Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 13 of 29
Found at i:1775581 original size:14 final size:14
Alignment explanation
Indices: 1775564--1775590 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1775554 TAAATAATTT
1775564 TTTATATTATATAG
1 TTTATATTATATAG
1775578 TTTATATTATATA
1 TTTATATTATATA
1775591 AAAAATAAAT
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:0.04, T:0.59
Consensus pattern (14 bp):
TTTATATTATATAG
Found at i:1782536 original size:16 final size:16
Alignment explanation
Indices: 1782499--1782540 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1782489 AAATTTTTTT
1782499 AATAAATATAAATTAAA
1 AATAAATA-AAATTAAA
* *
1782516 TATAAATAAATTTAAA
1 AATAAATAAAATTAAA
1782532 AATAAATAA
1 AATAAATAA
1782541 TGAACACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAATAAAATTAAA
Found at i:1782820 original size:28 final size:29
Alignment explanation
Indices: 1782771--1782833 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
1782761 TTCACCCCTT
*
1782771 TTTATTTTGTATTTAAAAATTTTATATTA
1 TTTATTTTGTATTTAAAAATTTTAAATTA
*
1782800 TTTATTTT-TATTTTAAAATTTTAAATTA
1 TTTATTTTGTATTTAAAAATTTTAAATTA
1782828 TTTATT
1 TTTATT
1782834 CATTTAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTATTTTGTATTTAAAAATTTTAAATTA
Found at i:1783018 original size:29 final size:27
Alignment explanation
Indices: 1782984--1783059 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 27
1782974 GTTTTTTTAT
1782984 ATAAATATAATTTTTAATTATTATTCAAC
1 ATAAATATAATTTTTAATTATT-TT-AAC
*
1783013 ATAAATATAA-TTTT-ATTA-TTTAAT
1 ATAAATATAATTTTTAATTATTTTAAC
* *
1783037 ATAGATAAAATTTTTAATTATTT
1 ATAAATATAATTTTTAATTATTT
1783060 ATTATATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.24
25 6 0.15
26 5 0.12
27 6 0.15
28 4 0.10
29 10 0.24
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (27 bp):
ATAAATATAATTTTTAATTATTTTAAC
Found at i:1783078 original size:29 final size:29
Alignment explanation
Indices: 1782964--1783079 Score: 79
Period size: 26 Copynumber: 4.3 Consensus size: 29
1782954 TAAATGTTAT
* * *
1782964 TATATTTATAGTT-TTT-TTATATAAATA
1 TATATTTTTAATTATTTATTATATATATA
* *
1782991 TA-ATTTTTAATTA-TTATTCA-ACATAAA
1 TATATTTTTAATTATTTATT-ATATATATA
* *
1783018 TATAATTTT-ATTATTTA--ATATAGATA
1 TATATTTTTAATTATTTATTATATATATA
*
1783044 -AAATTTTTAATTATTTATTATATATATA
1 TATATTTTTAATTATTTATTATATATATA
*
1783072 CATATTTT
1 TATATTTT
1783080 ATCTAATACT
Statistics
Matches: 66, Mismatches: 13, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
25 7 0.11
26 22 0.33
27 14 0.21
28 17 0.26
29 6 0.09
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATTTTTAATTATTTATTATATATATA
Found at i:1786042 original size:29 final size:27
Alignment explanation
Indices: 1785985--1786048 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
1785975 GTCTATATAA
* *
1785985 TTTTGTATTTTTTGCATGTATAAAATT
1 TTTTATATATTTTGCATGTATAAAATT
1786012 TTTTATATATTTTGCATGTATAAAATT
1 TTTTATATATTTTGCATGTATAAAATT
1786039 TTTTATATAT
1 TTTTATATAT
1786049 ACTGATAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (27 bp):
TTTTATATATTTTGCATGTATAAAATT
Found at i:1786728 original size:27 final size:27
Alignment explanation
Indices: 1786698--1786769 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
1786688 AATAATATGC
*
1786698 CACCATTTTTGACAAATA-AAAAGAAAT
1 CACCATTTTTGACAAACACAAAA-AAAT
*
1786725 CACCATTTTTGACAAACACAAAATAAT
1 CACCATTTTTGACAAACACAAAAAAAT
1786752 CACCATTTTTGACAAACA
1 CACCATTTTTGACAAACA
1786770 AAGGGTAGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 38 0.90
28 4 0.10
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (27 bp):
CACCATTTTTGACAAACACAAAAAAAT
Found at i:1788690 original size:21 final size:22
Alignment explanation
Indices: 1788652--1788697 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1788642 ATCTGTTGAA
* **
1788652 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
1788673 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
1788695 ACT
1 ACT
1788698 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:1791301 original size:27 final size:27
Alignment explanation
Indices: 1791263--1791333 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
1791253 AACATGTCAC
1791263 CATTTTTGACAAATAAAAAGA-AACCAT
1 CATTTTTGACAAATAAAAA-ATAACCAT
* * *
1791290 CATTTTTTACAAACAAAAAATAACTAT
1 CATTTTTGACAAATAAAAAATAACCAT
*
1791317 AATTTTTGACAAATAAA
1 CATTTTTGACAAATAAA
1791334 GAATGACTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (27 bp):
CATTTTTGACAAATAAAAAATAACCAT
Found at i:1793172 original size:17 final size:17
Alignment explanation
Indices: 1793152--1793190 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1793142 TCAACTTAAT
* *
1793152 TTAAAATTTTTCAAATA
1 TTAAAATTATTAAAATA
*
1793169 TTAAAATTATTAAAATC
1 TTAAAATTATTAAAATA
1793186 TTAAA
1 TTAAA
1793191 TTAATTTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATTATTAAAATA
Found at i:1794567 original size:17 final size:17
Alignment explanation
Indices: 1794545--1794580 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1794535 TAATGCTAGA
*
1794545 AAATGAAAGATTCATTG
1 AAATGAAAGACTCATTG
1794562 AAATGAAAGACTCATTG
1 AAATGAAAGACTCATTG
1794579 AA
1 AA
1794581 GGTGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (17 bp):
AAATGAAAGACTCATTG
Found at i:1795133 original size:13 final size:13
Alignment explanation
Indices: 1795117--1795189 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 13
1795107 AGGGATACAA
1795117 GAGAGGGATGCTT
1 GAGAGGGATGCTT
**
1795130 GAGAAAGATGCTT
1 GAGAGGGATGCTT
* *
1795143 AAGAGAGATGCTT
1 GAGAGGGATGCTT
* * * **
1795156 AAGAGGAATACAA
1 GAGAGGGATGCTT
1795169 GAGAGGGATGCTT
1 GAGAGGGATGCTT
1795182 GAGAGGGA
1 GAGAGGGA
1795190 GAATAGAGCC
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.37, C:0.07, G:0.38, T:0.18
Consensus pattern (13 bp):
GAGAGGGATGCTT
Found at i:1795197 original size:26 final size:26
Alignment explanation
Indices: 1795116--1795197 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
1795106 GAGGGATACA
** **
1795116 AGAGAGGGATGCTTGAGAAAGATGCTT
1 AGAGAGGGATGCTTGAGAGGGA-GAAT
* * * *
1795143 A-AGAGAGATGCTTAAGAGGAATACA-
1 AGAGAGGGATGCTTGAGAGGGAGA-AT
1795168 AGAGAGGGATGCTTGAGAGGGAGAAT
1 AGAGAGGGATGCTTGAGAGGGAGAAT
1795194 AGAG
1 AGAG
1795198 CCTCCTTTTA
Statistics
Matches: 40, Mismatches: 12, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
25 2 0.05
26 37 0.93
27 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.38, T:0.17
Consensus pattern (26 bp):
AGAGAGGGATGCTTGAGAGGGAGAAT
Found at i:1795339 original size:27 final size:27
Alignment explanation
Indices: 1795273--1795346 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
1795263 ATAAGTCACA
* *
1795273 ATTTTTTACAAACAAAAAGGAACTACC
1 ATTTTTTACAAATAAAAAGGAACCACC
* * * *
1795300 ATTTTTGACAAATATAAAGTAACCACT
1 ATTTTTTACAAATAAAAAGGAACCACC
*
1795327 ATTTTTTACAAATACAAAGG
1 ATTTTTTACAAATAAAAAGG
1795347 GTGGTTTTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (27 bp):
ATTTTTTACAAATAAAAAGGAACCACC
Found at i:1796626 original size:16 final size:16
Alignment explanation
Indices: 1796607--1796645 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1796597 TTTTCCCATT
*
1796607 TTTTCTTTTGTCTTTC
1 TTTTCTTTTGTCTCTC
1796623 TTTTC-TTTGTCTCTC
1 TTTTCTTTTGTCTCTC
1796638 TTTGTCTT
1 TTT-TCTT
1796646 CTTTGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 12 0.60
16 7 0.35
17 1 0.05
ACGTcount: A:0.00, C:0.21, G:0.08, T:0.72
Consensus pattern (16 bp):
TTTTCTTTTGTCTCTC
Found at i:1798252 original size:13 final size:13
Alignment explanation
