTGT
1 TAGCACATTCGTGCTCATGT
44136550 TAGCAC
1 TAGCAC
44136556 TATGGTACTC
Statistics
Matches: 61, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
19 3 0.05
20 55 0.90
21 3 0.05
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (20 bp):
TAGCACATTCGTGCTCATGT
Found at i:44136484 original size:40 final size:40
Alignment explanation
Indices: 44136447--44136585 Score: 179
Period size: 40 Copynumber: 3.5 Consensus size: 40
44136437 CAAGTGCTTC
*
44136447 TGATAGCACATTCATGCTCATGTTAGCACTACGGTGCTCA
1 TGATAGCACATTCATGCTCATGTTAGCACTATGGTGCTCA
* * * * * *
44136487 TGATAGAACATTCGTGCTCCTATTTGCACTATGGTGTTCA
1 TGATAGCACATTCATGCTCATGTTAGCACTATGGTGCTCA
* * *
44136527 TGATAGCACATTCATGCTCTTGTTAGCACTATGGTACTCT
1 TGATAGCACATTCATGCTCATGTTAGCACTATGGTGCTCA
*
44136567 TGATAGCATATTCATGCTC
1 TGATAGCACATTCATGCTC
44136586 CTATTTGAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (40 bp):
TGATAGCACATTCATGCTCATGTTAGCACTATGGTGCTCA
Found at i:44141555 original size:22 final size:22
Alignment explanation
Indices: 44141505--44141556 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 22
44141495 TGTGTAAAAA
**
44141505 GAGGCACACGGTCGTGTGGAAT
1 GAGGCACACGCCCGTGTGGAAT
44141527 --GGCACACGCCCGTGTGGAAT
1 GAGGCACACGCCCGTGTGGAAT
44141547 GAGGCACACG
1 GAGGCACACG
44141557 ACTGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 18 0.69
22 8 0.31
ACGTcount: A:0.23, C:0.25, G:0.38, T:0.13
Consensus pattern (22 bp):
GAGGCACACGCCCGTGTGGAAT
Found at i:44141563 original size:22 final size:21
Alignment explanation
Indices: 44141505--44141564 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
44141495 TGTGTAAAAA
*
44141505 GAGGCACACGGTCGTGTGGAAT
1 GAGGCACACGCT-GTGTGGAAT
*
44141527 --GGCACACGCCCGTGTGGAAT
1 GAGGCACACG-CTGTGTGGAAT
44141547 GAGGCACACGACTGTGTG
1 GAGGCACACG-CTGTGTG
44141565 AACAGACCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 17 0.55
22 14 0.45
ACGTcount: A:0.22, C:0.23, G:0.38, T:0.17
Consensus pattern (21 bp):
GAGGCACACGCTGTGTGGAAT
Found at i:44150327 original size:21 final size:22
Alignment explanation
Indices: 44150302--44150345 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
44150292 ACGACTGAAC
44150302 AAAAAGATGTCATCCTTATCCAAA
1 AAAAAGATGTCATCCTTATCC--A
44150326 AAAAAGATGTCATCCTTATC
1 AAAAAGATGTCATCCTTATC
44150346 AAGAAACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.27
Consensus pattern (22 bp):
AAAAAGATGTCATCCTTATCCA
Found at i:44155204 original size:28 final size:29
Alignment explanation
Indices: 44155153--44155209 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
44155143 CCCACCTCTT
44155153 TATTTTAAAGAAAAAAAGGAAAATGGAAA
1 TATTTTAAAGAAAAAAAGGAAAATGGAAA
44155182 TATTTTAAAG-AAAAAAGGAAAATGGAAA
1 TATTTTAAAGAAAAAAAGGAAAATGGAAA
44155210 GAAGAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (29 bp):
TATTTTAAAGAAAAAAAGGAAAATGGAAA
Found at i:44164998 original size:33 final size:33
Alignment explanation
Indices: 44164951--44165050 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
44164941 AGTTGAACAA
* *
44164951 AATGATGAAACTGCCCCAATAGATGTTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
44164984 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
* * * *
44165017 ATTGATGAAGTTGCCCTGATAGATGTTTCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
44165050 A
1 A
44165051 CTTATGTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (33 bp):
AATGATGAAGCTGCCCCGATAGATGTTCCAATC
Found at i:44181867 original size:44 final size:45
Alignment explanation
Indices: 44181803--44182380 Score: 548
Period size: 44 Copynumber: 13.2 Consensus size: 45
44181793 TCATTAAAGT
* * *
44181803 AGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGATATC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
44181847 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
44181890 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
**** * * *
44181935 AGATCTTGTCTTCAGGCATTAG-CGTGAAGTAGATCGAAGATATC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
44181979 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* *
44182022 AGGTATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGC
1 A-G-ATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
44182069 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
44182113 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* *
44182156 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAA-GATAGC
* * * *
44182201 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * *
44182246 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGAT-----AT--C
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * * *
44182283 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GT
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * *
44182326 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
44182371 AGATCTTGTC
1 AGATCTTGTC
44182381 CCTGTATTTG
Statistics
Matches: 433, Mismatches: 80, Indels: 41
0.78 0.14 0.07
Matches are distributed among these distances:
37 27 0.06
38 1 0.00
39 1 0.00
42 2 0.00
43 66 0.15
44 185 0.43
45 133 0.31
46 15 0.03
47 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (45 bp):
AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
Found at i:44182100 original size:134 final size:132
Alignment explanation
Indices: 44181798--44182213 Score: 733
Period size: 132 Copynumber: 3.1 Consensus size: 132
44181788 TGAAGTCATT
* *
44181798 AAAGTAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
*
44181863 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
44181928 AG
131 AG
* * *
44181930 AAAGCAGATCTTGTCTTCAGGCATTAGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
*
44181995 TATTGGTAGGAAGTGGATCGAAGATGCAGGTATCTTGTCTTCCCATATTGGTGGTGAAGTAGATC
66 TATTGGTAGGAAGTGGATCGAAGATGCA-G-ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
44182060 GAAG
129 GAAG
44182064 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
44182129 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
44182194 AG
131 AG
* *
44182196 GATGCAGATCTTGTCTTC
1 AAAGCAGATCTTGTCTTC
44182214 CCATATTGGT
Statistics
Matches: 269, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
132 141 0.52
133 2 0.01
134 126 0.47
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:44182359 original size:170 final size:173
Alignment explanation
Indices: 44181801--44182380 Score: 622
Period size: 177 Copynumber: 3.3 Consensus size: 173
44181791 AGTCATTAAA
*** * * * * *
44181801 GTAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAA-GATATCAGATCCTATCTTCCTATA
1 GTAGATCTTGTCTTCCCATATTGGTGGGAAGTAGATCGAAGGAT-GCAGATCTTGTCTTCCCATA
* * * *** * *
44181865 TTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGA
65 TTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAG-AGA-T-A
* * * * **** *
44181928 AGAAAGCAGATCTTGTCTTCAGGCATTAGCGT--GAAGTAGATCGAAGAT
126 AGATATCAGATCCTATCTTCCTATATT-G-GTAGGAAGTGGATCGAAGAT
* * * * * *
44181976 ATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAA-GATGCAGGTATCTTGTCTTCCCA
1 GT-AGATCTTGTCTTCCCATATTGGTGGGAAGTAGATCGAAGGATGCA-G-ATCTTGTCTTCCCA
*
44182040 TATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
63 TATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG-AGAT--
44182105 AAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
125 AAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
*
44182154 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGGATGCAGATCTTGTCTTCCCATA
1 GTAGATCTTGTCTTCCCATATTGGTGG-GAAGTAGATCGAAGGATGCAGATCTTGTCTTCCCATA
*
44182219 TTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG-A-AG-T-AGAT
65 TTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAGATAAGAT
44182280 ATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
130 ATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
* * *
44182324 GTAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTC
1 GTAGATCTTGTCTTCCCATATTGGTGG-GAAGTAGATCGAAGGATGCAGATCTTGTC
44182381 CCTGTATTTG
Statistics
Matches: 352, Mismatches: 43, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
170 100 0.28
173 1 0.00
174 2 0.01
175 3 0.01
176 38 0.11
177 109 0.31
178 71 0.20
179 28 0.08
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (173 bp):
GTAGATCTTGTCTTCCCATATTGGTGGGAAGTAGATCGAAGGATGCAGATCTTGTCTTCCCATAT
TGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAGATAAGATA
TCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
Found at i:44182404 original size:125 final size:126
Alignment explanation
Indices: 44182032--44182388 Score: 344
Period size: 125 Copynumber: 2.8 Consensus size: 126
44182022 AGGTATCTTG
* * * * *** * * *
44182032 TCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGA
1 TCTTCCCATATTGGTAGCGAAGTAGATCGAAGGATGCAGATCTTGTCTTCCCATACTGGTGGCGA
* * * * * * ** *
44182096 AGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATC
66 AGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGGCGGGAAGT--A--G-ATAT-CAGATC
* *
44182161 TTG
124 CTA
* *
44182164 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGGATGCAGATCTTGTCTTCCCATATTGGTGGCGA
1 TCTTCCCATATTGGTAGCGAAGTAGATCGAAGGATGCAGATCTTGTCTTCCCATACTGGTGGCGA
* *
44182229 AGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATATCAGATCCTA
66 AGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGGCGGGAAGTAGATATCAGATCCTA
* * * *
44182291 TCTTCCTATATTGGTAG-GAAGTGGATCGAA-GATGTAGATCTTGTCTTCCCATACTGGTGGTGA
1 TCTTCCCATATTGGTAGCGAAGTAGATCGAAGGATGCAGATCTTGTCTTCCCATACTGGTGGCGA
*
44182354 AGTAGATCGAAGAAAGCAGATCTTGTC-CCTGTATT
66 AGTAGATCGAAGAAAGCAGATCTTGTCTCATGTATT
44182389 TGGCAGGGGA
Statistics
Matches: 195, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
123 7 0.04
125 56 0.29
126 12 0.06
127 22 0.11
128 3 0.02
129 1 0.01
131 1 0.01
132 53 0.27
133 40 0.21
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (126 bp):
TCTTCCCATATTGGTAGCGAAGTAGATCGAAGGATGCAGATCTTGTCTTCCCATACTGGTGGCGA
AGTAGATCGAAGAAAGCAGATCTTGTCTCATGTATTGGCGGGAAGTAGATATCAGATCCTA
Found at i:44187271 original size:14 final size:16
Alignment explanation
Indices: 44187243--44187275 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
44187233 GAATCACCAA
44187243 AAAATAAAATGAAAAG
1 AAAATAAAATGAAAAG
44187259 AAAA-AAAAT-AAAAG
1 AAAATAAAATGAAAAG
44187273 AAA
1 AAA
44187276 TCCTCCCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAATAAAATGAAAAG
Found at i:44192635 original size:34 final size:34
Alignment explanation
Indices: 44192592--44192657 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
44192582 ATCAATTTAA
44192592 TTCATAAAGTTACAGAGTGAATAGATAAAAAAAG
1 TTCATAAAGTTACAGAGTGAATAGATAAAAAAAG
44192626 TTCATAAAGTTACAGAGTGAATAGATAAAAAA
1 TTCATAAAGTTACAGAGTGAATAGATAAAAAA
44192658 GTAATCCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.24
Consensus pattern (34 bp):
TTCATAAAGTTACAGAGTGAATAGATAAAAAAAG
Found at i:44194473 original size:35 final size:34
Alignment explanation
Indices: 44194434--44194513 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 34
44194424 AATTTAATTT
44194434 ATATTTTATTATTTGATTCA-AATATAATCTGT-AAA
1 ATATTTTATTATTTGATT-AGAATATAAT-T-TAAAA
*
44194469 ATATTTTGA-TATTTTATTATGAATATAATTTAAAA
1 ATATTTT-ATTATTTGATTA-GAATATAATTTAAAA
44194504 ATATTTTATT
1 ATATTTTATT
44194514 GTATATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.08
35 27 0.69
36 9 0.23
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (34 bp):
