Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 91 of 109
Found at i:18221611 original size:19 final size:19
Alignment explanation
Indices: 18221575--18221614 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18221565 TAAATTAATC
* **
18221575 AATAGATAATTAGGTTTTA
1 AATAGAAAATTAAATTTTA
18221594 AATAGAAAATTAAATTTTA
1 AATAGAAAATTAAATTTTA
18221613 AA
1 AA
18221615 AAATAAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
AATAGAAAATTAAATTTTA
Found at i:18224275 original size:12 final size:13
Alignment explanation
Indices: 18224258--18224293 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
18224248 GTTTGGAAAA
18224258 AAATTTTATAAG-
1 AAATTTTATAAGT
18224270 AAATTTTATAAGT
1 AAATTTTATAAGT
*
18224283 AAACTTTATAA
1 AAATTTTATAA
18224294 AACTTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (13 bp):
AAATTTTATAAGT
Found at i:18224331 original size:20 final size:20
Alignment explanation
Indices: 18224306--18224351 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18224296 CTTTTAGTTA
*
18224306 AAAATAAGTAAATCA-AAATT
1 AAAATAA-TAAATAATAAATT
18224326 AAAATAATAAATAATAAATT
1 AAAATAATAAATAATAAATT
18224346 AAAATA
1 AAAATA
18224352 TTTCGTCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATAATAAATAATAAATT
Found at i:18225983 original size:19 final size:18
Alignment explanation
Indices: 18225956--18225992 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
18225946 AAATTTGGTA
18225956 CTATCAAATAATTAATTAT
1 CTATCAAATAATT-ATTAT
*
18225975 CTATGAAATAATTATTAT
1 CTATCAAATAATTATTAT
18225993 ATCAAGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (18 bp):
CTATCAAATAATTATTAT
Found at i:18232740 original size:151 final size:151
Alignment explanation
Indices: 18232466--18232755 Score: 445
Period size: 151 Copynumber: 1.9 Consensus size: 151
18232456 ACAATACGAA
* * * *
18232466 GAGAAATTCGAGCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCGAATTTAATTCTCC
1 GAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCAAATTCAATTCTCC
* *
18232531 AAATATAATATATTTAAATTTTATTTTAAAAAAAAATTACTTTAATCTAATTAAATTTTATATCA
66 AAATAAAATATATTTAAAATTTATTTTAAAAAAAAATTACTTTAATCTAATTAAATTTTATATCA
*
18232596 GTTTCATATTAATAATGCAAG
131 GCTTCATATTAATAATGCAAG
* * * * *
18232617 GAGAAATTCAACCATTAGGTTTTAGTTTTTTTCTTTTATTATGGTAATTTCAAATTCAATTCTCC
1 GAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCAAATTCAATTCTCC
* * *
18232682 AAATAAAATATATTTAAAATTTATTTTTAAACAAAATTACTTTGATCTAATTAAATTTTATATCA
66 AAATAAAATATATTTAAAATTTATTTTAAAAAAAAATTACTTTAATCTAATTAAATTTTATATCA
18232747 GCTTCATAT
131 GCTTCATAT
18232756 CAACATCTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
151 124 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (151 bp):
GAGAAATTCAACCATTAGGTTTCAGCTTTTATCTTTAATTAAGGTAATTTCAAATTCAATTCTCC
AAATAAAATATATTTAAAATTTATTTTAAAAAAAAATTACTTTAATCTAATTAAATTTTATATCA
GCTTCATATTAATAATGCAAG
Found at i:18233355 original size:12 final size:12
Alignment explanation
Indices: 18233338--18233362 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18233328 TGTGGGTCCC
18233338 TTAACTCCCCAT
1 TTAACTCCCCAT
18233350 TTAACTCCCCAT
1 TTAACTCCCCAT
18233362 T
1 T
18233363 ACACCCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAACTCCCCAT
Found at i:18238015 original size:17 final size:17
Alignment explanation
Indices: 18237989--18238035 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
18237979 TTAATATTTG
18237989 TTTAAATTATTTTTATT
1 TTTAAATTATTTTTATT
*
18238006 TTTAATTTATTTTTATAAT
1 TTTAAATTATTTTTAT--T
*
18238025 TTAAAATTATT
1 TTTAAATTATT
18238036 AAATTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
19 10 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAAATTATTTTTATT
Found at i:18238218 original size:42 final size:42
Alignment explanation
Indices: 18238150--18238258 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
18238140 ACTTAGCACC
* *
18238150 CTCAAGATCAAGATC-T-TCTTCACTTAACTGTATCTCAACGCG
1 CTCAAGATCAGGATCATCTCTT--CTTAACTGTATCTCAACACG
* * * *
18238192 CTCAAGATCAGGATGATCTCTTCTTAATTGTGTCTCAACACT
1 CTCAAGATCAGGATCATCTCTTCTTAACTGTATCTCAACACG
* *
18238234 CTCGATATCAGGATCATCTCTTCTT
1 CTCAAGATCAGGATCATCTCTTCTT
18238259 GATTGTACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 51 0.91
43 1 0.02
44 4 0.07
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.35
Consensus pattern (42 bp):
CTCAAGATCAGGATCATCTCTTCTTAACTGTATCTCAACACG
Found at i:18238264 original size:42 final size:42
Alignment explanation
Indices: 18238198--18238319 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
18238188 CGCGCTCAAG
* *
18238198 ATCAGGATGATCTCTTCTTAATTGTGTCTCAACACTCTCGAT
1 ATCAGGATCATCTCTTCTTGATTGTGTCTCAACACTCTCGAT
* * * *
18238240 ATCAGGATCATCTCTTCTTGATTGT-ACTTGAACAATCTGGAT
1 ATCAGGATCATCTCTTCTTGATTGTGTC-TCAACACTCTCGAT
* * * *
18238282 -TGCAAGATCATCTCTTCTCGACTGTGTCTCAGCACTCT
1 AT-CAGGATCATCTCTTCTTGATTGTGTCTCAACACTCT
18238320 TCCCCCACAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (42 bp):
ATCAGGATCATCTCTTCTTGATTGTGTCTCAACACTCTCGAT
Found at i:18239622 original size:19 final size:19
Alignment explanation
Indices: 18239586--18239625 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18239576 TAAATTAATC
* **
18239586 AATAGATAATTAGGTTTTA
1 AATAGAAAATTAAATTTTA
18239605 AATAGAAAATTAAATTTTA
1 AATAGAAAATTAAATTTTA
18239624 AA
1 AA
18239626 AAATAAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
AATAGAAAATTAAATTTTA
Found at i:18242277 original size:12 final size:13
Alignment explanation
Indices: 18242260--18242295 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
18242250 GTTTGGAAAA
18242260 AAATTTTATAAG-
1 AAATTTTATAAGT
18242272 AAATTTTATAAGT
1 AAATTTTATAAGT
*
18242285 AAACTTTATAA
1 AAATTTTATAA
18242296 AACTTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (13 bp):
AAATTTTATAAGT
Found at i:18242333 original size:20 final size:20
Alignment explanation
Indices: 18242308--18242353 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18242298 CTTTTAGTTA
*
18242308 AAAATAAGTAAATCA-AAATT
1 AAAATAA-TAAATAATAAATT
18242328 AAAATAATAAATAATAAATT
1 AAAATAATAAATAATAAATT
18242348 AAAATA
1 AAAATA
18242354 TTTCGTCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATAATAAATAATAAATT
Found at i:18243724 original size:16 final size:15
Alignment explanation
Indices: 18243691--18243724 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
18243681 ATTAAAATAT
*
18243691 TATTTTTTTTGTTTA
1 TATTTTTTTTATTTA
18243706 TATTTTTTTTATTTGA
1 TATTTTTTTTATTT-A
18243722 TAT
1 TAT
18243725 AACACTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
TATTTTTTTTATTTA
Found at i:18243987 original size:19 final size:18
Alignment explanation
Indices: 18243960--18243996 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
18243950 TAAATTTGTA
18243960 CTATCAAATAATTAATTAT
1 CTATCAAATAATT-ATTAT
*
18243979 CTATGAAATAATTATTAT
1 CTATCAAATAATTATTAT
18243997 ATCAAGTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (18 bp):
CTATCAAATAATTATTAT
Found at i:18253028 original size:14 final size:15
Alignment explanation
Indices: 18253004--18253032 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18252994 AAAATTAAAA
18253004 TTTTCAAAAAATTCG
1 TTTTCAAAAAATTCG
18253019 TTTT-AAAAAATTCG
1 TTTTCAAAAAATTCG
18253033 AAAAGTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (15 bp):
TTTTCAAAAAATTCG
Found at i:18253294 original size:14 final size:13
Alignment explanation
Indices: 18253275--18253305 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18253265 TTAAAAAATT
*
18253275 AAAAAAAATCAAA
1 AAAAAAAAACAAA
18253288 AAAAAAAAACAAA
1 AAAAAAAAACAAA
18253301 AAAAA
1 AAAAA
18253306 TGGCATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:18256830 original size:151 final size:152
Alignment explanation
Indices: 18256540--18256844 Score: 361
Period size: 151 Copynumber: 2.0 Consensus size: 152
18256530 TCAAAGGATG
* * * *
18256540 TTTTGTGGTGAAAAAGTATGTTTGAAATTAAAAAAAAAATTATATTATCCTAATATTTCTAAATT
1 TTTTATGGTGAAAAAGTATGTTTCAAATTAAAAAAAAAATTATATTATCCCAATATTTCTAAAAT
* ** * **
18256605 TTTATTATTTTATGCATATTTTTTTTAGATATTTTAATTACTAATATCACTATTTAAATGTATTA
66 TTTATTATTCTAT-CATATTACTTTTAGATATGTTAATTACTAATATCACTATTTAAAAATATTA
*
18256670 TTTCCAATCCAAAATTTTTCTAAC
130 TTTCAAATCCAAAATTTTTC-AAC
* * *
18256694 TTTTATGGTGAAAAA-TGTGTTTCAAA-T-AAAAATATATTATATTATCCCAATATTTCTAAAAT
1 TTTTATGGTGAAAAAGTATGTTTCAAATTAAAAAAAAAATTATATTATCCCAATATTTCTAAAAT
* *
18256756 TTTATTATTCTAT-ATATATACTTTTAGATATGTTAATT-TTACATATCAC-ATTTTAAACAATT
66 TTTATTATTCTATCATAT-TACTTTTAGATATGTTAATTACTA-ATATCACTA-TTTAAA-AATA
*
18256818 TTTTTTCAAATCCAAAATTTTTCAAC
127 TTATTTCAAATCCAAAATTTTTCAAC
18256844 T
1 T
18256845 GCAATAGCAA
Statistics
Matches: 130, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
149 7 0.05
150 34 0.26
151 65 0.50
152 1 0.01
153 9 0.07
154 14 0.11
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (152 bp):
TTTTATGGTGAAAAAGTATGTTTCAAATTAAAAAAAAAATTATATTATCCCAATATTTCTAAAAT
TTTATTATTCTATCATATTACTTTTAGATATGTTAATTACTAATATCACTATTTAAAAATATTAT
TTCAAATCCAAAATTTTTCAAC
Found at i:18266993 original size:54 final size:53
Alignment explanation
Indices: 18266867--18267028 Score: 270
Period size: 54 Copynumber: 3.0 Consensus size: 53
18266857 TCTATCCGAC
* * *