Indices: 1798236--1798269 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1798226 AAGGATACAA
*
1798236 GAGAGGGATGCTC
1 GAGAGGGATACTC
*
1798249 GAGAGGGATACTT
1 GAGAGGGATACTC
1798262 GAGAGGGA
1 GAGAGGGA
1798270 GGAGGGAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.47, T:0.15
Consensus pattern (13 bp):
GAGAGGGATACTC
Found at i:1798408 original size:27 final size:26
Alignment explanation
Indices: 1798348--1798421 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 26
1798338 CAAACAACAT
*
1798348 CCACCATTTTTGACAAATAAAAAAAA
1 CCACCATTTTTGACAAACAAAAAAAA
* * **
1798374 CTATCATTTTTGACAAACATAAAGTAA
1 CCACCATTTTTGACAAACA-AAAAAAA
1798401 CCACCATTTTTGACAAACAAA
1 CCACCATTTTTGACAAACAAA
1798422 GGGTGACTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 18 0.45
27 22 0.55
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.27
Consensus pattern (26 bp):
CCACCATTTTTGACAAACAAAAAAAA
Found at i:1802842 original size:13 final size:13
Alignment explanation
Indices: 1802799--1802844 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1802789 AAAAAATTGA
**
1802799 AGAGGGATACAAG
1 AGAGGGATACTTG
* *
1802812 AGAGCGATGCTTG
1 AGAGGGATACTTG
1802825 AGAGGGATACTTG
1 AGAGGGATACTTG
1802838 AGAGGGA
1 AGAGGGA
1802845 GGCGGGAGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.41, T:0.15
Consensus pattern (13 bp):
AGAGGGATACTTG
Found at i:1802963 original size:25 final size:25
Alignment explanation
Indices: 1802925--1802996 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 25
1802915 AACAATATGC
1802925 CACCATTTTTGACAAATAAAAAAAT
1 CACCATTTTTGACAAATAAAAAAAT
* * *
1802950 TACTATTTTTGACAAACATAAAATAAT
1 CACCATTTTTGAC-AA-ATAAAAAAAT
*
1802977 CACCATTTTTAACAAATAAA
1 CACCATTTTTGACAAATAAA
1802997 GAGTGACTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 16 0.41
26 4 0.10
27 19 0.49
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (25 bp):
CACCATTTTTGACAAATAAAAAAAT
Found at i:1804088 original size:39 final size:38
Alignment explanation
Indices: 1804045--1804132 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 38
1804035 TTGATTAATC
1804045 TAAATTTAACA-ATTTTAAATATAAAATAAAAACAATA-AA
1 TAAATTTAACACA-TTT-AATA-AAAATAAAAACAATATAA
** * * *
1804084 TAAATGAAACACATTTAATAGACATAAAAATAATATAA
1 TAAATTTAACACATTTAATAAAAATAAAAACAATATAA
1804122 TAAATTTAACA
1 TAAATTTAACA
1804133 TGACACCACA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
37 12 0.30
38 15 0.38
39 12 0.30
40 1 0.03
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (38 bp):
TAAATTTAACACATTTAATAAAAATAAAAACAATATAA
Found at i:1804199 original size:2 final size:2
Alignment explanation
Indices: 1804194--1804240 Score: 71
Period size: 2 Copynumber: 24.0 Consensus size: 2
1804184 TAAAAAAGAA
1804194 AT AT AT A- AT A- AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1804235 AT AT AT
1 AT AT AT
1804241 GTGCGTGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.93
3 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1804494 original size:19 final size:19
Alignment explanation
Indices: 1804466--1804502 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1804456 TTTGGATCAA
*
1804466 TTTAATTTAAAATAATATT
1 TTTAAATTAAAATAATATT
1804485 TTTAAATTAAAATAATAT
1 TTTAAATTAAAATAATAT
1804503 ACTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAATTAAAATAATATT
Found at i:1804494 original size:24 final size:26
Alignment explanation
Indices: 1804464--1804530 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 26
1804454 TATTTGGATC
1804464 AATTTAATTTAAAATAATATT-TTTA
1 AATTTAATTTAAAATAATATTATTTA
** * * *
1804489 AA-TTAAAATAATATACTTTTATTTA
1 AATTTAATTTAAAATAATATTATTTA
1804514 AATTTAATTATAAAATA
1 AATTTAATT-TAAAATA
1804531 TATAAATATT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
24 13 0.42
25 8 0.26
26 4 0.13
27 6 0.19
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
AATTTAATTTAAAATAATATTATTTA
Found at i:1804820 original size:18 final size:18
Alignment explanation
Indices: 1804797--1804855 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
1804787 ATTTTTTATT
1804797 TTTATCTATTATTATTAC
1 TTTATCTATTATTATTAC
*
1804815 TTTATCT-TTAATGATT--
1 TTTATCTATT-ATTATTAC
1804831 TTTATAC-ATTATTATTAC
1 TTTAT-CTATTATTATTAC
1804849 TTTATCT
1 TTTATCT
1804856 TTAACTCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 10 0.30
17 6 0.18
18 17 0.52
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTATCTATTATTATTAC
Found at i:1804832 original size:34 final size:34
Alignment explanation
Indices: 1804794--1804859 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 34
1804784 TAAATTTTTT
1804794 ATTTTTAT-CTATTATTATTACTTTATCTTTAATG
1 ATTTTTATAC-ATTATTATTACTTTATCTTTAATG
1804828 ATTTTTATACATTATTATTACTTTATCTTTAA
1 ATTTTTATACATTATTATTACTTTATCTTTAA
1804860 CTCCTATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.61
Consensus pattern (34 bp):
ATTTTTATACATTATTATTACTTTATCTTTAATG
Found at i:1805399 original size:2 final size:2
Alignment explanation
Indices: 1805392--1805438 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1805382 ATCACGAAAC
1805392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1805434 TA TA T
1 TA TA T
1805439 GCAAGAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1805816 original size:22 final size:22
Alignment explanation
Indices: 1805787--1805846 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
1805777 TGTTTACAAA
1805787 TAAA-CTTGTTTATAAATCT-TT
1 TAAAGCTTGTTTATAAAT-TATT
1805808 TAAAGCTTGTTTATTAAATTATT
1 TAAAGCTTGTTTA-TAAATTATT
* *
1805831 TAAAGTTTTTTTATAA
1 TAAAGCTTGTTTATAA
1805847 CTCATTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 4 0.12
22 12 0.35
23 18 0.53
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (22 bp):
TAAAGCTTGTTTATAAATTATT
Found at i:1807419 original size:24 final size:23
Alignment explanation
Indices: 1807372--1807422 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1807362 TCACTAAATT
*
1807372 TTTAAATAACAATAATTAATTAA
1 TTTAAATAAAAATAATTAATTAA
*
1807395 TTTAAATAAAAATATTTTAATTAA
1 TTTAAATAAAAATA-ATTAATTAA
1807419 TTTA
1 TTTA
1807423 TTTCAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAAATAAAAATAATTAATTAA
Found at i:1808295 original size:27 final size:26
Alignment explanation
Indices: 1808260--1808353 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 26
1808250 AAGTCACCTA
1808260 TTTATTTGTCAAAAATGGTGGTTATT
1 TTTATTTGTCAAAAATGGTGGTTATT
* * *
1808286 TTGTATTTGTAAAAAATGGTAGTTTTCT
1 TT-TATTTGTCAAAAATGGTGGTTAT-T
* *
1808314 TTATATTTGTCAAATATGGAGGCTTA--
1 TT-TATTTGTCAAAAATGGTGG-TTATT
1808340 TTTATTTGTCAAAA
1 TTTATTTGTCAAAA
1808354 TTTGTAGCTA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
25 11 0.20
26 4 0.07
27 20 0.36
28 18 0.33
29 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (26 bp):
TTTATTTGTCAAAAATGGTGGTTATT
Found at i:1812813 original size:28 final size:27
Alignment explanation
Indices: 1812754--1812843 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 27
1812744 CACCCATTTG
* *
1812754 TTTGTCAAAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGGTGGTTATTTTATA
1812781 TTTGTCAAAAATGGTGGTT-TCCTTTATA
1 TTTGTCAAAAATGGTGGTTAT--TTTATA
* * * *
1812809 TTTGTCAAATATGGAGGCT-TGTT-TA
1 TTTGTCAAAAATGGTGGTTATTTTATA
1812834 TTTGTCAAAA
1 TTTGTCAAAA
1812844 TTTGTGGCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
25 11 0.20
26 3 0.06
27 19 0.35
28 21 0.39
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTATA
Found at i:1816228 original size:22 final size:21
Alignment explanation
Indices: 1816192--1816238 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
1816182 TGAGATCGTG