ATATTTTATTATTTGATTAGAATATAATTTAAAA
Found at i:44198891 original size:30 final size:31
Alignment explanation
Indices: 44198867--44198925 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
44198857 GTAAATACTC
* **
44198867 AAAATTTGAAGGGTTAA-AGTGTAAATATAA
1 AAAAGTTGAAGGACTAATAGTGTAAATATAA
44198897 AAAAGTTGAAGGACTAATAGTGTAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
44198926 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.49, C:0.02, G:0.20, T:0.29
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATAA
Found at i:44199373 original size:20 final size:22
Alignment explanation
Indices: 44199337--44199378 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
44199327 CAAAATATAC
44199337 CAAAAACAAAAACAAAAACCTG
1 CAAAAACAAAAACAAAAACCTG
44199359 CAAAAA-AAAAA-AAAAACCTG
1 CAAAAACAAAAACAAAAACCTG
44199379 TGGCGGCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 5 0.25
22 6 0.30
ACGTcount: A:0.71, C:0.19, G:0.05, T:0.05
Consensus pattern (22 bp):
CAAAAACAAAAACAAAAACCTG
Found at i:44206932 original size:3 final size:3
Alignment explanation
Indices: 44206924--44206951 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44206914 CATATCTTTG
44206924 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
44206952 GTTTTCTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:44209403 original size:25 final size:25
Alignment explanation
Indices: 44209375--44209441 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 25
44209365 ATTATTAACT
*
44209375 GGAAGCTCCGGATAGCCATATATCG
1 GGAAGCTCCGGAGAGCCATATATCG
* ** *
44209400 GGAAGTTCAAGCGAGCC--ATATCG
1 GGAAGCTCCGGAGAGCCATATATCG
44209423 GGAAGCTCCGGAGAGCCAT
1 GGAAGCTCCGGAGAGCCAT
44209442 TAATTAGGAA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
23 19 0.61
25 12 0.39
ACGTcount: A:0.28, C:0.24, G:0.31, T:0.16
Consensus pattern (25 bp):
GGAAGCTCCGGAGAGCCATATATCG
Found at i:44210995 original size:16 final size:17
Alignment explanation
Indices: 44210974--44211017 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
44210964 ACATGTGGAA
44210974 AAAAATTATAAAA-AAT
1 AAAAATTATAAAAGAAT
44210990 AAAAATTCATAAAAGTAAT
1 AAAAATT-ATAAAAG-AAT
*
44211009 AAAAGTTAT
1 AAAAATTAT
44211018 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 7 0.29
17 6 0.25
18 2 0.08
19 9 0.38
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
AAAAATTATAAAAGAAT
Found at i:44211050 original size:18 final size:19
Alignment explanation
Indices: 44211016--44211054 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
44211006 AATAAAAGTT
44211016 ATTAAATTTTAATTAAAAA
1 ATTAAATTTTAATTAAAAA
*
44211035 ATTACATTTT-ATTAAAAA
1 ATTAAATTTTAATTAAAAA
44211053 AT
1 AT
44211055 AGAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTAATTAAAAA
Found at i:44211061 original size:18 final size:18
Alignment explanation
Indices: 44211016--44211066 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
44211006 AATAAAAGTT
44211016 ATTAAATTTTAATTAAAAA
1 ATTAAATTTT-ATTAAAAA
*
44211035 ATTACATTTTATTAAAAA
1 ATTAAATTTTATTAAAAA
44211053 A-TAGAATTTT-TTAA
1 ATTA-AATTTTATTAA
44211067 CTTTTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 6 0.21
18 14 0.48
19 9 0.31
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTTTATTAAAAA
Found at i:44211307 original size:18 final size:19
Alignment explanation
Indices: 44211269--44211307 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44211259 GTACGATAAC
44211269 TTTTATAATTTTTTTACAA
1 TTTTATAATTTTTTTACAA
44211288 TTTT-TAATATTTTTTA-AA
1 TTTTATAAT-TTTTTTACAA
44211306 TT
1 TT
44211308 ATTTTTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTTTACAA
Found at i:44217364 original size:3 final size:3
Alignment explanation
Indices: 44217346--44217404 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
44217336 CATTAAATTA
* * *
44217346 ATT ATT -TT AAT ATT ATT ATT ACT ATT A-T ATT A-C ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
44217391 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
44217405 GATTTACTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 5 0.11
3 42 0.89
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:44217552 original size:20 final size:19
Alignment explanation
Indices: 44217512--44217563 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
44217502 AATTTATTTG
44217512 TATATA-TATATACATACT
1 TATATATTATATACATACT
* *
44217530 TATATATTATTTATATACT
1 TATATATTATATACATACT
44217549 T-TATA-TATATACATA
1 TATATATTATATACATA
44217564 TATGTGTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 8 0.28
18 10 0.34
19 11 0.38
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATTATATACATACT
Found at i:44217923 original size:46 final size:47
Alignment explanation
Indices: 44217850--44217939 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 47
44217840 CACATCCCTG
* * *
44217850 TATATATACATACTTACATATATTTTTATATTGC-ATAATTTTAAAA
1 TATATATACATACATACATATACTTTTACATTGCTATAATTTTAAAA
* * *
44217896 TATATATACATACATATATATCCTTTTACATTTCTATAATTTTA
1 TATATATACATACATACATATACTTTTACATTGCTATAATTTTA
44217940 TTCATCTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 28 0.76
47 9 0.24
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (47 bp):
TATATATACATACATACATATACTTTTACATTGCTATAATTTTAAAA
Found at i:44221597 original size:15 final size:14
Alignment explanation
Indices: 44221535--44221601 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
44221525 CAGTGGAAGC
44221535 AAAAAAAAAAAAGA
1 AAAAAAAAAAAAGA
* *
44221549 AAAACAGAAAAAGA
1 AAAAAAAAAAAAGA
* ** **
44221563 GAGCAAAAATGAGA
1 AAAAAAAAAAAAGA
44221577 AAAAAACAAAAAAGA
1 AAAAAA-AAAAAAGA
44221592 ACAAAAAAAA
1 A-AAAAAAAA
44221602 CCTCTACCGG
Statistics
Matches: 37, Mismatches: 14, Indels: 3
0.69 0.26 0.06
Matches are distributed among these distances:
14 22 0.59
15 10 0.27
16 5 0.14
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.01
Consensus pattern (14 bp):
AAAAAAAAAAAAGA
Found at i:44223070 original size:44 final size:44
Alignment explanation
Indices: 44222993--44223902 Score: 280
Period size: 44 Copynumber: 20.7 Consensus size: 44
44222983 CATATCAAGC
* * * * * * **
44222993 CTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTATAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCATAGAT
* *
44223037 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GA-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC--CATAGAT
* * *
44223081 CTTATCT-TCT-CG-AGATAGTAGGAAGCAGATTTAAG-CCACTAG-T
1 CTTATCTCCCTAAGCAG-TAGT-GG-AGCAGATTGAAGACCA-TAGAT
* * * * * *
44223124 CCTATCTCACTGAGCAGCAGTGGAGTA-AGTTGAAGA-TAGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA-TTGAAGACCA-TAGAT
* * *
44223168 CTTATCTCCCTAAACAGTAGTGGAGCAGGTTGAAGA-TAGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCA-TAGAT
* *
44223212 CTTATCTCCCTAAACAGTAGTTGAGCAGATTGAAGACGGCA-A-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC--CATAGAT
* * * *
44223256 CTTATCTTCCCGATA-TAGTAG-GAAGCAGATTTAAGCCACCAT---T
1 CTTATC-TCCCTA-AGCAGTAGTGGAGCAGATTGAAG--ACCATAGAT
* * * * * * * **
44223299 CCTATATTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCATAGAT
* * *
44223343 CTTATCTCCCTAAGAAGTAGTAGAGCAGATCGAAGACGGCA-A-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC--CATAGAT
* * * * * *
44223387 CTTATCTTCCC-GAGATAGTAGT-AAGCAGATTTAAG-CCACCAG-C
1 CTTATC-TCCCTAAG-CAGTAGTGGAGCAGATTGAAGACCA-TAGAT
* * * * * *** *
44223430 CTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTTGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCATAGAT
* * *
44223474 CTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGC-GA-AT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC--CATAGAT
* * * * *
44223518 CTTATCT-TCTCAAGGTATTAG-GGAAGCAGATTTAAG-CCACTAG-C
1 CTTATCTCCCT-AA-GCAGTAGTGG-AGCAGATTGAAGACCA-TAGAT
* * * * ***
44223562 CTTATTTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCATAGAT
* * *
44223606 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA-CGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCATAG-AT
* * * * *
44223650 CTTATCTTCCC-AAGGTATTAG-GGAAGCAGATTTAAG-CCACCAG-C
1 CTTATC-TCCCTAA-GCAGTAGTGG-AGCAGATTGAAGACCA-TAGAT
* * * * ***
44223694 CTTATCTTCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCATAGAT
* * ***
44223738 CTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGA-CGGGGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCATAG-AT
* * * *
44223782 CTTATCTTCCC-AAGGTAGTAG-GGAAGCAGATTTAAG-CCACCAG-C
1 CTTATC-TCCCTAA-GCAGTAGTGG-AGCAGATTGAAGACCA-TAGAT
** * *
44223826 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCATAGAT
1 CTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGACCATAGAT
* * * *
44223870 CTTATCTCTCTGAAGTAGCAGTAGAGCAGATTG
1 CTTATCTCCCT-AAGCAGTAGTGGAGCAGATTG
44223903 CACATAGTCT
Statistics
Matches: 633, Mismatches: 160, Indels: 145
0.67 0.17 0.15
Matches are distributed among these distances:
41 9 0.01
42 24 0.04
43 109 0.17
44 395 0.62
45 87 0.14
46 8 0.01
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCATAGAT
Found at i:44223242 original size:131 final size:131
Alignment explanation
Indices: 44222995--44223231 Score: 309
Period size: 131 Copynumber: 1.8 Consensus size: 131
44222985 TATCAAGCCT
* * *
44222995 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCACTGAGCAGCAGCGGAGTAAGTCGAAGATTATAGATCTTATCTCCCTAAACAGTAGTGG
* * * * *
44223060 AGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCACTAGTC
66 AGCAGATCGAAGAAGGAGAATCTTATCTTCCCGAAACAGTAGGAAGCAGATTTAAGCCACTAGTC
44223125 C
131 C
* *
44223126 TATCTCACTGAGCAGCAGTGGAGTAAGTTGAAGA-TAGTAGATCTTATCTCCCTAAACAGTAGTG
1 TATCTCACTGAGCAGCAGCGGAGTAAGTCGAAGATTA-TAGATCTTATCTCCCTAAACAGTAGTG
* * * *
44223190 GAGCAGGTTGAAGATAGTAG-ATCTTATC-TCCCTAAACAGTAG
65 GAGCAGATCGAAGA-AGGAGAATCTTATCTTCCCGAAACAGTAG
44223232 TTGAGCAGAT
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
130 12 0.13
131 76 0.84
132 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (131 bp):
TATCTCACTGAGCAGCAGCGGAGTAAGTCGAAGATTATAGATCTTATCTCCCTAAACAGTAGTGG
AGCAGATCGAAGAAGGAGAATCTTATCTTCCCGAAACAGTAGGAAGCAGATTTAAGCCACTAGTC
C
Found at i:44223284 original size:175 final size:175
Alignment explanation
Indices: 44222993--44223378 Score: 546
Period size: 175 Copynumber: 2.2 Consensus size: 175
44222983 CATATCAAGC
* * * * * *
44222993 CTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAACAGTAGTGGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAACAGTAGT
* * *
44223058 GGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCACTAG
66 GGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCACCAG
44223123 TCCTAT-CTCACTGAGCAGCAGTGGAGTAAGTTGAAGA-TAGTAGAT
131 TCCTATACTC-CTGAGCAGCAGTGGAGTAAGTTGAAGATTA-TAGAT
*
44223168 CTTATCTCCCTAAACAGTAGTGGAGCAGGTTGAAGA-TAGTAGATCTTATCTCCCTAAACAGTAG
1 CTTATCTCCCTAAACAGTAGTGGAGCAGGTCGAAGATTA-TAGATCTTATCTCCCTAAACAGTAG
* * *
44223232 TTGAGCAGATTGAAGACGGCAAATCTTATCTTCCCGATATAGTAGGAAGCAGATTTAAGCCACCA
65 TGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCACCA
* * *
44223297 TTCCTATATTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGAT
130 GTCCTATACTCCTGAGCAGCAGTGGAGTAAGTTGAAGATTATAGAT
* *
44223343 CTTATCTCCCTAAGA-AGTAGTAGAGCAGATCGAAGA
1 CTTATCTCCCTAA-ACAGTAGTGGAGCAGGTCGAAGA
44223379 CGGCAAATCT
Statistics
Matches: 188, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