18266867 AGAAAATATCAAACAAAATCATAATCTCATGAGGTGCAAACCCCAAAGAAAAA
1 AGAAAATATTAAACAAAATCATAATCTCATAAGGCGCAAACCCCAAAGAAAAA
18266920 AGAAAATATTAAACAAAATCATAATCTCATAAGGCGCAAACACCCAAAGAAAAA
1 AGAAAATATTAAACAAAATCATAATCTCATAAGGCGCAAAC-CCCAAAGAAAAA
*
18266974 AGAAAATATTAAACCAAATCATAATCTCATAAGGCGCAAACCCCCAAAGAAAAA
1 AGAAAATATTAAACAAAATCATAATCTCATAAGGCGCAAA-CCCCAAAGAAAAA
18267028 A
1 A
18267029 TTAAGTCCAA
Statistics
Matches: 103, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
53 38 0.37
54 64 0.62
55 1 0.01
ACGTcount: A:0.56, C:0.20, G:0.10, T:0.15
Consensus pattern (53 bp):
AGAAAATATTAAACAAAATCATAATCTCATAAGGCGCAAACCCCAAAGAAAAA
Found at i:18270157 original size:21 final size:21
Alignment explanation
Indices: 18270133--18270174 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18270123 GTGAAGTTCT
18270133 TATACAATAACAAAAGAGATA
1 TATACAATAACAAAAGAGATA
18270154 TATACAATAACAAAAGAGATA
1 TATACAATAACAAAAGAGATA
18270175 GGAGTTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (21 bp):
TATACAATAACAAAAGAGATA
Found at i:18271969 original size:27 final size:27
Alignment explanation
Indices: 18271796--18271969 Score: 141
Period size: 27 Copynumber: 6.4 Consensus size: 27
18271786 CCTTTAAACA
* * *
18271796 CTCATTCACCAGCTGGGGCTTTGAATC
1 CTCATTCTCCACCTGGGGCTTTGGATC
* * * * **
18271823 CTCAATGTCTAGCTGGGGCTTCAGATC
1 CTCATTCTCCACCTGGGGCTTTGGATC
* ** * * * *
18271850 ATCATTCTCCTGCTGAGACTTTGAACC
1 CTCATTCTCCACCTGGGGCTTTGGATC
* * * *
18271877 CACACTCTCCAGCTGGGCCTTTGGATC
1 CTCATTCTCCACCTGGGGCTTTGGATC
* *
18271904 ATCATTCTCCACCTGGGGCTTTGGACC
1 CTCATTCTCCACCTGGGGCTTTGGATC
18271931 CTCATTCTCCACCTGGGGCTTTGGATC
1 CTCATTCTCCACCTGGGGCTTTGGATC
*
18271958 CTCATCCTCCAC
1 CTCATTCTCCAC
18271970 TTGGATATTA
Statistics
Matches: 112, Mismatches: 35, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (27 bp):
CTCATTCTCCACCTGGGGCTTTGGATC
Found at i:18274088 original size:17 final size:17
Alignment explanation
Indices: 18274066--18274099 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18274056 TTATTTGATG
*
18274066 TTAATGATATATATTTT
1 TTAATGAGATATATTTT
18274083 TTAATGAGATATATTTT
1 TTAATGAGATATATTTT
18274100 AAATTCAATT
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:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
TTAATGAGATATATTTT
Found at i:18275016 original size:8 final size:8
Alignment explanation
Indices: 18274976--18275026 Score: 63
Period size: 8 Copynumber: 6.8 Consensus size: 8
18274966 TTTTATTTTT
18274976 TATTTATA
1 TATTTATA
18274984 TA--TATA
1 TATTTATA
18274990 TATTTATA
1 TATTTATA
*
18274998 TAATTATA
1 TATTTATA
*
18275006 TATTTAAA
1 TATTTATA
18275014 TATTT-TA
1 TATTTATA
18275021 TATTTA
1 TATTTA
18275027 AAAAAATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 6 0.17
7 6 0.17
8 24 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTTATA
Found at i:18275039 original size:24 final size:25
Alignment explanation
Indices: 18275012--18275061 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
18275002 TATATATTTA
18275012 AATATTTTATAT-TTAAAAAAATAT
1 AATATTTTATATCTTAAAAAAATAT
*
18275036 AATATTTTATATCTTTAAAAAATAT
1 AATATTTTATATCTTAAAAAAATAT
18275061 A
1 A
18275062 TTTTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AATATTTTATATCTTAAAAAAATAT
Found at i:18277328 original size:16 final size:16
Alignment explanation
Indices: 18277303--18277342 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
18277293 GAATTTAATT
*
18277303 ATTCAT-AAATTAACT
1 ATTCATGAAATTAACA
*
18277318 GTTCATGAAATTAACA
1 ATTCATGAAATTAACA
18277334 ATTCATGAA
1 ATTCATGAA
18277343 TTCATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTCATGAAATTAACA
Found at i:18285654 original size:22 final size:19
Alignment explanation
Indices: 18285629--18285673 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 19
18285619 TGAAACAGAT
18285629 AATAATAATTTATTAATCAATA
1 AATAATAATTT-TTAA--AATA
*
18285651 AATATTAATTTTTAAAATA
1 AATAATAATTTTTAAAATA
18285670 AATA
1 AATA
18285674 TATACAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
21 4 0.18
22 10 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAATAATTTTTAAAATA
Found at i:18288334 original size:629 final size:629
Alignment explanation
Indices: 18287109--18288359 Score: 1855
Period size: 629 Copynumber: 2.0 Consensus size: 629
18287099 TGACAGCAAT
* ** *
18287109 ACACTTTAGCCAATTGTCACTTGTTTGCCTGGCAAACACCATTGGCACATCAAGTGCGTATCTAT
1 ACACCTTAGCCAATTGTCACTTGTTTGCCTAACAAACACCATTGGCACATCAAGCGCGTATCTAT
* ***
18287174 GCACATTCATGTTTCTGTCAATATAATCTACCTAAACCTTGGAATCTAGGTGTCTTTCCTAATTG
66 GCACATTCACGTTTCTGTCAATATAATCTACCTAAACCTTGGAATCTAGCCATCTTTCCTAATTG
*
18287239 TATGCATGGGTGCATAAAGAAAATTTTCAGGATCTCTAAGAACCTGGTGCCTTTCCTTGTTTTCT
131 TATGCATGGGTGCATAAAGAAAATTTTCAGGATCTCAAAGAACCTGGTGCCTTTCCTTGTTTTCT
* ** *
18287304 AGGTTGGGCATCGCTTTATGTTGAAGTTTCATTCACAAAGAGACTGGCTTAACTATTGTAACTTT
196 AGGTTGGGCATAGCTTTATGCGGAAGTTTCATTCACAAAGAGACTGGCTTAACCATTGTAACTTT
*
18287369 GTAGGCATTGAATCTCTTTTTATGTCTTTGCATTTTTAAATGACGAGTGTCGAGTAAAGTGGCAC
261 CTAGGCATTGAATCTCTTTTTATGTCTTTGCATTTTTAAATGACGAGTGTCGAGTAAAGTGGCAC
* ** *
18287434 CAACACAACCAGCATGTTCTCTAGGCTGACTGTATATTCCTAAAAGCCAATACTGGAAAAATGCT
326 CAACACAACCAGCATGTTCTCTAGGCTGACTGTACATTCCTAAAAGCCAATACCAGAAAAATACT
* *
18287499 ATCTTTATCAAGGTATACTTATACTGCACAGGCTCAATATGATCCACTTTTGGTTTCCCGTTGTA
391 ATCTCTATCAAGGTATACATATACTGCACAGGCTCAATATGATCCACTTTTGGTTTCCCGTTGTA
* * * ** *
18287564 ACAGGATGAACCAAGCAAAGGTGCAGAAGTGCCTATTTTAGCCCCTGAACAAAGCCAAATAAAAA
456 ACAGGATGAAACAAGAAAAGGAGCAGAAGCACCTAGTTTAGCCCCTGAACAAAGCCAAATAAAAA
* * *
18287629 ATTTGCCATCTCTGCATCCCACTACAGCAGACGTACAACAGGTATCCTTTGTTCCCTTCATCAGT
521 ATGTGCCATCTCTGCATCCCACTACAGCAGACATACAACAGGTATCCTTTGTTCCCCTCATCAGT
* *
18287694 TTCTCTTCTTAACACCCTACATTTGTGTTGTTTCTGACAGTGAC
586 TTCTCTTCTTAACAACCTACATTTGTGTCGTTTCTGACAGTGAC
* * * *
18287738 ACACCTTAGCTAATTGTCACTTGTTTTTCC-AACAAACACCATTGGCACATCATGCGTGTATCTA
1 ACACCTTAGCCAATTGTCACTTG-TTTGCCTAACAAACACCATTGGCACATCAAGCGCGTATCTA
* * * *
18287802 TGCACATTCACGTTTCTTTCAATATAATCTACCTGAATCTTGGAATCTAGCCATCTTTCTTAATT
65 TGCACATTCACGTTTCTGTCAATATAATCTACCTAAACCTTGGAATCTAGCCATCTTTCCTAATT
* * *
18287867 GTATGCATGGGTGCGTAAAGAAAATTTTCAGGATGTCAAAGAACCATGGTGCCTTTCTTTGTTTT
130 GTATGCATGGGTGCATAAAGAAAATTTTCAGGATCTCAAAGAACC-TGGTGCCTTTCCTTGTTTT
*
18287932 CTAGGTTGGGCATAGCTTTATGCGGAGGTTTCATTCACAAAGAGACTGGCTTAACCATTGTAAC-
194 CTAGGTTGGGCATAGCTTTATGCGGAAGTTTCATTCACAAAGAGACTGGCTTAACCATTGTAACT
* *
18287996 TTCTAGGCATTGGATCTCTTTTTATGTCTTTGCATTTTTAAATGACGAGTGTCGAGT-GAGATGG
259 TTCTAGGCATTGAATCTCTTTTTATGTCTTTGCATTTTTAAATGACGAGTGTCGAGTAAAG-TGG
* * * **
18288060 CAGCAACACAACCTGCCTGTTCTCTAGGCTGACTGTACATTCCTAAAAGCTGATACCAGAAAAAT
323 CACCAACACAACCAGCATGTTCTCTAGGCTGACTGTACATTCCTAAAAGCCAATACCAGAAAAAT
* * * *
18288125 ACTATCTCTATCTA-GTTTCACATATACTTCACAGGCTCAATATGATCCACTTTTGGTGTT-CCT
388 ACTATCTCTATCAAGGTAT-ACATATACTGCACAGGCTCAATATGATCCACTTTTGGT-TTCCCG
* * *
18288188 TTGTTACAGGATGAAACAAGAAAAGGAGTAGAAGCACCTAGTTTAGCCCCTGAAGAAAGCCAAAT
451 TTGTAACAGGATGAAACAAGAAAAGGAGCAGAAGCACCTAGTTTAGCCCCTGAACAAAGCCAAAT
* * *
18288253 AAAAACTGTGTCATCTCTGCATCCCACTACATCAGACATACAACAGGTATCCTTTGTTCCCCTCA
516 AAAAAATGTGCCATCTCTGCATCCCACTACAGCAGACATACAACAGGTATCCTTTGTTCCCCTCA
* * *
18288318 TCGGTTTCTTTTCTTAACAACTTACATTTGTGTCGTTTCTGA
581 TCAGTTTCTCTTCTTAACAACCTACATTTGTGTCGTTTCTGA
18288360 TTCGTAACCT
Statistics
Matches: 554, Mismatches: 63, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
628 5 0.01
629 465 0.84
630 84 0.15
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (629 bp):
ACACCTTAGCCAATTGTCACTTGTTTGCCTAACAAACACCATTGGCACATCAAGCGCGTATCTAT
GCACATTCACGTTTCTGTCAATATAATCTACCTAAACCTTGGAATCTAGCCATCTTTCCTAATTG
TATGCATGGGTGCATAAAGAAAATTTTCAGGATCTCAAAGAACCTGGTGCCTTTCCTTGTTTTCT
AGGTTGGGCATAGCTTTATGCGGAAGTTTCATTCACAAAGAGACTGGCTTAACCATTGTAACTTT
CTAGGCATTGAATCTCTTTTTATGTCTTTGCATTTTTAAATGACGAGTGTCGAGTAAAGTGGCAC
CAACACAACCAGCATGTTCTCTAGGCTGACTGTACATTCCTAAAAGCCAATACCAGAAAAATACT
ATCTCTATCAAGGTATACATATACTGCACAGGCTCAATATGATCCACTTTTGGTTTCCCGTTGTA
ACAGGATGAAACAAGAAAAGGAGCAGAAGCACCTAGTTTAGCCCCTGAACAAAGCCAAATAAAAA
ATGTGCCATCTCTGCATCCCACTACAGCAGACATACAACAGGTATCCTTTGTTCCCCTCATCAGT
TTCTCTTCTTAACAACCTACATTTGTGTCGTTTCTGACAGTGAC
Found at i:18290175 original size:112 final size:109
Alignment explanation
Indices: 18289986--18290199 Score: 383
Period size: 112 Copynumber: 1.9 Consensus size: 109
18289976 CAAAAGAGAT
18289986 TTTTTCTTTTTTTTTTTTTTCTACCTCCACATTATGAGTGACACATATTTGATAGCATGGCTTCT
1 TTTTTCTTTTTTTTTTTTTTCTACCTCCACATTATGAGTGACACATATTTGATAGCATGGCTTCT
* *
18290051 AACCCATTTCTATCTCTCCCCCCTCCCTTTAACCTTGAAGAGGG
66 AACACATATCTATCTCTCCCCCCTCCCTTTAACCTTGAAGAGGG
18290095 TTTTTCTTTTTTTATTTTTTTTCTACCGTCCACATTATGAGTGACACATATTTGATAGCATGGCT
1 TTTTTC-TTTTTT-TTTTTTTTCTACC-TCCACATTATGAGTGACACATATTTGATAGCATGGCT
18290160 TCTAACACATATCTATCTCTCCCCCCTCCCTTTAACCTTG
63 TCTAACACATATCTATCTCTCCCCCCTCCCTTTAACCTTG
18290200 CCACTTAGCC
Statistics
Matches: 100, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
109 6 0.06
110 6 0.06
111 13 0.13
112 75 0.75
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.44
Consensus pattern (109 bp):
TTTTTCTTTTTTTTTTTTTTCTACCTCCACATTATGAGTGACACATATTTGATAGCATGGCTTCT
AACACATATCTATCTCTCCCCCCTCCCTTTAACCTTGAAGAGGG
