Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 95 of 230
Found at i:26661928 original size:18 final size:17
Alignment explanation
Indices: 26661900--26661934 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26661890 ATTATTAAGA
*
26661900 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
26661917 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
26661935 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:26662164 original size:44 final size:45
Alignment explanation
Indices: 26662099--26662189 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
26662089 ACCTCTATTC
* * * *
26662099 CATTCAACCAAACACAAGATTA-TTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
*
26662143 CATTCAACCAAACA-ATGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACA-AGATTAGCTATTACACCTCTAATCCAATA
26662188 CA
1 CA
26662190 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 1 0.03
44 19 0.47
45 20 0.50
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.29
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:26662204 original size:17 final size:16
Alignment explanation
Indices: 26662170--26662222 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
26662160 GATTAGCTAT
26662170 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26662186 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
26662203 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26662219 TACA
1 TACA
26662223 TTATAGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26664849 original size:27 final size:27
Alignment explanation
Indices: 26664822--26665016 Score: 192
Period size: 27 Copynumber: 7.2 Consensus size: 27
26664812 GTCATTCTTT
* * *
26664822 ATAGATGGCCACAAAGACTTCCTTTTT
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* *
26664849 ATAGATCGCCACAGAGGTTTCCTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* * * * *
26664876 ATGGATCGCAATAGAGGCTTCATTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
*
26664903 ATGGATCGCCACAAAGGCTTCCTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* * * * *
26664930 ATGGGTCACCACAAAGGCTTCATTTTG
1 ATAGATCGCCACAAAGGCTTCCTTTTC
** * *
26664957 ATAGATTTCCACAAAAGCTTCTTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
* *
26664984 ATAGATCGTCACAAAGGCTTCGTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTC
26665011 ATAGAT
1 ATAGAT
26665017 TACTACAAAG
Statistics
Matches: 138, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (27 bp):
ATAGATCGCCACAAAGGCTTCCTTTTC
Found at i:26664942 original size:81 final size:81
Alignment explanation
Indices: 26664813--26665031 Score: 204
Period size: 81 Copynumber: 2.7 Consensus size: 81
26664803 GCAAAAAGGG
* * * * * * * *
26664813 TCATTCTTTATAGATGGCCACAAAGACTTCCTTTTTATAGATCGCCACAGAGGTTTCCTTTTCAT
1 TCATT-TTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCAT
* * * *
26664878 GGATCGCAATAGAGGCT
65 AGATCGCAACAAAAGCT
* * * *
26664895 TCATTTTCATGGATCGCCACAAAGGCTTCCTTTTCATGGGTCACCACAAAGGCTTCATTTTGATA
1 TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCATA
** *
26664960 GATTTCCACAAAAGCT
66 GATCGCAACAAAAGCT
* * * * * *
26664976 TCTTTTTCATAGATCGTCACAAAGGCTTCGTTTTCATAGATTACTACAAAGACTTC
1 TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTC
26665032 CCTTTTCTGG
Statistics
Matches: 109, Mismatches: 28, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
81 104 0.95
82 5 0.05
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (81 bp):
TCATTTTCATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCATTTTCATA
GATCGCAACAAAAGCT
Found at i:26665024 original size:27 final size:27
Alignment explanation
Indices: 26664890--26665031 Score: 131
Period size: 27 Copynumber: 5.3 Consensus size: 27
26664880 ATCGCAATAG
* **
26664890 AGGCTTCATTTTCATGGATCGCCACAA
1 AGGCTTCATTTTCATAGATTACCACAA
* * * *
26664917 AGGCTTCCTTTTCATGGGTCACCACAA
1 AGGCTTCATTTTCATAGATTACCACAA
* *
26664944 AGGCTTCATTTTGATAGATTTCCACAA
1 AGGCTTCATTTTCATAGATTACCACAA
* * ***
26664971 AAGCTTCTTTTTCATAGATCGTCACAA
1 AGGCTTCATTTTCATAGATTACCACAA
* *
26664998 AGGCTTCGTTTTCATAGATTACTACAA
1 AGGCTTCATTTTCATAGATTACCACAA
*
26665025 AGACTTC
1 AGGCTTC
26665032 CCTTTTCTGG
Statistics
Matches: 93, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (27 bp):
AGGCTTCATTTTCATAGATTACCACAA
Found at i:26687058 original size:40 final size:40
Alignment explanation
Indices: 26687002--26687171 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
26686992 GGACTAAGAT
* * *
26687002 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
26687042 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* ** *
26687082 CCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
26687122 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
26687161 CCGAAGGCATT
1 CCGAAGGCATT
26687172 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 32 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:26687098 original size:80 final size:79
Alignment explanation
Indices: 26687014--26687169 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 79
26687004 GAAGGCCTTT
* * * *
26687014 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAA
1 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCA-TCGTGCGAGTTACTAAAACCGGGCTAA
26687079 GTCCCGAAGGCAGTC
65 GTCCCGAAGGCAGTC
* ** * * * *
26687094 GTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCATGGTGTGAGTTACTAAAACCGGGCTATG
1 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATCGTGCGAGTTACTAAAACCGGGCTAAG
26687159 TCCCGAAGGCA
66 TCCCGAAGGCA
26687170 TTTGAACGAG
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
79 33 0.51
80 32 0.49
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (79 bp):
GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATCGTGCGAGTTACTAAAACCGGGCTAAG
TCCCGAAGGCAGTC
Found at i:26687191 original size:79 final size:80
Alignment explanation
Indices: 26687024--26687206 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
26687014 GTGCGAGATA
* * * *
26687024 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
26687089 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * * *
26687104 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
26687168 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
26687183 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
26687207 TACGTGATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 46 0.55
80 24 0.29
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:26688858 original size:17 final size:17
Alignment explanation
Indices: 26688830--26688863 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
26688820 AATTAATTAA
26688830 CCAACACTCACTTATCTT
1 CCAACACTCACTT-TCTT
26688848 CCAAC-CTCACTTTCTT
1 CCAACACTCACTTTCTT
26688864 GACCGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (17 bp):
CCAACACTCACTTTCTT
Found at i:26689353 original size:21 final size:21
Alignment explanation
Indices: 26689288--26689342 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
26689278 GTTGAAGAAC
*
26689288 AAAGAAAATAAAATTGTTTTA
1 AAAGAAAATAAAATTGTATTA
26689309 AAAGAAAATAAAATTGTATTA
1 AAAGAAAATAAAATTGTATTA
26689330 AAAGAAAATAAAA
1 AAAGAAAATAAAA
26689343 CTAAATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.25
Consensus pattern (21 bp):
AAAGAAAATAAAATTGTATTA
Found at i:26690378 original size:6 final size:6
Alignment explanation
Indices: 26690368--26690421 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
26690358 TTACCTTCTT
* * *
26690368 CTTCCC TTTCCC CTTCCC CTTCCC TTTCCC CTTCCC CTTCCC TTTCCC
1 CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC
26690416 CTTCCC
1 CTTCCC
26690422 GTTGGGTTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
CTTCCC
Found at i:26690382 original size:18 final size:18
Alignment explanation
Indices: 26690368--26690421 Score: 108
Period size: 18 Copynumber: 3.0 Consensus size: 18
26690358 TTACCTTCTT
26690368 CTTCCCTTTCCCCTTCCC
1 CTTCCCTTTCCCCTTCCC
26690386 CTTCCCTTTCCCCTTCCC
1 CTTCCCTTTCCCCTTCCC
26690404 CTTCCCTTTCCCCTTCCC
1 CTTCCCTTTCCCCTTCCC
26690422 GTTGGGTTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CTTCCCTTTCCCCTTCCC
Found at i:26690512 original size:25 final size:25
Alignment explanation
Indices: 26690484--26690533 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
26690474 CAGGTAAGGC
*
26690484 TCCTTCTCCTTCTTCCGTTTTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
* *
26690509 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
26690534 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.34, G:0.04, T:0.58
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:26693449 original size:21 final size:21
Alignment explanation
Indices: 26693423--26693477 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
26693413 ACCGCTGTTT
*
26693423 CTAATCTCACTGCTACAGTATC
1 CTAATCTCACCGCTACAGTA-C
*
26693445 C-AATCTCACCGCTATAGTAC
1 CTAATCTCACCGCTACAGTAC
26693465 CTAATCTCACCGC
1 CTAATCTCACCGC
26693478 CACCACTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.09, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:26693736 original size:8 final size:8
Alignment explanation
Indices: 26693723--26693749 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