174 2 0.01
175 181 0.96
176 5 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (175 bp):
CTTATCTCCCTAAACAGTAGTGGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAACAGTAGT
GGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCACCAG
TCCTATACTCCTGAGCAGCAGTGGAGTAAGTTGAAGATTATAGAT
Found at i:44223416 original size:175 final size:175
Alignment explanation
Indices: 44223035--44223417 Score: 495
Period size: 175 Copynumber: 2.2 Consensus size: 175
44223025 AAGATTATAG
* * ** * * *
44223035 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGT
1 ATCTTATCTCCCGAAACAGTAGTTAAGCAGATTGAAGACGGCAAATCTTATCTTCCCGAGATAGT
*
44223100 AGGAAGCAGATTTAAGCCACTAGTCCTATCTCACTGAGCAGCAGTGGAGTAAGTTGAAGATAGTA
66 AGGAAGCAGATTTAAGCCACCAGTCCTATCTCACTGAGCAGCAGTGGAGTAAGTTGAAGATAGTA
* * * * * *
44223165 GATCTTATCTCCCTAAACAGTAGTGGAGCAGGTTGAAGATAGTAG
131 GATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGACAGCAA
* * *
44223210 ATCTTATCTCCCTAAACAGTAGTTGAGCAGATTGAAGACGGCAAATCTTATCTTCCCGATATAGT
1 ATCTTATCTCCCGAAACAGTAGTTAAGCAGATTGAAGACGGCAAATCTTATCTTCCCGAGATAGT
* * *
44223275 AGGAAGCAGATTTAAGCCACCATTCCTATATTC-CTGAGCAGCAGTGGAGTAGGTTGAAGATTA-
66 AGGAAGCAGATTTAAGCCACCAGTCCTAT-CTCACTGAGCAGCAGTGGAGTAAGTTGAAGA-TAG
*
44223338 TAGATCTTATCTCCCTAAGA-AGTAGTAGAGCAGATCGAAGACGGCAA
129 TAGATCTTATCTCCCTAA-ACAGTAGTAGAGCAGATCGAAGACAGCAA
* *
44223385 ATCTTATCTTCCCGAGATAGTAG-TAAGCAGATT
1 ATCTTATC-TCCCGAAACAGTAGTTAAGCAGATT
44223418 TAAGCCACCA
Statistics
Matches: 183, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
175 167 0.91
176 16 0.09
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (175 bp):
ATCTTATCTCCCGAAACAGTAGTTAAGCAGATTGAAGACGGCAAATCTTATCTTCCCGAGATAGT
AGGAAGCAGATTTAAGCCACCAGTCCTATCTCACTGAGCAGCAGTGGAGTAAGTTGAAGATAGTA
GATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGACAGCAA
Found at i:44223598 original size:132 final size:132
Alignment explanation
Indices: 44223168--44223851 Score: 980
Period size: 132 Copynumber: 5.2 Consensus size: 132
44223158 GATAGTAGAT
* * * * *
44223168 CTTATCTCCCTAAACAGTAGTGGAGCAGGTTGAAGATAGTAGATCTTATCTCCCTAAACAGTAGT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* * * * **
44223233 TGAGCAGATTGAAGACGGCAAATCTTATCTTCCCGATATAGTA-GGAAGCAGATTTAAGCCACCA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
*
44223297 TTC
131 -GC
* * *
44223300 CTATAT-T-CCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGAAGTAG
1 CT-TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
* * * * *
44223363 TAGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTA-GTAAGCAGATTTAAGCCACC
65 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACC
44223427 AGC
130 AGC
* * *
44223430 CTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTTGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* * * *
44223495 GGAGTAGATCGAAGACGGCGAATCTTATCTTCTCAAGGTATTAGGGAAGCAGATTTAAGCCACTA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
44223560 GC
131 GC
*
44223562 CTTATTTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* *
44223627 GGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTATTAGGGAAGCAGATTTAAGCCACCA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
44223692 GC
131 GC
* * *
44223694 CTTATCTTCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* *
44223759 GAAGCAGATCGAAGACGGGGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
44223824 GC
131 GC
**
44223826 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCT-AAGCAGCAGTGGAG
44223852 CAGATTAAAA
Statistics
Matches: 500, Mismatches: 47, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
129 3 0.01
130 4 0.01
131 198 0.40
132 282 0.56
133 13 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
CTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
GC
Found at i:44223971 original size:44 final size:44
Alignment explanation
Indices: 44223826--44224025 Score: 178
Period size: 44 Copynumber: 4.6 Consensus size: 44
44223816 AGCCACCAGC
*
44223826 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT--TA-AAACCATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACC--A-AT
* * * * * * * *
44223870 CTTATCTCTCTGAAGTAGCAGTAGAGCAGATTG--CACA-TAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAAT
* * * *
44223911 CTTATATCCTTGAAGTTGCAGTAGAGCAGACAGAAGAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAAT
* * *
44223955 CTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAAT
*
44223999 CCTATCTCCCTGAAGTTGCAGTGGAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGC
44224026 GGATTAAAAT
Statistics
Matches: 124, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
41 28 0.23
42 1 0.01
43 2 0.02
44 91 0.73
45 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACCAAT
Found at i:44224049 original size:44 final size:42
Alignment explanation
Indices: 44223826--44224069 Score: 177
Period size: 44 Copynumber: 5.6 Consensus size: 42
44223816 AGCCACCAGC
*
44223826 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACCATAGAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAACC---GAT
* * ** * **
44223870 CTTATCTCTCTGAAGTAGCAGTAGAGCAGATTGCACATAG-T
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAACCGAT
* * ** *
44223911 CTTATATCCTTGAAGTTGCAGTAGAGCAGACAGAAGAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TTAA-AAACCGAT
* * * *
44223955 CTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATT-AA-AAACCGAT
* * * **
44223999 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGGAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAA--ACCGAT
* *
44224043 CTTATCTCTCTGAAGTTACAGTAGAGC
1 CTTATCTCCCTGAAGTTGCAGTAGAGC
44224070 GGATCGCATC
Statistics
Matches: 156, Mismatches: 37, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
41 27 0.17
42 3 0.02
43 4 0.03
44 120 0.77
45 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAACCGAT
Found at i:44225691 original size:23 final size:23
Alignment explanation
Indices: 44225636--44225692 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
44225626 CATTAAATTA
* *
44225636 ATTATTTTAATATTATTATTACG
1 ATTATATTATTATTATTATTACG
* *
44225659 ATTATATTATTATTATTGTTATG
1 ATTATATTATTATTATTATTACG
44225682 ATT-TACTTATT
1 ATTATA-TTATT
44225693 TATGTCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 2 0.07
23 27 0.93
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (23 bp):
ATTATATTATTATTATTATTACG
Found at i:44225752 original size:28 final size:28
Alignment explanation
Indices: 44225712--44225769 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
44225702 TTAATTTCAA
* *
44225712 ATTTTGTTGTATATATGTACATACATAC
1 ATTTTGTTATATATATATACATACATAC
*
44225740 ATTTTGTTATATATATATACATACGTAC
1 ATTTTGTTATATATATATACATACATAC
44225768 AT
1 AT
44225770 ATTTTTCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (28 bp):
ATTTTGTTATATATATATACATACATAC
Found at i:44225838 original size:69 final size:68
Alignment explanation
Indices: 44225710--44225840 Score: 151
Period size: 69 Copynumber: 1.9 Consensus size: 68
44225700 TTTTAATTTC
* *
44225710 AAATTTTGTTGTATATATGTACATACATACATTTTGTTATATATATATACATACGTACATATTTT
1 AAATTTTGTTGTATATATATACATACATACATTATGTTATATATATATACATAC-TACATATTTT
44225775 TCTT
65 TCTT
* * *
44225779 AAATTTAT-TTGTATATATATACATACTTATATATTAT-TTATATACTTTATATATA-TACATAT
1 AAATTT-TGTTGTATATATATACATAC--ATACATTATGTTATATA-TATATACATACTACATAT
44225841 ATGTGTACAC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
69 30 0.57
70 8 0.15
71 15 0.28
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (68 bp):
AAATTTTGTTGTATATATATACATACATACATTATGTTATATATATATACATACTACATATTTTT
CTT
Found at i:44226183 original size:46 final size:47
Alignment explanation
Indices: 44226110--44226199 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 47
44226100 CACATCCCTG
* * *
44226110 TATATATACATACTTACATATATTTTTATATTGC-ATAATTTTAAAA
1 TATATATACATACATACATATACTTTTACATTGCTATAATTTTAAAA
* * *
44226156 TATATATACATACATATATATCCTTTTACATTTCTATAATTTTA
1 TATATATACATACATACATATACTTTTACATTGCTATAATTTTA
44226200 TTCATCTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 28 0.76
47 9 0.24
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (47 bp):
TATATATACATACATACATATACTTTTACATTGCTATAATTTTAAAA
Found at i:44226218 original size:4 final size:4
Alignment explanation
Indices: 44226209--44226236 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
44226199 ATTCATCTTC
44226209 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
44226237 CGTTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:44228330 original size:9 final size:9
Alignment explanation
Indices: 44228316--44228343 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44228306 CGCTTGCATA
44228316 TCAAACTTG
1 TCAAACTTG
44228325 TCAAACTTG
1 TCAAACTTG
44228334 TCAAACTTG
1 TCAAACTTG
44228343 T
1 T
44228344 TAGATTGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (9 bp):
TCAAACTTG
Found at i:44236349 original size:40 final size:40
Alignment explanation
Indices: 44236294--44236372 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
44236284 CTTCATCCTT
44236294 GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGAG
1 GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGAG
44236334 GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGA
1 GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGA
44236373 AATAAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (40 bp):
GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGAG
Found at i:44240230 original size:23 final size:23
Alignment explanation
Indices: 44240187--44240231 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44240177 TTGTAAAAGA
* *
44240187 TTTAAATATATATATAAATATAT
1 TTTAAATATATAAAGAAATATAT
44240210 TTTAAA-ATATAAAGAACATATA
1 TTTAAATATATAAAGAA-ATATA
44240232 CAAGTATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTAAATATATAAAGAAATATAT
Found at i:44240323 original size:48 final size:48
Alignment explanation
Indices: 44240212--44240319 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 48
44240202 AAATATATTT
* *
44240212 TAAAATATAAAGAACATATACAAGTATGTATATATATATTTTGAAATTA
1 TAAAATATAAAG-ACATATACAAGTATGCATATATATATTTTAAAATTA
* * *
44240261 TAAAATATGAAAGACATTTATATGTATGCATATATAT-TTTTAAAATTA
1 TAAAATAT-AAAGACATATACAAGTATGCATATATATATTTTAAAATTA
44240309 TAAAATATAAA
1 TAAAATATAAA
44240320 AGACGTATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
47 3 0.06
48 18 0.34
49 28 0.53
50 4 0.08
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (48 bp):
TAAAATATAAAGACATATACAAGTATGCATATATATATTTTAAAATTA
Found at i:44240342 original size:48 final size:47
Alignment explanation
Indices: 44240240--44240347 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 47
44240230 TACAAGTATG
* * * **
44240240 TATATATATATTTTGAAATTATAAAATATGAAAGACATTTATATGTA
1 TATATATATATTTTAAAATTATAAAATATAAAAGACATGTATATACA
44240287 TGCATATATAT-TTTTAAAATTATAAAATATAAAAGACGTATGTATATACA
1 T--ATATATATATTTTAAAATTATAAAATATAAAAGAC--ATGTATATACA
44240337 TATATATATAT
1 TATATATATAT
44240348 ATGAAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
47 1 0.02
48 32 0.63
49 9 0.18
50 9 0.18
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (47 bp):
TATATATATATTTTAAAATTATAAAATATAAAAGACATGTATATACA
Found at i:44241601 original size:15 final size:14
Alignment explanation
Indices: 44241573--44241599 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44241563 TAGCCGAAAG