Found at i:18295760 original size:12 final size:12
Alignment explanation
Indices: 18295743--18295768 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18295733 TAGAAACGCC
18295743 GAGCCTAGAACA
1 GAGCCTAGAACA
18295755 GAGCCTAGAACA
1 GAGCCTAGAACA
18295767 GA
1 GA
18295769 AGAAGAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.27, T:0.08
Consensus pattern (12 bp):
GAGCCTAGAACA
Found at i:18298043 original size:20 final size:20
Alignment explanation
Indices: 18298005--18298043 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18297995 GAGTTTGTGT
* *
18298005 GCTATTATTATTATTTATTA
1 GCTATTATAATTATATATTA
*
18298025 GCTATTATAATTCTATATT
1 GCTATTATAATTATATATT
18298044 GACTATCTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (20 bp):
GCTATTATAATTATATATTA
Found at i:18298959 original size:357 final size:357
Alignment explanation
Indices: 18298297--18299011 Score: 1421
Period size: 357 Copynumber: 2.0 Consensus size: 357
18298287 CCACTTGGAG
18298297 TGAAGAGTCAGGCTGCAACTGTTTTAGGCTCACTCTGTAAGGAGAATGAACTAAAGGTTAAAGTT
1 TGAAGAGTCAGGCTGCAACTGTTTTAGGCTCACTCTGTAAGGAGAATGAACTAAAGGTTAAAGTT
18298362 TTGCTTGGGGGCTGCATACCACCATTGCTTGGCCCCCTCGAGTCCAACTCAGCAGAAGGTCAAGT
66 TTGCTTGGGGGCTGCATACCACCATTGCTTGGCCCCCTCGAGTCCAACTCAGCAGAAGGTCAAGT
18298427 TGCAGCAGCTAAGACCATCTATGCTGTTTCACAGGGTGGTGCCAAGGATCATGTTGGATCAAAGA
131 TGCAGCAGCTAAGACCATCTATGCTGTTTCACAGGGTGGTGCCAAGGATCATGTTGGATCAAAGA
18298492 TTTTTTCAACTCAGGGAGTTATGGCAGTGCTTTGGAAGCTGCTACAGGATGGTCTCAAAACAGAA
196 TTTTTTCAACTCAGGGAGTTATGGCAGTGCTTTGGAAGCTGCTACAGGATGGTCTCAAAACAGAA
18298557 GACTTGGTTGATAACTTATTGACTGGAGCATTAAAAAACCTCTCAAGCAGCACATAGGGATTTTG
261 GACTTGGTTGATAACTTATTGACTGGAGCATTAAAAAACCTCTCAAGCAGCACATAGGGATTTTG
18298622 GTCAGCGACAGTACAGGATGGAGCAATTGATA
326 GTCAGCGACAGTACAGGATGGAGCAATTGATA
*
18298654 TGAAGATTCAGGCTGCAACTGTTTTAGGCTCACTCTGTAAGGAGAATGAACTAAAGGTTAAAGTT
1 TGAAGAGTCAGGCTGCAACTGTTTTAGGCTCACTCTGTAAGGAGAATGAACTAAAGGTTAAAGTT
18298719 TTGCTTGGGGGCTGCATACCACCATTGCTTGGCCCCCTCGAGTCCAACTCAGCAGAAGGTCAAGT
66 TTGCTTGGGGGCTGCATACCACCATTGCTTGGCCCCCTCGAGTCCAACTCAGCAGAAGGTCAAGT
18298784 TGCAGCAGCTAAGACCATCTATGCTGTTTCACAGGGTGGTGCCAAGGATCATGTTGGATCAAAGA
131 TGCAGCAGCTAAGACCATCTATGCTGTTTCACAGGGTGGTGCCAAGGATCATGTTGGATCAAAGA
18298849 TTTTTTCAACTCAGGGAGTTATGGCAGTGCTTTGGAAGCTGCTACAGGATGGTCTCAAAACAGAA
196 TTTTTTCAACTCAGGGAGTTATGGCAGTGCTTTGGAAGCTGCTACAGGATGGTCTCAAAACAGAA
18298914 GACTTGGTTGATAACTTATTGACTGGAGCATTAAAAAACCTCTCAAGCAGCACATAGGGATTTTG
261 GACTTGGTTGATAACTTATTGACTGGAGCATTAAAAAACCTCTCAAGCAGCACATAGGGATTTTG
18298979 GTCAGCGACAGTACAGGATGGAGCAATTGATA
326 GTCAGCGACAGTACAGGATGGAGCAATTGATA
18299011 T
1 T
18299012 ACTTGTAAAG
Statistics
Matches: 357, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
357 357 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (357 bp):
TGAAGAGTCAGGCTGCAACTGTTTTAGGCTCACTCTGTAAGGAGAATGAACTAAAGGTTAAAGTT
TTGCTTGGGGGCTGCATACCACCATTGCTTGGCCCCCTCGAGTCCAACTCAGCAGAAGGTCAAGT
TGCAGCAGCTAAGACCATCTATGCTGTTTCACAGGGTGGTGCCAAGGATCATGTTGGATCAAAGA
TTTTTTCAACTCAGGGAGTTATGGCAGTGCTTTGGAAGCTGCTACAGGATGGTCTCAAAACAGAA
GACTTGGTTGATAACTTATTGACTGGAGCATTAAAAAACCTCTCAAGCAGCACATAGGGATTTTG
GTCAGCGACAGTACAGGATGGAGCAATTGATA
Found at i:18307045 original size:40 final size:41
Alignment explanation
Indices: 18306996--18307080 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 41
18306986 ATATTACATT
18306996 AATTATAGAT-T-ATAATTCAAATATTATATTAAAATTTTTAA
1 AATTATAGATATCAT-ATT-AAATATTATATTAAAATTTTTAA
* * *
18307037 AATT-TAGATATCATATTAAATATTTTATTATAA-TTTAAA
1 AATTATAGATATCATATTAAATATTATATTAAAATTTTTAA
18307076 AATTA
1 AATTA
18307081 ATCCTACATG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
39 9 0.24
40 19 0.50
41 8 0.21
42 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (41 bp):
AATTATAGATATCATATTAAATATTATATTAAAATTTTTAA
Found at i:18308269 original size:20 final size:20
Alignment explanation
Indices: 18308227--18308269 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
18308217 TATTCCTATA
* **
18308227 AATATATAAAAAAAATATCT
1 AATAAATAAAAAAAATAAAT
*
18308247 AATAAATAAAAAATATAAAT
1 AATAAATAAAAAAAATAAAT
18308267 AAT
1 AAT
18308270 GTGAATAGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAATAAAAAAAATAAAT
Found at i:18309489 original size:21 final size:21
Alignment explanation
Indices: 18309463--18309510 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
18309453 TCTAGGAGTG
*
18309463 ATCTAGATGAAAATT-GAAGAA
1 ATCTAGA-AAAAATTAGAAGAA
18309484 ATCTAGAAAAAATTAGAAGAA
1 ATCTAGAAAAAATTAGAAGAA
18309505 ATCTAG
1 ATCTAG
18309511 GTTTTTGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (21 bp):
ATCTAGAAAAAATTAGAAGAA
Found at i:18311651 original size:484 final size:480
Alignment explanation
Indices: 18310725--18311675 Score: 996
Period size: 484 Copynumber: 2.0 Consensus size: 480
18310715 AAATATTTAA
* * * *
18310725 AAAAATAGATAGAAATTAAAAATAAATTGATAAAGCAAATAAGTGAGAACAAATATAAAATCAGT
1 AAAAATAGATAAAAATTAAAAATAAATTGATAAAGCAAACAAGTGAGAAAAAATATAAAATCAAT
* * * *
18310790 ATCATTTGACCTAAAATAAGTAATAAGTGTTGTAACACATTAAGAAAAAGAGTTATAACAATTTT
66 ATCATTTGACATAAAATAAGTAAAAAGTGTCGTAACACATTAAGAAAAAGAGTTATAACAATTCT
* * *
18310855 AAATATAATAGAAAAGTAAACAACCGTAAGAAAAAATTATTGTAAAGTAAATAATTATGTTGACA
131 AAATATAATAGAAAAATAAACAACCGTAAGAAAAAATTATTGTAAAGAAAATAATTATGTCGACA
* * * * * *
18310920 ATTTTAAATTTTAATTAATTATTGTTCTTGTAAATATATTAGAAAAATAGCTAAAATAAAAAAAT
196 ATTTAAAATTTTAACTAATTATTATTCTTGTAAATATATAAGAAAAATAACTAAAATAAAAAAAC
* * * * * * * * * *
18310985 AAATTGATAATGTAAATAAGTGAGAAACATAAAATTAGTATCATTTAATGTGAAATAGGTAAGAA
261 AAATAGATAACGTAAAAAAGTGAAAAAAAGAAAATTAGTATAATTTAATGTAAAATAAGTAAAAA
* * * * * * * *
18311050 ATGTCATAAAATGCCAAGAAAGAGTTATGACAATTCTTAATGTAATGGAAAGTAAGAACAATTAT
326 ATATCATAAAATACCAAGAAAAAATAATGACAATTCTTAATATAATGAAAAGTAAGAACAATCAT
* * * *
18311115 AAAACTATATTATTATAATATAAACAATCATAATGATAATTTAAAATTTTAATTAATTATTGTTC
391 AAAACAAAATTATTATAACATAAACAAT-ATAATGATAATATAAAATTTTAATTAATTATT-TTC
*
18311180 TTGTATATAATATATATATATATAAAAG
454 TTGTAAAT-ATATATATATATATAAAAG
* * * * *
18311208 AAAAATAGTTAAAAATTAAAAAATAAATT-AGTTATGTAAACAAGTGAGAAAAAATATAAAATTA
1 AAAAATAGATAAAAATT-AAAAATAAATTGA-TAAAGCAAACAAGTGAGAAAAAATATAAAATCA
** * * *
18311272 ATA-CTATTTGGTATAAAAT-AGATAAAAAGTGTCGTAATACATT-A-AAAAA-AGTTATGATAA
64 ATATC-ATTTGACATAAAATAAG-TAAAAAGTGTCGTAACACATTAAGAAAAAGAGTTATAACAA
* * * *
18311332 TTCTAAATATAAT-GAAAAATAAGAATAACTGTAAGAATATATTATTGTAACA-AAAATAATTAT
127 TTCTAAATATAATAGAAAAAT-A-AACAACCGTAAGAAAAAATTATTGTAA-AGAAAATAATTAT
* * * *
18311395 GTCGATAATTTAAAATTTTAACTAATTATTATT-TTTTAAATATATAAGGAATATAACTAAAAAT
189 GTCGACAATTTAAAATTTTAACTAATTATTATTCTTGTAAATATATAAGAAAAATAACT-AAAAT
* * *
18311459 TAAAAAACAAATAGGTAACGTAAAAAAGTGAAAAAAAAAGGAAAATTAGTATAATTTAGCT-TAA
253 AAAAAAACAAATAGATAACGTAAAAAAGTG--AAAAAAA-GAAAATTAGTATAATTTA-ATGTAA
* **
18311523 AATAAGTAAAAAATATCATAACATATTAAGAAAAAATAATGACAATT-TTAAATATAAT-AAAAG
314 AATAAGTAAAAAATATCATAAAATACCAAGAAAAAATAATGACAATTCTT-AATATAATGAAAA-
* * *
18311586 GTAAGAACAATCATAAAA-AAAATTATTCTAACATAAATAAT-TAAGTTG-TCAATATAAAGTTT
377 GTAAGAACAATCATAAAACAAAATTATTATAACATAAACAATATAA--TGAT-AATATAAAATTT
* *
18311648 TAATTATTTATTTTTTTGTAAATATATA
439 TAATTAATTATTTTCTTGTAAATATATA
18311676 AGAAAAATAG
Statistics
Matches: 382, Mismatches: 69, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
480 6 0.02
481 42 0.11
482 103 0.27
483 31 0.08
484 120 0.31
485 79 0.21
486 1 0.00
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.32
Consensus pattern (480 bp):
AAAAATAGATAAAAATTAAAAATAAATTGATAAAGCAAACAAGTGAGAAAAAATATAAAATCAAT
ATCATTTGACATAAAATAAGTAAAAAGTGTCGTAACACATTAAGAAAAAGAGTTATAACAATTCT
AAATATAATAGAAAAATAAACAACCGTAAGAAAAAATTATTGTAAAGAAAATAATTATGTCGACA
ATTTAAAATTTTAACTAATTATTATTCTTGTAAATATATAAGAAAAATAACTAAAATAAAAAAAC
AAATAGATAACGTAAAAAAGTGAAAAAAAGAAAATTAGTATAATTTAATGTAAAATAAGTAAAAA
ATATCATAAAATACCAAGAAAAAATAATGACAATTCTTAATATAATGAAAAGTAAGAACAATCAT
AAAACAAAATTATTATAACATAAACAATATAATGATAATATAAAATTTTAATTAATTATTTTCTT
GTAAATATATATATATATATAAAAG
Found at i:18313628 original size:2 final size:2
Alignment explanation
Indices: 18313621--18313649 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18313611 TTTCCAATTT
18313621 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18313650 TAAAAATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18314964 original size:43 final size:43
Alignment explanation
Indices: 18314899--18315022 Score: 203
Period size: 43 Copynumber: 2.9 Consensus size: 43
18314889 CCCTTAATAC
* * * *
18314899 AAAGAAAAAAAAGAACAGTTGCTCAAATAGACCATTGACATAA
1 AAAGAAAAAGAAGAAAAATTGCTCAAATAGACCATTGACACAA
18314942 AAAGAAAAAGAAGAAAAATTGCTCAAATAGACCATTGACACAA
1 AAAGAAAAAGAAGAAAAATTGCTCAAATAGACCATTGACACAA
*
18314985 AAAGAAAAAGAAGAAAAATTGCTTAAATAGACCATTGA
1 AAAGAAAAAGAAGAAAAATTGCTCAAATAGACCATTGA
18315023 TATTGAGTAA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.57, C:0.12, G:0.15, T:0.16
Consensus pattern (43 bp):
AAAGAAAAAGAAGAAAAATTGCTCAAATAGACCATTGACACAA
Found at i:18320015 original size:20 final size:20
Alignment explanation
Indices: 18319977--18320013 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
18319967 TAAACAAACT
18319977 AATAAATTAAAATATAAATA
1 AATAAATTAAAATATAAATA
*
18319997 AATAAATT-CAATATAAA