**
1816192 AATTTTAAATTTATTGAATATA
1 AATTTTAAAAATATT-AATATA
*
1816214 AATTTTAAAAATATTTATATA
1 AATTTTAAAAATATTAATATA
1816235 AATT
1 AATT
1816239 AATTAGACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTTTAAAAATATTAATATA
Found at i:1817277 original size:27 final size:29
Alignment explanation
Indices: 1817222--1817283 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
1817212 TTCACCCCCT
* **
1817222 TTTATTTTTTATTTAAAATTTTTTTATTA
1 TTTATTTTATATTTAAAATTTTTAAATTA
1817251 TTTATTTTAT-TTTAAAA-TTTTAAATTA
1 TTTATTTTATATTTAAAATTTTTAAATTA
1817278 TTTATT
1 TTTATT
1817284 CATTTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 14 0.47
28 7 0.23
29 9 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTATTTTATATTTAAAATTTTTAAATTA
Found at i:1817390 original size:16 final size:19
Alignment explanation
Indices: 1817376--1817410 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1817366 TGTTAAAATC
1817376 TTAAAA-AT-CATAAATGA
1 TTAAAATATGCATAAATGA
1817393 TTAAAATATGCATAAATG
1 TTAAAATATGCATAAATG
1817411 TTATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (19 bp):
TTAAAATATGCATAAATGA
Found at i:1817456 original size:26 final size:26
Alignment explanation
Indices: 1817427--1817509 Score: 114
Period size: 26 Copynumber: 3.1 Consensus size: 26
1817417 TATTTATAAT
*
1817427 TTTTATATAAATATAATTTTTAATTA
1 TTTTATATAAATAAAATTTTTAATTA
*
1817453 TTTTCAACATAAATAAAATTTTTAATTA
1 TTTT--ATATAAATAAAATTTTTAATTA
1817481 -TTTATTATAAATAAAATTTTTAATTA
1 TTTTA-TATAAATAAAATTTTTAATTA
1817507 TTT
1 TTT
1817510 ATTATATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
25 1 0.02
26 24 0.48
27 5 0.10
28 20 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTTATATAAATAAAATTTTTAATTA
Found at i:1817490 original size:22 final size:25
Alignment explanation
Indices: 1817418--1817515 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 25
1817408 ATGTTATTAT
* *
1817418 ATTTATAATT-TTTATATA-AATATA
1 ATTTTTAATTATTTAT-TATAATAAA
**
1817442 ATTTTTAATTATTTTCAACATAAATAAA
1 ATTTTTAATTA-TTT-ATTAT-AATAAA
1817470 ATTTTTAATTATTTATTATAAATAAA
1 ATTTTTAATTATTTATTAT-AATAAA
1817496 ATTTTTAATTATTTATTATA
1 ATTTTTAATTATTTATTATA
1817516 TATACATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 9 0.14
25 1 0.02
26 33 0.52
27 4 0.06
28 16 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTTTAATTATTTATTATAATAAA
Found at i:1817528 original size:26 final size:26
Alignment explanation
Indices: 1817461--1817515 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
1817451 TATTTTCAAC
1817461 ATAAATAAAATTTTTAATTATTTATT
1 ATAAATAAAATTTTTAATTATTTATT
1817487 ATAAATAAAATTTTTAATTATTTATT
1 ATAAATAAAATTTTTAATTATTTATT
1817513 ATA
1 ATA
1817516 TATACATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAAATAAAATTTTTAATTATTTATT
Found at i:1817715 original size:22 final size:23
Alignment explanation
Indices: 1817681--1817724 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
1817671 ACTATTTTTA
1817681 ATCTCACCGAAATCAA-TCTTAT
1 ATCTCACCGAAATCAACTCTTAT
*
1817703 ATCTCATCC-AAATGAACTCTTA
1 ATCTCA-CCGAAATCAACTCTTA
1817725 GTATGAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (23 bp):
ATCTCACCGAAATCAACTCTTAT
Found at i:1818870 original size:20 final size:21
Alignment explanation
Indices: 1818841--1818880 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1818831 TGCTTTGCAA
*
1818841 AATTTCAT-AATATTAAATAT
1 AATTTCATAAATATAAAATAT
*
1818861 AATTTTATAAATATAAAATA
1 AATTTCATAAATATAAAATA
1818881 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTCATAAATATAAAATAT
Found at i:1818889 original size:11 final size:12
Alignment explanation
Indices: 1818869--1818911 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
1818859 ATAATTTTAT
1818869 AAATATAAAATA
1 AAATATAAAATA
1818881 AAATA-AAAATA
1 AAATATAAAATA
* *
1818892 TAATATAATATA
1 AAATATAAAATA
1818904 AATATATA
1 AA-ATATA
1818912 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 10 0.38
12 11 0.42
13 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATATAAAATA
Found at i:1818892 original size:18 final size:18
Alignment explanation
Indices: 1818869--1818911 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1818859 ATAATTTTAT
1818869 AAATATAAAATAAAATAA
1 AAATATAAAATAAAATAA
* *
1818887 AAATATAATATAATATAA
1 AAATATAAAATAAAATAA
*
1818905 ATATATA
1 AAATATA
1818912 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATATAAAATAAAATAA
Found at i:1818896 original size:16 final size:16
Alignment explanation
Indices: 1818867--1818909 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
1818857 ATATAATTTT
* *
1818867 ATAAATATAAAATAAA
1 ATAAAAATATAATAAA
*
1818883 ATAAAAATATAATATA
1 ATAAAAATATAATAAA
*
1818899 ATATAAATATA
1 ATAAAAATATA
1818910 TATTTTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAAATATAATAAA
Found at i:1818915 original size:49 final size:46
Alignment explanation
Indices: 1818855--1819013 Score: 149
Period size: 48 Copynumber: 3.3 Consensus size: 46
1818845 TCATAATATT
* *
1818855 AAATATA-ATTTTATAAATATAAAATAAAATAAAAATATAATATAATA
1 AAATATATATTTTATAAA-AT-ATATAAAATAAAATTATAATATAATA
* * * *
1818902 TAAATATATATTTTTTAAAATTTATATAATATAAATTATTAATATATTA
1 -AAATATATATTTTATAAAATATATAAAATA-AAATTA-TAATATAATA
* * * * *
1818951 AAATTTATATTAATATAAAATATTTTAAATAAAATTATAATATGATA
1 AAATATATATT-TTATAAAATATATAAAATAAAATTATAATATAATA
1818998 AAATATCATATTTTAT
1 AAATAT-ATATTTTAT
1819014 TATATTATAT
Statistics
Matches: 89, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
47 23 0.26
48 35 0.39
49 31 0.35
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (46 bp):
AAATATATATTTTATAAAATATATAAAATAAAATTATAATATAATA
Found at i:1818929 original size:36 final size:32
Alignment explanation
Indices: 1818894--1818969 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
1818884 TAAAAATATA
* *
1818894 ATATAATATAAAT-A-TATATTTTTTAAAATTT
1 ATATAATATAAATAATTA-ATATATTAAAATTT
*
1818925 ATATAATATAAATTATTAATATATTAAAATTT
1 ATATAATATAAATAATTAATATATTAAAATTT
1818957 ATATTAATATAAA
1 ATA-TAATATAAA
1818970 ATATTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 13 0.32
32 16 0.40
33 11 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
ATATAATATAAATAATTAATATATTAAAATTT
Found at i:1818969 original size:17 final size:17
Alignment explanation
Indices: 1818917--1818971 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
1818907 ATATATTTTT
1818917 TAAAATTTATA-TAATA
1 TAAAATTTATATTAATA
*
1818933 T-AAA-TTAT-TAATATA
1 TAAAATTTATATTA-ATA
1818948 TTAAAATTTATATTAATA
1 -TAAAATTTATATTAATA
1818966 TAAAAT
1 TAAAAT
1818972 ATTTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 2 0.06
17 9 0.29
18 7 0.23
19 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAATTTATATTAATA
Found at i:1821846 original size:14 final size:13
Alignment explanation
Indices: 1821825--1821866 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
1821815 TAATATAATT
1821825 TTTAATATTTATA
1 TTTAATATTTATA
1821838 TTCTAATATTATATA
1 TT-TAATATT-TATA
*
1821853 TTTAATTTTTATA
1 TTTAATATTTATA
1821866 T
1 T
1821867 GATGTAAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 7 0.27
14 13 0.50
15 6 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATATTTATA
Found at i:1821920 original size:21 final size:23
Alignment explanation
Indices: 1821884--1821928 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1821874 GTGGTATAAA
1821884 TTATATAATATAAAAATAAT-ATT
1 TTATATAATATAAAAA-AATGATT
1821907 TTATATAAT-T-AAAAAATGATT
1 TTATATAATATAAAAAAATGATT
1821928 T
1 T
1821929 GGATCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 8 0.38
22 1 0.05