26693713 ATTTTGCAGT
26693723 AAAAAATA
1 AAAAAATA
26693731 AAAAAATA
1 AAAAAATA
26693739 AAAAAATA
1 AAAAAATA
26693747 AAA
1 AAA
26693750 CAAAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:26694818 original size:18 final size:19
Alignment explanation
Indices: 26694795--26694831 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
26694785 TTAGTGGCGT
26694795 TTCTTTT-TATTTTTTGAC
1 TTCTTTTATATTTTTTGAC
26694813 TTCTTTTACTATTTTTTGA
1 TTCTTTTA-TATTTTTTGA
26694832 ATACTGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (19 bp):
TTCTTTTATATTTTTTGAC
Found at i:26705098 original size:29 final size:29
Alignment explanation
Indices: 26705064--26705138 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
26705054 TTATTGATTA
*
26705064 CCACAAAGGTATTCCTTATCAGAGATTTG
1 CCACAAAGGCATTCCTTATCAGAGATTTG
* * *
26705093 CCACAAAGCCATTCCTTATTAGAGATTTT
1 CCACAAAGGCATTCCTTATCAGAGATTTG
* *
26705122 CTATAAAGGCATTCCTT
1 CCACAAAGGCATTCCTT
26705139 TAACAGAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (29 bp):
CCACAAAGGCATTCCTTATCAGAGATTTG
Found at i:26707440 original size:61 final size:58
Alignment explanation
Indices: 26707316--26707442 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 58
26707306 TTAATATTAG
* * * * *
26707316 ATTAATATAATACTTATCAAGATAAATATTAGATTAATTTTAATATTAAATATATTGA
1 ATTAATATAATACTTATCAAGATAAATATTAAATGAAATTTAATATTAAATATAATCA
*
26707374 ATTAATATAATACTTATCTACAAGATAAATATTAAATGAAATTTAATATTAAGT-TAATCA
1 ATTAATATAATACTTA--T-CAAGATAAATATTAAATGAAATTTAATATTAAATATAATCA
*
26707434 GTTTAATAT
1 -ATTAATAT
26707443 TAAATTAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
58 16 0.28
60 5 0.09
61 37 0.64
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.42
Consensus pattern (58 bp):
ATTAATATAATACTTATCAAGATAAATATTAAATGAAATTTAATATTAAATATAATCA
Found at i:26707482 original size:17 final size:17
Alignment explanation
Indices: 26707401--26707494 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 17
26707391 CTACAAGATA
* *
26707401 AATATTAAATGAAATTT
1 AATATTAAATTAAATTG
* *
26707418 AATATTAAGTTAATCAGTTT
1 AATATTAAATTAA--A-TTG
**
26707438 AATATTAAATT-AATAA
1 AATATTAAATTAAATTG
*
26707454 AATACT--ATTAAATT-
1 AATATTAAATTAAATTG
26707468 AAGTATTAAATTAAATTG
1 AA-TATTAAATTAAATTG
26707486 AATATTAAA
1 AATATTAAA
26707495 ACTATTAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
14 5 0.08
15 6 0.10
16 6 0.10
17 27 0.44
18 2 0.03
19 2 0.03
20 13 0.21
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAATTG
Found at i:26710798 original size:68 final size:68
Alignment explanation
Indices: 26710667--26710832 Score: 185
Period size: 68 Copynumber: 2.4 Consensus size: 68
26710657 TAGGATAGTT
* * *
26710667 AACATGGGATCATAGTGTGTAAGACCATAGCTAGGCTATGGAAACAAATGGAGTTCACTAGGACA
1 AACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGAAACAAATAGAGTTCACTAGGACA
26710732 CTA
66 CTA
* * *
26710735 AACATGGGTTAATAATGTGTAAGACCATAGCTAGGCTGT-GAGAACATATAGAGTCTGC-C-AGG
1 AACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGA-AACAAATAGAGT-T-CACTAGG
*
26710797 ACATTA
63 ACACTA
* * * *
26710803 AACATTGGTTCGTACTGTGTAAAACCATAG
1 AACATGGGTTCATAATGTGTAAGACCATAG
26710833 TTGAGCTATG
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
67 2 0.02
68 78 0.94
69 2 0.02
70 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (68 bp):
AACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGGAAACAAATAGAGTTCACTAGGACA
CTA
Found at i:26715302 original size:17 final size:17
Alignment explanation
Indices: 26715250--26715304 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
26715240 ATTAATGAAT
26715250 ATAAAAATAAACAAA-G
1 ATAAAAATAAACAAATG
* *
26715266 ---AAAATAAATAAATA
1 ATAAAAATAAACAAATG
*
26715280 AGAAAAATAAACAAATG
1 ATAAAAATAAACAAATG
26715297 ATAAAAAT
1 ATAAAAAT
26715305 CAATAAACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
13 11 0.37
17 19 0.63
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (17 bp):
ATAAAAATAAACAAATG
Found at i:26723131 original size:21 final size:21
Alignment explanation
Indices: 26723105--26723147 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26723095 TTGTATGTCT
26723105 GCTTCAATGGTTAGTGTTTTG
1 GCTTCAATGGTTAGTGTTTTG
*
26723126 GCTTCAGTGGTTAGTGTTTTG
1 GCTTCAATGGTTAGTGTTTTG
26723147 G
1 G
26723148 GAAGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.12, C:0.09, G:0.33, T:0.47
Consensus pattern (21 bp):
GCTTCAATGGTTAGTGTTTTG
Found at i:26727876 original size:9 final size:10
Alignment explanation
Indices: 26727850--26727875 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
26727840 TTCTTTATAT
26727850 ATTTTTTAGA
1 ATTTTTTAGA
26727860 ATTTTTTAGA
1 ATTTTTTAGA
26727870 ATTTTT
1 ATTTTT
26727876 ATAGTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (10 bp):
ATTTTTTAGA
Found at i:26727927 original size:19 final size:19
Alignment explanation
Indices: 26727891--26727946 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
26727881 TTTTTTAAAA
26727891 AATAA-ATTTTGAAATTTTT
1 AATAATATTTTG-AATTTTT
26727910 -ATAAATATTTTGAATTTTT
1 AAT-AATATTTTGAATTTTT
*
26727929 AATATTATTTT-AATTTTT
1 AATAATATTTTGAATTTTT
26727947 TGTAATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 9 0.27
19 16 0.48
20 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
AATAATATTTTGAATTTTT
Found at i:26728060 original size:18 final size:18
Alignment explanation
Indices: 26728026--26728060 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26728016 ACAATTTGCT
*
26728026 ATTTGAATTATTTAAATG
1 ATTTGAATTATTAAAATG
*
26728044 ATTTGAATTGTTAAAAT
1 ATTTGAATTATTAAAAT
26728061 TTAACTCGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
ATTTGAATTATTAAAATG
Found at i:26732139 original size:45 final size:45
Alignment explanation
Indices: 26732075--26732162 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
26732065 ATAGATACTC
* * *
26732075 GGTGGATTCATCACATAGCAACCACCTTATTAATCAATGATGTAT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTAT
26732120 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
26732163 TCGATTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTAT
Found at i:26732238 original size:51 final size:50
Alignment explanation
Indices: 26732173--26732359 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 50
26732163 TCGATTCACA
* * * *
26732173 TAGTAGTCTGCACATAGTACTACACATGTGACCATTACCATCCGATAGACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTGGTAGACG
* * * * *
26732224 TAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCTGGTACG-CA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCTGGTA-GACG
* * * * *
26732275 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCTGGTAGACG
26732325 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
26732360 CACTTTCACT
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 66 0.60
52 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGGTAGACG
Found at i:26732351 original size:101 final size:101
Alignment explanation
Indices: 26732171--26732355 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
26732161 GTTCGATTCA
* * *
26732171 CATAGTAGTCTGCACATAGTACTACACATGTGACCATTACCATCCGATAGACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTACA
26732236 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* ** * *
26732273 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTACA
26732337 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
26732356 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 37 0.50
102 33 0.45
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:26735410 original size:10 final size:9
Alignment explanation
Indices: 26735388--26735412 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26735378 TGTTAAAAGT
26735388 AAAAATAGG
1 AAAAATAGG
26735397 AAAAATAGG
1 AAAAATAGG
26735406 AAAAATA
1 AAAAATA
26735413 TTATATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (9 bp):
AAAAATAGG
Found at i:26735429 original size:10 final size:10
Alignment explanation
Indices: 26735416--26735442 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26735406 AAAAATATTA
26735416 TATGTTATAT
1 TATGTTATAT
26735426 TATGTTATAT
1 TATGTTATAT
26735436 TATGTTA
1 TATGTTA
26735443 AATGTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (10 bp):
TATGTTATAT
Found at i:26736606 original size:6 final size:6
Alignment explanation
Indices: 26736595--26736619 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26736585 GCAATTGGTA
26736595 ATGTAT ATGTAT ATGTAT ATGTAT A
1 ATGTAT ATGTAT ATGTAT ATGTAT A
26736620 AACTCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:26748494 original size:33 final size:32
Alignment explanation
Indices: 26748457--26748529 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
26748447 AAAGCCAAAT
*
26748457 CCAAAACAAAACAGTTGGCCCAGAATACA-TGGC
1 CCAAAACAAAACAG-AGGCCC-GAATACAGTGGC
* * *
26748490 CCAAAATAAAATAGAGGCCCGAATCCAGTGGC
1 CCAAAACAAAACAGAGGCCCGAATACAGTGGC
26748522 CCAAAACA
1 CCAAAACA
26748530 GTTGCAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.18
32 16 0.47
33 12 0.35
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.11