1 AATAAATTAAAATATAAA
18320014 ATTGAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAAATTAAAATATAAATA
Found at i:18321721 original size:32 final size:35
Alignment explanation
Indices: 18321662--18321729 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 35
18321652 ACATGTTTAA
*
18321662 AAATAATTTGTATATATATATATTATTTAT-TTTTT
1 AAATAATTTGTATATATATATAATATTT-TGTTTTT
18321697 AAAT-ATTT-TATATA-ATATAATATTTTGTTTTT
1 AAATAATTTGTATATATATATAATATTTTGTTTTT
18321729 A
1 A
18321730 TTATGATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
31 1 0.03
32 16 0.52
33 6 0.19
34 4 0.13
35 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (35 bp):
AAATAATTTGTATATATATATAATATTTTGTTTTT
Found at i:18322113 original size:17 final size:17
Alignment explanation
Indices: 18322091--18322124 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18322081 TAATAATAAA
* *
18322091 ATTATTTTGATGATTAT
1 ATTATTATGATAATTAT
18322108 ATTATTATGATAATTAT
1 ATTATTATGATAATTAT
18322125 GAAAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
ATTATTATGATAATTAT
Found at i:18322668 original size:29 final size:30
Alignment explanation
Indices: 18322616--18322687 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
18322606 CTATTTTTTA
** *
18322616 AAAATAAA-TTTTATTTTTTTATTT-TATT
1 AAAATAAATTTTTACATTTTAATTTATATT
*
18322644 TAAATAAATTTTTACATTTTAATTTATATT
1 AAAATAAATTTTTACATTTTAATTTATATT
*
18322674 AAAATAAGTTTTTA
1 AAAATAAATTTTTA
18322688 TTTCAAATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 7 0.19
29 13 0.36
30 16 0.44
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
AAAATAAATTTTTACATTTTAATTTATATT
Found at i:18322690 original size:28 final size:27
Alignment explanation
Indices: 18322608--18322690 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 27
18322598 GAATTATTCT
* *
18322608 ATTTT-TTAAAAATAAATTTTATTTTTTT
1 ATTTTATT-AAAATAAATTTT-TATTTTA
*
18322636 ATTTTATTTAAATAAATTTTTACATTTTA
1 ATTTTATTAAAATAAATTTTT--ATTTTA
*
18322665 ATTTATATTAAAATAAGTTTTTATTT
1 ATTT-TATTAAAATAAATTTTTATTT
18322691 CAAATGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
27 1 0.02
28 20 0.43
29 10 0.22
30 15 0.33
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
ATTTTATTAAAATAAATTTTTATTTTA
Found at i:18324415 original size:3 final size:3
Alignment explanation
Indices: 18324407--18324452 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
18324397 CTAAATAATG
*
18324407 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT CGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
18324453 TTTTTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.33
Consensus pattern (3 bp):
AGT
Found at i:18331497 original size:9 final size:9
Alignment explanation
Indices: 18331483--18331507 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18331473 TTATGATTAA
18331483 GAAATTTAT
1 GAAATTTAT
18331492 GAAATTTAT
1 GAAATTTAT
18331501 GAAATTT
1 GAAATTT
18331508 TAGGGTTAAG
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:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (9 bp):
GAAATTTAT
Found at i:18346836 original size:14 final size:13
Alignment explanation
Indices: 18346817--18346855 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
18346807 TGTCTACATC
18346817 TTTAATATAAAAGA
1 TTTAATATAAAA-A
18346831 TTTAAT-TAAAAA
1 TTTAATATAAAAA
18346843 TTTAATA-AAAAA
1 TTTAATATAAAAA
18346855 T
1 T
18346856 CTAAATTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 13 0.54
13 5 0.21
14 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
TTTAATATAAAAA
Found at i:18347925 original size:7 final size:7
Alignment explanation
Indices: 18347913--18347955 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
18347903 ACCAATAGGT
18347913 ATGAAAG
1 ATGAAAG
18347920 ATGAAAG
1 ATGAAAG
*
18347927 CTGAAAG
1 ATGAAAG
18347934 ATGAAAG
1 ATGAAAG
*
18347941 CTGAAAG
1 ATGAAAG
*
18347948 CTGAAAG
1 ATGAAAG
18347955 A
1 A
18347956 AGTTAGATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.51, C:0.07, G:0.28, T:0.14
Consensus pattern (7 bp):
ATGAAAG
Found at i:18347933 original size:14 final size:14
Alignment explanation
Indices: 18347914--18347954 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
18347904 CCAATAGGTA
18347914 TGAAAGATGAAAGC
1 TGAAAGATGAAAGC
18347928 TGAAAGATGAAAGC
1 TGAAAGATGAAAGC
*
18347942 TGAAAGCTGAAAG
1 TGAAAGATGAAAG
18347955 AAGTTAGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.29, T:0.15
Consensus pattern (14 bp):
TGAAAGATGAAAGC
Found at i:18347939 original size:21 final size:21
Alignment explanation
Indices: 18347913--18347955 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
18347903 ACCAATAGGT
18347913 ATGAAAGATGAAAGCTGAAAG
1 ATGAAAGATGAAAGCTGAAAG
*
18347934 ATGAAAGCTGAAAGCTGAAAG
1 ATGAAAGATGAAAGCTGAAAG
18347955 A
1 A
18347956 AGTTAGATAG
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:0.51, C:0.07, G:0.28, T:0.14
Consensus pattern (21 bp):
ATGAAAGATGAAAGCTGAAAG
Found at i:18355906 original size:24 final size:25
Alignment explanation
Indices: 18355879--18355929 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
18355869 ACTTAATATA
18355879 TATTTTA-AT-AAATTTAAACAAATT
1 TATTTTATATCAAA-TTAAACAAATT
*
18355903 TA-TTTATATCAAATTAAATAAATT
1 TATTTTATATCAAATTAAACAAATT
18355927 TAT
1 TAT
18355930 AAAAAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
23 4 0.17
24 16 0.70
25 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTTTATATCAAATTAAACAAATT
Found at i:18355928 original size:34 final size:34
Alignment explanation
Indices: 18355885--18355965 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
18355875 TATATATTTT
*
18355885 AATAAATTTA-AACAAATT-TATTTATATCAAATT-A
1 AATAAATTTATAAAAAATTCT-TTT-TAT-AAATTCA
18355919 AATAAATTTATAAAAAATTCTTTTTATAAATTCA
1 AATAAATTTATAAAAAATTCTTTTTATAAATTCA
*
18355953 AATTAATTTATAA
1 AATAAATTTATAA
18355966 GGGCTTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 5 0.12
34 26 0.62
35 10 0.24
36 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (34 bp):
AATAAATTTATAAAAAATTCTTTTTATAAATTCA
Found at i:18356291 original size:18 final size:19
Alignment explanation
Indices: 18356268--18356315 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
18356258 TATTTTTTAT
*
18356268 ATATTTATTTAA-AAATTA
1 ATATTTATTTAATAAAATA
18356286 ATATTTA-TTAATAAAATA
1 ATATTTATTTAATAAAATA
18356304 ATA-TTATTTAAT
1 ATATTTATTTAAT
18356316 TTATTGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTTATTTAATAAAATA
Found at i:18356292 original size:26 final size:26
Alignment explanation
Indices: 18356244--18356293 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
18356234 TCAATAAATA
* * *
18356244 ATTTTTTTAAAAAATATTTTTTATAT
1 ATTTATTTAAAAAATAATATTTATAT
*
18356270 ATTTATTTAAAAATTAATATTTAT
1 ATTTATTTAAAAAATAATATTTAT
18356294 TAATAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTTATTTAAAAAATAATATTTATAT
Found at i:18356412 original size:18 final size:18
Alignment explanation
Indices: 18356370--18356412 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
18356360 TATTAAATAT
18356370 AAATTTTTTTAACAAAAA
1 AAATTTTTTTAACAAAAA
* * *
18356388 AATATTTTTTTGATAAGAA
1 AA-ATTTTTTTAACAAAAA
18356407 AAATTT
1 AAATTT
18356413 AAAGATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
AAATTTTTTTAACAAAAA
Found at i:18357416 original size:31 final size:31
Alignment explanation
Indices: 18357380--18357443 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
18357370 TCATGTTTTG
18357380 TTGTCCTTTTATGGAAATGTAAGGAGAAACA
1 TTGTCCTTTTATGGAAATGTAAGGAGAAACA
18357411 TTGTCCTTTTATGGAAATGTAAGGAGAAACA
1 TTGTCCTTTTATGGAAATGTAAGGAGAAACA
18357442 TT
1 TT
18357444 CTTATTTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (31 bp):
TTGTCCTTTTATGGAAATGTAAGGAGAAACA
Found at i:18367294 original size:17 final size:18
Alignment explanation
Indices: 18367260--18367305 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
18367250 GCTCTAACTG
*
18367260 AGTAAATATAAGCTCTTA
1 AGTAAATATTAGCTCTTA
18367278 AGTAAATATTA-CTCTTA
1 AGTAAATATTAGCTCTTA
*
18367295 AGCAAATATTA
1 AGTAAATATTA
18367306 TAAACTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (18 bp):
AGTAAATATTAGCTCTTA
Found at i:18370190 original size:20 final size:20
Alignment explanation
Indices: 18370165--18370204 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18370155 TCACATACTG
18370165 CTTCTACTGATTGACAGGTT
1 CTTCTACTGATTGACAGGTT
18370185 CTTCTACTGATTGACAGGTT
1 CTTCTACTGATTGACAGGTT
18370205 GCGCTAGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
CTTCTACTGATTGACAGGTT
Found at i:18377837 original size:31 final size:30
Alignment explanation
Indices: 18377791--18377857 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
18377781 ATTTTTTAAA
*
18377791 AATTTACTCATTAATGA-AGTGTCATCATCT
1 AATTTACTCATTAATGAGA-TGACATCATCT
*
18377821 AATTTACCTTATTAATGAGATGACATCATCT
1 AATTTA-CTCATTAATGAGATGACATCATCT
18377852 AATTTA
1 AATTTA
18377858 TTAATAGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 6 0.18
31 26 0.79
32 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (30 bp):
AATTTACTCATTAATGAGATGACATCATCT
Found at i:18381953 original size:12 final size:12
Alignment explanation
Indices: 18381896--18381967 Score: 58
Period size: 12 Copynumber: 6.0 Consensus size: 12