23 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTATATAATATAAAAAAATGATT
Found at i:1825531 original size:6 final size:6
Alignment explanation
Indices: 1825494--1825519 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1825484 ATTTATTAAA
1825494 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
1825520 AAATATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:1825815 original size:14 final size:14
Alignment explanation
Indices: 1825795--1825829 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
1825785 AATTTTTTTA
1825795 ATTTTTAAAATAAAT
1 ATTTTTAAAA-AAAT
1825810 -TTTTTAAAAAAAT
1 ATTTTTAAAAAAAT
1825823 ATTTTTA
1 ATTTTTA
1825830 TATATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTTTTAAAAAAAT
Found at i:1826243 original size:28 final size:26
Alignment explanation
Indices: 1826212--1826273 Score: 61
Period size: 29 Copynumber: 2.2 Consensus size: 26
1826202 TTTTATTTTT
* * *
1826212 TAATTTAAATTTTTTATTTTTTTAAATA
1 TAATTT-AATATTTTAATTTATT-AATA
1826240 TAATAATTAATATTTTAATTTATTAATA
1 TAAT--TTAATATTTTAATTTATTAATA
1826268 TAATTT
1 TAATTT
1826274 TTAAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 2 0.07
28 12 0.41
29 13 0.45
30 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TAATTTAATATTTTAATTTATTAATA
Found at i:1826350 original size:75 final size:73
Alignment explanation
Indices: 1826220--1826362 Score: 166
Period size: 75 Copynumber: 1.9 Consensus size: 73
1826210 TTTAATTTAA
* * **
1826220 ATTTTTTATTTTTTTAAATATAATAATTAATATTTTAATTTATTAATATAATTTTTAAAAATTTA
1 ATTTTTTATTTTATTAAAAATAATAATTAATATCCTAATTTATTAATATAATTTTT--AAATTTA
1826285 ATTAAATATT
64 ATTAAATATT
* *
1826295 ATTTTTTATTTTATTAAAAATAATAATTAATA-CCTGA-TT-TTAATATAAATTTTTTTTAATTT
1 ATTTTTTATTTTATTAAAAATAATAATTAATATCCTAATTTATTAATAT-AA--TTTTTAAATTT
1826357 AATTAA
63 AATTAA
1826363 TTTTTTTTGT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
72 7 0.12
73 15 0.25
74 2 0.03
75 35 0.59
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (73 bp):
ATTTTTTATTTTATTAAAAATAATAATTAATATCCTAATTTATTAATATAATTTTTAAATTTAAT
TAAATATT
Found at i:1826359 original size:21 final size:21
Alignment explanation
Indices: 1826333--1826377 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1826323 AATACCTGAT
1826333 TTTAATATAAATTTTTTT-TAA
1 TTTAAT-TAAATTTTTTTGTAA
*
1826354 TTTAATTAATTTTTTTTGTAA
1 TTTAATTAAATTTTTTTGTAA
1826375 TTT
1 TTT
1826378 CTCAACTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTAATTAAATTTTTTTGTAA
Found at i:1826447 original size:13 final size:13
Alignment explanation
Indices: 1826426--1826455 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1826416 TTCTTAATAG
1826426 ATATGTAAAAAAA
1 ATATGTAAAAAAA
*
1826439 ATATTTAAAAAAA
1 ATATGTAAAAAAA
1826452 ATAT
1 ATAT
1826456 ATTTTAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
ATATGTAAAAAAA
Found at i:1826492 original size:21 final size:22
Alignment explanation
Indices: 1826444--1826493 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
1826434 AAAAAATATT
1826444 TAAAAAAAATATATTTTAAGAA
1 TAAAAAAAATATATTTTAAGAA
* * *
1826466 TTAAAAAAAT-TATTTTCATAA
1 TAAAAAAAATATATTTTAAGAA
1826487 TAAAAAA
1 TAAAAAA
1826494 CCTAGAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAAAAAAATATATTTTAAGAA
Found at i:1828467 original size:51 final size:53
Alignment explanation
Indices: 1828410--1828530 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 53
1828400 TAGCCACCAA
* *
1828410 TTGACAAACA-ATAA-G-CCACCATTTTTTAC-AACGAAAAAAGAACCACTATTT
1 TTGACAAACACA-AAGGACCACCATTTTTGACAAAC-AAAAAAGAACCACCATTT
* * *
1828461 TTGACAAACACAAAGGAACCACCATTTTTGACAAACACAAAGGAACTACCATTT
1 TTGACAAACACAAAGG-ACCACCATTTTTGACAAACAAAAAAGAACCACCATTT
1828515 TTGACAAACACAAAGG
1 TTGACAAACACAAAGG
1828531 GTGACTTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
51 12 0.20
52 2 0.03
54 43 0.72
55 3 0.05
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.21
Consensus pattern (53 bp):
TTGACAAACACAAAGGACCACCATTTTTGACAAACAAAAAAGAACCACCATTT
Found at i:1828522 original size:27 final size:27
Alignment explanation
Indices: 1828425--1828530 Score: 151
Period size: 27 Copynumber: 3.9 Consensus size: 27
1828415 AAACAATAAG
* * *
1828425 CCACCATTTTTTAC-AACGAAAAAAGAA
1 CCACCATTTTTGACAAAC-ACAAAGGAA
*
1828452 CCACTATTTTTGACAAACACAAAGGAA
1 CCACCATTTTTGACAAACACAAAGGAA
1828479 CCACCATTTTTGACAAACACAAAGGAA
1 CCACCATTTTTGACAAACACAAAGGAA
*
1828506 CTACCATTTTTGACAAACACAAAGG
1 CCACCATTTTTGACAAACACAAAGG
1828531 GTGACTTTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
27 69 0.96
28 3 0.04
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (27 bp):
CCACCATTTTTGACAAACACAAAGGAA
Found at i:1828769 original size:20 final size:19
Alignment explanation
Indices: 1828744--1828783 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
1828734 TGAAGATTGT
* *
1828744 ATATCATATATTAAATATAA
1 ATATCAAATATAAAAT-TAA
1828764 ATATCAAATATAAAATTAA
1 ATATCAAATATAAAATTAA
1828783 A
1 A
1828784 AAAATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATCAAATATAAAATTAA
Found at i:1829438 original size:9 final size:9
Alignment explanation
Indices: 1829426--1829491 Score: 64
Period size: 9 Copynumber: 7.2 Consensus size: 9
1829416 AAATATGATA
1829426 TAATATATT
1 TAATATATT
1829435 TAATATATAT
1 TAATATAT-T
*
1829445 T-TTATATT
1 TAATATATT
*
1829453 TAAAAT-TT
1 TAATATATT
1829461 TAATATATT
1 TAATATATT
*
1829470 TAATAATTTT
1 TAAT-ATATT
1829480 TATATATATT
1 TA-ATATATT
1829490 TA
1 TA
1829492 TATTAGCAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 9 0.20
9 21 0.46
10 14 0.30
11 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TAATATATT
Found at i:1829485 original size:18 final size:18
Alignment explanation
Indices: 1829428--1829486 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
1829418 ATATGATATA
*
1829428 ATATATTTAATATATATTT
1 ATATATTTAATA-ATTTTT
*
1829447 -TATATTTAA-AATTTTA
1 ATATATTTAATAATTTTT
1829463 ATATATTTAATAATTTTT
1 ATATATTTAATAATTTTT
1829481 ATATAT
1 ATATAT
1829487 ATTTATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 4 0.11
17 10 0.29
18 21 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATATTTAATAATTTTT
Found at i:1830228 original size:15 final size:14
Alignment explanation
Indices: 1830203--1830235 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1830193 ATTTTTAAAA
*
1830203 TTTTTAAAATA-AT
1 TTTTTAAAAAATAT
1830216 TTTTTAAAAAATAT
1 TTTTTAAAAAATAT
1830230 TTTTTA
1 TTTTTA
1830236 TATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTTAAAAAATAT
Found at i:1833001 original size:11 final size:11
Alignment explanation
Indices: 1832985--1833025 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
1832975 ATTTCATATT
1832985 TTTTTTCTTTC
1 TTTTTTCTTTC
1832996 TTTTTTCTTCATC
1 TTTTTTCTT--TC
*
1833009 TTCTTTCTTTC
1 TTTTTTCTTTC
1833020 TTTTTT
1 TTTTTT
1833026 ACCTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:1833039 original size:24 final size:22
Alignment explanation
Indices: 1832985--1833039 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
1832975 ATTTCATATT
**
1832985 TTTTTTCTTTCTTTTTTCTTCA
1 TTTTTTCTTTCTTTTTTCTAAA
1833007 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTCTTTTTT--CTAAA
1833033 TTTTTTC
1 TTTTTTC
1833040 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 18 0.67
25 2 0.07
26 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTCTAAA
Found at i:1833415 original size:1 final size:1
Alignment explanation
Indices: 1833411--1833436 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1833401 TGGAAAGCCC
1833411 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