44241573 AAAAAAAGAAAAAT
1 AAAAAAAGAAAAAT
44241587 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
44241600 ATCCCCTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.07, T:0.04
Consensus pattern (14 bp):
AAAAAAAGAAAAAT
Found at i:44243249 original size:36 final size:38
Alignment explanation
Indices: 44243162--44243260 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 38
44243152 GAATATATGT
*
44243162 GTGGAATTGAATTGAATATATTGACTTGAAAAATGGAAAA
1 GTGGAATTGAATTGAAT-T-GTGACTTGAAAAATGGAAAA
*
44243202 GT-GAATTTTGAATTGAATTGTGA-TTG-AAAGTGGAAAA
1 GTGGAA--TTGAATTGAATTGTGACTTGAAAAATGGAAAA
*
44243239 GTGGAATTGAATTGAAATGTGA
1 GTGGAATTGAATTGAATTGTGA
44243261 ATTTGGAGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
36 15 0.28
37 12 0.23
38 6 0.11
39 6 0.11
40 3 0.06
41 11 0.21
ACGTcount: A:0.40, C:0.01, G:0.26, T:0.32
Consensus pattern (38 bp):
GTGGAATTGAATTGAATTGTGACTTGAAAAATGGAAAA
Found at i:44243443 original size:37 final size:39
Alignment explanation
Indices: 44243393--44243484 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
44243383 CGGATAGATT
* * *
44243393 CGATGAGGTACTGGGTATCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTATCAACTATTGCTTCGAACTAT-C
* *
44243430 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTATCAACTATTGCTTCGAACTATC
44243469 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
44243485 GCCATACTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
37 20 0.43
38 2 0.04
39 21 0.46
40 3 0.07
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
CGATGAGGCACTGGGTATCAACTATTGCTTCGAACTATC
Found at i:44247820 original size:21 final size:23
Alignment explanation
Indices: 44247776--44247821 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
44247766 TTAGTCAAAA
*
44247776 TTTTTATAATTTCTTTTTACATT
1 TTTTTATAATTTCATTTTACATT
*
44247799 TTTTTAT-GTTTCATTTTA-ATT
1 TTTTTATAATTTCATTTTACATT
44247820 TT
1 TT
44247822 AAAATGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTTATAATTTCATTTTACATT
Found at i:44249383 original size:15 final size:15
Alignment explanation
Indices: 44249320--44249395 Score: 52
Period size: 15 Copynumber: 5.1 Consensus size: 15
44249310 CTCTATTTGT
*
44249320 TATTAGTTATTCATTA
1 TATTAATTATT-ATTA
*
44249336 T-TAAATTAATTATT-
1 TATTAATT-ATTATTA
* *
44249350 T-TTACATTCTTATTG
1 TATTA-ATTATTATTA
44249365 TATTAATTATTATTA
1 TATTAATTATTATTA
44249380 TATT-ATATATTATTA
1 TATTAAT-TATTATTA
44249395 T
1 T
44249396 TGTACCTACA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
14 10 0.20
15 32 0.65
16 7 0.14
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (15 bp):
TATTAATTATTATTA
Found at i:44252531 original size:23 final size:22
Alignment explanation
Indices: 44252505--44252554 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
44252495 TGTCTTTACA
*
44252505 TTCATTTTTCGAGTAAATATTCT
1 TTCATTTTT-GAATAAATATTCT
*
44252528 TTCA-TTTTGAATAATTATTCT
1 TTCATTTTTGAATAAATATTCT
44252549 TTCATT
1 TTCATT
44252555 CTTTTAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 15 0.62
22 5 0.21
23 4 0.17
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (22 bp):
TTCATTTTTGAATAAATATTCT
Found at i:44252640 original size:12 final size:12
Alignment explanation
Indices: 44252625--44252650 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44252615 CATAAATTTA
44252625 TATATTCTTTGG
1 TATATTCTTTGG
44252637 TATATTCTTTGG
1 TATATTCTTTGG
44252649 TA
1 TA
44252651 CCTACCATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.08, G:0.15, T:0.58
Consensus pattern (12 bp):
TATATTCTTTGG
Found at i:44253343 original size:18 final size:17
Alignment explanation
Indices: 44253320--44253353 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
44253310 TTCAGATATT
44253320 AAAAAAAAGCAAAAGAAG
1 AAAAAAAAG-AAAAGAAG
44253338 AAAAAAAAGAAAAGAA
1 AAAAAAAAGAAAAGAA
44253354 AAAGGAGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAGAAG
Found at i:44253432 original size:7 final size:7
Alignment explanation
Indices: 44253420--44253458 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
44253410 AGTGATGTGA
44253420 AAAAATG
1 AAAAATG
44253427 AAAAATG
1 AAAAATG
44253434 -AAAATG
1 AAAAATG
**
44253440 AAAAACA
1 AAAAATG
44253447 AAAAATG
1 AAAAATG
44253454 AAAAA
1 AAAAA
44253459 GTGGAGAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:44253437 original size:13 final size:14
Alignment explanation
Indices: 44253419--44253458 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
44253409 AAGTGATGTG
44253419 AAAAAATGAAAAA-
1 AAAAAATGAAAAAC
**
44253432 TGAAAATGAAAAAC
1 AAAAAATGAAAAAC
44253446 AAAAAATGAAAAA
1 AAAAAATGAAAAA
44253459 GTGGAGAGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAAAATGAAAAAC
Found at i:44255190 original size:88 final size:88
Alignment explanation
Indices: 44254940--44255779 Score: 1087
Period size: 88 Copynumber: 9.5 Consensus size: 88
44254930 TAAAACTTGT
* * *
44254940 CCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTTCTGCACCGACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
**
44255005 ATGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * * *
44255028 CCTTGCCTCCCAGGGTTACAGCGGAGTAGGTTAAAAAATAGCAGATCTTGCCTTTCTGCACCGAC
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTT-AAAAATAGCAGATCTTGCCTTCCTGCACCGAC
*
44255093 AGCGAAGCAGATCGAAGACACTAG
65 AGCGAAGCAGATCGAAGACACCAG
* * * * * *
44255117 CCTTGCCTCCCTGAGTTGTAGCGAAGCAAGTTAAAAATAGCAGATTTTGCCTTCCTGCACCAACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
44255182 GCGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * ** * * *
44255205 CCTTGCCTCTCTGAGTTATAGCGTAGCGGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
* *
44255270 GTGAAGCAGATCGAAGACACCGG
66 GCGAAGCAGATCGAAGACACCAG
* * * *
44255293 CCTTGCCTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCTTGCACCAATA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
44255358 GCGAAGCAGATCGAAGACACCAAG
66 GCGAAGCAGATCGAAGACACC-AG
* * * * *
44255382 -CTTGCCTCCCTGGGTTGCAACGGAACATGTTAAAAATAACAGATCTTGCCTTCCTACACCGACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
* * *
44255446 GGGAAGCAAATCGAAGACACTAG
66 GCGAAGCAGATCGAAGACACCAG
* * *
44255469 CCTTACCTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
44255534 GCGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* ** * * * *
44255557 CCTTGCCTCCCTGAGTTATAGCGTAGCGGGTTAAAAATAGCAGCTCTTGCCTTCCTGCACCGATA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
44255622 GCGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * ** * ** *
44255645 CCTTGCCTCCCTGGGTTGTAGCGGAGCTGGTTAAAAATTA-CAGATCTTATCTCCCTAAACAGTA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCTGCACCG-A
*
44255709 GAG-G-AGCAGATCGAAGACACCAG
64 CAGCGAAGCAGATCGAAGACACCAG
*
44255732 CCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTT
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTT
44255780 ATCTCCCTAA
Statistics
Matches: 663, Mismatches: 84, Indels: 11
0.87 0.11 0.01
Matches are distributed among these distances:
87 66 0.10
88 514 0.78
89 83 0.13
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (88 bp):
CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
GCGAAGCAGATCGAAGACACCAG
Found at i:44255211 original size:44 final size:44
Alignment explanation
Indices: 44255074--44255300 Score: 111
Period size: 44 Copynumber: 5.2 Consensus size: 44
44255064 AATAGCAGAT
* * *
44255074 CTTGCCTTTCTGCACCGACAGCGAAGCAGATCGAAGACACTAGC
1 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
* ***** ** * * * *
44255118 CTTGCCTCCCTG-AGTTGTAGCGAAGCA-AGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCAACAGCGAAGCAGA-TCGAAGACACCAG-C
*
44255162 TTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
*** * * * * ** * * * *
44255206 CTTGCC-TCTCTG-AGTTATAGCGTAGCGGGTTAAAAATAGCAGAT
1 CTTGCCTTC-CTGCACCAACAGCGAAGCAGATCGAAGACACCAG-C
* *
44255250 CTTGCCTTCCTGCACCAACAGTGAAGCAGATCGAAGACACCGGC
1 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
44255294 CTTGCCT
1 CTTGCCT
44255301 CTCTGGGTTG
Statistics
Matches: 119, Mismatches: 56, Indels: 16
0.62 0.29 0.08
Matches are distributed among these distances:
42 1 0.01
43 37 0.31
44 44 0.37
45 36 0.30
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
Found at i:44255542 original size:45 final size:44
Alignment explanation
Indices: 44255487--44255630 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 44
44255477 CTCTGGGTTG
*
44255487 CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGA
1 CAGCGAAGCAGGTTAAAAATAGCAG-TCTTGCCTTCCTGCACTGA
* ** * * * * * * *
44255532 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG-AGTTA
1 CAGCGAAGCAGGTTAAAAATAGCAGTCTTGCCTTCCTGCACTGA
* * * *
44255575 TAGCGTAGCGGGTTAAAAATAGCAGCTCTTGCCTTCCTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAGCAG-TCTTGCCTTCCTGCACTGA
*
44255620 TAGCGAAGCAG
1 CAGCGAAGCAG
44255631 ATCGAAGACA
Statistics
Matches: 70, Mismatches: 27, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
43 19 0.27
44 22 0.31
45 29 0.41
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (44 bp):
CAGCGAAGCAGGTTAAAAATAGCAGTCTTGCCTTCCTGCACTGA
Found at i:44255650 original size:44 final size:44
Alignment explanation
Indices: 44255514--44255657 Score: 146
Period size: 44 Copynumber: 3.3 Consensus size: 44
44255504 AATAGCAGAT
* *
44255514 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTCCCTGCACTGATAGCGAAGCAGATCGAAGACACCAGC
* * * * * ** * * *
44255558 CTTGCCTCCCTG-AGTTATAGCGTAGCGGGTTAAAAATAGCAGC
1 CTTGCCTCCCTGCACTGATAGCGAAGCAGATCGAAGACACCAGC
* *
44255601 TCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
1 -CTTGCCTCCCTGCACTGATAGCGAAGCAGATCGAAGACACCAGC
44255646 CTTGCCTCCCTG
1 CTTGCCTCCCTG
44255658 GGTTGTAGCG
Statistics
Matches: 73, Mismatches: 25, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
43 20 0.27
44 33 0.45
45 20 0.27
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGCACTGATAGCGAAGCAGATCGAAGACACCAGC
Found at i:44255891 original size:174 final size:173
Alignment explanation
Indices: 44255186--44256061 Score: 619
Period size: 176 Copynumber: 5.0 Consensus size: 173
44255176 CCAACAGCGA
* ** * *
44255186 AGCAGATCGAAGACACCAGCCTTGCCTCTCTGAGTTATAGCGTAGCGGGTTAAAAA-TAGCAGAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGAT
** * * * * * * * * * * ** *
44255250 CTTGCCTTCCTGCACCAACAGTGAAGCAGATCGAAGACACCGGCCTTGCCTCTCTGGGTTGCAGC
65 CTTATCTCCCT-AAGCAGCAGAGGAGCAGATCGAAGAC-CCAGCCTTGTCTCCCTGAGCAGCAGT
* * ** * * * * * * *
44255315 GGAGCAGGTT-AAAAATAGCAGATCTTGCCTTCTTGCACCAATAGCGA
128 GGAGTAGGTTGAAAATTA-CAGATCTTATCTCCCT-AAGCAGTAGTGG
* * * * *
44255362 AGCAGATCGAAGACACCAAG-CTTGCCTCCCTGGGTTGCAACGGAACATGTTAAAAATAACAGAT
1 AGCAGATCGAAGACACC-AGCCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGAT
** * * * * ** * * **
44255426 CTTGCCTTCCTACA-CCGACAG-GGAAGCAAATCGAAGACACTAGCCTTACCTCTCTGGGTTGCA
65 CTTATCTCCCTA-AGCAG-CAGAGG-AGCAGATCGAAGAC-CCAGCCTTGTCTCCCTGAGCAGCA
* * * ** * * * *
44255489 GCGGAGCAGGTT-AAAAATAGCAGATCTTGCCTTCCT--GCACTGACAGCGA
126 GTGGAGTAGGTTGAAAATTA-CAGATCTTATCTCCCTAAGCA--G-TAGTGG
** * * *
44255538 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTATAGCGTAGCGGGTTAAAAA-TAGCAGCT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGAT
** * * * * * ** *
44255602 CTTGCCTTCCT--GCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