18381886 TTGAATTTAA
18381896 AAATTAAATTTT
1 AAATTAAATTTT
* *
18381908 -AATCAAA-TTC
1 AAATTAAATTTT
*
18381918 AAATCAAATTTTT
1 AAATTAAA-TTTT
*
18381931 AACAATAAATTTT
1 AA-ATTAAATTTT
18381944 AAATTAAATTTT
1 AAATTAAATTTT
* *
18381956 AATTTTAATTTT
1 AAATTAAATTTT
18381968 TTATTTTATC
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 2 0.04
11 13 0.27
12 19 0.40
13 10 0.21
14 4 0.08
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTAAATTTT
Found at i:18382258 original size:16 final size:16
Alignment explanation
Indices: 18382239--18382272 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18382229 AATTTCAAAA
18382239 TCAAAATAATATAAAT
1 TCAAAATAATATAAAT
*
18382255 TCAAAATAATTTAAAT
1 TCAAAATAATATAAAT
18382271 TC
1 TC
18382273 GAAGCAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TCAAAATAATATAAAT
Found at i:18383341 original size:15 final size:15
Alignment explanation
Indices: 18383317--18383349 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18383307 AAAAATTAGA
*
18383317 AATATTACTTCTTAT
1 AATATCACTTCTTAT
18383332 AATATCACTTCTTAT
1 AATATCACTTCTTAT
18383347 AAT
1 AAT
18383350 TGATTGCATA
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:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATCACTTCTTAT
Found at i:18384053 original size:8 final size:7
Alignment explanation
Indices: 18384023--18384055 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
18384013 TGAAAATAAA
18384023 AAATTTT
1 AAATTTT
18384030 AAATTTT
1 AAATTTT
18384037 AAATTTT
1 AAATTTT
18384044 AAATTTTT
1 AAA-TTTT
18384052 AAAT
1 AAAT
18384056 GTCAAATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
AAATTTT
Found at i:18384201 original size:3 final size:3
Alignment explanation
Indices: 18384193--18384221 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18384183 AGCTAATCTT
18384193 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18384222 CTCTAGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18385170 original size:16 final size:16
Alignment explanation
Indices: 18385149--18385179 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18385139 TTTGATCAAA
*
18385149 ATTATAAATTTTTTAG
1 ATTATAAATATTTTAG
18385165 ATTATAAATATTTTA
1 ATTATAAATATTTTA
18385180 TAAAAATATT
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTATAAATATTTTAG
Found at i:18386425 original size:23 final size:23
Alignment explanation
Indices: 18386395--18386442 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
18386385 ATTAATCCTC
18386395 TACTTACTTTTTATATCTCATAT
1 TACTTACTTTTTATATCTCATAT
18386418 TACTTACTTTTTATATCTCATAT
1 TACTTACTTTTTATATCTCATAT
18386441 TA
1 TA
18386443 GGTGTCATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (23 bp):
TACTTACTTTTTATATCTCATAT
Found at i:18387828 original size:12 final size:12
Alignment explanation
Indices: 18387796--18387828 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18387786 CGGATTATTT
18387796 AAAA-AAAAATC
1 AAAATAAAAATC
*
18387807 AAAATCAAAATC
1 AAAATAAAAATC
18387819 AAAATAAAAA
1 AAAATAAAAA
18387829 GGAAGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:18387970 original size:58 final size:59
Alignment explanation
Indices: 18387860--18388075 Score: 300
Period size: 59 Copynumber: 3.7 Consensus size: 59
18387850 TTGTGTGTAG
* *
18387860 GGAAAATTGATACTTTCAACTTTTTTC-CAAAAATA-TCTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAA
* *
18387917 GGAAAATTGATATTTTCAACTTTTTTC-CAAAAATATTTTTTTGAAGA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTTGAA-ATTTTATTTTTAA
* * * *
18387975 GAAAAATTGATGCTTTCAA-TTTTTCCTCAAAAATACCTTTTTTAAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCTCAAAAATA-TTTTTTTGAAATTTTATTTTTAA
18388034 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTT
18388076 TATTTAAAGA
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
57 40 0.28
58 50 0.35
59 52 0.37
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.48
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAA
Found at i:18388066 original size:117 final size:115
Alignment explanation
Indices: 18387862--18388075 Score: 324
Period size: 117 Copynumber: 1.8 Consensus size: 115
18387852 GTGTGTAGGG
* *
18387862 AAAATTGATACTTTCAACTTTTTTCCAAAAATATCTTTTGAAATTTTATTTTTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATCTTTTAAAATTTTATTTTTAAGGAAAATTGA
* *
18387927 TATTTTCAACTTTTTTCCAAAAATATTTTTTTGAAGATTTATTTTTAAGA
66 TACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAGATTTATTTTTAAGA
* *
18387977 AAAATTGATGCTTTCAA-TTTTTCCTCAAAAATACCTTTTTTAAAATTTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATA--TCTTTTAAAATTTTATTTTTAAGGAAAAT
18388041 TGATACTTTCAACTTTTC-CTCAAAAATATTTTTTT
63 TGATACTTTCAACTTTTCTC-CAAAAATATTTTTTT
18388076 TATTTAAAGA
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
114 6 0.07
115 24 0.27
116 1 0.01
117 58 0.65
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATCTTTTAAAATTTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTCTCCAAAAATATTTTTTTGAAGATTTATTTTTAAGA
Found at i:18388133 original size:32 final size:30
Alignment explanation
Indices: 18388086--18388181 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 30
18388076 TATTTAAAGA
18388086 AAATAGAATAATAAAACAAAATAAAAGTGAAAAT
1 AAATA-AA-AATAAAACAAAATAAAA-T-AAAAT
18388120 AAATAAAAAT--AA-AAAATAAAATAAAAT
1 AAATAAAAATAAAACAAAATAAAATAAAAT
*
18388147 -AATGAAAAGTAAAACAAAAATGAAAATAAAAT
1 AAAT-AAAAATAAAAC-AAAAT-AAAATAAAAT
18388179 AAA
1 AAA
18388182 GATAAAAAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
26 3 0.06
27 10 0.19
28 1 0.02
29 11 0.20
30 2 0.04
31 5 0.09
32 13 0.24
33 4 0.07
34 5 0.09
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (30 bp):
AAATAAAAATAAAACAAAATAAAATAAAAT
Found at i:18388140 original size:5 final size:5
Alignment explanation
Indices: 18388095--18388188 Score: 63
Period size: 5 Copynumber: 18.4 Consensus size: 5
18388085 AAAATAGAAT
* *
18388095 AATAA AACAA AATAA AAGTGAA AAT-A AATAA AA-AT AA-AA AATAA AATAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATAA AATAA AATAA AATAA
*
18388144 AAT-- AATGAA AAGTAA AACAAA AATGAA AATAA AATAA AGATAA AA
1 AATAA AAT-AA AA-TAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
18388189 AGATATTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.04
4 10 0.14
5 32 0.44
6 22 0.31
7 5 0.07
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:18388182 original size:27 final size:27
Alignment explanation
Indices: 18388103--18388189 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
18388093 ATAATAAAAC
* * *
18388103 AAAATAAAAGTGAAAAT-AAATAAAAAT
1 AAAAAAAAAATGAAAATAAAAT-AAAGT
*
18388130 AAAAAATAAAAT-AAAATAATGA-AAAGT
1 AAAAAA-AAAATGAAAATAA-AATAAAGT
*
18388157 AAAACAAAAATGAAAATAAAATAAAGAT
1 AAAAAAAAAATGAAAATAAAATAAAG-T
18388185 AAAAA
1 AAAAA
18388190 GATATTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
26 6 0.13
27 30 0.64
28 10 0.21
29 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (27 bp):
AAAAAAAAAATGAAAATAAAATAAAGT
Found at i:18388218 original size:4 final size:4
Alignment explanation
Indices: 18388211--18388269 Score: 66
Period size: 4 Copynumber: 14.8 Consensus size: 4
18388201 AACCTAATCT
* * * *
18388211 AATA AAT- AATA AATA AATA AATA AATAA AACA AATA AACA AGTA AACA
1 AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA
18388259 AATA AATA AAT
1 AATA AATA AAT
18388270 TAATTAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 3 0.07
4 39 0.87
5 3 0.07
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:18388239 original size:16 final size:16
Alignment explanation
Indices: 18388211--18388269 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
18388201 AACCTAATCT
*
18388211 AATAAAT-AATAAATA
1 AATAAATAAATAAACA
18388226 AATAAATAAATAAAACA
1 AATAAATAAAT-AAACA
* *
18388243 AATAAACAAGTAAACA
1 AATAAATAAATAAACA
18388259 AATAAATAAAT
1 AATAAATAAAT
18388270 TAATTAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 7 0.19
16 17 0.46
17 13 0.35
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (16 bp):
AATAAATAAATAAACA
Found at i:18388841 original size:9 final size:10
Alignment explanation
Indices: 18388818--18388842 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18388808 TTCCCAGAAA
18388818 AAAAATCTCC
1 AAAAATCTCC
18388828 AAAAATCTCC
1 AAAAATCTCC
18388838 AAAAA
1 AAAAA
18388843 ATTTTTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:18389164 original size:20 final size:20
Alignment explanation
Indices: 18389139--18389190 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
18389129 CAGATAAATA
*
18389139 AGATAAATCAAAA-AATTAAC
1 AGATAAAT-AAAATAAATAAC
18389159 AGATAAATAAAATTAAATAAC
1 AGATAAATAAAA-TAAATAAC
18389180 AGATAATATAA
1 AGATAA-ATAA
18389191 TCTGATATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 4 0.14
20 8 0.29
21 12 0.43
22 4 0.14
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (20 bp):
AGATAAATAAAATAAATAAC
Found at i:18389317 original size:3 final size:3
Alignment explanation
Indices: 18389309--18389387 Score: 63
Period size: 3 Copynumber: 26.7 Consensus size: 3
18389299 TATATAAAAC
* * * * *
18389309 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAA AAT -GT GA- AAT ACAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