1833437 CGACCCCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1834239 original size:23 final size:24
Alignment explanation
Indices: 1834209--1834259 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
1834199 ATAATTAATA
1834209 TTTTAATTT-ATT-AATATAATTT
1 TTTTAATTTAATTAAATATAATTT
*
1834231 TTTTAAATTTAATTAAATATTATTT
1 TTTT-AATTTAATTAAATATAATTT
1834256 TTTT
1 TTTT
1834260 TATGCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 5 0.20
24 3 0.12
25 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAATTTAATTAAATATAATTT
Found at i:1834427 original size:15 final size:15
Alignment explanation
Indices: 1834397--1834444 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
1834387 AACAGATACA
1834397 TAAAAAAATATA-TT
1 TAAAAAAATATATTT
**
1834411 TAAAAATTTATATTT
1 TAAAAAAATATATTT
1834426 TAAAAAAATA-ATTT
1 TAAAAAAATATATTT
1834440 TAAAA
1 TAAAA
1834445 TTAAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAAAATATATTT
Found at i:1834708 original size:16 final size:16
Alignment explanation
Indices: 1834687--1834719 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1834677 ATCTGACTCC
1834687 TTTATTTATTTTT-TAA
1 TTTA-TTATTTTTCTAA
1834703 TTTATTATTTTTCTAA
1 TTTATTATTTTTCTAA
1834719 T
1 T
1834720 ATAATCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATTATTTTTCTAA
Found at i:1835349 original size:21 final size:20
Alignment explanation
Indices: 1835325--1835364 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1835315 TTTTTTGATA
1835325 GAGTAGTAATATATTTTAAGG
1 GAGTAGTAAT-TATTTTAAGG
* *
1835346 GAGTTGTAATTTTTTTAAG
1 GAGTAGTAATTATTTTAAG
1835365 AGATAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (20 bp):
GAGTAGTAATTATTTTAAGG
Found at i:1835985 original size:14 final size:14
Alignment explanation
Indices: 1835966--1835992 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1835956 TCCTTTTTTG
1835966 TTTTTTTGTTCTTT
1 TTTTTTTGTTCTTT
1835980 TTTTTTTGTTCTT
1 TTTTTTTGTTCTT
1835993 CATCTTGTTT
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:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (14 bp):
TTTTTTTGTTCTTT
Found at i:1836163 original size:17 final size:17
Alignment explanation
Indices: 1836141--1836174 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1836131 CTACTGTTAG
*
1836141 AAAATGAAAGATCCATT
1 AAAATGAAAGACCCATT
1836158 AAAATGAAAGACCCATT
1 AAAATGAAAGACCCATT
1836175 GAAGATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGAAAGACCCATT
Found at i:1837164 original size:17 final size:16
Alignment explanation
Indices: 1837129--1837169 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
1837119 TAAAATTAAA
*
1837129 ATATTAAATCAATAGT
1 ATATTAAATAAATAGT
*
1837145 ATATTAATATAAATATT
1 ATATTAA-ATAAATAGT
1837162 ATATTAAA
1 ATATTAAA
1837170 AACTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
ATATTAAATAAATAGT
Found at i:1837547 original size:20 final size:19
Alignment explanation
Indices: 1837522--1837564 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
1837512 TTTATAATTA
1837522 ATTTTAA-ATAAAAATATATT
1 ATTTTAATAT-AAAAT-TATT
1837542 ATTTTAATATAAAATTATT
1 ATTTTAATATAAAATTATT
1837561 ATTT
1 ATTT
1837565 CGATACGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTAATATAAAATTATT
Found at i:1837560 original size:19 final size:20
Alignment explanation
Indices: 1837522--1837564 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
1837512 TTTATAATTA
1837522 ATTTTAAATAAAAATATATT
1 ATTTTAAATAAAAATATATT
1837542 ATTTT-AATATAAAAT-TATT
1 ATTTTAAATA-AAAATATATT
1837561 ATTT
1 ATTT
1837565 CGATACGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTAAATAAAAATATATT
Found at i:1837944 original size:16 final size:18
Alignment explanation
Indices: 1837930--1837964 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1837920 TATATTAATT
1837930 TTTAAAAAAATTAATATA
1 TTTAAAAAAATTAATATA
1837948 TTT-AAAAAATT-ATATA
1 TTTAAAAAAATTAATATA
1837964 T
1 T
1837965 AATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 8 0.47
18 3 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTTAAAAAAATTAATATA
Found at i:1837986 original size:45 final size:43
Alignment explanation
Indices: 1837899--1837986 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 43
1837889 GTTAAATATA
*
1837899 AATATATTTAAATTTAATATATATATTAATTTTTAAAAAAATT
1 AATATATTTAAAATTAATATATATATTAATTTTTAAAAAAATT
* * *
1837942 AATATATTTAAAAAATT-ATATATAATATTTATTTTTTAATAAATT
1 AATATATTT--AAAATTAATATAT-ATATTAATTTTTAAAAAAATT
1837987 GTTAATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 9 0.24
44 6 0.16
45 23 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (43 bp):
AATATATTTAAAATTAATATATATATTAATTTTTAAAAAAATT
Found at i:1838806 original size:2 final size:2
Alignment explanation
Indices: 1838801--1838841 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1838791 AAAACGATTA
1838801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1838842 AAACAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1842290 original size:25 final size:24
Alignment explanation
Indices: 1842262--1842325 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
1842252 TTTTAATAAA
1842262 AAATAAAAT-AAAATTTAATTTAAT
1 AAATAAAATAAAAATTTAATTT-AT
*
1842286 CAAAT-AATTAAAAATTTAATTTAT
1 -AAATAAAATAAAAATTTAATTTAT
*
1842310 AAATTAAAATCAAAAT
1 AAA-TAAAATAAAAAT
1842326 AAAATAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 3 0.09
24 6 0.18
25 24 0.73
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATAAAATAAAAATTTAATTTAT
Found at i:1848098 original size:27 final size:25
Alignment explanation
Indices: 1848068--1848122 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
1848058 ATGACATAAA
* *
1848068 AATTATATTCAATTGAATAATATTTTT
1 AATTAAATT-AATTAAATAA-ATTTTT
*
1848095 AATTAAATTTATTAAATAAATTTTT
1 AATTAAATTAATTAAATAAATTTTT
1848120 AAT
1 AAT
1848123 AATTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 9 0.36
26 8 0.32
27 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
AATTAAATTAATTAAATAAATTTTT
Found at i:1848112 original size:23 final size:22
Alignment explanation
Indices: 1848089--1848143 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
1848079 ATTGAATAAT
1848089 ATTTTTAATTAAATTTATTAAATAA
1 ATTTTTAA-T-AATTTATTAAAT-A
* *
1848114 ATTTTTAATAATTTATTTATTA
1 ATTTTTAATAATTTATTAAATA
1848136 ATTTTTAA
1 ATTTTTAA
1848144 ATTTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 1 0.04
25 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTTAATAATTTATTAAATA
Found at i:1848114 original size:13 final size:12
Alignment explanation
Indices: 1848083--1848121 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
1848073 TATTCAATTG
1848083 AATAATATTTTTA
1 AATAA-ATTTTTA
*
1848096 ATTAAATTTATTA
1 AATAAATTT-TTA
1848109 AATAAATTTTTA
1 AATAAATTTTTA
1848121 A
1 A
1848122 TAATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
AATAAATTTTTA
Found at i:1848225 original size:32 final size:32
Alignment explanation
Indices: 1848189--1848283 Score: 83
Period size: 32 Copynumber: 3.1 Consensus size: 32
1848179 TGAATCATAT
1848189 AATTAAAATTTTTAATTTATAAATTAAAATTA
1 AATTAAAATTTTTAATTTATAAATTAAAATTA
** * * *
1848221 AATTAAAAAATTTAAATTATTATTTAAAA-TA
1 AATTAAAATTTTTAATTTATAAATTAAAATTA
* *
1848252 ATATT-AAATTATT-ATTTA-AAA-TAATATTA
1 A-ATTAAAATTTTTAATTTATAAATTAAAATTA
1848281 AAT
1 AAT
1848284 CGAATTCAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
28 6 0.12
29 4 0.08
30 4 0.08
31 8 0.16
32 27 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
AATTAAAATTTTTAATTTATAAATTAAAATTA
Found at i:1848245 original size:12 final size:12
Alignment explanation