Consensus pattern (32 bp):
CCAAAACAAAACAGAGGCCCGAATACAGTGGC
Found at i:26749226 original size:22 final size:21
Alignment explanation
Indices: 26749184--26749226 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
26749174 TGGGGGGAGA
**
26749184 GTTTTTTTTAAAATTTTTTTG
1 GTTTTTTTTAAAATTGCTTTG
*
26749205 GTTTTTTTTTAAATTGGCTTTG
1 GTTTTTTTTAAAATT-GCTTTG
26749227 AAATGATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.67
Consensus pattern (21 bp):
GTTTTTTTTAAAATTGCTTTG
Found at i:26762283 original size:84 final size:84
Alignment explanation
Indices: 26762134--26762502 Score: 388
Period size: 84 Copynumber: 4.3 Consensus size: 84
26762124 ACCATAATCC
* * * * * *
26762134 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGTAATAGGTCTTATCTCTCTGAAGATGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
*
26762199 AGCAGACCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
* *
26762218 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGTAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
**
26762283 AGCAGATCATATC-AGGTCT
66 AGCAGATCGCATCTA-GTCT
* * ** * *
26762302 TATCTCCCTGAAGTTACAGTGGAGCAGACCT-AAGATG-GCGAATCTTACCTCCCTAAAGTTGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAG-TGATAG-ATCTTATCTCTCTAAAGTTGCA
* * * *
26762365 -ATGGAGCAGATTAAAGCCA-ATAATCC
63 GA--GAGCAGA-T--CG-CATCTAGTCT
* * *
26762391 TATCTCCCTGAGGTTACAGTGGAGCGGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
*
26762456 AGCAGATCGTATCTAGTCT
66 AGCAGATCGCATCTAGTCT
26762475 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
26762503 CCCGAATAAG
Statistics
Matches: 232, Mismatches: 38, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
83 2 0.01
84 135 0.58
85 21 0.09
86 8 0.03
87 8 0.03
88 23 0.10
89 33 0.14
90 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
AGCAGATCGCATCTAGTCT
Found at i:26762313 original size:40 final size:40
Alignment explanation
Indices: 26762172--26762316 Score: 132
Period size: 40 Copynumber: 3.5 Consensus size: 40
26762162 TTAAAGTAAT
* * * **
26762172 AGGTCTTATCTCTCTGAAGATGCAGAGAGCAGACCGCATC
1 AGGTCTTATCTCCCTGAAGTTGCAGAGAGCAGATCATATC
* *
26762212 TA-GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGAT-
1 -AGGTCTTATCTCCCTGAAGTTGCAG-AGAGCAGA-T-CA-T-ATC
* * *
26762256 AGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCATATC
1 AGGTCTTATCTCCCTGAAGTTGCAGAGAGCAGATCATATC
26762296 AGGTCTTATCTCCCTGAAGTT
1 AGGTCTTATCTCCCTGAAGTT
26762317 ACAGTGGAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
39 2 0.02
40 41 0.49
41 9 0.11
42 1 0.01
43 8 0.10
44 20 0.24
45 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (40 bp):
AGGTCTTATCTCCCTGAAGTTGCAGAGAGCAGATCATATC
Found at i:26762521 original size:45 final size:44
Alignment explanation
Indices: 26762432--26762587 Score: 149
Period size: 44 Copynumber: 3.6 Consensus size: 44
26762422 AAGTGATAGA
* * * * *
26762432 TCTTATCTCTCTAAAGTTGCAG-AGAGCAGATCG--T-ATCTAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAATAAACAAG
* *
26762472 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCGAATAAGCAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CCGAATAAACAAG
* * * * *
26762517 TCTTATCCCCCTAAAATTGCAGTGGGGCAGACTGAATAAACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAATAAACAAG
* *
26762561 TCCTATCTCCCTAAAGTTGTAGTGGAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAG
26762588 TGGATTAGAA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
40 20 0.22
41 7 0.08
42 2 0.02
44 33 0.35
45 31 0.33
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAATAAACAAG
Found at i:26762531 original size:173 final size:173
Alignment explanation
Indices: 26762218--26762643 Score: 510
Period size: 173 Copynumber: 2.5 Consensus size: 173
26762208 CATCTAGTCT
* * *
26762218 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGTAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
* * *
26762283 AGCAGATCATATCAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCTAAGATGGCGAATCTT
66 AGCAGATCGTATCAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGATAGCGAATCTT
* * **
26762348 ACCTCCCTAAAGTTGCAATGGAGCAGA-TTAA-AGCCAATAATCC
131 ACCTCCCTAAAATTGCAATGGAGCAGACTGAATAAAC-A-AATCC
* *
26762391 TATCTCCCTGAGGTTACAGTGGAGCGGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
* *
26762456 AGCAGATCGTATCTA-GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCGAATA-AGC-AAGT
66 AGCAGATCGTATC-AGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGA-CCGAAGATAGCGAA-T
* *
26762518 CTTATCC-CCCTAAAATTGCAGTGGGGCAGACTGAATAAACAAATCC
128 CTTA-CCTCCCTAAAATTGCAATGGAGCAGACTGAATAAACAAATCC
* * * *
26762564 TATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAA-TGAT-GAATCTTATCTCTCTGAAA-TTACA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTA-AAGTGATAG-ATCTTATCTCTCT-AAAGTTGCA
*
26762626 GTAGAGCAGATCGCATCA
63 G-AGAGCAGATCGTATCA
26762644 AATTTATCTT
Statistics
Matches: 220, Mismatches: 23, Indels: 20
0.84 0.09 0.08
Matches are distributed among these distances:
172 3 0.01
173 184 0.84
174 31 0.14
175 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (173 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTGATAGATCTTATCTCTCTAAAGTTGCAGAG
AGCAGATCGTATCAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGATAGCGAATCTT
ACCTCCCTAAAATTGCAATGGAGCAGACTGAATAAACAAATCC
Found at i:26769956 original size:16 final size:15
Alignment explanation
Indices: 26769929--26769962 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
26769919 ATAACTAGTA
*
26769929 TATAATTATATTTAT
1 TATAATTATATTAAT
26769944 TATAATATATATTAAT
1 TATAAT-TATATTAAT
26769960 TAT
1 TAT
26769963 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:26770504 original size:25 final size:26
Alignment explanation
Indices: 26770462--26770515 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
26770452 TTCTCTCAAA
*
26770462 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTAAATTA-TTAATAT
26770488 TTTCAA-TTTATTAAATTATTAATAT
1 TTTCAATTTTATTAAATTATTAATAT
26770513 TTT
1 TTT
26770516 ATACGAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTAAATTATTAATAT
Found at i:26772567 original size:32 final size:32
Alignment explanation
Indices: 26772526--26772589 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
26772516 ATTCAAACCC
*
26772526 TTGCAATATTTAGGCATCACTTTTCTCTTAAT
1 TTGCAATATTTAGCCATCACTTTTCTCTTAAT
26772558 TTGCAATATTTAGCCATCACTTTTCTCTTAAT
1 TTGCAATATTTAGCCATCACTTTTCTCTTAAT
26772590 CATCTGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (32 bp):
TTGCAATATTTAGCCATCACTTTTCTCTTAAT
Found at i:26785131 original size:15 final size:15
Alignment explanation
Indices: 26785113--26785145 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26785103 CAAATGCTAT
26785113 AATAATAAATACAAC
1 AATAATAAATACAAC
*
26785128 AATAATAAATACATC
1 AATAATAAATACAAC
26785143 AAT
1 AAT
26785146 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:26786976 original size:44 final size:45
Alignment explanation
Indices: 26786870--26786991 Score: 171
Period size: 45 Copynumber: 2.7 Consensus size: 45
26786860 TTGGTTTTAA
* *
26786870 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAG
26786915 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTA-CTT-AG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TTATCTTCAG
26786959 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
26786992 AAATGCGATC
Statistics
Matches: 70, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
44 33 0.47
45 34 0.49
46 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAG
Found at i:26798808 original size:15 final size:15
Alignment explanation
Indices: 26798790--26798822 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26798780 CAAATGCTAT
26798790 AATAATAAATACAAC
1 AATAATAAATACAAC
*
26798805 AATAATAAATACATC
1 AATAATAAATACAAC
26798820 AAT
1 AAT
26798823 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:26799127 original size:28 final size:28
Alignment explanation
Indices: 26799092--26799147 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
26799082 TAATTATACG
26799092 TACATATAAAAGGAATATTTATAGATAA
1 TACATATAAAAGGAATATTTATAGATAA
26799120 TACATATAAAAGGAATATTTATAGATAA
1 TACATATAAAAGGAATATTTATAGATAA
26799148 AAAATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (28 bp):
TACATATAAAAGGAATATTTATAGATAA
Found at i:26803913 original size:31 final size:31
Alignment explanation
Indices: 26803878--26803940 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
26803868 TTTGCATTCT
26803878 AATCTCTATTTAATTAAGCTCAATTCAGGCA
1 AATCTCTATTTAATTAAGCTCAATTCAGGCA
26803909 AATCTCTATTTAATTAAGCTCAATTCAGGCA
1 AATCTCTATTTAATTAAGCTCAATTCAGGCA
26803940 A
1 A
26803941 TCTTCCATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (31 bp):
AATCTCTATTTAATTAAGCTCAATTCAGGCA
Found at i:26805368 original size:445 final size:445
Alignment explanation
Indices: 26804539--26805440 Score: 1786
Period size: 445 Copynumber: 2.0 Consensus size: 445
26804529 GTTTTAAAAA
26804539 ATTTTCAGTTAACCCGTTCTTTTAGCACAACCACAATTAAAGTCGACCACCAGTAAAAAGCCTCA
1 ATTTTCAGTTAACCCGTTCTTTTAGCACAACCACAATTAAAGTCGACCACCAGTAAAAAGCCTCA