18389356 AAA AAA AAT AAT AAT AAT AAA AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18389388 AAAATATAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 2 0.03
3 58 0.94
4 2 0.03
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:18389388 original size:12 final size:12
Alignment explanation
Indices: 18389279--18389390 Score: 67
Period size: 12 Copynumber: 9.6 Consensus size: 12
18389269 AATACCGAAG
18389279 ATAAAAATAA-A
1 ATAAAAATAATA
* *
18389290 AGAAATAT-AT-
1 ATAAAAATAATA
*
18389300 ATATAAAACAATA
1 ATA-AAAATAATA
*
18389313 ATAATAATAATA
1 ATAAAAATAATA
* *
18389325 ATAATAATAACA
1 ATAAAAATAATA
*
18389337 ATAAAAAT-GTGAA
1 ATAAAAATAAT--A
18389350 ATACAAAA-AA-A
1 ATA-AAAATAATA
*
18389361 A-AATAATAATA
1 ATAAAAATAATA
18389372 ATAAAAATAATA
1 ATAAAAATAATA
18389384 ATAAAAA
1 ATAAAAA
18389391 ATATAGACTT
Statistics
Matches: 76, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
9 3 0.04
10 6 0.08
11 13 0.17
12 43 0.57
13 7 0.09
14 4 0.05
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:18389727 original size:84 final size:83
Alignment explanation
Indices: 18389611--18389785 Score: 262
Period size: 82 Copynumber: 2.1 Consensus size: 83
18389601 GAGAAACATG
* * *
18389611 AATTGCTCCTCTAATCATAAGCTCAACAACTTTGAAAAAAATAAATTGCTCCTCTAAACAGAGGC
1 AATTGCTCCTCTAAACAGAAGCACAACAACTTTG--AAAAATAAATTGCTCCTCTAAACAGAGGC
18389676 ACCACGA-TTTTGGAAAGTA
64 ACCACGACTTTTGGAAAGTA
* * * *
18389695 AATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCAC
1 AATTGCTCCTCTAAACAGAAGCACAACAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAC
18389760 CACGACTTTTGGAAAGTA
66 CACGACTTTTGGAAAGTA
18389778 AATTGCTC
1 AATTGCTC
18389786 ATCGACAATC
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
82 35 0.42
83 20 0.24
84 28 0.34
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (83 bp):
AATTGCTCCTCTAAACAGAAGCACAACAACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAC
CACGACTTTTGGAAAGTA
Found at i:18389784 original size:42 final size:42
Alignment explanation
Indices: 18389652--18389785 Score: 245
Period size: 41 Copynumber: 3.2 Consensus size: 42
18389642 TTGAAAAAAA
18389652 TAAATTGCTCCTCTAAACAGAGGCACCACGA-TTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAG
*
18389693 TAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAA
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAG
18389734 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAG
18389776 TAAATTGCTC
1 TAAATTGCTC
18389786 ATCGACAATC
Statistics
Matches: 89, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
41 71 0.80
42 18 0.20
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (42 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAG
Found at i:18391061 original size:8 final size:8
Alignment explanation
Indices: 18391031--18391095 Score: 71
Period size: 8 Copynumber: 8.1 Consensus size: 8
18391021 AATTTGAATC
18391031 TCTTTTTT
1 TCTTTTTT
* *
18391039 TCATTTTC
1 TCTTTTTT
*
18391047 TCATTTTT
1 TCTTTTTT
18391055 TCTTTTTT
1 TCTTTTTT
18391063 TCTTTCTTT
1 TCTTT-TTT
18391072 T-TTTTTCT
1 TCTTTTT-T
18391080 T-TTTTTT
1 TCTTTTTT
18391087 TCTTTTTT
1 TCTTTTTT
18391095 T
1 T
18391096 TTCATCATCT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 4 0.08
8 42 0.84
9 4 0.08
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (8 bp):
TCTTTTTT
Found at i:18391067 original size:32 final size:32
Alignment explanation
Indices: 18391031--18391095 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
18391021 AATTTGAATC
18391031 TCTTT-TTTTCATTTTCTCATTTTTTCTTTTTT
1 TCTTTCTTTT-ATTTTCTCATTTTTTCTTTTTT
* **
18391063 TCTTTCTTTTTTTTTCTTTTTTTTTCTTTTTT
1 TCTTTCTTTTATTTTCTCATTTTTTCTTTTTT
18391095 T
1 T
18391096 TTCATCATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (32 bp):
TCTTTCTTTTATTTTCTCATTTTTTCTTTTTT
Found at i:18391068 original size:22 final size:23
Alignment explanation
Indices: 18391031--18391085 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
18391021 AATTTGAATC
18391031 TCTTTTTTTCATTTTCTCATTTTT
1 TCTTTTTTTCA-TTTCTCATTTTT
**
18391055 TCTTTTTTTC-TTTCTTTTTTTT
1 TCTTTTTTTCATTTCTCATTTTT
18391077 TCTTTTTTT
1 TCTTTTTTT
18391086 TTCTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 19 0.66
24 10 0.34
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (23 bp):
TCTTTTTTTCATTTCTCATTTTT
Found at i:18391076 original size:14 final size:13
Alignment explanation
Indices: 18391051--18391097 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
18391041 ATTTTCTCAT
18391051 TTTTTCTTTTTTTC
1 TTTTT-TTTTTTTC
18391065 TTTCTTTTTTTTTC
1 TTT-TTTTTTTTTC
18391079 TTTTTTTTTCTTT-
1 TTTTTTTTT-TTTC
18391092 TTTTTT
1 TTTTTT
18391098 CATCATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.39
14 17 0.55
15 2 0.06
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:18391096 original size:10 final size:10
Alignment explanation
Indices: 18391050--18391098 Score: 80
Period size: 10 Copynumber: 4.7 Consensus size: 10
18391040 CATTTTCTCA
18391050 TTTTTTCTTTT
1 TTTTTTC-TTT
18391061 TTTCTTTCTTT
1 TTT-TTTCTTT
18391072 TTTTTTCTTT
1 TTTTTTCTTT
18391082 TTTTTTCTTT
1 TTTTTTCTTT
18391092 TTTTTTC
1 TTTTTTC
18391099 ATCATCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
10 24 0.65
11 9 0.24
12 4 0.11
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:18391096 original size:20 final size:22
Alignment explanation
Indices: 18391031--18391098 Score: 86
Period size: 20 Copynumber: 3.1 Consensus size: 22
18391021 AATTTGAATC
**
18391031 TCTTTTTTTCATTTTCTCATTTTT
1 TCTTTTTTTC--TTTCTTTTTTTT
18391055 TCTTTTTTTCTTTCTTTTTTTT
1 TCTTTTTTTCTTTCTTTTTTTT
18391077 TC-TTTTTT-TTTCTTTTTTTT
1 TCTTTTTTTCTTTCTTTTTTTT
18391097 TC
1 TC
18391099 ATCATCTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.33
21 6 0.14
22 12 0.29
24 10 0.24
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (22 bp):
TCTTTTTTTCTTTCTTTTTTTT
Found at i:18391114 original size:1 final size:1
Alignment explanation
Indices: 18391050--18391097 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
18391040 CATTTTCTCA
* * * * *
18391050 TTTTTTCTTTTTTTCTTTCTTTTTTTTTCTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18391098 CATCATCTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:18391119 original size:16 final size:16
Alignment explanation
Indices: 18391089--18391123 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
18391079 TTTTTTTTTC
18391089 TTTTTTTTTCATCATCT
1 TTTTTTTTTCATCAT-T
18391106 TTTTTTTTTC-TCATT
1 TTTTTTTTTCATCATT
18391121 TTT
1 TTT
18391124 CATCCATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 4 0.22
17 10 0.56
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTTTCATCATT
Found at i:18395170 original size:58 final size:58
Alignment explanation
Indices: 18395045--18395201 Score: 244
Period size: 58 Copynumber: 2.7 Consensus size: 58
18395035 TTGTGTGTAG
* * *
18395045 GGAAAATTGATACTTTCAACTTTTCTCTAAAAATA-TCTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAA
* * *
18395102 GAAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTTGAAGATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAA
*
18395160 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
18395202 TATTTAAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 31 0.34
58 59 0.66
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:18395256 original size:6 final size:6
Alignment explanation
Indices: 18395228--18395321 Score: 54
Period size: 6 Copynumber: 15.7 Consensus size: 6
18395218 ATAATAAAAC
* *
18395228 AAAATA AAAGTG AAAAT- -AAATA AAAATAA AAAATTA AAAAT- AAAATAA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAA-TA AAAATA AAAAT-A
* * * *
18395276 AATAATGA AAAGT- AAAACA AAAATG AAAAT- AAAATA AAGATA AAAA
1 AA-AAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
18395322 GAATATTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
4 4 0.06
5 13 0.19
6 30 0.44
7 14 0.21
8 7 0.10
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:18395267 original size:24 final size:24
Alignment explanation
Indices: 18395233--18395309 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
18395223 AAAACAAAAT
*
18395233 AAAAGTGAAAATAAATAAAAATAA
1 AAAAGTAAAAATAAATAAAAATAA
*
18395257 AAAATTAAAAATAAA-ATAAAATAA
1 AAAAGTAAAAATAAATA-AAAATAA
* *
18395281 TGAAAAGTAAAACAAAAATGAAAATAA
1 --AAAAGTAAAA-ATAAATAAAAATAA
18395308 AA
1 AA
18395310 TAAAGATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
23 1 0.02
24 20 0.47
25 2 0.05
26 9 0.21
27 11 0.26
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.17
Consensus pattern (24 bp):
AAAAGTAAAAATAAATAAAAATAA
Found at i:18395272 original size:5 final size:5
Alignment explanation
Indices: 18395220--18395320 Score: 59
Period size: 5 Copynumber: 19.4 Consensus size: 5
18395210 AAAATAGAAT
* *
18395220 AATAA AACAA AATAA AAGTGAA AAT-A AATAA AA-ATA AA-AA ATTAAA
1 AATAA AATAA AATAA AA-T-AA AATAA AATAA AATA-A AATAA AAT-AA
*
18395266 AATAA AATAA AAT-- AATGAA AAGTAA AACAAA AATGAA AATAA AATAA
1 AATAA AATAA AATAA AAT-AA AA-TAA AA-TAA AAT-AA AATAA AATAA
18395313 AGATAA AA
1 A-ATAA AA
18395321 AGAATATTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 24
0.71 0.06 0.22
Matches are distributed among these distances:
3 3 0.04
4 7 0.09
5 36 0.47