Indices: 1848230--1848271 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
1848220 AAATTAAAAA
1848230 ATTTAAATTATT
1 ATTTAAATTATT
* *
1848242 ATTTAAAATAAT
1 ATTTAAATTATT
1848254 A-TTAAATTATT
1 ATTTAAATTATT
1848265 ATTTAAA
1 ATTTAAA
1848272 ATAATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTAAATTATT
Found at i:1848260 original size:37 final size:40
Alignment explanation
Indices: 1848189--1848262 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 40
1848179 TGAATCATAT
*
1848189 AATTAAAATTTTTAATTTATAAATTAAAATTAAATTAAAA
1 AATTAAAATTATTAATTTATAAATTAAAATTAAATTAAAA
* *
1848229 AATTTAAATTATT-ATTTA-AAA-TAATATTAAATTA
1 AATTAAAATTATTAATTTATAAATTAAAATTAAATTA
1848263 TTATTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 12 0.39
38 3 0.10
39 5 0.16
40 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (40 bp):
AATTAAAATTATTAATTTATAAATTAAAATTAAATTAAAA
Found at i:1848261 original size:23 final size:23
Alignment explanation
Indices: 1848223--1848283 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1848213 TAAAATTAAA
1848223 TTAAAA-AAT-TTAAATTATTAT
1 TTAAAATAATATTAAATTATTAT
1848244 TTAAAATAATATTAAATTATTAT
1 TTAAAATAATATTAAATTATTAT
1848267 TTAAAATAATATTAAAT
1 TTAAAATAATATTAAAT
1848284 CGAATTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.16
22 3 0.08
23 29 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAAATAATATTAAATTATTAT
Found at i:1848279 original size:12 final size:12
Alignment explanation
Indices: 1848230--1848279 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
1848220 AAATTAAAAA
* *
1848230 ATTTAAATTATT
1 ATTTAAAATAAT
1848242 ATTTAAAATAAT
1 ATTTAAAATAAT
* *
1848254 A-TTAAATTATT
1 ATTTAAAATAAT
1848265 ATTTAAAATAAT
1 ATTTAAAATAAT
1848277 ATT
1 ATT
1848280 AAATCGAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTAAAATAAT
Found at i:1848546 original size:17 final size:17
Alignment explanation
Indices: 1848524--1848556 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1848514 ACTAGAAAAA
1848524 TGAAAGATCC-ATTGAAC
1 TGAAAGA-CCAATTGAAC
1848541 TGAAAGACCAATTGAA
1 TGAAAGACCAATTGAA
1848557 AAGTGTCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (17 bp):
TGAAAGACCAATTGAAC
Found at i:1849399 original size:19 final size:17
Alignment explanation
Indices: 1849362--1849400 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
1849352 ATATTTTTAA
1849362 TTAAAATTTTAATAAAT
1 TTAAAATTTTAATAAAT
*
1849379 TTAATAATTTATAATATAT
1 TTAA-AATTT-TAATAAAT
1849398 TTA
1 TTA
1849401 CATTTACCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAAATTTTAATAAAT
Found at i:1849917 original size:15 final size:16
Alignment explanation
Indices: 1849891--1849925 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1849881 TGTTATTGTT
*
1849891 TTTTCTTTTGTCTTTC
1 TTTTCTTTTGTCTCTC
1849907 TTTTC-TTTGTCTCTC
1 TTTTCTTTTGTCTCTC
1849922 TTTT
1 TTTT
1849926 TCTTCTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.00, C:0.20, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTCTTTTGTCTCTC
Found at i:1849926 original size:16 final size:16
Alignment explanation
Indices: 1849890--1849929 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1849880 TTGTTATTGT
*
1849890 TTTTTCTTTTGTCTTTC
1 TTTTTC-TTTGTCTCTC
1849907 -TTTTCTTTGTCTCTC
1 TTTTTCTTTGTCTCTC
1849922 TTTTTCTT
1 TTTTTCTT
1849930 CTTTCTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (16 bp):
TTTTTCTTTGTCTCTC
Found at i:1852136 original size:21 final size:21
Alignment explanation
Indices: 1852110--1852149 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1852100 TTTAATAAAA
1852110 ATAAA-TTTTAAATATTTAATT
1 ATAAATTTTTAAAT-TTTAATT
1852131 ATAAATTTTTAAATTTTAA
1 ATAAATTTTTAAATTTTAA
1852150 ATACCAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAATTTTTAAATTTTAATT
Found at i:1852158 original size:22 final size:22
Alignment explanation
Indices: 1852115--1852159 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1852105 TAAAAATAAA
* *
1852115 TTTTAAATATTTAATTATAAAT
1 TTTTAAATATTTAAATACAAAT
1852137 TTTTAAAT-TTTAAATACCAAAT
1 TTTTAAATATTTAAATA-CAAAT
1852159 T
1 T
1852160 AAATCAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAATATTTAAATACAAAT
Found at i:1852388 original size:14 final size:15
Alignment explanation
Indices: 1852369--1852399 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1852359 AAATAATTTA
1852369 AATAA-TTTAAATAT
1 AATAATTTTAAATAT
1852383 AATAATTTTAAATAT
1 AATAATTTTAAATAT
1852398 AA
1 AA
1852400 AATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATTTTAAATAT
Found at i:1852521 original size:17 final size:19
Alignment explanation
Indices: 1852496--1852535 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
1852486 ACTTTATATT
*
1852496 TATACTTAA-AATTT-TAA
1 TATAATTAATAATTTATAA
1852513 TATAATTAATAATTTATAA
1 TATAATTAATAATTTATAA
1852532 TATA
1 TATA
1852536 TTTATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 5 0.25
19 7 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAATTAATAATTTATAA
Found at i:1852832 original size:6 final size:6
Alignment explanation
Indices: 1852811--1852843 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1852801 AATCCACAAA
1852811 TTAAA- TTAAA- TTAAAT TTAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
1852844 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TTAAAT
Found at i:1853707 original size:2 final size:2
Alignment explanation
Indices: 1853702--1853810 Score: 72
Period size: 2 Copynumber: 57.5 Consensus size: 2
1853692 TATAATATGC
*
1853702 AT AT AT AT AT AT AT AT AT AT -T TT AT AT A- AT AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
1853740 AT AT GAT -T TT A- AT GT AT CT AT CT A- AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1853780 ACT AA AA AT AT A- AA AT AT AT AT AT AT AT AT A
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1853811 GAGTATTTGA
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
1 8 0.09
2 74 0.86
3 4 0.05
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1853742 original size:30 final size:30
Alignment explanation
Indices: 1853706--1853809 Score: 81
Period size: 30 Copynumber: 3.5 Consensus size: 30
1853696 ATATGCATAT
*
1853706 ATATATATATATATATTTTATATAATATTA
1 ATATATATATATATATTCTATATAATATTA
* * * * *
1853736 ATATATATGAT-TTTAATGTATCT-AT-CTA
1 ATATATAT-ATATATATTCTATATAATATTA
* * *
1853764 ATATATATATATATATACTA-AAAATATAAA
1 ATATATATATATATATTCTATATAATAT-TA
1853794 ATATATATATATATAT
1 ATATATATATATATAT
1853810 AGAGTATTTG
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
27 2 0.04
28 17 0.30
29 2 0.04
30 33 0.59
31 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (30 bp):
ATATATATATATATATTCTATATAATATTA
Found at i:1857366 original size:13 final size:12
Alignment explanation
Indices: 1857334--1857383 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
1857324 TTCCTTTCTT
*
1857334 TTTTTAACATTA
1 TTTTTAATATTA
1857346 TTTTTAATATTA
1 TTTTTAATATTA
1857358 TTTATTAATATT-
1 TTT-TTAATATTA
*
1857370 TTTTGTATTATTA
1 TTTT-TAATATTA
1857383 T
1 T
1857384 ACTAGTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 1 0.03
12 23 0.70
13 9 0.27
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (12 bp):
TTTTTAATATTA
Found at i:1859463 original size:12 final size:12
Alignment explanation
Indices: 1859432--1859479 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1859422 TGACATCTTC
*
1859432 AGAAGAAGATGA
1 AGAAGAAGACGA
* *
1859444 TGATGAAGACGA
1 AGAAGAAGACGA
*
1859456 AGAAGAAGAAGA
1 AGAAGAAGACGA
*
1859468 AGCAGAAGACGA
1 AGAAGAAGACGA
1859480 CGACATCAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.54, C:0.06, G:0.33, T:0.06