26804604 TATTTTAACAGGGACATGGAACATCTCAAAAAATCTTCCAGGGAACATAACCCACCTTACCATAA
66 TATTTTAACAGGGACATGGAACATCTCAAAAAATCTTCCAGGGAACATAACCCACCTTACCATAA
26804669 AAGTCTAACTAGTATTTGGCATTGGCTAGATCATCACCCACCTTACCATAAAAGTCTTCAACTCC
131 AAGTCTAACTAGTATTTGGCATTGGCTAGATCATCACCCACCTTACCATAAAAGTCTTCAACTCC
26804734 GCATTTTTGAACATTATCAATAGAAATCCGATGAATATTTCTTTGTTTAGGGCTTTGAGGACAAG
196 GCATTTTTGAACATTATCAATAGAAATCCGATGAATATTTCTTTGTTTAGGGCTTTGAGGACAAG
26804799 GAGTTAGAGATTTTTGAGTTGTGGAAATGGCTCTCATATATGCAAAAAACATGTCATACATCATA
261 GAGTTAGAGATTTTTGAGTTGTGGAAATGGCTCTCATATATGCAAAAAACATGTCATACATCATA
26804864 CGGGAAAAGGCACTATTAGCCTCTGATAACTCTTGAAATGAGTTATAATTCATACTTTTAGACTT
326 CGGGAAAAGGCACTATTAGCCTCTGATAACTCTTGAAATGAGTTATAATTCATACTTTTAGACTT
26804929 AGTTAATTGCTTTTACTTAAGTAAAATTAGTTTCATTTTAGGTAATTGCATGATT
391 AGTTAATTGCTTTTACTTAAGTAAAATTAGTTTCATTTTAGGTAATTGCATGATT
26804984 ATTTTCAGTTAACCCGTTCTTTTAGCACAACCACAATTAAAGTCGACCACCAGTAAAAAGCCTCA
1 ATTTTCAGTTAACCCGTTCTTTTAGCACAACCACAATTAAAGTCGACCACCAGTAAAAAGCCTCA
*
26805049 TCTTTTAACAGGGACATGGAACATCTCAAAAAATCTTCCAGGGAACATAACCCACCTTACCATAA
66 TATTTTAACAGGGACATGGAACATCTCAAAAAATCTTCCAGGGAACATAACCCACCTTACCATAA
26805114 AAGTCTAACTAGTATTTGGCATTGGCTAGATCATCACCCACCTTACCATAAAAGTCTTCAACTCC
131 AAGTCTAACTAGTATTTGGCATTGGCTAGATCATCACCCACCTTACCATAAAAGTCTTCAACTCC
26805179 GCATTTTTGAACATTATCAATAGAAATCCGATGAATATTTCTTTGTTTAGGGCTTTGAGGACAAG
196 GCATTTTTGAACATTATCAATAGAAATCCGATGAATATTTCTTTGTTTAGGGCTTTGAGGACAAG
26805244 GAGTTAGAGATTTTTGAGTTGTGGAAATGGCTCTCATATATGCAAAAAACATGTCATACATCATA
261 GAGTTAGAGATTTTTGAGTTGTGGAAATGGCTCTCATATATGCAAAAAACATGTCATACATCATA
26805309 CGGGAAAAGGCACTATTAGCCTCTGATAACTCTTGAAATGAGTTATAATTCATACTTTTAGACTT
326 CGGGAAAAGGCACTATTAGCCTCTGATAACTCTTGAAATGAGTTATAATTCATACTTTTAGACTT
26805374 AGTTAATTGCTTTTACTTAAGTAAAATTAGTTTCATTTTAGGTAATTGCATGATT
391 AGTTAATTGCTTTTACTTAAGTAAAATTAGTTTCATTTTAGGTAATTGCATGATT
*
26805429 ATTTTTAGTTAA
1 ATTTTCAGTTAA
26805441 TCGAGCATTG
Statistics
Matches: 455, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
445 455 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (445 bp):
ATTTTCAGTTAACCCGTTCTTTTAGCACAACCACAATTAAAGTCGACCACCAGTAAAAAGCCTCA
TATTTTAACAGGGACATGGAACATCTCAAAAAATCTTCCAGGGAACATAACCCACCTTACCATAA
AAGTCTAACTAGTATTTGGCATTGGCTAGATCATCACCCACCTTACCATAAAAGTCTTCAACTCC
GCATTTTTGAACATTATCAATAGAAATCCGATGAATATTTCTTTGTTTAGGGCTTTGAGGACAAG
GAGTTAGAGATTTTTGAGTTGTGGAAATGGCTCTCATATATGCAAAAAACATGTCATACATCATA
CGGGAAAAGGCACTATTAGCCTCTGATAACTCTTGAAATGAGTTATAATTCATACTTTTAGACTT
AGTTAATTGCTTTTACTTAAGTAAAATTAGTTTCATTTTAGGTAATTGCATGATT
Found at i:26807520 original size:16 final size:16
Alignment explanation
Indices: 26807499--26807530 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26807489 GTTTTGTTGC
*
26807499 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
26807515 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
26807531 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:26809044 original size:47 final size:47
Alignment explanation
Indices: 26808993--26809092 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
26808983 TGGTTGGACC
* ** *
26808993 ATGGCAACA-TGTTATATGTGATTTTCGTATAAGACCATATCTAGGTT
1 ATGGCAACAGTGTGATATGTGATACT-GTATAAGACCATAGCTAGGTT
* * * *
26809040 ATGGCATCAGTGTGATATGTGCTACTGTGTAAGACCATAGCTGGGTT
1 ATGGCAACAGTGTGATATGTGATACTGTATAAGACCATAGCTAGGTT
26809087 ATGGCA
1 ATGGCA
26809093 TCAATATGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 32 0.73
48 12 0.27
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (47 bp):
ATGGCAACAGTGTGATATGTGATACTGTATAAGACCATAGCTAGGTT
Found at i:26826933 original size:43 final size:42
Alignment explanation
Indices: 26826838--26826960 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
26826828 CATAAAACTG
* * *
26826838 ACAAAATGCCATAGAGGCCATATCAGAATACCACAAAGGTTA
1 ACAAAATGCCACAAAGGCCATATCAGAATACCACAAAGGCTA
* *
26826880 GCAAAATGCCACAAAGGCCATATTAGAATA-CACCTAAAGGCTA
1 ACAAAATGCCACAAAGGCCATATCAGAATACCA-C-AAAGGCTA
*
26826923 ACAAAATGCCACAAAGGCCA-A-CAGAATGCCACAAAGGC
1 ACAAAATGCCACAAAGGCCATATCAGAATACCACAAAGGC
26826961 CATATTAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
40 6 0.09
41 8 0.11
42 30 0.43
43 26 0.37
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (42 bp):
ACAAAATGCCACAAAGGCCATATCAGAATACCACAAAGGCTA
Found at i:26826940 original size:20 final size:20
Alignment explanation
Indices: 26826838--26826962 Score: 81
Period size: 20 Copynumber: 6.0 Consensus size: 20
26826828 CATAAAACTG
* *
26826838 ACAAAATGCCATAGAGGCCA
1 ACAAAATGCCACAAAGGCCA
* * **
26826858 TATCAGAATACCACAAAGGTTA
1 -A-CAAAATGCCACAAAGGCCA
*
26826880 GCAAAATGCCACAAAGGCCA
1 ACAAAATGCCACAAAGGCCA
* * * *
26826900 TATTAGAAT-ACACCTAAAGGCTA
1 -A-CAAAATGCCA-C-AAAGGCCA
26826923 ACAAAATGCCACAAAGGCCA
1 ACAAAATGCCACAAAGGCCA
*
26826943 ACAGAATGCCACAAAGGCCA
1 ACAAAATGCCACAAAGGCCA
26826963 TATTAAAATA
Statistics
Matches: 77, Mismatches: 21, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
20 41 0.53
21 8 0.10
22 21 0.27
23 7 0.09
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.13
Consensus pattern (20 bp):
ACAAAATGCCACAAAGGCCA
Found at i:26828116 original size:115 final size:115
Alignment explanation
Indices: 26827914--26828163 Score: 457
Period size: 115 Copynumber: 2.2 Consensus size: 115
26827904 ACGAGATACA
* *
26827914 TAAAAACTTTACTACTAATGGGTTTAATAATTTTGCTTAAAAACTTTACTCGAATACATAAAGTG
1 TAAAAAATTTACTACTAATGGGTTTAATAATTTTGCTTAAAAAATTTACTCGAATACATAAAGTG
26827979 GACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
66 GACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
26828029 TAAAAAATTTACTACTAATGGGTTTAATAATTTTGCTTAAAAAATTTACTC-AGATACATAAAGT
1 TAAAAAATTTACTACTAATGGGTTTAATAATTTTGCTTAAAAAATTTACTCGA-ATACATAAAGT
*
26828093 GGATGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
65 GGACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
26828144 TAAAAAATTTACTACTAATG
1 TAAAAAATTTACTACTAATG
26828164 TAGCATGTTT
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
114 1 0.01
115 130 0.99
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (115 bp):
TAAAAAATTTACTACTAATGGGTTTAATAATTTTGCTTAAAAAATTTACTCGAATACATAAAGTG
GACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
Found at i:26833067 original size:21 final size:21
Alignment explanation
Indices: 26833035--26833075 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
26833025 TAATAACAAC
26833035 TAATAATAATTATATT-TTATA
1 TAATAATAATTA-ATTGTTATA
26833056 TAAT-ATATATTAATTGTTAT
1 TAATAATA-ATTAATTGTTAT
26833076 TAACCTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TAATAATAATTAATTGTTATA
Found at i:26834344 original size:33 final size:33
Alignment explanation
Indices: 26834302--26834379 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
26834292 CTTATCAGTA
26834302 CGTGACATAACAACCCATCCTCACGCAATATAT
1 CGTGACATAACAACCCATCCTCACGCAATATAT
26834335 CGTGACATAACAACCCATCCTCACGCAATATAT
1 CGTGACATAACAACCCATCCTCACGCAATATAT
26834368 CGTGACATAACA
1 CGTGACATAACA
26834380 TCGTACGTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.21
Consensus pattern (33 bp):
CGTGACATAACAACCCATCCTCACGCAATATAT
Found at i:26834484 original size:27 final size:27
Alignment explanation
Indices: 26834465--26834767 Score: 401
Period size: 27 Copynumber: 11.3 Consensus size: 27
26834455 GGGTATGACA
26834465 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26834492 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
**
26834519 GTCATTTTACCCTATGGGGGTATTTTT
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
26834546 GTCATTCTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
26834573 GTTATTTAACCCTATGGGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
26834600 GTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
26834627 ATCAATTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
26834654 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
26834680 ATCATTCTACCATATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
26834707 GTCATTCTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
26834734 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
26834761 GTCATTT
1 GTCATTT
26834768 ATCGACCTCT
Statistics
Matches: 239, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.09
27 217 0.91
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:26851375 original size:29 final size:29
Alignment explanation
Indices: 26851333--26851427 Score: 172
Period size: 29 Copynumber: 3.3 Consensus size: 29
26851323 ATATCGACTC
* *
26851333 AGACTAGACTTAAATTGGTATGTACCTCT
1 AGACTCGACTTAAATTGGCATGTACCTCT
26851362 AGACTCGACTTAAATTGGCATGTACCTCT
1 AGACTCGACTTAAATTGGCATGTACCTCT
26851391 AGACTCGACTTAAATTGGCATGTACCTCT
1 AGACTCGACTTAAATTGGCATGTACCTCT
26851420 AGACTCGA
1 AGACTCGA
26851428 TTCTAAGCTG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (29 bp):
AGACTCGACTTAAATTGGCATGTACCTCT
Found at i:26854753 original size:23 final size:23
Alignment explanation
Indices: 26854723--26854785 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
26854713 TTTTTTTCAA
*
26854723 AGAATATTTACTGTTCACGCCAG
1 AGAATATTTACTGTTCACACCAG
* *
26854746 AGAATATTTACTATTCACATCAG
1 AGAATATTTACTGTTCACACCAG