65 CTTATCTCCCTAAGCAGC-AGAG-G-AGCAGATCGAAGAC-CCAGCCTTGTCTCCCTGAGCAGCA
* * * *
44255665 GCGGAGCT-GGTTAAAAATTACAGATCTTATCTCCCTAAACAGTAGAGG
126 GTGGAG-TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
44255713 AGCAGATCGAAGACACCAGCCTTGCCTCCCT-AGGTTGCAGCGGAGCAGGTTAAAAATTACAGAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGA-GTTGCAGCGGAGCAGGTTAAAAATTACAGAT
* *
44255777 CTTATCTCCCTAAGCAGCAGAGGAGCATATCAAAGACCGCAGCCTTGTCTCCCTGAGCAGCAGTG
65 CTTATCTCCCTAAGCAGCAGAGGAGCAGATCGAAGACC-CAGCCTTGTCTCCCTGAGCAGCAGTG
44255842 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
129 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* * * ** * * *
44255887 AGCAGATCGAAGTCGCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATC
* * *
44255952 TTATCTCCCTAAGCAGTAGTA-GAGCAGATCGAAGTCCCAGCCTTGTCTCCCTGAGCAGCGGTGG
66 TTATCTCCCTAAGCAGCAG-AGGAGCAGATCGAAGACCCAGCCTTGTCTCCCTGAGCAGCAGTGG
* * *
44256016 AGTAAGTTGAAAATTACAGATCTTATCTCCCTGAGCAGCAGTGG
130 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
44256060 AG
1 AG
44256062 TAGGTTGAAA
Statistics
Matches: 588, Mismatches: 86, Indels: 55
0.81 0.12 0.08
Matches are distributed among these distances:
173 74 0.13
174 161 0.27
175 74 0.13
176 264 0.45
177 13 0.02
178 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.22
Consensus pattern (173 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATC
TTATCTCCCTAAGCAGCAGAGGAGCAGATCGAAGACCCAGCCTTGTCTCCCTGAGCAGCAGTGGA
GTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
Found at i:44256045 original size:130 final size:131
Alignment explanation
Indices: 44255911--44256195 Score: 491
Period size: 130 Copynumber: 2.2 Consensus size: 131
44255901 GCCAGCCTTG
44255911 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAG
* *
44255976 CAGATCGAAGTCC-CAGCCTTGTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTT
66 CAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTT
44256040 A
131 A
*
44256041 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAG
* * *
44256106 TAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTT
66 CAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTT
44256171 A
131 A
* *
44256172 TCTCCCTAAGCAGTAGTGGAGTAG
1 TCTCCCTGAGCAGCAGTGGAGTAG
44256196 ATAGAAGTCC
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
130 76 0.52
131 70 0.48
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (131 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAG
CAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTT
A
Found at i:44256083 original size:217 final size:218
Alignment explanation
Indices: 44255824--44256276 Score: 777
Period size: 217 Copynumber: 2.1 Consensus size: 218
44255814 CGCAGCCTTG
44255824 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
44255889 CAGATCGAAGTCGC-CAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
66 CAGATCGAAGTC-CTCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* *
44255953 TATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGT-CCCAGCCTTGTCTCCC-TGAGCAGCGGTGG
130 TATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTC-CCCATGAGCAGCAGTGG
44256016 AGTAAGTTGAAAATTACAGATCTTA
194 AGTAAGTTGAAAATTACAGATCTTA
44256041 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
44256106 TAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTT
66 CAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
* *
44256171 ATCTCCCTAAGCAGTAGTGGAGTAGATAGAAGTCCCCAGCCTTGTCCCCATGAGCAGCAGTGGAG
131 ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCCCCATGAGCAGCAGTGGAG
*
44256236 TAGGTTGAAAATTACAGATCTTA
196 TAAGTTGAAAATTACAGATCTTA
* *
44256259 TCTCCCTAAGCAGTAGTG
1 TCTCCCTGAGCAGCAGTG
44256277 AAGCAGATCG
Statistics
Matches: 223, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
216 1 0.00
217 158 0.71
218 64 0.29
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (218 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCCCCATGAGCAGCAGTGGAG
TAAGTTGAAAATTACAGATCTTA
Found at i:44256149 original size:87 final size:87
Alignment explanation
Indices: 44256041--44256289 Score: 428
Period size: 87 Copynumber: 2.9 Consensus size: 87
44256031 ACAGATCTTA
*
44256041 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
44256106 TAGATCGAAGTCCTCAGCCTTG
66 TAGATCGAAGTCCCCAGCCTTG
*
44256128 TCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
44256193 TAGATAGAAGTCCCCAGCCTTG
66 TAGATCGAAGTCCCCAGCCTTG
*
44256215 TC-CCCATGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAA
1 TCTCCCA-GAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
*
44256279 GCAGATCGAAG
65 GTAGATCGAAG
44256290 ATGGCACATC
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
86 4 0.03
87 149 0.97
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (87 bp):
TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
TAGATCGAAGTCCCCAGCCTTG
Found at i:44256301 original size:44 final size:44
Alignment explanation
Indices: 44255824--44256309 Score: 339
Period size: 44 Copynumber: 11.2 Consensus size: 44
44255814 CGCAGCCTTG
* * * *
44255824 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACATCTTA
* * * ** * *
44255868 TCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGTCGC-CAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACA-TCTTA
* * * *
44255911 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACATCTTA
* * * * * * *
44255955 TCTCCCTAAGCAGTAGTAGAGCAGATCG--AAGT-CCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACA-TCTTA
* ** *
44255997 TCTCCCTGAGCAGCGGTGGAGTA-AGTTGAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGA-TTGAAAATTACACATCTTA
* * * *
44256041 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACATCTTA
* * * * * *
44256085 TCTCCCTAAGCAGTAGTGGAGTAGATCG--AAGTCCTCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACA-TCTTA
* *
44256128 TCTCCC-AGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTA
1 TCTCCCTA-AGCAGTAGTGGAGTAGATTGAAAATTACACATCTTA
* * * * * *
44256172 TCTCCCTAAGCAGTAGTGGAGTAGA-T-AGAAGTCCCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACA-TCTTA
* * * *
44256215 TC-CCCATGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTA
1 TCTCCC-TAAGCAGTAGTGGAGTAGATTGAAAATTACACATCTTA
* * * * **
44256259 TCTCCCTAAGCAGTAGTGAAGCAGATCGAAGATGGCACATCTTA
1 TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACATCTTA
44256303 TCTCCCT
1 TCTCCCT
44256310 GATATTGCAG
Statistics
Matches: 331, Mismatches: 92, Indels: 38
0.72 0.20 0.08
Matches are distributed among these distances:
41 3 0.01
42 42 0.13
43 79 0.24
44 189 0.57
45 18 0.05
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGTAGATTGAAAATTACACATCTTA
Found at i:44257735 original size:15 final size:15
Alignment explanation
Indices: 44257682--44257747 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
44257672 TATTAGTTAT
*
44257682 TTATTATTAAATTAA
1 TTATTATTATATTAA
*
44257697 TTATT-TT-TA--CA
1 TTATTATTATATTAA
* *
44257708 TTCTTATTGTATTAA
1 TTATTATTATATTAA
44257723 TTATTATTATATT-A
1 TTATTATTATATTAA
44257737 TATATTATTAT
1 T-TATTATTAT
44257748 TGTACCTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.08
14 4 0.10
15 26 0.65
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATTATTATATTAA
Found at i:44258216 original size:14 final size:15
Alignment explanation
Indices: 44258197--44258228 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
44258187 TTTTTAACGC
44258197 ATATTTTATA-ATTT
1 ATATTTTATATATTT
44258211 ATA-TTTATATATTT
1 ATATTTTATATATTT
44258225 ATAT
1 ATAT
44258229 ATTTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTTATATATTT
Found at i:44258477 original size:13 final size:12
Alignment explanation
Indices: 44258444--44258490 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
44258434 TCATAGATTG
44258444 TTATTT-TTTGT
1 TTATTTATTTGT
* *
44258455 ATATTAATTTCGT
1 TTATTTATTT-GT
44258468 TTATTTATTTGT
1 TTATTTATTTGT
44258480 TTATATTATTT
1 TTAT-TTATTT
44258491 CTATGCCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 4 0.14
12 9 0.31
13 16 0.55
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (12 bp):
TTATTTATTTGT
Found at i:44260700 original size:13 final size:12
Alignment explanation
Indices: 44260654--44260700 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
44260644 CGTTATAGAT
44260654 TAAATTAATTTA
1 TAAATTAATTTA
* *
44260666 TAAAATATTTTA
1 TAAATTAATTTA
44260678 -AAATTTAATTGTA
1 TAAA-TTAATT-TA
44260691 TAAATTAATT
1 TAAATTAATT
44260701 CAATCTATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 3 0.11
12 14 0.50
13 8 0.29
14 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TAAATTAATTTA
Found at i:44263250 original size:18 final size:17
Alignment explanation
Indices: 44263229--44263268 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
44263219 ATGGAAAACT
44263229 TAAAATAATGCTACATAA
1 TAAAATAATG-TACATAA
*
44263247 TAAAATAATGTATATAA
1 TAAAATAATGTACATAA
44263264 -AAAAT
1 TAAAAT
44263269 GTTAGGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 10 0.48
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAAATAATGTACATAA
Found at i:44263296 original size:3 final size:3
Alignment explanation
Indices: 44263290--44263333 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
44263280 TGATAAAAAA
* * *
44263290 AAT AAT ACT AAT AAT AAT AAT AGT AAT GAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44263334 ACTGAATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:44264510 original size:24 final size:24
Alignment explanation
Indices: 44264473--44264518 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
44264463 GACTGTGGAC
*
44264473 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
44264497 ATTTATAAAA-TTGGGTTTATTT
1 ATTT-TAAAATTTGGGTTTATTT
44264519 GCTAAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:44265805 original size:20 final size:20
Alignment explanation
Indices: 44265752--44265798 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
44265742 AATATTTTCC
* *
44265752 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTCCAGAAA
44265772 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTCCAGAAA
44265792 AGTAAAA
1 AGTAAAA
44265799 TGATTTCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (20 bp):
AGTAAAACATTTTCCAGAAA
Found at i:44269325 original size:25 final size:26
Alignment explanation
Indices: 44269281--44269330 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
44269271 TATTAAATAT
44269281 ATATATTTATTTTTAATCAAATATAA
1 ATATATTTATTTTTAATCAAATATAA
44269307 ATATATTTA-TTTTAATCAAATATA
1 ATATATTTATTTTTAATCAAATATA
44269331 TATTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATATTTATTTTTAATCAAATATAA
Found at i:44276081 original size:14 final size:14
Alignment explanation
Indices: 44276062--44276089 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44276052 TACAACTTGA
44276062 ATTGTCTGCCATAT
1 ATTGTCTGCCATAT
44276076 ATTGTCTGCCATAT
1 ATTGTCTGCCATAT
44276090 GTACTTGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
ATTGTCTGCCATAT
Found at i:44278592 original size:22 final size:22
Alignment explanation
Indices: 44278562--44278604 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44278552 ACAGCAGAAC
* *
44278562 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
44278584 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
44278605 AACGCCACTA
