Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 55 of 343
Found at i:17840481 original size:18 final size:19
Alignment explanation
Indices: 17840450--17840485 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17840440 GTTTAAGAAC
17840450 ATATAATATATAAATTATT
1 ATATAATATATAAATTATT
*
17840469 ATAT-ATATGTAAATTAT
1 ATATAATATATAAATTAT
17840486 GAATGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATATAATATATAAATTATT
Found at i:17850313 original size:43 final size:43
Alignment explanation
Indices: 17850266--17850463 Score: 158
Period size: 43 Copynumber: 4.6 Consensus size: 43
17850256 TCCTAGATAT
* *
17850266 GGTCTTACATGTTATCACATATCGATGCCACTGTCCTATACAG
1 GGTCTTACATGTAATCACATATCGATGCCACTGTCCTACACAG
* * * * *
17850309 GGTCTTACACG-AAGTCGA-TTAACGATGCCGA-TGTCCCACACAT
1 GGTCTTACATGTAA-TC-ACATATCGATGCC-ACTGTCCTACACAG
* * * *
17850352 GGTCTTACACGTAATCGCA-ATACAATGCCACTGT-CTGACACTG
1 GGTCTTACATGTAATCACATAT-CGATGCCACTGTCCT-ACACAG
* *
17850395 GGTCTTACATGTAATCACA-ATACAATGCCACTGTTCC-ATACAG
1 GGTCTTACATGTAATCACATAT-CGATGCCACTG-TCCTACACAG
*
17850438 GGTCTTACATGTAATCACATCTCGAT
1 GGTCTTACATGTAATCACATATCGAT
17850464 AACCTAATGT
Statistics
Matches: 124, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
42 4 0.03
43 113 0.91
44 6 0.05
45 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCACTGTCCTACACAG
Found at i:17853048 original size:41 final size:41
Alignment explanation
Indices: 17852991--17853073 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
17852981 GGGACAAAGG
17852991 TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
1 TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
17853032 TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
1 TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
17853073 T
1 T
17853074 TTTGTTGCCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.14, G:0.36, T:0.25
Consensus pattern (41 bp):
TCCAGGGCTGGATGGGTGGGTACACACTAATTTGAGGATGA
Found at i:17853274 original size:12 final size:12
Alignment explanation
Indices: 17853257--17853285 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
17853247 TTACCAATAG
17853257 AATAACAAAAAT
1 AATAACAAAAAT
17853269 AATAACAAAAAT
1 AATAACAAAAAT
17853281 AATAA
1 AATAA
17853286 GCTCAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
AATAACAAAAAT
Found at i:17853713 original size:17 final size:18
Alignment explanation
Indices: 17853680--17853717 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
17853670 ATTTTTTCAT
*
17853680 AAATTTTATAAATATATA
1 AAATTTTATAAAAATATA
17853698 AAATTTTA-AAAAATATA
1 AAATTTTATAAAAATATA
17853715 AAA
1 AAA
17853718 ATGCTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTTATAAAAATATA
Found at i:17853719 original size:18 final size:18
Alignment explanation
Indices: 17853680--17853717 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17853670 ATTTTTTCAT
*
17853680 AAATTTTATAAATATATA
1 AAATTTTAAAAATATATA
17853698 AAATTTTAAAAA-ATATA
1 AAATTTTAAAAATATATA
17853715 AAA
1 AAA
17853718 ATGCTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTTAAAAATATATA
Found at i:17854144 original size:11 final size:11
Alignment explanation
Indices: 17854115--17854161 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
17854105 ATATCTAAAC
*
17854115 AATAATAACAA
1 AATAATAGCAA
17854126 AATAATAGCAA
1 AATAATAGCAA
* *
17854137 CATAATAGTAA
1 AATAATAGCAA
*
17854148 AAT-GTAGCAA
1 AATAATAGCAA
17854158 AATA
1 AATA
17854162 GCGAAAAAGC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:17867137 original size:33 final size:33
Alignment explanation
Indices: 17867044--17867138 Score: 109
Period size: 33 Copynumber: 2.9 Consensus size: 33