Consensus pattern (12 bp):
AGAAGAAGACGA
Found at i:1859802 original size:6 final size:6
Alignment explanation
Indices: 1859791--1859815 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1859781 ATTAGTTTAA
1859791 AAATAT AAATAT AAATAT AAATAT A
1 AAATAT AAATAT AAATAT AAATAT A
1859816 TATTTTATTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:1859927 original size:17 final size:17
Alignment explanation
Indices: 1859903--1859943 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
1859893 TTAAAATATG
1859903 ATTTTTTTATTTTAACAA
1 ATTTTTTTATTTTAA-AA
*
1859921 ATTTTTTTATTTTTAAA
1 ATTTTTTTATTTTAAAA
1859938 ATTTTT
1 ATTTTT
1859944 AAAATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTTATTTTAAAA
Found at i:1859979 original size:22 final size:23
Alignment explanation
Indices: 1859937--1859984 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1859927 TTATTTTTAA
* *
1859937 AATTTTTAAAATAATAGTAAT-T
1 AATTTTTAAAATAAAAATAATAT
*
1859959 AATTTTTTAAATAAAAATAATAT
1 AATTTTTAAAATAAAAATAATAT
1859982 AAT
1 AAT
1859985 ATATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTTTTAAAATAAAAATAATAT
Found at i:1860353 original size:18 final size:17
Alignment explanation
Indices: 1860325--1860367 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
1860315 AAAGAGTCAT
*
1860325 ATTACTTTTCCCAAGAA
1 ATTACTTTTTCCAAGAA
1860342 ATTACTTTTTCCAAGAA
1 ATTACTTTTTCCAAGAA
1860359 ATTA-TTTTT
1 ATTACTTTTT
1860368 GTTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (17 bp):
ATTACTTTTTCCAAGAA
Found at i:1860924 original size:2 final size:2
Alignment explanation
Indices: 1860914--1860943 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
1860904 TTTTTTAATA
1860914 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
1860944 AACCCATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1861284 original size:15 final size:18
Alignment explanation
Indices: 1861265--1861305 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
1861255 AAAAATTATT
1861265 TATTTATTA-ATTTAA-A
1 TATTTATTATATTTAATA
*
1861281 -ATTTTTTATATTTAATA
1 TATTTATTATATTTAATA
1861298 TATTTATT
1 TATTTATT
1861306 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 6 0.30
17 1 0.05
18 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTATTATATTTAATA
Found at i:1862321 original size:43 final size:43
Alignment explanation
Indices: 1862270--1862363 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
1862260 AAATAAATAA
* *
1862270 TTTAAATATATTTAGTTCAATTTATATTAT-AT-TTTTAATTTTT
1 TTTAAATAT-TTTA-TTAAATTTATATTATAATAATTTAATTTTT
* *
1862313 TTTAAATATTTTATTAAATTTATTTTTTAATAATTTAATTTTT
1 TTTAAATATTTTATTAAATTTATATTATAATAATTTAATTTTT
1862356 TATTAAAT
1 T-TTAAAT
1862364 TTTAAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
41 12 0.27
42 6 0.14
43 20 0.45
44 6 0.14
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (43 bp):
TTTAAATATTTTATTAAATTTATATTATAATAATTTAATTTTT
Found at i:1862322 original size:41 final size:43
Alignment explanation
Indices: 1862277--1862367 Score: 100
Period size: 41 Copynumber: 2.2 Consensus size: 43
1862267 TAATTTAAAT
* *
1862277 ATATTTAGTTCAATTTATATTAT-AT-TTTTAATTTTTT-TTAA
1 ATATTTA-TTAAATTTATATTATAATAATTTAATTTTTTATTAA
* *
1862318 ATATTTTATTAAATTTATTTTTTAATAATTTAATTTTTTATTAA
1 ATA-TTTATTAAATTTATATTATAATAATTTAATTTTTTATTAA
1862362 AT-TTTA
1 ATATTTA
1862368 AAATATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
41 15 0.36
42 10 0.24
43 11 0.26
44 6 0.14
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (43 bp):
ATATTTATTAAATTTATATTATAATAATTTAATTTTTTATTAA
Found at i:1862601 original size:26 final size:26
Alignment explanation
Indices: 1862529--1862602 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
1862519 TAAATAAGTT
* *
1862529 TTTAAATATATTTAAGATTTTATTTTCA
1 TTTAAAT-TTTTTAA-ATATTATTTTCA
*
1862557 TTT--ATTTTTTAAATTTATTATTTTTA
1 TTTAAATTTTTTAAA--TATTATTTTCA
1862583 TTTAAATTTTTTAAATATTA
1 TTTAAATTTTTTAAATATTA
1862603 AATAAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 1 0.03
25 6 0.15
26 19 0.49
28 13 0.33
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTAAATTTTTTAAATATTATTTTCA
Found at i:1862620 original size:18 final size:19
Alignment explanation
Indices: 1862585--1862627 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
1862575 TATTTTTATT
1862585 TAAATTTTTTAAATATTAAA
1 TAAA-TTTTTAAATATTAAA
*
1862605 TAAATTTTTAAA-ATTAAT
1 TAAATTTTTAAATATTAAA
1862623 TAAAT
1 TAAAT
1862628 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 8 0.36
20 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATTTTTAAATATTAAA
Found at i:1862976 original size:24 final size:24
Alignment explanation
Indices: 1862932--1862979 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1862922 TATGTACTTA
*
1862932 AAATTTATATTTAAAATTAAAAAT
1 AAATTTATAATTAAAATTAAAAAT
*
1862956 AAATTT-TAATTATAATATAAAAAT
1 AAATTTATAATTAAAAT-TAAAAAT
1862980 TCATAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTTATAATTAAAATTAAAAAT
Found at i:1863584 original size:18 final size:20
Alignment explanation
Indices: 1863541--1863584 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
1863531 TTATGTAGTT
1863541 AATTTTATATTATTAATAAA
1 AATTTTATATTATTAATAAA
1863561 AA-TTTA-ATTA-TAA-AATA
1 AATTTTATATTATTAATAA-A
1863578 AATTTTA
1 AATTTTA
1863585 CTAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.09
17 6 0.27
18 8 0.36
19 4 0.18
20 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTTTATATTATTAATAAA
Found at i:1863966 original size:666 final size:663
Alignment explanation
Indices: 1862864--1864210 Score: 1713
Period size: 666 Copynumber: 2.0 Consensus size: 663
1862854 TTATTTTATA
* * * *
1862864 AATTTTAATTATTATTAATAAAAATTTAATTATAAATTAAGTTTTATTAAATAATATTTATGTAC
1 AATTTT-A-TATTATTAATAAAAATTTAATTATAAAATAAATTTTACTAAATAATAATTATGTAC
* * *
1862929 TTAAAATTTATATTTAAAATTAAAAATAAATTTTAATTATAATATAAAAATTCATAACTTTAAAT
64 TTAAAATTTATATTCAAAATTAAAAATAAATTTT-ATTATAATAAAAAAAATCATAACTTTAAAT
*
1862994 ATATCATTTAAAAATAAAATAATTAATGATATTTTTAAATTTTTAATTATTTTTAATAAAAATTA
128 ATATCATTTAAAAATAAAATAA-TAATGATA--TTGAAATTTTTAATTATTTTTAATAAAAATTA
* *
1863059 AATTTTATTAAATAATATTTATTTATTTAAATTTGCATTTAGAATAAAATATAAATTTTAAATTG
190 AATTTTATTAAATAATATTTATTTATTTAAATTTGCATTTAAAATAAAATATAAATTTTAAATCG
* * * *
1863124 ATCATATATCAACATGTAGATCTATTATTTTAAATATATTATTTAATTACACTAACGTATCAATA
255 ATCATACATCAACATGTAGATCCATCATTTTAAATATATTATTTAATTACACTAAAGTATCAATA
* * *
1863189 TACATAAACAAATAATCAATATGTAAAAATTTATATAAATTTATATTACTTTTAAATATACGAAA
320 TACATAAACAAATAATCAATACGTAAAAATTTATATAAATTTATACTACTTTTAAATATACAAAA
* *
1863254 AATAAATAACATGATATAAAAAACAATCAAAACATAATATAAAAATGAATATGACATGAATATGA
385 AATAAATAACATGATATAAAAAACAATCAAAACATAATATAAAAATGAATATGACACGAATATAA
* * * *
1863319 AAATATATAAATATATGTGTGTAAAATATTATACAAATTTATAATACTTTAAATAATAAAAAATA
450 AAACATATAAATATATATGTGTAAAATATTATACAAAATTATAATACTTTAAACAATAAAAAATA
* * *
1863384 ACATGAATATAAATATAAATATATTAAAATTTTCTTTTATTT-TTCTCTCCCGTTTTCTTTCTTT
515 ACACGAATATAAATATAAACATATT-AAATTTT-TTTTATTTCTTCTCT--CATTTTC--T-TTT
*** * *
1863448 TATTTTTTCTTTTTTTCTTTGCATCTTTCTCTC-TCG-CTGTTG-AAAAAACTCAAAAGCATAAC
573 TATTTTTTCTTTCCATCTTT-C-TCTTTC-C-CAT-GACTGCTGAAAAAAACTCAAAAGCAAAAC
* *
1863510 ATGTGTTAATACTAGATTTATTTATGTAGTT
633 ATGTGTCAATACCAGATTTATTTATGTAGTT
*
1863541 AATTTTATATTATTAATAAAAATTTAATTATAAAATAAATTTTACTAAATAATAATTATGTATTT
1 AATTTTATATTATTAATAAAAATTTAATTATAAAATAAATTTTACTAAATAATAATTATGTACTT
* * * * * *
1863606 AAAATTTGTATTCAAAATT-AAATTTAATTGTT-TTGTAAGTAAAAAAAATCATTA-TTTTAATC
66 AAAATTTATATTCAAAATTAAAAATAAATT-TTATTATAA-TAAAAAAAATCATAACTTTAAAT-