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:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:44278749 original size:42 final size:42
Alignment explanation
Indices: 44278684--44278860 Score: 175
Period size: 42 Copynumber: 4.2 Consensus size: 42
44278674 AACTTTTGCC
* **
44278684 GCGCTTACATAAAAAATACCGCT-AAAGATCATGTTCTTTAGCG
1 GCGCTTAGA-AAAAAACGCCGCTAAAAG-TCATGTTCTTTAGCG
44278727 GCGCTTAGAAAAAAACGCCGCT-AAAGATCATGTTCTTTAGCG
1 GCGCTTAGAAAAAAACGCCGCTAAAAG-TCATGTTCTTTAGCG
** * *
44278769 GCGCTTTAGAGGAAAACGCCTCTAAAAGTAATGTT-TTATAGCG
1 GCGC-TTAGAAAAAAACGCCGCTAAAAGTCATGTTCTT-TAGCG
**
44278812 GCGCTT-GTTCAAAAACGCCGCTAAAAGT-AGTGTTCTTTAGCG
1 GCGCTTAG-AAAAAAACGCCGCTAAAAGTCA-TGTTCTTTAGCG
44278854 GCGCTTA
1 GCGCTTA
44278861 TTTCACAAAC
Statistics
Matches: 116, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 70 0.60
43 40 0.34
44 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
GCGCTTAGAAAAAAACGCCGCTAAAAGTCATGTTCTTTAGCG
Found at i:44279298 original size:12 final size:12
Alignment explanation
Indices: 44279281--44279319 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
44279271 TTTTGAACCT
*
44279281 CTGCTTCTATTG
1 CTGCTTCTATCG
*
44279293 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
44279305 CTGCTTCTCTCG
1 CTGCTTCTATCG
44279317 CTG
1 CTG
44279320 TAGCCTCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.03, C:0.36, G:0.18, T:0.44
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:44284823 original size:9 final size:9
Alignment explanation
Indices: 44284809--44285043 Score: 149
Period size: 9 Copynumber: 27.8 Consensus size: 9
44284799 AAGTTATTTA
44284809 TTATGTAAG
1 TTATGTAAG
44284818 TTATGTAAG
1 TTATGTAAG
*
44284827 TTGTGTAAG
1 TTATGTAAG
44284836 TTATGTAAG
1 TTATGTAAG
* *
44284845 CTGTGTAAG
1 TTATGTAAG
*
44284854 TTGTGT-A-
1 TTATGTAAG
* *
44284861 TTATGAAAC
1 TTATGTAAG
44284870 TTATGTAAG
1 TTATGTAAG
*
44284879 TTATGTCAG
1 TTATGTAAG
*
44284888 TTGTGT-A-
1 TTATGTAAG
* *
44284895 TTATGAAAC
1 TTATGTAAG
44284904 TTATGTAAG
1 TTATGTAAG
*
44284913 TTATGT--C
1 TTATGTAAG
44284920 TTATGTAAG
1 TTATGTAAG
* *
44284929 TGATGTAAA
1 TTATGTAAG
*
44284938 ATATGT-A-
1 TTATGTAAG
44284945 TTATGTAAG
1 TTATGTAAG
*
44284954 TTATGTTAG
1 TTATGTAAG
*
44284963 TTGTGT-A-
1 TTATGTAAG
*
44284970 TTATGTAAA
1 TTATGTAAG
44284979 TTATGT-A-
1 TTATGTAAG
44284986 TTATGTAAG
1 TTATGTAAG
* *
44284995 TTATGAAAT
1 TTATGTAAG
*
44285004 TTGTGT-A-
1 TTATGTAAG
* *
44285011 TTACGTAAC
1 TTATGTAAG
* *
44285020 TTATTTAAT
1 TTATGTAAG
44285029 TTATGTAAG
1 TTATGTAAG
44285038 -TATGTA
1 TTATGTA
44285044 TTATTATGTA
Statistics
Matches: 176, Mismatches: 36, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
7 34 0.19
8 18 0.10
9 124 0.70
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:44284898 original size:25 final size:25
Alignment explanation
Indices: 44284810--44285086 Score: 117
Period size: 25 Copynumber: 11.0 Consensus size: 25
44284800 AGTTATTTAT
*
44284810 TATGTAAGTTATGTAAGTTGTGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
44284837 TATGTAAGCTGTGTAAGTTGTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* *
44284862 TATGAAACTTATGTAAGTTATGTCAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
44284889 TGTGT-A-TTATGAAACTTATGTAAGT
1 TATGTAAGTTATGTAAGTTATGT-A-T
* * *
44284914 TATGT--CTTATGTAAGTGATGTAAAA
1 TATGTAAGTTATGTAAGTTATGT--AT
44284939 TATGT-A-TTATGTAAGTTATGTTAGT
1 TATGTAAGTTATGTAAGTTATG-TA-T
* *
44284964 TGTGT-A-TTATGTAAATTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
44284987 TATGTAAGTTATGAAATTTGTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * * * *
44285012 TACGTAACTTATTTAATTTATGTAAG
1 TATGTAAGTTATGTAAGTTATGT-AT
* * *
44285038 TATGT-A-TTAT-TATGTAATTTAT
1 TATGTAAGTTATGTAAGTTATGTAT
*
44285060 TATGTAAGATATTATCTAAGTTATGTA
1 TATGTAAG---TTATGTAAGTTATGTA
44285087 AGTTTTTTTT
Statistics
Matches: 194, Mismatches: 40, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
22 6 0.03
23 12 0.06
24 8 0.04
25 120 0.62
26 11 0.06
27 29 0.15
28 8 0.04
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTATGTAT
Found at i:44284919 original size:34 final size:34
Alignment explanation
Indices: 44284836--44284919 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 34
44284826 GTTGTGTAAG
* * *
44284836 TTATGTAAGCTGTGTAAGTTGTGTATTATGAAAC
1 TTATGTAAGTTATGTCAGTTGTGTATTATGAAAC
44284870 TTATGTAAGTTATGTCAGTTGTGTATTATGAAAC
1 TTATGTAAGTTATGTCAGTTGTGTATTATGAAAC
44284904 TTATGTAAGTTATGTC
1 TTATGTAAGTTATGTC
44284920 TTATGTAAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (34 bp):
TTATGTAAGTTATGTCAGTTGTGTATTATGAAAC
Found at i:44284922 original size:16 final size:16
Alignment explanation
Indices: 44284798--44284999 Score: 107
Period size: 16 Copynumber: 12.6 Consensus size: 16
44284788 GATTTAGGAA
*
44284798 TAAGTTATTTATTATG
1 TAAGTTATGTATTATG
*
44284814 TAAGTTATGTAAGTTGTG
1 TAAGTTATGT-A-TTATG
* *
44284832 TAAGTTATGTAAGCTGTG
1 TAAGTTATGT-A-TTATG
*
44284850 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
* *
44284866 AAACTTATGTAAGTTATG
1 TAAGTTATGT-A-TTATG
* *
44284884 TCAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
44284900 -AA---A---CTTATG
1 TAAGTTATGTATTATG
*
44284909 TAAGTTATGTCTTATG
1 TAAGTTATGTATTATG
* *
44284925 TAAGTGATGTAAAATATG
1 TAAGTTATGT--ATTATG
44284943 T-A-TTATGTAAGTTATG
1 TAAGTTATGT-A-TTATG
* *
44284959 TTAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
44284975 TAAATTATGTATTATG
1 TAAGTTATGTATTATG
44284991 TAAGTTATG
1 TAAGTTATG
44285000 AAATTTGTGT
Statistics
Matches: 144, Mismatches: 26, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
9 5 0.03
10 2 0.01
13 1 0.01
15 3 0.02
16 75 0.52
17 7 0.05
18 51 0.35
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:44284949 original size:41 final size:41
Alignment explanation
Indices: 44284904--44284999 Score: 124
Period size: 41 Copynumber: 2.3 Consensus size: 41
44284894 ATTATGAAAC
44284904 TTATGTAAGTTATG-T-CTTATGTAAGTGATGTAAAATATGTA
1 TTATGTAAGTTATGTTACTTATGT-A-TGATGTAAAATATGTA
* * * *
44284945 TTATGTAAGTTATGTTAGTTGTGTATTATGTAAATTATGTA
1 TTATGTAAGTTATGTTACTTATGTATGATGTAAAATATGTA
44284986 TTATGTAAGTTATG
1 TTATGTAAGTTATG
44285000 AAATTTGTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 42 0.86
42 2 0.04
43 5 0.10
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (41 bp):
TTATGTAAGTTATGTTACTTATGTATGATGTAAAATATGTA
Found at i:44285008 original size:41 final size:41
Alignment explanation
Indices: 44284931--44285038 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
44284921 TATGTAAGTG
* **
44284931 ATGTAAAATATGTATTATGTAAGTTATGTTAGTTGTGTATT
1 ATGTAAATTATGTATTATGTAAGTTATGAAAGTTGTGTATT
*
44284972 ATGTAAATTATGTATTATGTAAGTTATGAAATTTGTGTATT
1 ATGTAAATTATGTATTATGTAAGTTATGAAAGTTGTGTATT
* * *
44285013 ACGTAACTTATTTAATTTATGTAAGT
1 ATGTAAATTATGT-A-TTATGTAAGT
44285039 ATGTATTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 47 0.81
42 1 0.02
43 10 0.17
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (41 bp):
ATGTAAATTATGTATTATGTAAGTTATGAAAGTTGTGTATT
Found at i:44285055 original size:27 final size:25
Alignment explanation
Indices: 44285020--44285089 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
44285010 ATTACGTAAC
* *
44285020 TTATTTAATTTATGTAAGTATGTATTA
1 TTATCTAATTTATGTAAGTAAG-A-TA
* *
44285047 TTATGTAATTTAT-TATGTAAGATA
1 TTATCTAATTTATGTAAGTAAGATA
*
44285071 TTATCTAAGTTATGTAAGT
1 TTATCTAATTTATGTAAGT
44285090 TTTTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 13 0.36
25 5 0.14
26 6 0.17
27 12 0.33
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (25 bp):
TTATCTAATTTATGTAAGTAAGATA
Found at i:44285349 original size:24 final size:23
Alignment explanation
Indices: 44285319--44285371 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
44285309 TCCAACACCA
*
44285319 TTAAAAACCAAATTGTTACAATATT
1 TTAAAAA-CAAATT-TTAAAATATT
* *
44285344 TTAAAAAGAAATTTTAAAATTTT
1 TTAAAAACAAATTTTAAAATATT
44285367 TTAAA
1 TTAAA
44285372 TCAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
24 5 0.20
25 7 0.28
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAAAAACAAATTTTAAAATATT
Found at i:44286484 original size:41 final size:41
Alignment explanation
Indices: 44286438--44286554 Score: 166
Period size: 41 Copynumber: 2.9 Consensus size: 41
44286428 GGGGGGATTT
44286438 GGGAATTTAGGGATTTAGGGAAATTAAATCGGGGAAACTGG
1 GGGAATTTAGGGATTTAGGGAAATTAAATCGGGGAAACTGG
*
44286479 GGGAATTTGGGGATTTAGGGAAATTAAATCGGGGAAACTGG
1 GGGAATTTAGGGATTTAGGGAAATTAAATCGGGGAAACTGG
* * * *
44286520 TGGAA--TAGGAATTGTGGGGAAATGAAATCGGGGAA
1 GGGAATTTAGGGATT-TAGGGAAATTAAATCGGGGAA
44286555 TTGGGGGGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 6 0.09
40 19 0.28
41 44 0.64
ACGTcount: A:0.34, C:0.04, G:0.38, T:0.23
Consensus pattern (41 bp):
GGGAATTTAGGGATTTAGGGAAATTAAATCGGGGAAACTGG
Found at i:44286580 original size:24 final size:24
Alignment explanation
Indices: 44286529--44286580 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
44286519 GTGGAATAGG
* * *
44286529 AATTGTGGGGAAATGAAATCGGGG
1 AATTGGGGGGAAACGAAATCGGGA
44286553 AATTGGGGGGAATACGAAAT-GGGA
1 AATTGGGGGGAA-ACGAAATCGGGA
44286577 AATT
1 AATT
44286581 AGGGAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.37, C:0.04, G:0.38, T:0.21
Consensus pattern (24 bp):
AATTGGGGGGAAACGAAATCGGGA
Found at i:44287149 original size:22 final size:22
Alignment explanation
Indices: 44287113--44287165 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
44287103 ATAGGCCCCT
*
44287113 AACTTT-AACCTGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
44287134 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
*
44287156 AAATTTAAAC
1 AACTTTAAAC
44287166 TCTTAAACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.34
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:44287199 original size:21 final size:21
Alignment explanation
Indices: 44287175--44287222 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
44287165 CTCTTAAACC
44287175 CTAAACTAC-AAACCTTACACT
1 CTAAACT-CGAAACCTTACACT
*
44287196 CTAAACTCGTAACCTTACACT
1 CTAAACTCGAAACCTTACACT
*
44287217 CAAAAC
1 CTAAAC
44287223 CGTGCATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (21 bp):
CTAAACTCGAAACCTTACACT
Found at i:44288036 original size:228 final size:221
Alignment explanation
Indices: 44287638--44288089 Score: 662
Period size: 228 Copynumber: 2.0 Consensus size: 221
44287628 TGTACTAATT
*
44287638 GATGTATACATCGAGACCAAAACAGTGCGTTTTGGTTCAGATATTTTGCGGCGTTTTCCTATAAG
1 GATGTATACATCGAGACCAAAACAGTGCGTTTTAGTTCAGATATTTTGCGGCGTTTTCCTATAAG
* *
44287703 CGCCACTAAATGTAACATAGCTTAAGACAAAACGCTGCGTCTTATTAAAATATGTGGTGGCGCTT
66 CGCCACTAAATGTAACATAGCTTAAGACAAAACACTGCGTCTTATTAAAATATGTGGCGGCGCTT
*
44287768 TATCCAAAGCGCCGCTGAAGCTATTTTTTAACGGCGTTTTCCTAGTAAGCGCCACTAATATAAGT
131 TATCCAAAGCGCCGCTGAAGCTATTCTTTAACGGCGTTTT-CTAGTAAGCGCCAC---T-T-A-T
*
44287833 ATACATCAAAATTAAAACTACGCGTTTTAGTTAA
189 ATA-ATCAAAATTAAAACTACGCATTTTAGTTAA
*
44287867 GATGTATACATCGAGACCAAAACGGTGCGTTTTAG-TCAGATATTTTGCGGCGTTTTCCTATAAG
1 GATGTATACATCGAGACCAAAACAGTGCGTTTTAGTTCAGATATTTTGCGGCGTTTTCCTATAAG
* * * * *
44287931 CGCCACTAAATGTAACATAGCTTAATACAAAACACTGCGTTTTGTTAAGATACT-TTGCGGCGCT
66 CGCCACTAAATGTAACATAGCTTAAGACAAAACACTGCGTCTTATTAAAATA-TGTGGCGGCGCT
44287995 TTGGAT-C-AAGCGCCGCT-AATGCTATTCTTTAACGGCGTTTTCTAGTAAGCGCCACTTATATA
130 TT--ATCCAAAGCGCCGCTGAA-GCTATTCTTTAACGGCGTTTTCTAGTAAGCGCCACTTATATA