6 26 0.34
7 5 0.06
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:18395351 original size:4 final size:4
Alignment explanation
Indices: 18395344--18395397 Score: 74
Period size: 4 Copynumber: 13.8 Consensus size: 4
18395334 AATCTAATCT
* * *
18395344 AATA AATA AA-A AATA AATA AATA AATA AACA AATA AACA AATA AATT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
18395391 AATA AAT
1 AATA AAT
18395398 TCAAAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 3 0.07
4 40 0.93
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:18395953 original size:9 final size:10
Alignment explanation
Indices: 18395930--18395954 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18395920 ATTCCCAGAA
18395930 AAAAATCTCC
1 AAAAATCTCC
18395940 AAAAATCTCC
1 AAAAATCTCC
18395950 AAAAA
1 AAAAA
18395955 ATTTTTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATCTCC
Found at i:18396277 original size:29 final size:30
Alignment explanation
Indices: 18396217--18396281 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
18396207 TTCCAGCCAA
18396217 ATAAATCAAAGAAATGAAAAAAAAAATCAG
1 ATAAATCAAAGAAATGAAAAAAAAAATCAG
* * * **
18396247 ATAAATCAGATAAATTAAAAAATTAAT-AG
1 ATAAATCAAAGAAATGAAAAAAAAAATCAG
18396276 ATAAAT
1 ATAAAT
18396282 TAAAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.22
Consensus pattern (30 bp):
ATAAATCAAAGAAATGAAAAAAAAAATCAG
Found at i:18397050 original size:39 final size:37
Alignment explanation
Indices: 18396957--18397063 Score: 105
Period size: 39 Copynumber: 2.9 Consensus size: 37
18396947 TTTAAATTTT
18396957 TTATATTTATCATTGTATTATCTTTATTTTATTTTATA
1 TTATATTTATCATTGT-TTATCTTTATTTTATTTTATA
* **
18396995 --AT-TTTATGATAATTTATCTTTATTTTATCTTTACTA
1 TTATATTTATCATTGTTTATCTTTATTTTAT-TTTA-TA
* *
18397031 TTATATTTAT-ATTTGTTTATCTTCATCTTATTT
1 TTATATTTATCA-TTGTTTATCTTTATTTTATTT
18397064 GAATTCTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
34 15 0.27
35 12 0.21
36 4 0.07
38 5 0.09
39 20 0.36
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.64
Consensus pattern (37 bp):
TTATATTTATCATTGTTTATCTTTATTTTATTTTATA
Found at i:18400401 original size:3 final size:3
Alignment explanation
Indices: 18400393--18400419 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18400383 TGTTTAACAA
18400393 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
18400420 AAATATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18406099 original size:5 final size:5
Alignment explanation
Indices: 18406089--18406116 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18406079 TTGGAATTTT
18406089 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
18406117 CTTCACTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:18429089 original size:13 final size:13
Alignment explanation
Indices: 18429071--18429095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18429061 ACTGCACCCA
18429071 CAAATATTTTTTT
1 CAAATATTTTTTT
18429084 CAAATATTTTTT
1 CAAATATTTTTT
18429096 AACACAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
CAAATATTTTTTT
Found at i:18429655 original size:2 final size:2
Alignment explanation
Indices: 18429648--18429692 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
18429638 TTAATTGAAA
18429648 AG AG AG AG AG AG AG AG A- AG AG AG AG AG -G AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18429688 AG AG A
1 AG AG A
18429693 AATACCTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18431106 original size:25 final size:25
Alignment explanation
Indices: 18431076--18431143 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 25
18431066 TATTAACATA
*
18431076 ATTATTAAAATATTAAAAATTATTT
1 ATTATTAAAATATTAAAAATTACTT
18431101 ATTATTAAAGCATATT-AAAATTACTT
1 ATTATTAAA--ATATTAAAAATTACTT
*
18431127 ACTATTAAAATTATTAA
1 ATTATTAAAA-TATTAA
18431144 TATTCAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 1 0.03
25 13 0.35
26 18 0.49
27 5 0.14
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTACTT
Found at i:18431132 original size:16 final size:15
Alignment explanation
Indices: 18431112--18431196 Score: 66
Period size: 16 Copynumber: 5.5 Consensus size: 15
18431102 TTATTAAAGC
18431112 ATATTAAAATTACTTA
1 ATATTAAAATTA-TTA
*
18431128 CTATTAAAATTATTA
1 ATATTAAAATTATTA
*
18431143 ATATTCAAAAATAATTA
1 ATATT--AAAATTATTA
* * *
18431160 CATTTTAATAGTATTTA
1 -ATATTAAAATTA-TTA
18431177 ATATTAAAA-TATT-
1 ATATTAAAATTATTA
18431190 ATATTAA
1 ATATTAA
18431197 TATAAAATAC
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
13 7 0.12
14 2 0.04
15 9 0.16
16 22 0.39
17 12 0.21
18 4 0.07
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:18431264 original size:30 final size:29
Alignment explanation
Indices: 18431230--18431344 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 29
18431220 TATTATTCTT
*
18431230 TATATTATTTATTAATAATTATATTAATA
1 TATATTATTTATTAATAATAATATTAATA
18431259 GTATATTATTTATTAATAAT-ATATT-ATA
1 -TATATTATTTATTAATAATAATATTAATA
*
18431287 -ATATTAATTAATTAATATAATAATATTAATTAA
1 TATATT-ATTTATT-A-ATAATAATATTAA-T-A
18431320 TATATTATTTATTAAT-ATAATATTA
1 TATATTATTTATTAATAATAATATTA
18431345 TTTATAAGTA
Statistics
Matches: 75, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
26 5 0.07
27 6 0.08
28 4 0.05
29 10 0.13
30 33 0.44
31 3 0.04
32 2 0.03
33 7 0.09
34 5 0.07
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
TATATTATTTATTAATAATAATATTAATA
Found at i:18431274 original size:18 final size:18
Alignment explanation
Indices: 18431251--18431349 Score: 92
Period size: 18 Copynumber: 5.2 Consensus size: 18
18431241 TTAATAATTA
*
18431251 TATTAATAGTATATTATT
1 TATTAATAATATATTATT
*
18431269 TATTAATAATATATTATAA
1 TATTAATAATATATTAT-T
* *
18431288 TATTAATTAATTAATATAATAA
1 TATTAA-TAA-T-ATATTAT-T
18431310 TATTAATTAATATATTATT
1 TATTAA-TAATATATTATT
18431329 TATTAAT-ATAATATTATT
1 TATTAATAAT-ATATTATT
18431347 TAT
1 TAT
18431350 AAGTAAAATC
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
17 2 0.03
18 28 0.39
19 12 0.17
20 9 0.13
21 2 0.03
22 18 0.25
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (18 bp):
TATTAATAATATATTATT
Found at i:18431284 original size:60 final size:60
Alignment explanation
Indices: 18431229--18431346 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
18431219 TTATTATTCT
* * *
18431229 TTATATT-ATTTATT-A-ATAATTATATTAA-TAGTATATTATTTATTAATA-ATATATTA
1 TTATATTAATTAATTAATATAATAATATTAATTAATATATTATTTATTAATATA-ATATTA
*
18431285 TAATATTAATTAATTAATATAATAATATTAATTAATATATTATTTATTAATATAATATTA
1 TTATATTAATTAATTAATATAATAATATTAATTAATATATTATTTATTAATATAATATTA
18431345 TT
1 TT
18431347 TATAAGTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
56 6 0.12
57 6 0.12
58 1 0.02
59 12 0.23
60 26 0.50
61 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (60 bp):
TTATATTAATTAATTAATATAATAATATTAATTAATATATTATTTATTAATATAATATTA
Found at i:18435909 original size:9 final size:9
Alignment explanation
Indices: 18435881--18435918 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
18435871 ATGTAAATAT
18435881 AAAAT-TAA
1 AAAATATAA
18435889 ATAAATAT-A
1 A-AAATATAA
18435898 AAAATATAA
1 AAAATATAA
18435907 AAAATATAA
1 AAAATATAA
18435916 AAA
1 AAA
18435919 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.26
9 19 0.70
10 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATATAA
Found at i:18435919 original size:34 final size:33
Alignment explanation
Indices: 18435875--18435943 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
18435865 TTTTTAATGT
18435875 AAATATAAAATTAAA-TAAATATAAAAATATAAA
1 AAATATAAAATTAAATTAAATA-AAAAATATAAA
* *
18435908 AAATATAAAAATTAAATTAAATAAATAATTTAAA
1 AAATAT-AAAATTAAATTAAATAAAAAATATAAA
18435942 AA
1 AA
18435944 TAATTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 6 0.19
34 20 0.62
35 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (33 bp):
AAATATAAAATTAAATTAAATAAAAAATATAAA
Found at i:18435937 original size:17 final size:17
Alignment explanation
Indices: 18435874--18435930 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
18435864 ATTTTTAATG
18435874 TAAATAT-AAAATTAAA
1 TAAATATAAAAATTAAA
18435890 TAAATATAAAAATATAAA
1 TAAATATAAAAAT-TAAA
18435908 -AAATATAAAAATTAAA
1 TAAATATAAAAATTAAA
18435924 TTAAATA
1 -TAAATA
18435931 AATAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.30
17 17 0.46
18 9 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAATATAAAAATTAAA
Found at i:18444786 original size:18 final size:18
Alignment explanation
Indices: 18444763--18444842 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 18
18444753 CCTTTGTTCT
18444763 TGATACATTTGAGATGAA
1 TGATACATTTGAGATGAA
18444781 TGATACATTTGAG--G-A
1 TGATACATTTGAGATGAA
* *
18444796 TGATACATTTGTGATGGGA
1 TGATACATTTGAGAT-GAA
* * *
18444815 -GATACATTTGTGGTAAA
1 TGATACATTTGAGATGAA
18444832 TGATACATTTG
1 TGATACATTTG
18444843 TGGAGGATAC
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
15 13 0.25
16 1 0.02
17 1 0.02
18 37 0.70
19 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (18 bp):
TGATACATTTGAGATGAA
Found at i:18444805 original size:33 final size:34
Alignment explanation
Indices: 18444763--18444873 Score: 92
Period size: 33 Copynumber: 3.4 Consensus size: 34
18444753 CCTTTGTTCT
18444763 TGATACATTTGAGAT-GAATGATACATTTGAGG-A
1 TGATACATTTGAGATGGAA-GATACATTTGAGGAA