*
26854769 AGAATATTTATTGTTCA
1 AGAATATTTACTGTTCA
26854786 TTCGTCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (23 bp):
AGAATATTTACTGTTCACACCAG
Found at i:26859829 original size:28 final size:29
Alignment explanation
Indices: 26859772--26859829 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
26859762 TCCGAGCCTT
**
26859772 GGGGAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAATGTAATTATGTAAAAAATTA
*
26859801 GGGG-AAAATCGTAATTTTG-AAAAAATTA
1 GGGGAAAAAT-GTAATTATGTAAAAAATTA
26859829 G
1 G
26859830 AGTCGAGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (29 bp):
GGGGAAAAATGTAATTATGTAAAAAATTA
Found at i:26860273 original size:50 final size:50
Alignment explanation
Indices: 26860165--26860455 Score: 388
Period size: 50 Copynumber: 5.7 Consensus size: 50
26860155 ATTTGGTTAA
*
26860165 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCAG-TGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-GTTGGCA-CC--GAG---ATG
*
26860221 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
26860271 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
26860321 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * *
26860371 AGAGGTCGCC-CGTAAGACTATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
**
26860421 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
26860456 ATTTGGCATG
Statistics
Matches: 215, Mismatches: 16, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
50 145 0.67
51 26 0.12
53 3 0.01
55 2 0.01
56 39 0.18
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:26879170 original size:23 final size:23
Alignment explanation
Indices: 26879135--26879229 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
26879125 GATAAGATCA
* *
26879135 ATTCTGTGATGCCTTTTTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
* *
26879158 ATTCTATGCTGCCTTTGTGTCGT
1 ATTCTATGATGCCTTTGTGGCGT
** *
26879181 ATTCTGCGATGCCTTTGTGGTGT
1 ATTCTATGATGCCTTTGTGGCGT
26879204 ATTCTATGATGCCTTTGTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
26879227 ATT
1 ATT
26879230 TTGTAACGTC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (23 bp):
ATTCTATGATGCCTTTGTGGCGT
Found at i:26879206 original size:46 final size:46
Alignment explanation
Indices: 26879135--26879229 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
26879125 GATAAGATCA
* * * *
26879135 ATTCTGTGATGCCTTTTTGGCGTATTCTATGCTGCCTTTGTGTCGT
1 ATTCTGCGATGCCTTTGTGGCGTATTCTATGATGCCTTTGTGGCGT
*
26879181 ATTCTGCGATGCCTTTGTGGTGTATTCTATGATGCCTTTGTGGCGT
1 ATTCTGCGATGCCTTTGTGGCGTATTCTATGATGCCTTTGTGGCGT
26879227 ATT
1 ATT
26879230 TTGTAACGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (46 bp):
ATTCTGCGATGCCTTTGTGGCGTATTCTATGATGCCTTTGTGGCGT
Found at i:26881818 original size:14 final size:14
Alignment explanation
Indices: 26881799--26881826 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26881789 CCAATTTATT
26881799 AATGAATTATTAAA
1 AATGAATTATTAAA
26881813 AATGAATTATTAAA
1 AATGAATTATTAAA
26881827 TATAACTTTA
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:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:26891071 original size:14 final size:14
Alignment explanation
Indices: 26891052--26891079 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26891042 CAAATTTATT
26891052 AATGAATTATTAAA
1 AATGAATTATTAAA
26891066 AATGAATTATTAAA
1 AATGAATTATTAAA
26891080 TATAAATTTA
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:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:26893013 original size:4 final size:4
Alignment explanation
Indices: 26893004--26893034 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
26892994 CTATTTTTAA
26893004 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
26893035 TAAAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:26895104 original size:16 final size:16
Alignment explanation
Indices: 26895083--26895113 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26895073 ATAAATTGAG
26895083 CAAAAAACCTAGAAAC
1 CAAAAAACCTAGAAAC
*
26895099 CAAAAAACTTAGAAA
1 CAAAAAACCTAGAAA
26895114 GTAAGAACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (16 bp):
CAAAAAACCTAGAAAC
Found at i:26899039 original size:7 final size:7
Alignment explanation
Indices: 26899027--26899055 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
26899017 TTTGGCTTAA
26899027 TCTTTCT
1 TCTTTCT
26899034 TCTTTCT
1 TCTTTCT
26899041 TCTTTCT
1 TCTTTCT
26899048 TCTTTCT
1 TCTTTCT
26899055 T
1 T
26899056 TCTTCCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTCT
Found at i:26901912 original size:28 final size:28
Alignment explanation
Indices: 26901872--26902061 Score: 136
Period size: 28 Copynumber: 6.7 Consensus size: 28
26901862 ATGTTTATTA
26901872 AAAGGAAGT-CTTTGTGGCGATCTCTGTT
1 AAAGGAA-TCCTTTGTGGCGATCTCTGTT
*
26901900 AAAGGAATCCTTTGTGGTGATCTCTGTT
1 AAAGGAATCCTTTGTGGCGATCTCTGTT
** * ** * *
26901928 AAAAAAATTCTTTGTAACGTTCTTTGTT
1 AAAGGAATCCTTTGTGGCGATCTCTGTT
* * *
26901956 AAAGGAAGCCTTTATGGCTATCTCTGTT
1 AAAGGAATCCTTTGTGGCGATCTCTGTT
* **
26901984 AAAAGG-ATGCCTTTGTGGCTATCTCAATT
1 -AAAGGAAT-CCTTTGTGGCGATCTCTGTT
* * *
26902013 AAATGAATGCC-TTGTGGCAAACTCTGTT
1 AAAGGAAT-CCTTTGTGGCGATCTCTGTT
*
26902041 AAAAGG-ATGCCTTCGTGGCGA
1 -AAAGGAAT-CCTTTGTGGCGA
26902062 GACTCTGAAA
Statistics
Matches: 125, Mismatches: 31, Indels: 11
0.75 0.19 0.07
Matches are distributed among these distances:
27 1 0.01
28 86 0.69
29 38 0.30
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (28 bp):
AAAGGAATCCTTTGTGGCGATCTCTGTT
Found at i:26902086 original size:57 final size:56
Alignment explanation
Indices: 26901977--26902087 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 56
26901967 TTATGGCTAT
* * * * * *
26901977 CTCTGTTAAAAGGATGCCTTTGTGGCTATCTCAATTAAATGAATGCCTTGTGGCAAA
1 CTCTGTTAAAAGGATGCCTTCGTGGCGAACTC-ATGAAAGGAAAGCCTTGTGGCAAA
26902034 CTCTGTTAAAAGGATGCCTTCGTGGCGAGACTC-TGAAAGGAAAGCCTCTGTGGC
1 CTCTGTTAAAAGGATGCCTTCGTGGCGA-ACTCATGAAAGGAAAGCCT-TGTGGC
26902088 TATCTTTGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 11 0.24
57 32 0.70
58 3 0.07
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (56 bp):
CTCTGTTAAAAGGATGCCTTCGTGGCGAACTCATGAAAGGAAAGCCTTGTGGCAAA
Found at i:26903572 original size:14 final size:15
Alignment explanation
Indices: 26903538--26903575 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
26903528 TAAGGTTTAT
26903538 GAATTATGGAATTAC
1 GAATTATGGAATTAC
26903553 GAATTATGG-ATTA-
1 GAATTATGGAATTAC
26903566 GAGATTATGG
1 GA-ATTATGG
26903576 TTTAAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 11 0.50
15 9 0.41
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (15 bp):
GAATTATGGAATTAC
Found at i:26903865 original size:7 final size:7
Alignment explanation
Indices: 26903853--26903914 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
26903843 TGTAAAAGAG
26903853 GGGTTAA
1 GGGTTAA
26903860 GGGTTAA
1 GGGTTAA
*
26903867 GGGTTAT
1 GGGTTAA
*
26903874 GGGTTTA
1 GGGTTAA
* *
26903881 GGAGATAG
1 GG-GTTAA
26903889 GGGTTAA
1 GGGTTAA
* *
26903896 CGGTTTA
1 GGGTTAA
*
26903903 GGGTTTA
1 GGGTTAA
26903910 GGGTT
1 GGGTT
26903915 TAGATTAATT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
7 39 0.91
8 4 0.09
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.34
Consensus pattern (7 bp):
GGGTTAA
Found at i:26904752 original size:33 final size:33
Alignment explanation
Indices: 26904710--26904775 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
26904700 ATCTTGCTTA
26904710 CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
1 CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
26904743 CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
1 CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
26904776 TAACCATGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (33 bp):
CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
Found at i:26905574 original size:3 final size:3
Alignment explanation
Indices: 26905566--26905622 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
26905556 ACACACCTAT
* *
26905566 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ACG ACG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
26905614 ATG ATG ATG
1 ATG ATG ATG
26905623 TTATTAGCCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:26914816 original size:22 final size:22
Alignment explanation
Indices: 26914771--26914817 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
26914761 ATAATATAGA
* *
26914771 TTTAATAAATGCAGAAAAATAT
1 TTTAATAAATGCAAAAAAAAAT
26914793 TTTAATAAATG-AAAAGAAAAAT
1 TTTAATAAATGCAAAA-AAAAAT
26914815 TTT
1 TTT
26914818 GAACTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (22 bp):
TTTAATAAATGCAAAAAAAAAT
Found at i:26924108 original size:42 final size:42
Alignment explanation
Indices: 26924061--26924291 Score: 220
Period size: 42 Copynumber: 5.5 Consensus size: 42
26924051 GGCTTAGCGC
* *
26924061 CTAGCAGGCTTATTGCCAGTGAAACAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * * * *
26924103 CTAGCAGGCTTAATGTCGGTGAAATAATTTCAAACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * * *
26924145 ATAGCAGGCTTAATACTGGTGAAATAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * * *
26924187 CTAGCAGACTTAATGCCGGTGAAAC-ATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * * * *
26924228 CTAGCAGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGC
1 CTAGCAGGCTTAA-TGCCGGTGAAAC-AATATCAGACTTTACGT
26924269 CTAGCAGGC-TAAGTGCCGGTGAA
1 CTAGCAGGCTTAA-TGCCGGTGAA
26924292 TCTGTTTAAA
Statistics
Matches: 155, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
40 5 0.03
41 59 0.38
42 91 0.59
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
Found at i:26924186 original size:84 final size:83
Alignment explanation
Indices: 26924079--26924237 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 83
26924069 CTTATTGCCA
* * *
26924079 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGTCGGTGAAATAATTTCAAACTTTATG
1 GTGAAACAATATCAGACTTTACGTCTAGCAGACTTAATGCCGGTGAAA-AATTTCAAACTATATG
26924144 TATAGCAGGCTTAATACTG
65 TATAGCAGGCTTAATACTG
* * *
26924163 GTGAAATAATATCAGACTTTACGTCTAGCAGACTTAATGCCGGTGAAACATTTCAGACTATATGT
1 GTGAAACAATATCAGACTTTACGTCTAGCAGACTTAATGCCGGTGAAAAATTTCAAACTATATGT
*
26924228 CTAGCAGGCT
66 ATAGCAGGCT
26924238 AAGTGCCGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
83 23 0.34
84 45 0.66
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (83 bp):
GTGAAACAATATCAGACTTTACGTCTAGCAGACTTAATGCCGGTGAAAAATTTCAAACTATATGT
ATAGCAGGCTTAATACTG
Found at i:26925669 original size:344 final size:344
Alignment explanation
Indices: 26925043--26926076 Score: 1899
Period size: 344 Copynumber: 3.0 Consensus size: 344
26925033 TCGTAATTTG
*
26925043 TTATATTGTATATGAATTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
1 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
26925108 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTT-AAATTTTGCATGTTTAATATTA
66 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
*
26925172 GACCTAGCTTATCATATGGAACTGTTATAATTATTGAACTTTAATGAATGTTTGTTCTGAGTTGT
131 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTTTGTTCTGAGTTGT
* *
26925237 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGCAACGAATACGGGTTAGGGGTGTTACAAAT
196 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGTAACGGATACGGGTTAGGGGTGTTACAAAT
* *
26925302 GGTATTTCTACAGAAGTTTTTTCTATTGATAACATAATGAAATTTTTATCAATAGAAAATGGTAA
261 GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAATAAAATTTTTATCAATAGAAAATGGTAA
26925367 ATGTTGATATATAAAATTA
326 ATGTTGATATATAAAATTA
26925386 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
1 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
*
26925451 GTAATGTCTTGGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
66 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
*
26925516 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
131 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTTTGTTCTGAGTTGT
* *
26925581 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGTAACGGATAAGGGTTAGGGGTGTTACAATT
196 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGTAACGGATACGGGTTAGGGGTGTTACAAAT
* * *
26925646 GGTATTTCTACAGAATTTTTTTCTACTGATAACATAATAAAAATTTTATCAATAGAAAATGGTCA
261 GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAATAAAATTTTTATCAATAGAAAATGGTAA
26925711 ATGTTGATATATAAAATTA
326 ATGTTGATATATAAAATTA
26925730 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
1 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
26925795 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
66 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
26925860 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTTTGTTCTGAGTTGT
131 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTTTGTTCTGAGTTGT
* * *
26925925 GTTTTGATTAGCAATGCCTCTTAACCCTAATTAGGTAATGGATACGGGTTAGGGGTGTTACAAAT
196 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGTAACGGATACGGGTTAGGGGTGTTACAAAT
**
26925990 GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAATTTAATTTTTATCAATAGAAAATGGTAA
261 GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAATAAAATTTTTATCAATAGAAAATGGTAA
26926055 ATGTTGATATATAAAATTA
326 ATGTTGATATATAAAATTA
26926074 TTA
1 TTA
26926077 CCTAATAATA
Statistics
Matches: 665, Mismatches: 25, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
343 105 0.16
344 560 0.84
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (344 bp):
TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTTTGTTCTGAGTTGT
GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGTAACGGATACGGGTTAGGGGTGTTACAAAT
GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAATAAAATTTTTATCAATAGAAAATGGTAA
ATGTTGATATATAAAATTA
Found at i:26938219 original size:29 final size:29
Alignment explanation
Indices: 26938186--26938246 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
26938176 GCTTCCACAT
*
26938186 GATAATGCATACAATTATTCAAAGATAAC
1 GATAATGCATAAAATTATTCAAAGATAAC
26938215 GATAATGCATAAAATTATTCAAAGATAAC
1 GATAATGCATAAAATTATTCAAAGATAAC
26938244 GAT
1 GAT
26938247 TTCTACCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (29 bp):
GATAATGCATAAAATTATTCAAAGATAAC
Found at i:26938396 original size:36 final size:36
Alignment explanation
Indices: 26938349--26938420 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
26938339 AAGGTTAGTT
26938349 AACTATATGGTTATATTTTCCCCTTCCTTTATAATA
1 AACTATATGGTTATATTTTCCCCTTCCTTTATAATA
26938385 AACTATATGGTTATATTTTCCCCTTCCTTTATAATA
1 AACTATATGGTTATATTTTCCCCTTCCTTTATAATA
26938421 GTTGTAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (36 bp):
AACTATATGGTTATATTTTCCCCTTCCTTTATAATA
Found at i:26943040 original size:15 final size:15
Alignment explanation
Indices: 26943020--26943048 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26943010 GTCTTATAAC
26943020 AAGTTAAATAACAAT
1 AAGTTAAATAACAAT
26943035 AAGTTAAATAACAA
1 AAGTTAAATAACAA
26943049 GTAAACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AAGTTAAATAACAAT
Found at i:26950584 original size:26 final size:26
Alignment explanation
Indices: 26950551--26950619 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
26950541 AACACACCAA
*
26950551 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
26950577 TATTGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
26950603 TATCGCAGCAAAGCTGC
1 TATCGCAGCAAAGCTGC
26950620 TAGCATGTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:26954747 original size:18 final size:17
Alignment explanation
Indices: 26954714--26954752 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
26954704 TTTTATAAAT
26954714 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
26954732 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
26954749 TGTG
1 TGTG
26954753 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:26955005 original size:23 final size:23
Alignment explanation
Indices: 26954978--26955053 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
26954968 AGTGTTATTG
*
26954978 ATCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
26955001 TTCAGTGGTAGCTACGGCTGCAT
1 ATCAGTGGTAGCTTCGGCTACAT
26955024 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
26955047 ATCAGTG
1 ATCAGTG
26955054 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:26960430 original size:26 final size:26
Alignment explanation
Indices: 26960401--26960481 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
26960391 AACACACCAA
26960401 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGTAAAGCTGCCAGTAACAG
** * *
26960427 TATCGCAACAAAGTTGCTAGTAACAG
1 TATCGCAGTAAAGCTGCCAGTAACAG
26960453 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGTAAAGCTGCCAGTAACAG
26960479 TAT
1 TAT
26960482 ACTTCCTCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (26 bp):
TATCGCAGTAAAGCTGCCAGTAACAG
Found at i:26961435 original size:18 final size:18
Alignment explanation
Indices: 26961412--26961454 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
26961402 AAAAGAAAAA
26961412 TATACCCAAAATGAGCAG
1 TATACCCAAAATGAGCAG
*
26961430 TATACCCAAAATGAGTAG
1 TATACCCAAAATGAGCAG
26961448 TATACCC
1 TATACCC
26961455 CTCTGGCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (18 bp):
TATACCCAAAATGAGCAG
Found at i:26963888 original size:33 final size:33
Alignment explanation
Indices: 26963822--26963897 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
26963812 ATCCTGCCAC
* *
26963822 TGAGGAGAAGGCCACAAAAGGGCCGAAGGGAGA
1 TGAGGAGAAGGCCACAAAAGGACCGAAGAGAGA
*
26963855 TGAGTAGAAGGCCACAAAAGGACC-AGAGAGAGA
1 TGAGGAGAAGGCCACAAAAGGACCGA-AGAGAGA
*
26963888 TGAAGAGAAG
1 TGAGGAGAAG
26963898 ACTAAATCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.43, C:0.13, G:0.38, T:0.05
Consensus pattern (33 bp):
TGAGGAGAAGGCCACAAAAGGACCGAAGAGAGA
Found at i:26971015 original size:16 final size:16
Alignment explanation
Indices: 26970991--26971021 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26970981 ATTACTAATT
26970991 ACAAATTTATTTCATA
1 ACAAATTTATTTCATA
*
26971007 ACAATTTTATTTCAT
1 ACAAATTTATTTCAT
26971022 TACAGTGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (16 bp):
ACAAATTTATTTCATA
Found at i:26971797 original size:5 final size:5
Alignment explanation
Indices: 26971787--26971829 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