*
1863668 ATATCATTTAAAAATAAAAT-A-AAT-A-A-TGACATTTTTAATTATTTTTAATAAAAATTAAAT
128 ATATCATTTAAAAATAAAATAATAATGATATTGAAATTTTTAATTATTTTTAATAAAAATTAAAT
* ** * *
1863728 TTTATTAAATAATATTTATTT-TTTTAATTTGCATTTAAAATAGGATATGAATTTTAAATCGATG
193 TTTATTAAATAATATTTATTTATTTAAATTTGCATTTAAAATAAAATATAAATTTTAAATCGATC
* * *
1863792 GTACATCAAC-T-TAAGAATCCATCATTTTAAATATATTATTTAATTTCACTAAAGTGTCAAAAT
258 ATACATCAACATGT-AG-ATCCATCATTTTAAATATATTATTTAATTACACTAAAGTATC--AAT
* * * * * *
1863855 ATATATATATAAATAATTAATGCGTAAAAATTTATATAAATTTATACTA-TTTTAAATATATAAA
319 ATACATAAACAAATAATCAATACGTAAAAATTTATATAAATTTATACTACTTTTAAATATACAAA
* * * *
1863919 AAATAAA-AGCATGA-ACTAAAAAATAATTAAAACATAATATAAAAAATGAATATGATACGAATA
384 AAATAAATAACATGATA-TAAAAAACAATCAAAACATAATAT-AAAAATGAATATGACACGAATA
* * * *
1863982 TAAAAACATCTAAATATATATGTGTACAATATTATATAAAATTATAATATTTTAAACAATAAAAA
447 TAAAAACATATAAATATATATGTGTAAAATATTATACAAAATTATAATACTTTAAACAATAAAAA
* *
1864047 ATAATACGAATATAAATATAAACATATTAAATTTTTTTTATTTCCTTCTCTCATTTTCTTTTTCT
512 ATAACACGAATATAAATATAAACATATTAAATTTTTTTTATTT-CTTCTCTCATTTTCTTTTTAT
*
1864112 TTTTTCTTTCCATCTTTCTCTTTCCCATGACTGCTGAAAAAAAACTCGAAAGCAAAACATGTGTC
576 TTTTTCTTTCCATCTTTCTCTTTCCCATGACTGCTG-AAAAAAACTCAAAAGCAAAACATGTGTC
1864177 AATACCAGATTTATTTATGTAGTT
640 AATACCAGATTTATTTATGTAGTT
1864201 AATTTTATAT
1 AATTTTATAT
1864211 GTATGTATAG
Statistics
Matches: 589, Mismatches: 66, Indels: 47
0.84 0.09 0.07
Matches are distributed among these distances:
657 2 0.00
658 7 0.01
659 6 0.01
660 58 0.10
661 19 0.03
662 1 0.00
663 1 0.00
664 18 0.03
665 116 0.20
666 180 0.31
667 45 0.08
669 1 0.00
670 1 0.00
671 3 0.01
673 12 0.02
674 40 0.07
675 72 0.12
676 1 0.00
677 6 0.01
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (663 bp):
AATTTTATATTATTAATAAAAATTTAATTATAAAATAAATTTTACTAAATAATAATTATGTACTT
AAAATTTATATTCAAAATTAAAAATAAATTTTATTATAATAAAAAAAATCATAACTTTAAATATA
TCATTTAAAAATAAAATAATAATGATATTGAAATTTTTAATTATTTTTAATAAAAATTAAATTTT
ATTAAATAATATTTATTTATTTAAATTTGCATTTAAAATAAAATATAAATTTTAAATCGATCATA
CATCAACATGTAGATCCATCATTTTAAATATATTATTTAATTACACTAAAGTATCAATATACATA
AACAAATAATCAATACGTAAAAATTTATATAAATTTATACTACTTTTAAATATACAAAAAATAAA
TAACATGATATAAAAAACAATCAAAACATAATATAAAAATGAATATGACACGAATATAAAAACAT
ATAAATATATATGTGTAAAATATTATACAAAATTATAATACTTTAAACAATAAAAAATAACACGA
ATATAAATATAAACATATTAAATTTTTTTTATTTCTTCTCTCATTTTCTTTTTATTTTTTCTTTC
CATCTTTCTCTTTCCCATGACTGCTGAAAAAAACTCAAAAGCAAAACATGTGTCAATACCAGATT
TATTTATGTAGTT
Found at i:1864793 original size:30 final size:30
Alignment explanation
Indices: 1864759--1864819 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
1864749 TGTCAATTTT
*
1864759 AAATTTTTTATT-TACATTTAATGTTAAATA
1 AAATTATTTATTATA-ATTTAATGTTAAATA
*
1864789 AAATTATTTATTATATTTTAATGTTAAATA
1 AAATTATTTATTATAATTTAATGTTAAATA
1864819 A
1 A
1864820 CCTTAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (30 bp):
AAATTATTTATTATAATTTAATGTTAAATA
Found at i:1866881 original size:20 final size:19
Alignment explanation
Indices: 1866836--1866884 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
1866826 AATTATTTTA
*
1866836 ATTTAAATATATTATTAAAT
1 ATTTAAA-ATAATATTAAAT
*
1866856 A-ATAAAATAATATTAAAAT
1 ATTTAAAATAATATT-AAAT
1866875 ATTTAAAATA
1 ATTTAAAATA
1866885 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTAAAATAATATTAAAT
Found at i:1866882 original size:9 final size:9
Alignment explanation
Indices: 1866836--1866891 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
1866826 AATTATTTTA
1866836 ATTTAAATAT
1 ATTTAAA-AT
*
1866846 ATTATTAAAT
1 ATT-TAAAAT
*
1866856 A-ATAAAAT
1 ATTTAAAAT
1866864 AATATTAAAAT
1 -AT-TTAAAAT
1866875 ATTTAAAAT
1 ATTTAAAAT
1866884 ATTTAAAA
1 ATTTAAAA
1866892 AATATTTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
8 5 0.13
9 16 0.42
10 8 0.21
11 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:1866889 original size:18 final size:18
Alignment explanation
Indices: 1866836--1866891 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
1866826 AATTATTTTA
*
1866836 ATTTAAATATATTATTAAAT
1 ATTTAAA-ATATT-TAAAAT
*
1866856 A-ATAAAATAATATTAAAAT
1 ATTTAAAAT-AT-TTAAAAT
1866875 ATTTAAAATATTTAAAA
1 ATTTAAAATATTTAAAA
1866892 AATATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
18 8 0.27
19 14 0.47
20 8 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTAAAATATTTAAAAT
Found at i:1867805 original size:16 final size:16
Alignment explanation
Indices: 1867784--1867864 Score: 92
Period size: 16 Copynumber: 5.1 Consensus size: 16
1867774 GGTTAAGATC
*
1867784 ATTTTAAATTTTAATT
1 ATTTTAAATTTAAATT
* *
1867800 ATTTTAGATATAAATT
1 ATTTTAAATTTAAATT
1867816 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
* *
1867832 -TTTTTAATTTAAGTT
1 ATTTTAAATTTAAATT
*
1867847 GAATTTAAATTTAAATT
1 -ATTTTAAATTTAAATT
1867864 A
1 A
1867865 ATCATGATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
15 13 0.25
16 28 0.53
17 12 0.23
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:1871491 original size:22 final size:22
Alignment explanation
Indices: 1871448--1871512 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 22
1871438 TAATATTTTA
* * *
1871448 TTATTAAATTATATAATTATTAA
1 TTATTAATTTAT-TAATTAATAT
1871471 TTATTACTTATTTATTAATTAATAT
1 TTATTA---ATTTATTAATTAATAT
1871496 TTATTAATTTATTAATT
1 TTATTAATTTATTAATT
1871513 TTTTACATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 11 0.31
23 6 0.17
25 14 0.39
26 5 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATTAATTTATTAATTAATAT
Found at i:1871499 original size:18 final size:18
Alignment explanation
Indices: 1871464--1871511 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
1871454 AATTATATAA
*
1871464 TTATTAATTATTACTTAT
1 TTATTAATTAATACTTAT
*
1871482 TTATTAATTAATATTTAT
1 TTATTAATTAATACTTAT
* *
1871500 TAATTTATTAAT
1 TTATTAATTAAT
1871512 TTTTTACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTAATTAATACTTAT
Found at i:1872384 original size:22 final size:23
Alignment explanation
Indices: 1872356--1872399 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1872346 AGTTTTTACT
1872356 AATTAAA-ATAAAATTTAAAATA
1 AATTAAATATAAAATTTAAAATA
* *
1872378 AATTAAATTTAAATTTTAAAAT
1 AATTAAATATAAAATTTAAAAT
1872400 TATTATTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTAAATATAAAATTTAAAATA
Found at i:1872762 original size:22 final size:20
Alignment explanation
Indices: 1872728--1872767 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
1872718 ATGACATTTT
1872728 AATTTTTAAAATAATATAAA
1 AATTTTTAAAATAATATAAA
*
1872748 AATTTATTATAAATATTATA
1 AATTT-TTA-AAATAATATA
1872768 TATTTATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 3 0.18
22 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTTAAAATAATATAAA
Found at i:1872827 original size:35 final size:35
Alignment explanation
Indices: 1872782--1872863 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
1872772 TATATCTTAC
* * * * *
1872782 ATATTTTATATCTAAAATTTATGTTATATATGTAT
1 ATATATTATATCTAAAACTCATGTAATATATATAT
*
1872817 ATATATTATATCTAAAGCTCATGTAATATATATAT
1 ATATATTATATCTAAAACTCATGTAATATATATAT
1872852 ATATATATATAT
1 ATATAT-TATAT
1872864 ATATATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 35 0.88
36 5 0.12
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (35 bp):
ATATATTATATCTAAAACTCATGTAATATATATAT
Found at i:1872849 original size:2 final size:2
Alignment explanation
Indices: 1872842--1872879 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1872832 AGCTCATGTA
1872842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1872880 CTCATTCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.