* * *
18444796 TGATACATTTGTGATGGGAGATACATTTGTGGTAAA
1 TGATACATTTGAGATGGAAGATACATTTGAGG--AA
* *
18444832 TGATACATTT--G-TGGAGGATACATTT--GGAG
1 TGATACATTTGAGATGGAAGATACATTTGAGGAA
18444861 TGGATACATTTGA
1 T-GATACATTTGA
18444874 AGTGGATAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
29 2 0.03
30 9 0.14
31 2 0.03
33 38 0.58
34 3 0.05
36 11 0.17
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (34 bp):
TGATACATTTGAGATGGAAGATACATTTGAGGAA
Found at i:18444822 original size:51 final size:48
Alignment explanation
Indices: 18444764--18444873 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 48
18444754 CTTTGTTCTT
* *
18444764 GATACATTTGAGATGAATGATACATTTGAGGATGATACATTTGTGATGGG
1 GATACATTTGAGATAAATGATACATTTGAGGAGGATACATTTG-GA-GGG
* * * *
18444814 AGATACATTTGTGGTAAATGATACATTTGTGGAGGATACATTTGGAGTG
1 -GATACATTTGAGATAAATGATACATTTGAGGAGGATACATTTGGAGGG
18444863 GATACATTTGA
1 GATACATTTGA
18444874 AGTGGATAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 10 0.19
49 2 0.04
50 2 0.04
51 38 0.73
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (48 bp):
GATACATTTGAGATAAATGATACATTTGAGGAGGATACATTTGGAGGG
Found at i:18444865 original size:15 final size:15
Alignment explanation
Indices: 18444833--18444881 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
18444823 TGTGGTAAAT
*
18444833 GATACATTTGTG-GAG
1 GATACATTTG-GAGTG
18444848 GATACATTTGGAGTG
1 GATACATTTGGAGTG
*
18444863 GATACATTTGAAGTG
1 GATACATTTGGAGTG
18444878 GATA
1 GATA
18444882 ACCATATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 1 0.03
15 30 0.97
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.33
Consensus pattern (15 bp):
GATACATTTGGAGTG
Found at i:18445229 original size:17 final size:18
Alignment explanation
Indices: 18445207--18445245 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
18445197 AAATTCACAC
18445207 CATCACCATCACCATCA-
1 CATCACCATCACCATCAT
*
18445224 CATCACCATCATCATCAT
1 CATCACCATCACCATCAT
18445242 CATC
1 CATC
18445246 TGGATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (18 bp):
CATCACCATCACCATCAT
Found at i:18445264 original size:6 final size:6
Alignment explanation
Indices: 18445204--18445245 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
18445194 CCAAAATTCA
* *
18445204 CACCAT CACCAT CACCAT CA-CAT CACCAT CATCAT CATCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT C
18445246 TGGATTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.21
Consensus pattern (6 bp):
CACCAT
Found at i:18448345 original size:25 final size:22
Alignment explanation
Indices: 18448317--18448373 Score: 60
Period size: 27 Copynumber: 2.3 Consensus size: 22
18448307 TTTTTATCAC
18448317 AAATAACTTTCAATAATTATATAA
1 AAATAACTTT-AATAATTATA-AA
18448341 TAAATACAATCTTTAATAATTATAAA
1 -AAAT--AA-CTTTAATAATTATAAA
18448367 AAATAAC
1 AAATAAC
18448374 AAGAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
22 1 0.03
23 2 0.07
25 8 0.28
26 2 0.07
27 12 0.41
28 4 0.14
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAACTTTAATAATTATAAA
Found at i:18448471 original size:20 final size:22
Alignment explanation
Indices: 18448430--18448473 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
18448420 AAATAACAAA
*
18448430 AAAATTATTAAATTTCATATAT
1 AAAATTATTAAATTTAATATAT
18448452 AAAATTA-TAAA-TTAATATAT
1 AAAATTATTAAATTTAATATAT
18448472 AA
1 AA
18448474 CACAATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 4 0.19
22 7 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTATTAAATTTAATATAT
Found at i:18451467 original size:121 final size:121
Alignment explanation
Indices: 18451253--18451487 Score: 285
Period size: 121 Copynumber: 1.9 Consensus size: 121
18451243 TAAATATGAT
* * * *
18451253 TTTTGTGCTAAGTTCGGACTGGAGGAAAAAGCTCGAAGATAAGCTCAAAGATAATAATGAGAGAA
1 TTTTGTGCTAAGTTCGAAATGGAGGAAAAAGCTCGAAGATAAGCTCAAAGATAAAAATGAGAAAA
18451318 TTGAGAAAAATAACTCAAAGAAAAGTATGAAAGAGTTGGAAAAAGAATTAGCCCGC
66 TTGAGAAAAATAACTCAAAGAAAAGTATGAAAGAGTTGGAAAAAGAATTAGCCCGC
* ** * * * *
18451374 TTTTGTGCTAAGTTTGAAATGGAGGAAAGGGTTTGGAGATAAGCTCAGAGATAAAAATGA-AAAA
1 TTTTGTGCTAAGTTCGAAATGGAGGAAAAAGCTCGAAGATAAGCTCAAAGATAAAAATGAGAAAA
* * * * * *
18451438 GTTTAGAAGAAA-AGCTTAAAGGAAAGTATGTAAGAGTTGGAAGAAGAATT
66 -TTGAGAA-AAATAACTCAAAGAAAAGTATGAAAGAGTTGGAAAAAGAATT
18451488 GGCTTTTTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
120 3 0.03
121 89 0.94
122 3 0.03
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (121 bp):
TTTTGTGCTAAGTTCGAAATGGAGGAAAAAGCTCGAAGATAAGCTCAAAGATAAAAATGAGAAAA
TTGAGAAAAATAACTCAAAGAAAAGTATGAAAGAGTTGGAAAAAGAATTAGCCCGC
Found at i:18453221 original size:85 final size:85
Alignment explanation
Indices: 18453047--18453417 Score: 274
Period size: 85 Copynumber: 4.4 Consensus size: 85
18453037 TAAATCCAAA
* ** * ** * *
18453047 CTTTTTTGGCTGAGCTGAGTCCAAGCTTTTTAGCCTAA-CTATTTTATC-AATT-GACTTTTATG
1 CTTTTTTGACTGAGCTGAGTCTGAGC-TCTTAGGTTAAGCTATTTTGTCAAATTAGGCTTTTATG
* **
18453109 AAAGTATTTTGTAGATTTGA-
65 AAAGCATTTCATAGATTTGAG
* * ** * *
18453129 ATATTTTTGGCCAAGCTGAGTTTGAGCTCTTAGGTTAAGCTATTTTGTCAAATTAAAG-TTTTAT
1 CT-TTTTTGACTGAGCTGAGTCTGAGCTCTTAGGTTAAGCTATTTTGTCAAATT-AGGCTTTTAT
*
18453193 GAAAGCATTTCATCGATTTGAG
64 GAAAGCATTTCATAGATTTGAG
* * *
18453215 CTTTTTTGATTGAGCTAAGTCTGAGCTCTTA--TTCCAAGCTATTTTGTCAAATTAGGCCTTTAT
1 CTTTTTTGACTGAGCTGAGTCTGAGCTCTTAGGTT--AAGCTATTTTGTCAAATTAGGCTTTTAT
* * *
18453278 GCAGGCATTTTATAGATTTGAG
64 GAAAGCATTTCATAGATTTGAG
* * * * * ** *
18453300 CTCTTTTGACTGTGCTGAGTCTGAGCTCTTTGGCTGAGCTATTTTGTTGAATTAGGTTTTTATGA
1 CTTTTTTGACTGAGCTGAGTCTGAGCTCTTAGGTTAAGCTATTTTGTCAAATTAGGCTTTTATGA
* ** *
18453365 AAGTATTTTGTAGATTCGAG
66 AAGCATTTCATAGATTTGAG
* *
18453385 -TTCTTTTGA-TCGAGCTGAGTCCGAACTCTTAGG
1 CTT-TTTTGACT-GAGCTGAGTCTGAGCTCTTAGG
18453418 CCAAACTGTT
Statistics
Matches: 226, Mismatches: 50, Indels: 23
0.76 0.17 0.08
Matches are distributed among these distances:
82 9 0.04
83 30 0.13
84 8 0.04
85 177 0.78
86 1 0.00
87 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (85 bp):
CTTTTTTGACTGAGCTGAGTCTGAGCTCTTAGGTTAAGCTATTTTGTCAAATTAGGCTTTTATGA
AAGCATTTCATAGATTTGAG
Found at i:18453430 original size:85 final size:83
Alignment explanation
Indices: 18453102--18453434 Score: 290
Period size: 85 Copynumber: 3.9 Consensus size: 83
18453092 ATCAATTGAC
* * * ** * * **
18453102 TTTTATGAAAGTATTTTGTAGATTTGAATATTTTTGGCCAAGCTGAGTTTGAGCTCTTAGGTTAA
1 TTTTATGAAAGCATTTTATAGATTTGAGT-TTTTTGATCGAGCTGAGTCTGAGCTCTTAGGCCAA
*
18453167 GCTATTTTGTCAAATTAAAG
65 GCTATTTTGTCAAATT-AGG
* * * * **
18453187 TTTTATGAAAGCATTTCATCGATTTGAGCTTTTTTGATTGAGCTAAGTCTGAGCTCTTATTCCAA
1 TTTTATGAAAGCATTTTATAGATTTGAG-TTTTTTGATCGAGCTGAGTCTGAGCTCTTAGGCCAA
18453252 GCTATTTTGTCAAATTAGG
65 GCTATTTTGTCAAATTAGG
* * * * * * *
18453271 CCTTTATGCAGGCATTTTATAGATTTGAGCTCTTTTGA-CTGTGCTGAGTCTGAGCTCTTTGGCT
1 -TTTTATGAAAGCATTTTATAGATTTGAG-TTTTTTGATC-GAGCTGAGTCTGAGCTCTTAGGCC
* **
18453335 GAGCTATTTTGTTGAATTAGG
63 AAGCTATTTTGTCAAATTAGG
* * * * *
18453356 TTTTTATGAAAGTATTTTGTAGATTCGAGTTCTTTTGATCGAGCTGAGTCCGAACTCTTAGGCCA
1 -TTTTATGAAAGCATTTTATAGATTTGAGTT-TTTTGATCGAGCTGAGTCTGAGCTCTTAGGCCA
* *
18453421 AACTGTTTTGTCAA
64 AGCTATTTTGTCAA
18453435 GATGAGGCCT
Statistics
Matches: 193, Mismatches: 50, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
84 3 0.02
85 188 0.97
86 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (83 bp):
TTTTATGAAAGCATTTTATAGATTTGAGTTTTTTGATCGAGCTGAGTCTGAGCTCTTAGGCCAAG
CTATTTTGTCAAATTAGG
Found at i:18453537 original size:24 final size:24
Alignment explanation
Indices: 18453484--18453537 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
18453474 CTCTGATCGT
* *
18453484 GTTGGGTTTGAGCTCTTTGGCCTA
1 GTTGGGCTTGACCTCTTTGGCCTA
**
18453508 ACTGGGCTTGACCTCTTTGG-CTGA
1 GTTGGGCTTGACCTCTTTGGCCT-A
18453532 GTTGGG
1 GTTGGG
18453538 TTCAAGCTCT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.09, C:0.19, G:0.35, T:0.37
Consensus pattern (24 bp):
GTTGGGCTTGACCTCTTTGGCCTA
Found at i:18459994 original size:22 final size:23
Alignment explanation
Indices: 18459969--18460013 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
18459959 AAATGAATTT
18459969 ATAAT-TTATAATT-TTCTATAAA
1 ATAATGTT-TAATTATTCTATAAA
*
18459991 ATAATGTTTAATTATTTTATAAA
1 ATAATGTTTAATTATTCTATAAA
18460014 TTATTGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATAATGTTTAATTATTCTATAAA
Found at i:18460152 original size:27 final size:30
Alignment explanation
Indices: 18460117--18460171 Score: 80
Period size: 27 Copynumber: 1.9 Consensus size: 30
18460107 TTAAAATCAC
*
18460117 TAATAATTTATAAT-ATT-AT-ATCAAATA
1 TAATAATTTAAAATCATTGATGATCAAATA
18460144 TAATAATTTAAAATCATTGATGATCAAA
1 TAATAATTTAAAATCATTGATGATCAAA
18460172 ATTATCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 3 0.12
29 2 0.08
30 6 0.25
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (30 bp):
TAATAATTTAAAATCATTGATGATCAAATA
Found at i:18464982 original size:18 final size:18
Alignment explanation
Indices: 18464959--18464994 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18464949 TTGGTATGGC
18464959 ACTTGATTATTAAGCAGT
1 ACTTGATTATTAAGCAGT
18464977 ACTTGATTATTAAGCAGT
1 ACTTGATTATTAAGCAGT
18464995 TAAATGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
ACTTGATTATTAAGCAGT
Done.