26971777 CATACATACA
*
26971787 CATAT CATAT CATAT CATAT CATAT CAT-T TATAT CATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
26971830 AATAAAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
4 7 0.20
5 28 0.80
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (5 bp):
CATAT
Found at i:26982231 original size:27 final size:27
Alignment explanation
Indices: 26982174--26982234 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
26982164 GACTTTTTTT
* * *
26982174 GGGTGTTGTTTTGCTTTTGTTTGGTTT
1 GGGTTTTGTTTTACTTTTGTTTGGTTC
*
26982201 GGGTTTTGTTTTATTTTTG-TTGTGTTC
1 GGGTTTTGTTTTACTTTTGTTTG-GTTC
26982228 GGGTTTT
1 GGGTTTT
26982235 ATTTGTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.02, C:0.03, G:0.31, T:0.64
Consensus pattern (27 bp):
GGGTTTTGTTTTACTTTTGTTTGGTTC
Found at i:26984066 original size:30 final size:31
Alignment explanation
Indices: 26984020--26984097 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
26984010 TTAATATAAC
* * *
26984020 ATTTGGTACCTGAACTTGACATTTTTTC-TA
1 ATTTAGTACCTAAACTTGACACTTTTTCTTA
*
26984050 ATTTAGTACCTAAACTTGATACTTTTTCTTA
1 ATTTAGTACCTAAACTTGACACTTTTTCTTA
* *
26984081 AGTTAGTACTTAAACTT
1 ATTTAGTACCTAAACTT
26984098 TTTTGGGTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 24 0.59
31 17 0.41
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (31 bp):
ATTTAGTACCTAAACTTGACACTTTTTCTTA
Found at i:26984682 original size:61 final size:60
Alignment explanation
Indices: 26984572--26984798 Score: 314
Period size: 60 Copynumber: 3.8 Consensus size: 60
26984562 TTGAACCTAA
* * *
26984572 AAAAAAGTTTAGGTACCAAATTAAGAAAAAAATATCAAATTCATGTACCATATTGGGCCC
1 AAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAGTTCAGGTACCATATTGGGCCC
26984632 AAAAAAGTTTAGGTACCAAATTAAGAAAAAAAATGTCAAGTTCAGGTACCATATTGGGCCC
1 AAAAAAGTTTAGGTACCAAATTAAG-AAAAAAATGTCAAGTTCAGGTACCATATTGGGCCC
* * * * * *
26984693 AAAAAAAGCTTAGGTACCAAATT-AGGAAAAAGTGTCAAGTTCAGGTACTAAATTGGGCCGA
1 -AAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAGTTCAGGTACCATATTGGGCC-C
* *
26984754 AAAAAAGATTAGGTACCAAATTAAG-AAAAAGTGTCAAGTTCAGGT
1 AAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAGTTCAGGT
26984799 CCCAAATGTA
Statistics
Matches: 153, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
60 96 0.63
61 36 0.24
62 21 0.14
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (60 bp):
AAAAAAGTTTAGGTACCAAATTAAGAAAAAAATGTCAAGTTCAGGTACCATATTGGGCCC
Found at i:26984740 original size:31 final size:31
Alignment explanation
Indices: 26984704--26984805 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 31
26984694 AAAAAAGCTT
26984704 AGGTACCAAATTAGGAAAAAGTGTCAAGTTC
1 AGGTACCAAATTAGGAAAAAGTGTCAAGTTC
* *
26984735 AGGTACTAAATTGGGCCGAAAAA-----AAGATT-
1 AGGTACCAAATT-AG--GAAAAAGTGTCAAG-TTC
*
26984764 AGGTACCAAATTAAGAAAAAGTGTCAAGTTC
1 AGGTACCAAATTAGGAAAAAGTGTCAAGTTC
*
26984795 AGGTCCCAAAT
1 AGGTACCAAAT
26984806 GTAATATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
26 6 0.11
29 14 0.25
30 4 0.07
31 24 0.44
32 1 0.02
34 6 0.11
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (31 bp):
AGGTACCAAATTAGGAAAAAGTGTCAAGTTC
Found at i:26984770 original size:122 final size:120
Alignment explanation
Indices: 26984571--26984798 Score: 323
Period size: 122 Copynumber: 1.9 Consensus size: 120
26984561 ATTGAACCTA
* * * *
26984571 AAAAAAAGTTTAGGTACCAAATTAAGAAAAAAATATCAAATTCATGTACCATATTGGGCCCAAAA
1 AAAAAAAGCTTAGGTACCAAATTAAGAAAAAAATATCAAATTCAGGTACCAAATTGGGCCAAAAA
*
26984636 AAGTTTAGGTACCAAATTAAGAAAAAAAATGTCAAGTTCAGGTACCATATTGGGCCC
66 AAGATTAGGTACCAAATTAAG--AAAAAATGTCAAGTTCAGGTACCATATTGGGCCC
* * * * *
26984693 AAAAAAAGCTTAGGTACCAAATT-AGGAAAAAGTGTCAAGTTCAGGTACTAAATTGGGCCGAAAA
1 AAAAAAAGCTTAGGTACCAAATTAAGAAAAAAATATCAAATTCAGGTACCAAATTGGGCC-AAAA
*
26984757 AAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGT
65 AAAGATTAGGTACCAAATTAAGAAAAAATGTCAAGTTCAGGT
26984799 CCCAAATGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
120 19 0.20
121 29 0.31
122 46 0.49
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (120 bp):
AAAAAAAGCTTAGGTACCAAATTAAGAAAAAAATATCAAATTCAGGTACCAAATTGGGCCAAAAA
AAGATTAGGTACCAAATTAAGAAAAAATGTCAAGTTCAGGTACCATATTGGGCCC
Found at i:26984774 original size:29 final size:28
Alignment explanation
Indices: 26984669--26984775 Score: 76
Period size: 29 Copynumber: 3.6 Consensus size: 28
26984659 AAAAAATGTC
* *
26984669 AAGTTCAGGTACCATATTGGGCCCAAAAA
1 AAGTT-AGGTACCAAATTGGGCCGAAAAA
*
26984698 AAGCTTAGGTACCAAATT-AG--GAAAAA
1 AAG-TTAGGTACCAAATTGGGCCGAAAAA
*
26984724 GTGTCAAGTTCAGGTACTAAATTGGGCCGAAAAA
1 -----AAGTT-AGGTACCAAATTGGGCCGAAAAA
26984758 AAGATTAGGTACCAAATT
1 AAG-TTAGGTACCAAATT
26984776 AAGAAAAAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
26 5 0.08
28 1 0.02
29 28 0.46
30 6 0.10
31 14 0.23
32 1 0.02
34 6 0.10
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (28 bp):
AAGTTAGGTACCAAATTGGGCCGAAAAA
Found at i:26990765 original size:26 final size:26
Alignment explanation
Indices: 26990729--26990792 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
26990719 ATCCTGTAAG
26990729 TATTCTGAAACTGATACATGCTATGA
1 TATTCTGAAACTGATACATGCTATGA
* * *
26990755 TATTCTAAAACTGATATATGTTATGA
1 TATTCTGAAACTGATACATGCTATGA
26990781 TATTCTGAAACT
1 TATTCTGAAACT
26990793 ACTGTAGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (26 bp):
TATTCTGAAACTGATACATGCTATGA
Found at i:26997696 original size:34 final size:35
Alignment explanation
Indices: 26997653--26997719 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
26997643 TGTTACTGCT
* * *
26997653 ACTGATACTGTAATGGGCTAAGGTCCAA-ACTGGA
1 ACTGATACTGAAAAGGGCTAAGGCCCAAGACTGGA
*
26997687 ACTGATACTGAAAAGGGCTTAGGCCCAAGACTG
1 ACTGATACTGAAAAGGGCTAAGGCCCAAGACTG
26997720 TTCAACTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (35 bp):
ACTGATACTGAAAAGGGCTAAGGCCCAAGACTGGA
Found at i:27006541 original size:9 final size:9
Alignment explanation
Indices: 27006527--27006558 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
27006517 GGTATGGAAT
27006527 GAAGCGAAG
1 GAAGCGAAG
27006536 GAAGCGAAG
1 GAAGCGAAG
27006545 GAAGCGAAAG
1 GAAGCG-AAG
27006555 GAAG
1 GAAG
27006559 ATTAAATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.47, C:0.09, G:0.44, T:0.00
Consensus pattern (9 bp):
GAAGCGAAG
Found at i:27017391 original size:16 final size:17
Alignment explanation
Indices: 27017372--27017415 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
27017362 TGAAAGTATT
27017372 AATG-ATTGAATGAATG
1 AATGCATTGAATGAATG
*
27017388 AATGCATT-AAAGAATG
1 AATGCATTGAATGAATG
*
27017404 ATTGCATTGAAT
1 AATGCATTGAAT
27017416 AAACATGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (17 bp):
AATGCATTGAATGAATG
Found at i:27023293 original size:4 final size:4
Alignment explanation
Indices: 27023284--27023309 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
27023274 ATTTCTACTA
27023284 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
27023310 CTTGAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:27026206 original size:14 final size:14
Alignment explanation
Indices: 27026183--27026220 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
27026173 GTTTGCCAGT
*
27026183 AAAATGATTTCTAA
1 AAAATAATTTCTAA
*
27026197 AAAATAATTTCTGA
1 AAAATAATTTCTAA
27026211 AAAATAATTT
1 AAAATAATTT
27026221 ACTTTTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (14 bp):
AAAATAATTTCTAA
Found at i:27026351 original size:18 final size:18
Alignment explanation
Indices: 27026325--27026367 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
27026315 AAAAGTTGTT
* *
27026325 TTTACATATATTAATAAA
1 TTTATATATATAAATAAA
27026343 TTTATATATATAAATAAA
1 TTTATATATATAAATAAA
27026361 TTTATAT
1 TTTATAT
27026368 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATATATATAAATAAA
Found at i:27029300 original size:31 final size:31
Alignment explanation
Indices: 27029259--27029322 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
27029249 TAAATATTTT
27029259 AATATATATTTTTTTTATTTCATGGAGTTTC
1 AATATATATTTTTTTTATTTCATGGAGTTTC
* *
27029290 AATATGTATTTTTTTTATTTCATGTAGTTTC
1 AATATATATTTTTTTTATTTCATGGAGTTTC
27029321 AA
1 AA
27029323 ACTTTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (31 bp):
AATATATATTTTTTTTATTTCATGGAGTTTC
Found at i:27035152 original size:18 final size:18
Alignment explanation
Indices: 27035131--27035173 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
27035121 ACAATTTAAA
27035131 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
27035149 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
27035167 ATGTAAA
1 ATATAAA
27035174 AATAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:27035277 original size:19 final size:20
Alignment explanation
Indices: 27035253--27035294 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
27035243 CAAACACCAA
*
27035253 AAAAGTAAATCATT-TCCAG
1 AAAAGTAAAACATTCTCCAG
27035272 AAAAGTAAAACATTCTCCAG
1 AAAAGTAAAACATTCTCCAG
27035292 AAA
1 AAA
27035295 TCATTTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (20 bp):
AAAAGTAAAACATTCTCCAG
Found at i:27044444 original size:13 final size:13
Alignment explanation