44288057 ATCAAAATTAAAACTACGCATTTTAGTTAA
192 ATCAAAATTAAAACTACGCATTTTAGTTAA
44288087 GAT
1 GAT
44288090 ATTTTTGCGG
Statistics
Matches: 208, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
220 32 0.15
221 4 0.02
222 1 0.00
223 1 0.00
224 1 0.00
227 16 0.08
228 116 0.56
229 35 0.17
230 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (221 bp):
GATGTATACATCGAGACCAAAACAGTGCGTTTTAGTTCAGATATTTTGCGGCGTTTTCCTATAAG
CGCCACTAAATGTAACATAGCTTAAGACAAAACACTGCGTCTTATTAAAATATGTGGCGGCGCTT
TATCCAAAGCGCCGCTGAAGCTATTCTTTAACGGCGTTTTCTAGTAAGCGCCACTTATATAATCA
AAATTAAAACTACGCATTTTAGTTAA
Found at i:44289647 original size:37 final size:37
Alignment explanation
Indices: 44289591--44289701 Score: 115
Period size: 37 Copynumber: 3.0 Consensus size: 37
44289581 TCCAAAAAAA
*
44289591 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
**
44289627 TAATACTTATCTTAATAGTTTTTTATT-AATTTAATAT
1 TAATA-TTATCTTAATAGTTTAATATTAAATTTAATAT
*
44289664 TAAAATGATTATCGTAATA--TTAA-ATTAAATTTAATAT
1 T--AAT-ATTATCTTAATAGTTTAATATTAAATTTAATAT
44289701 T
1 T
44289702 TATCTTGTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
36 16 0.25
37 33 0.52
39 13 0.21
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
Found at i:44294883 original size:183 final size:183
Alignment explanation
Indices: 44294551--44294923 Score: 432
Period size: 183 Copynumber: 2.0 Consensus size: 183
44294541 ACAAAATTTG
* * *
44294551 CATTTTTCCCACTGTCTCCAACCCTCAAAGCTGGACACTCTAGTGAAGACATACTATTTTTGTCT
1 CATTATTCCCACTGTCTCCAACCCTCAAAGCTGGACACTCCAGTGAAGACACACTATTTTTGTCT
* * *** *
44294616 TTAATAATAGACTCATGCCCAGTATCCATCAAAATATCAGCCCTAATTAAAAACATTGTCCCGAC
66 TTAATAATAGACCCATGCCCAATATCCATCAAAATATCAGCCCTAATTAAAAACATCAACCCAAC
* *
44294681 CAAATATTCATTCCCCAAAACACT-AAATGCGTTAGTATCATATGTCGCAACAT
131 CAAATATTCATTCCCCAAAACACTAAAAT-CGTTAGTATCATATGCCGCAACAC
*
44294734 CATTATTCCCACTGTCTCCAACCC-CAGAAGCTGGACACTCCA-TCGAAGACCCACTATTTTTGT
1 CATTATTCCCACTGTCTCCAACCCTCA-AAGCTGGACACTCCAGT-GAAGACACACTATTTTTGT
* **** * * *
44294797 CTTTATTAATAGACCCATGCCCAATATCCATCAAAATATTTTTCCTATTTGAAGACATCAACCCA
64 CTTTAATAATAGACCCATGCCCAATATCCATCAAAATATCAGCCCTAATTAAAAACATCAACCCA
* ** * * *
44294862 ACCGAAAT-TTTAGTT-CCCAAAATGCTAAAATTGTTAGTATCATGTGCCGCAACCC
129 ACC-AAATATTCA-TTCCCCAAAACACTAAAATCGTTAGTATCATATGCCGCAACAC
44294917 CATTATT
1 CATTATT
44294924 GTTTGCCCTA
Statistics
Matches: 159, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
182 3 0.02
183 146 0.92
184 10 0.06
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.30
Consensus pattern (183 bp):
CATTATTCCCACTGTCTCCAACCCTCAAAGCTGGACACTCCAGTGAAGACACACTATTTTTGTCT
TTAATAATAGACCCATGCCCAATATCCATCAAAATATCAGCCCTAATTAAAAACATCAACCCAAC
CAAATATTCATTCCCCAAAACACTAAAATCGTTAGTATCATATGCCGCAACAC
Found at i:44296686 original size:27 final size:26
Alignment explanation
Indices: 44296654--44296720 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
44296644 GGGTCTACTA
*
44296654 TATTTTTTATTTGAAAATCTCTTTTTC
1 TATTTTTTATTT-AAAATCCCTTTTTC
* * *
44296681 TGTTTTTCTCTTTATAATCCCTTTTTC
1 TATTTTT-TATTTAAAATCCCTTTTTC
*
44296708 TAATTTTTATTTA
1 TATTTTTTATTTA
44296721 TGATTTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 5 0.16
27 23 0.72
28 4 0.12
ACGTcount: A:0.19, C:0.13, G:0.03, T:0.64
Consensus pattern (26 bp):
TATTTTTTATTTAAAATCCCTTTTTC
Found at i:44308244 original size:43 final size:41
Alignment explanation
Indices: 44308178--44308377 Score: 186
Period size: 43 Copynumber: 4.7 Consensus size: 41
44308168 TAAATTCAGT
* * *
44308178 GATACGGGGAATCAACACATAGCATCCCCTTTCACAGTCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAGTCAAA
* * * * **
44308220 GGTACGGTGGAATTAGCACTTAGCAACCACCTTTATATTCAGT
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAGTCAAA
* *
44308263 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAGTCAAA
* *
44308305 GAAACGGTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATA
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAGTCAA-A
* * *
44308349 -ATTCGGGGAATTAACACTTAGCAACCCCT
1 GATACGGGGAATCAGCACTTAGCAACCCCT
44308378 CGGGGAATCT
Statistics
Matches: 128, Mismatches: 24, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
41 8 0.06
42 53 0.41
43 56 0.44
44 11 0.09
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
GATACGGGGAATCAGCACTTAGCAACCCCTTTACAGTCAAA
Found at i:44308280 original size:42 final size:42
Alignment explanation
Indices: 44308152--44308374 Score: 193
Period size: 42 Copynumber: 5.3 Consensus size: 42
44308142 GTGAATTCAA
* * * *
44308152 CACTTAGAAACCACC-TTAAATTCAGTGATACGGGGAATCAA
1 CACTTAGCAACCACCTTTAAAGTCAATGATACGGGGAATCAG
* * * * * *
44308193 CACATAGCATCC-CCTTTCACAGTCAAAGGTACGGTGGAATTAG
1 CACTTAGCAACCACCTTT-AAAGTCAATGATACGG-GGAATCAG
* * *
44308236 CACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAG
1 CACTTAGCAACCACCTTTAAAGTCAATGATACGGGGAATCAG
* * *
44308278 CACATAGCAACC-CCTTTCACAA-TCAAAGAAACGGTGGAATCAG
1 CACTTAGCAACCACCTTT-A-AAGTCAATGATACGG-GGAATCAG
* * * *
44308321 CACTTAGCAACCACCTTTAAAGTCAATAATTCGGGGAATTAA
1 CACTTAGCAACCACCTTTAAAGTCAATGATACGGGGAATCAG
44308363 CACTTAGCAACC
1 CACTTAGCAACC
44308375 CCTCGGGGAA
Statistics
Matches: 143, Mismatches: 30, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.01
41 16 0.11
42 59 0.41
43 56 0.39
44 10 0.07
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (42 bp):
CACTTAGCAACCACCTTTAAAGTCAATGATACGGGGAATCAG
Found at i:44308282 original size:85 final size:85
Alignment explanation
Indices: 44308152--44308377 Score: 319
Period size: 85 Copynumber: 2.7 Consensus size: 85
44308142 GTGAATTCAA
* * *
44308152 CACTTAGAAACCACC-TTAAATTCAGTGATACGGGGAATCAACACATAGCATCCCCTTTCACAGT
1 CACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCTTTCACAAT
** *
44308216 CAAAGGTACGGTGGAATTAG
66 CAAAGAAACGGTGGAATCAG
* *
44308236 CACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCACAAT
1 CACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCTTTCACAAT
44308301 CAAAGAAACGGTGGAATCAG
66 CAAAGAAACGGTGGAATCAG
* * * * * *
44308321 CACTTAGCAACCACCTTTAAAGTCAATAATTCGGGGAATTAACACTTAGCAACCCCT
1 CACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCT
44308378 CGGGGAATCT
Statistics
Matches: 125, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 14 0.11
85 111 0.89
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (85 bp):
CACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCCCTTTCACAAT
CAAAGAAACGGTGGAATCAG
Found at i:44315799 original size:85 final size:85
Alignment explanation
Indices: 44315667--44315979 Score: 502
Period size: 85 Copynumber: 3.7 Consensus size: 85
44315657 CGGTGAATTT
44315667 AGCACTTAGCAACCACC-TTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACA
1 AGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACA
* * *
44315731 GTCAAGGACACGGTGGAATC
66 ATCAAAGATACGGTGGAATC
* *
44315751 AGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATAAGCACATAGCAACCCCTTTCACA
1 AGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACA
*
44315816 ATCAAAGATTCGGTGGAATC
66 ATCAAAGATACGGTGGAATC
*
44315836 AGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACA
1 AGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACA
44315901 ATCAAAGATACGGTGGAATC
66 ATCAAAGATACGGTGGAATC
* * * * * *
44315921 AGCACTTAGCAACCACCTTTAAAGTCAATAATTCGGGGAATCAGCACTTAGCAACCCCT
1 AGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCT
44315980 CGGGGAATCT
Statistics
Matches: 213, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
84 17 0.08
85 196 0.92
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (85 bp):
AGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCACA
ATCAAAGATACGGTGGAATC
Found at i:44315968 original size:42 final size:42
Alignment explanation
Indices: 44315667--44315976 Score: 308
Period size: 42 Copynumber: 7.3 Consensus size: 42
44315657 CGGTGAATTT
* *
44315667 AGCACTTAGCAACCACC-TTAAATTCAGTGATACAGGGAATC
1 AGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATC
* * * * *
44315708 AGCACATAGCAACC-CCTTTCACAGTCAAGGACACGGTGGAATC
1 AGCACTTAGCAACCACCTTT-AAATTCAATGATACGG-GGAATC
* * * *
44315751 AGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATA
1 AGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATC
* * *
44315793 AGCACATAGCAACC-CCTTTCACAA-TCAAAGATTCGGTGGAATC
1 AGCACTTAGCAACCACCTTT-A-AATTCAATGATACGG-GGAATC
* * *
44315836 AGCACTTAGCAACCACCTTTATATTCAGTGATACAGGGAATC
1 AGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATC
* *
44315878 AGCACATAGCAACC-CCTTTCACAA-TCAAAGATACGGTGGAATC
1 AGCACTTAGCAACCACCTTT-A-AATTCAATGATACGG-GGAATC
* * *
44315921 AGCACTTAGCAACCACCTTTAAAGTCAATAATTCGGGGAATC
1 AGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATC
44315963 AGCACTTAGCAACC
1 AGCACTTAGCAACC
44315977 CCTCGGGGAA
Statistics
Matches: 218, Mismatches: 37, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.01
41 25 0.11
42 89 0.41
43 87 0.40
44 15 0.07
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (42 bp):
AGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATC
Found at i:44315993 original size:26 final size:26
Alignment explanation
Indices: 44315953--44316005 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
44315943 AGTCAATAAT
44315953 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
*
44315979 TCGGGGAATCTGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
44316005 T
1 T
44316006 TTTTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCCC
Found at i:44319987 original size:23 final size:23
Alignment explanation
Indices: 44319961--44320006 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44319951 TGTGTTTTTA
44319961 CATGGCCTTTTTAACTTAAAATC
1 CATGGCCTTTTTAACTTAAAATC
44319984 CATGGCCTTTTTAACTTAAAATC
1 CATGGCCTTTTTAACTTAAAATC
44320007 ATTCTATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (23 bp):
CATGGCCTTTTTAACTTAAAATC
Found at i:44327754 original size:22 final size:22
Alignment explanation
Indices: 44327729--44327773 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
44327719 TGATAAACTT
44327729 TAATATATA-ATTATATTATTTA
1 TAATATATATATTAT-TTATTTA
* *
44327751 TAATTTATATATTATTTTTTTA
1 TAATATATATATTATTTATTTA
44327773 T
1 T
44327774 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATATATATATTATTTATTTA
Found at i:44343984 original size:7 final size:7
Alignment explanation
Indices: 44343972--44344147 Score: 52
Period size: 7 Copynumber: 24.7 Consensus size: 7
44343962 TCAAAAAACA
44343972 TAAACCC
1 TAAACCC
44343979 TAAACCC
1 TAAACCC
* *
44343986 TTAGCCC
1 TAAACCC
44343993 -ATAACCC
1 TA-AACCC
*
44344000 TTAAACCT
1 -TAAACCC
44344008 TAAACCC
1 TAAACCC
*
44344015 -CAACCC
1 TAAACCC
*
44344021 TTAAACCA
1 -TAAACCC
* *
44344029 TAAGCCA
1 TAAACCC
*
44344036 TAAACCA
1 TAAACCC
44344043 TAAA-CC
1 TAAACCC
*
44344049 AAAATCCC
1 TAAA-CCC
44344057 TAAACCC
1 TAAACCC
* *
44344064 ATAATCCA
1 -TAAACCC
* *
44344072 TAATCCA
1 TAAACCC
*
44344079 TAAACCT
1 TAAACCC
***
44344086 TAAGATAG
1 TAA-ACCC
**
44344094 TAATTCC
1 TAAACCC
* *
44344101 TAAATCT
1 TAAACCC
44344108 TAAACCC
1 TAAACCC
* *
44344115 GAAACCA
1 TAAACCC
*
44344122 TATACCC
1 TAAACCC
*
44344129 TAAACCA
1 TAAACCC
44344136 TAAACCC
1 TAAACCC
44344143 TAAAC
1 TAAAC
44344148 TATAATGATA
Statistics
Matches: 124, Mismatches: 36, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
6 9 0.07
7 92 0.74
8 22 0.18
9 1 0.01
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:44344133 original size:14 final size:14
Alignment explanation
Indices: 44343951--44344152 Score: 95
Period size: 14 Copynumber: 14.2 Consensus size: 14
44343941 CCCTATCCCT
*
44343951 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* * * *
44343965 AAAAACATAAACCC
1 TAAACCCTAAACCA
**
44343979 TAAACCCTTAGCCCA
1 TAAACCC-TAAACCA
*
44343994 T-AACCCTTAAACCT
1 TAAACCC-TAAACCA
* * *
44344008 TAAACCCCAACCCT
1 TAAACCCTAAACCA
* *
44344022 TAAACCATAAGCCA
1 TAAACCCTAAACCA
*
44344036 TAAACCATAAACCA
1 TAAACCCTAAACCA
44344050 -AAATCCCTAAACCCA
1 TAAA-CCCTAAA-CCA
* * *
44344065 TAATCCATAATCCA
1 TAAACCCTAAACCA
* *
44344079 TAAACCTTAAGA-TA
1 TAAACCCTAA-ACCA
** * *
44344093 GTAATTCCTAAATCT
1 -TAAACCCTAAACCA
*
44344108 TAAACCCGAAACCA
1 TAAACCCTAAACCA
*
44344122 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
44344136 TAAACCCTAAACTA
1 TAAACCCTAAACCA
44344150 TAA
1 TAA
44344153 TGATAATTAA
Statistics
Matches: 137, Mismatches: 43, Indels: 16
0.70 0.22 0.08
Matches are distributed among these distances:
13 3 0.02
14 107 0.78
15 25 0.18
16 2 0.01
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:44344232 original size:8 final size:7
Alignment explanation
Indices: 44344197--44344409 Score: 69
Period size: 7 Copynumber: 29.9 Consensus size: 7
44344187 ACTAGTTAAT
44344197 CTAAACC
1 CTAAACC
44344204 CTAAACC
1 CTAAACC
44344211 CTAAA-C
1 CTAAACC
*
44344217 ATAAACC
1 CTAAACC
44344224 CTAAAACC
1 CT-AAACC
44344232 CTAAAACC
1 CT-AAACC
** *
44344240 AAAAATC
1 CTAAACC
* *
44344247 CTTAACA
1 CTAAACC
44344254 C-ATAACC
1 CTA-AACC
44344261 TCTAAACC
1 -CTAAACC
*
44344269 TTAAACC
1 CTAAACC
*
44344276 CT-AGCC
1 CTAAACC
* *
44344282 TTTAAACT
1 -CTAAACC
*
44344290 GTAAACC
1 CTAAACC
44344297 CTAAACC
1 CTAAACC
44344304 CTAAACC
1 CTAAACC
*
44344311 AT-AACC
1 CTAAACC
44344317 C-ATAACC
1 CTA-AACC
44344324 CATAAACC
1 C-TAAACC
*
44344332 CATAATCC
1 C-TAAACC
*
44344340 ATAAACC
1 CTAAACC
* **
44344347 TTAAAATG
1 CT-AAACC
*
44344355 GT-AACAC
1 CTAAAC-C
44344362 CTAAACC
1 CTAAACC
* *
44344369 TTAAACT
1 CTAAACC
44344376 CTAAACC
1 CTAAACC
* *
44344383 ATATACC
1 CTAAACC
*
44344390 CTAAATC
1 CTAAACC
**
44344397 AAAAACC
1 CTAAACC
44344404 CTAAAC
1 CTAAAC
44344410 TATAGTGATA
Statistics
Matches: 145, Mismatches: 47, Indels: 28
0.66 0.21 0.13
Matches are distributed among these distances:
6 14 0.10
7 91 0.63
8 38 0.26
9 2 0.01
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:44344333 original size:15 final size:15
Alignment explanation
Indices: 44344293--44344346 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
44344283 TTAAACTGTA
44344293 AACCC-TAAACCC-T
1 AACCCATAAACCCAT
*
44344306 AAACCAT-AACCCAT
1 AACCCATAAACCCAT
44344320 AACCCATAAACCCAT
1 AACCCATAAACCCAT
*
44344335 AATCCATAAACC
1 AACCCATAAACC
44344347 TTAAAATGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.26
14 8 0.23
15 18 0.51
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCATAAACCCAT
Found at i:44344351 original size:22 final size:21
Alignment explanation
Indices: 44344293--44344351 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
44344283 TTAAACTGTA
*
44344293 AACCC-TAAACCCTAAACCAT
1 AACCCATAAACCATAAACCAT
*
44344313 AACCCATAACCCATAAACCCAT
1 AACCCATAAACCATAAA-CCAT
* *
44344335 AATCCATAAACCTTAAA
1 AACCCATAAACCATAAA
44344352 ATGGTAACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 5 0.16
21 9 0.28
22 18 0.56
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCATAAACCATAAACCAT
Found at i:44344892 original size:40 final size:41
Alignment explanation
Indices: 44344780--44345025 Score: 235
Period size: 41 Copynumber: 6.0 Consensus size: 41
44344770 TAAAGCCCCA
* * * **
44344780 GCTAAAGCCCCGAGCATTAGCGGCGCTTATTGGAAAACATC
1 GCTAAAGCCCCGAGCATTAGCGACGCTTTTTGAAAAACGCC
* * * *
44344821 GCTAAAGCCCAGAGCATTAGTGGCGCCTTTTGAAAAACGCC
1 GCTAAAGCCCCGAGCATTAGCGACGCTTTTTGAAAAACGCC
* * *
44344862 ACTAAAGCCCCAAGCATTAACGACG-TTTTTGAAAAACGCC
1 GCTAAAGCCCCGAGCATTAGCGACGCTTTTTGAAAAACGCC
* ** * *
44344902 CCTAAAG-CTTGAGCATTAGCGGCGCGCTTTTCGAAAAACGCC
1 GCTAAAGCCCCGAGCATTAGC-G-ACGCTTTTTGAAAAACGCC
* ** ** *
44344944 GCTAAATCCCCGAGCATTAGCGATTCTTTCCGAAAAATGCC
1 GCTAAAGCCCCGAGCATTAGCGACGCTTTTTGAAAAACGCC
* *
44344985 GCTAAAGCCCCGAGCATTAGCGCCGCTTTTTTAAAAACGCC
1 GCTAAAGCCCCGAGCATTAGCGACGCTTTTTGAAAAACGCC
44345026 TTTAAAACCC
Statistics
Matches: 163, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
39 9 0.06
40 21 0.13
41 102 0.63
42 20 0.12
43 11 0.07
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (41 bp):
GCTAAAGCCCCGAGCATTAGCGACGCTTTTTGAAAAACGCC
Found at i:44344949 original size:123 final size:122
Alignment explanation
Indices: 44344791--44345025 Score: 269
Period size: 123 Copynumber: 1.9 Consensus size: 122
44344781 CTAAAGCCCC
* * * * *
44344791 GAGCATTAGCGGCGCTTATTGGAAAACATCGCTAAAGCCCAGAGCATTAGTGGCGCCTTT-TGAA
1 GAGCATTAGCGGCGCTTATTGAAAAACACCGCTAAAGCCCAGAGCATTAG-CGAGCCTTTCCGAA
44344855 AAACGCCACTAAAGCCCCAAGCATTAACGACG-TTTTTGAAAAACGCCCCTAAAGCTT
65 AAACGCCACTAAAGCCCCAAGCATTAACGACGCTTTTTGAAAAACGCCCCTAAAGCTT
* * * **
44344912 GAGCATTAGCGGCGCGCTT-TTCGAAAAACGCCGCTAAATCCCCGAGCATTAGCGATTCTTTCCG
1 GAGCATTAGC-G-GCGCTTATT-GAAAAACACCGCTAAAGCCCAGAGCATTAGCGAGCCTTTCCG
* * * * * *
44344976 AAAAATGCCGCTAAAGCCCCGAGCATTAGCGCCGCTTTTTTAAAAACGCC
63 AAAAACGCCACTAAAGCCCCAAGCATTAACGACGCTTTTTGAAAAACGCC
44345026 TTTAAAACCC
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
121 10 0.11
122 8 0.09
123 61 0.66
124 14 0.15
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (122 bp):
GAGCATTAGCGGCGCTTATTGAAAAACACCGCTAAAGCCCAGAGCATTAGCGAGCCTTTCCGAAA
AACGCCACTAAAGCCCCAAGCATTAACGACGCTTTTTGAAAAACGCCCCTAAAGCTT
Found at i:44347330 original size:41 final size:40
Alignment explanation
Indices: 44347255--44347334 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
44347245 TGAGTTTTGG
*
44347255 GGTCTTTAGCGGCGTTTCTGAAAAGCGCCGCTAATGCTCA
1 GGTCTTTAGCGGCATTTCTGAAAAGCGCCGCTAATGCTCA
* *
44347295 GGTCTTTAGCGGCATTTTTTAATAAGCGCCGCTAATGCTC
1 GGTCTTTAGCGGCATTTCTGAA-AAGCGCCGCTAATGCTC
44347335 GTACCTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 19 0.53
41 17 0.47
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (40 bp):
GGTCTTTAGCGGCATTTCTGAAAAGCGCCGCTAATGCTCA
Found at i:44347343 original size:41 final size:39
Alignment explanation
Indices: 44347256--44347367 Score: 136
Period size: 41 Copynumber: 2.8 Consensus size: 39
44347246 GAGTTTTGGG
*
44347256 GTCTTTAGCGGCGTTTCTGAAAAGCGCCGCTAATGCTCA
1 GTCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCA
* *
44347295 GGTCTTTAGCGGCATTTTTTAATAAGCGCCGCTAATGCTC-
1 -GTCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCA
*
44347335 GTACCTTTAGCGGTGTTTTTGAAGAAGCGCCGC
1 GT--CTTTAGCGGCGTTTTTGAA-AAGCGCCGC
44347368 AAAAACATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.03
40 18 0.29
41 42 0.68
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (39 bp):
GTCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCA
Found at i:44347512 original size:26 final size:26
Alignment explanation
Indices: 44347464--44347514 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
44347454 AAAATGGATA
** * *
44347464 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
44347490 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
44347515 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:44347815 original size:7 final size:7
Alignment explanation
Indices: 44347805--44347830 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44347795 AAGGTTTATT
44347805 GGTTAGG
1 GGTTAGG
44347812 GGTTAGG
1 GGTTAGG
44347819 GGTTAGG
1 GGTTAGG
44347826 GGTTA
1 GGTTA
44347831 AAGGTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.54, T:0.31
Consensus pattern (7 bp):
GGTTAGG
Found at i:44347836 original size:14 final size:14
Alignment explanation
Indices: 44347805--44347838 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
44347795 AAGGTTTATT
**
44347805 GGTTAGGGGTTAGG
1 GGTTAGGGGTTAAA
44347819 GGTTAGGGGTTAAA
1 GGTTAGGGGTTAAA
44347833 GGTTAG
1 GGTTAG
44347839 AAGTTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (14 bp):
GGTTAGGGGTTAAA
Found at i:44347966 original size:80 final size:77
Alignment explanation
Indices: 44347866--44348017 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 77
44347856 ATTTGGTGTT
*
44347866 AGGTTAGAGTTTAGGGTTTAGACTAATTAATATATTTTAAATTATATAATATTAAATAATGTTTA
1 AGGTTAGAGTTTAGGATTTAGACTAATTAATAT-TTTTAAATT-TAT-ATATTAAATAATGTTTA
44347931 GGGGTTAGGGATTTA
63 GGGGTTAGGGATTTA
* * * * *
44347946 AGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGG
1 AGGTTAGAGTTTAGGATTTAGACTAATTAATATTTTTAAATTTATATATTAAATAATGTTTAGGG
44348011 GTTAGGG
66 GTTAGGG
44348018 GTTAGTGATT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
77 27 0.41
78 3 0.05
79 8 0.12
80 28 0.42
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (77 bp):
AGGTTAGAGTTTAGGATTTAGACTAATTAATATTTTTAAATTTATATATTAAATAATGTTTAGGG
GTTAGGGATTTA
Found at i:44348104 original size:7 final size:7
Alignment explanation
Indices: 44348092--44348136 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
44348082 ATTAAATAAT
44348092 GTTTAGG
1 GTTTAGG
44348099 GTTTAGG
1 GTTTAGG
*
44348106 G-GTAGGG
1 GTTTA-GG
*
44348113 GTTTGGG
1 GTTTAGG
44348120 GTTTAGG
1 GTTTAGG
44348127 GTTTAGG
1 GTTTAGG
44348134 GTT
1 GTT
44348137 AAGAGTTAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 2 0.06
7 29 0.91
8 1 0.03
ACGTcount: A:0.11, C:0.00, G:0.49, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:44348152 original size:28 final size:28
Alignment explanation
Indices: 44348093--44348160 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
44348083 TTAAATAATG
* * * *
44348093 TTTAGGGTTTAGGGGTAGGGGTTTGGGG
1 TTTAGGGTTTAGGGGTAAGAGTTAGGGA
* *
44348121 TTTAGGGTTTAGGGTTAAGAGTTAGTGA
1 TTTAGGGTTTAGGGGTAAGAGTTAGGGA
*
44348149 TTTAAGGTTTAG
1 TTTAGGGTTTAG
44348161 AGATTAAGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (28 bp):
TTTAGGGTTTAGGGGTAAGAGTTAGGGA
Found at i:44348816 original size:21 final size:20
Alignment explanation
Indices: 44348777--44348821 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
44348767 GGACAAGACC
44348777 AAAATATAAGAAAAAATAAA
1 AAAATATAAGAAAAAATAAA
44348797 AAAATATAA-AAAGGAAATAAA
1 AAAATATAAGAAA--AAATAAA
44348818 AAAA
1 AAAA
44348822 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.13
20 9 0.39
21 11 0.48
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAATATAAGAAAAAATAAA
Found at i:44350373 original size:33 final size:33
Alignment explanation
Indices: 44350336--44350398 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
44350326 GATCTTTAAG
**
44350336 TTGGTTATATTTTTTTTGTATAGTTTAATTTTT
1 TTGGTTATATTTTAGTTGTATAGTTTAATTTTT
44350369 TTGGTTATATTTTAGTTGTATAGTTTAATT
1 TTGGTTATATTTTAGTTGTATAGTTTAATT
44350399 ATTATTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (33 bp):
TTGGTTATATTTTAGTTGTATAGTTTAATTTTT
Found at i:44351276 original size:18 final size:16
Alignment explanation
Indices: 44351234--44351266 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44351224 AATCATGTAG
44351234 AAATAAGTTTGAAGAT
1 AAATAAGTTTGAAGAT
44351250 AAATAAGTTTGAAGAT
1 AAATAAGTTTGAAGAT
44351266 A
1 A
44351267 TAATTGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (16 bp):
AAATAAGTTTGAAGAT
Done.