Indices: 27044415--27044443 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27044405 AACAAGTTGC
27044415 TTTTGGTTGAAAT
1 TTTTGGTTGAAAT
27044428 TTTTGGTT-AAAT
1 TTTTGGTTGAAAT
27044440 TTTT
1 TTTT
27044444 TAACTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (13 bp):
TTTTGGTTGAAAT
Found at i:27048282 original size:23 final size:22
Alignment explanation
Indices: 27048229--27048282 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
27048219 TTTTCTGGAT
*
27048229 AATATATATTAATTAAATGAAAA
1 AATAT-TATTAATTAAATAAAAA
* *
27048252 TATAATTATTAATTACTATAAAAA
1 AAT-ATTATTAATTA-AATAAAAA
27048276 AATATTA
1 AATATTA
27048283 GTATGATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATTATTAATTAAATAAAAA
Found at i:27053401 original size:11 final size:11
Alignment explanation
Indices: 27053379--27053422 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
27053369 TGAATGTTTG
27053379 AATAACTTTAAA
1 AATAA-TTTAAA
27053391 AATAATTT-AA
1 AATAATTTAAA
*
27053401 AATCATTTAAA
1 AATAATTTAAA
*
27053412 AATAGTTTAAA
1 AATAATTTAAA
27053423 GTGAATTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 9 0.32
11 14 0.50
12 5 0.18
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:27057925 original size:35 final size:35
Alignment explanation
Indices: 27057879--27057959 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
27057869 CATTCACATT
27057879 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
1 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
27057914 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
1 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
27057949 AATCACATATT
1 AATCACATATT
27057960 AATAAATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (35 bp):
AATCACATATTCAATGGTCCTCCTACATAGTGAAA
Found at i:27063845 original size:5 final size:5
Alignment explanation
Indices: 27063835--27063863 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
27063825 TCTAATGGAA
27063835 ACATT ACATT ACATT ACATT ACATT ACAT
1 ACATT ACATT ACATT ACATT ACATT ACAT
27063864 CTTTGAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (5 bp):
ACATT
Found at i:27078075 original size:71 final size:71
Alignment explanation
Indices: 27077959--27078149 Score: 205
Period size: 71 Copynumber: 2.7 Consensus size: 71
27077949 ATTATATCAT
*
27077959 CCTACAATTACATACAAAAAGTTATATTACTCCACCACCACACCCAAT-TACACATACAAAAAAG
1 CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCC-ATCTACACATACAAAAAAG
27078023 TGCAAAA
65 TGCAAAA
* * **
27078030 CCTACAATTACATACAAAAAGTGATATTAGTTCACCACTGCACCCATCTACACATAC-AAAAAGT
1 CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCCATCTACACATACAAAAAAGT
27078094 G-ATGAAA
66 GCA--AAA
* * * *
27078101 -CT-CTATGACATACAAAATGTTATATT-CATCCACCACCACAGCCACATCT
1 CCTACAATTACATACAAAAAGTGATATTAC-TCCACCACCACA-CC-CATCT
27078150 TTAATGGGTA
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
69 30 0.30
70 14 0.14
71 57 0.56
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.23
Consensus pattern (71 bp):
CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCCATCTACACATACAAAAAAGT
GCAAAA
Found at i:27080894 original size:40 final size:40
Alignment explanation
Indices: 27080818--27080894 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
27080808 ATTTGAAAAA
* * * * *
27080818 GATTTAAATCGATTGTAACTGGTTTAAATTGCTTGTAACT
1 GATTTAAATCAATTGAAACTGATTTAAATCGATTGTAACT
27080858 GATTTAAATCAATTGAAACAT-ATTTAAATCGATTGTA
1 GATTTAAATCAATTGAAAC-TGATTTAAATCGATTGTA
27080895 GCATATTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (40 bp):
GATTTAAATCAATTGAAACTGATTTAAATCGATTGTAACT
Found at i:27080899 original size:20 final size:20
Alignment explanation
Indices: 27080779--27080902 Score: 83
Period size: 20 Copynumber: 6.2 Consensus size: 20
27080769 GATGAAATAA
** *
27080779 ATTTAAATCGATTGTAGTAG
1 ATTTAAATCGATTGTAACAT
* * * *
27080799 ATTTAAAT-AATTTGAAAAAG
1 ATTTAAATCGA-TTGTAACAT
27080819 ATTTAAATCGATTGTAAC-T
1 ATTTAAATCGATTGTAACAT
* * *
27080838 GGTTTAAATTGCTTGTAAC-T
1 -ATTTAAATCGATTGTAACAT
* *
27080858 GATTTAAATCAATTGAAACAT
1 -ATTTAAATCGATTGTAACAT
*
27080879 ATTTAAATCGATTGTAGCAT
1 ATTTAAATCGATTGTAACAT
27080899 ATTT
1 ATTT
27080903 GGATCGAGTG
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.01
20 78 0.96
21 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (20 bp):
ATTTAAATCGATTGTAACAT
Found at i:27082857 original size:16 final size:18
Alignment explanation
Indices: 27082826--27082858 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
27082816 TAATTTTAGC
27082826 TCTCTATTTAAATTTTTA
1 TCTCTATTTAAATTTTTA
27082844 TCTCT-TTT-AATTTTT
1 TCTCTATTTAAATTTTT
27082859 GAATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTCTATTTAAATTTTTA
Found at i:27083038 original size:16 final size:15
Alignment explanation
Indices: 27083017--27083046 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27083007 TTTTAAAAAC
27083017 AATTTTTATAATTTTG
1 AATTTTTA-AATTTTG
27083033 AATTTTTAAATTTT
1 AATTTTTAAATTTT
27083047 AAAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
AATTTTTAAATTTTG
Found at i:27083711 original size:18 final size:17
Alignment explanation
Indices: 27083685--27083718 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27083675 TACAAAATAC
27083685 GAAAACAAAATCATTATA
1 GAAAAC-AAATCATTATA
*
27083703 GAAACCAAATCATTAT
1 GAAAACAAATCATTAT
27083719 TATATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.24
Consensus pattern (17 bp):
GAAAACAAATCATTATA
Found at i:27084623 original size:41 final size:41
Alignment explanation
Indices: 27084515--27084766 Score: 308
Period size: 41 Copynumber: 6.2 Consensus size: 41
27084505 CTTTCGGGGT
* * * * *
27084515 TTTAGCGACGTTTTTGAGAAAACACAGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGC
* *
27084556 TTTAGCGACG-TTTTGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGC
* *
27084596 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGATCAGGGT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGC
* * * *
27084637 TTTAGTGGCGTTTTTAAGGAAGCGCCGCTAATGTTTAGGGC
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGC
* * * **
27084678 TTTAGTGGCGTTTTTGAGGAAGCCCCGCTAATGATCAGGAA
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGC
** *
27084719 TTTAGCGGCGTTTTTGAGTTAGCGCCACTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGC
27084760 TTTAGCG
1 TTTAGCG
27084767 CCGCTAATGC
Statistics
Matches: 184, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 36 0.20
41 148 0.80
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGC
Found at i:27086653 original size:14 final size:14
Alignment explanation
Indices: 27086636--27086662 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27086626 TGTAAAGAAA
27086636 AGGGGGGAAAGATG
1 AGGGGGGAAAGATG
27086650 AGGGGGGAAAGAT
1 AGGGGGGAAAGAT
27086663 ATTTCAACAA
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:0.37, C:0.00, G:0.56, T:0.07
Consensus pattern (14 bp):
AGGGGGGAAAGATG
Found at i:27090143 original size:43 final size:43
Alignment explanation
Indices: 27090096--27090339 Score: 335
Period size: 43 Copynumber: 5.7 Consensus size: 43
27090086 GTTTGTGATA
* * * * * *
27090096 AAAGCGCCGCTAAAGATCATATTCTTTAACAGCGTGTGTGGGC
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT
*
27090139 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGTT
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT
*
27090182 AAAGCGCCGCTAAAGGTCAGGTTCTTTAGCGGCGTTTGTGGGT
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT
* *
27090225 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTAGGT
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT
* * *
27090268 AAAGCGCCGCTAAAGGTCATGATCTTTAGCAGTGTTTGTGGGT
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT
*** *
27090311 AAAGCGCTATTAAAGATCATGTTCTTTAG
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAG
27090340 TAGCGTTTTT
Statistics
Matches: 179, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 179 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT
Found at i:27092282 original size:19 final size:20
Alignment explanation
Indices: 27092260--27092297 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27092250 TTTAAGATAA
*
27092260 TAAAATGAACTAA-ACTAAT
1 TAAAATAAACTAACACTAAT
*
27092279 TAAAGTAAACTAACACTAA
1 TAAAATAAACTAACACTAA
27092298 ATCTAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (20 bp):
TAAAATAAACTAACACTAAT
Found at i:27101141 original size:12 final size:13
Alignment explanation
Indices: 27101124--27101152 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27101114 CTCATACATG
27101124 AATAAATAAA-GC
1 AATAAATAAATGC
27101136 AATAAATAAATGC
1 AATAAATAAATGC
27101149 AATA
1 AATA
27101153 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:27102383 original size:19 final size:19
Alignment explanation
Indices: 27102361--27102405 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
27102351 ATAAATATTT
27102361 TGATGTATAATATTAAATA
1 TGATGTATAATATTAAATA
* *
27102380 TGATATATTATATTAAATA
1 TGATGTATAATATTAAATA
*
27102399 TAATGTA
1 TGATGTA
27102406 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (19 bp):
TGATGTATAATATTAAATA
Done.