17867034 ATGGACTCTA
* * * * *
17867044 TCTGTGGTTATTGTCCCAGTAGACTATATCTAT
1 TCTGTGTTTACTGTCCTAGTAGACTATCTATAT
* * *
17867077 TCTGTGTTTACTGTCTTAGTGGACTATCTATGT
1 TCTGTGTTTACTGTCCTAGTAGACTATCTATAT
*
17867110 TCTGTGTTTACTGTCCTAATAGACTATCT
1 TCTGTGTTTACTGTCCTAGTAGACTATCT
17867139 CTGTGGATTC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (33 bp):
TCTGTGTTTACTGTCCTAGTAGACTATCTATAT
Found at i:17870954 original size:17 final size:16
Alignment explanation
Indices: 17870928--17870961 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
17870918 ACGAAATAGG
17870928 GAAAAAAGAAAGGAAA
1 GAAAAAAGAAAGGAAA
17870944 GAAAGAAAGAAAGGAAA
1 GAAA-AAAGAAAGGAAA
17870961 G
1 G
17870962 TTTAAGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
GAAAAAAGAAAGGAAA
Found at i:17875928 original size:12 final size:12
Alignment explanation
Indices: 17875911--17875936 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17875901 ATGTAAGTGA
17875911 TCTTGATGATTT
1 TCTTGATGATTT
17875923 TCTTGATGATTT
1 TCTTGATGATTT
17875935 TC
1 TC
17875937 ACATTTTTAG
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:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:17876847 original size:44 final size:47
Alignment explanation
Indices: 17876734--17876907 Score: 162
Period size: 47 Copynumber: 3.7 Consensus size: 47
17876724 TATTATAAGT
*
17876734 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
* * *
17876781 GCCAGTGTAAGACGTGTCTGGGACACGCATCGG-C-C-A-AGAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
* * * *
17876824 TGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATATGAG--A
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CA-ACA-GAGATA
* *
17876873 GCCAGTATAAGACAATTTCTGGGACATGGCATCGG
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGG
17876908 TAATTTATTC
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
43 6 0.06
44 30 0.29
45 1 0.01
46 1 0.01
47 31 0.30
48 11 0.11
49 14 0.13
50 7 0.07
51 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGATA
Found at i:17883918 original size:41 final size:41
Alignment explanation
Indices: 17883830--17883936 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
17883820 GGCCTTTGAG
** *
17883830 CCTAGCAGGCTATAATACCGGTGAAATGATATCGGGCTTCGAG
1 CCTAGCAGGCTA-AATACCGGTG-AATGATATCGGGCTTAAAA
* *
17883873 CCTAGCAGGCGAAATACCGGTGAATGA-ACTCGGGTTTAAAA
1 CCTAGCAGGCTAAATACCGGTGAATGATA-TCGGGCTTAAAA
* *
17883914 CCTAGCATGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATACCGGTGA
17883937 TTTGATAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 1 0.02
41 33 0.60
42 10 0.18
43 11 0.20
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCTAAATACCGGTGAATGATATCGGGCTTAAAA
Found at i:17884561 original size:42 final size:42
Alignment explanation
Indices: 17884514--17884644 Score: 108
Period size: 42 Copynumber: 3.1 Consensus size: 42
17884504 GATGTCTTTG
17884514 TATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAATTTC
1 TATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAATTTC
** * * * ** *
17884556 TATAT-AGAATAGACTTAAATGAATGAT--ATTTTGAG-ATGTCTTTG
1 TATATAAG-GCA-ACTT--TTGAATG-TCGATATT-AGTTTGAATTTC
17884600 TATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAATTTC
1 TATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAATTTC
17884642 TAT
1 TAT
17884645 CTTTGATTGT
Statistics
Matches: 63, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
40 1 0.02
41 10 0.16
42 18 0.29
43 8 0.13
44 15 0.24
45 10 0.16
46 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.43
Consensus pattern (42 bp):
TATATAAGGCAACTTTTGAATGTCGATATTAGTTTGAATTTC
Found at i:17884605 original size:44 final size:44
Alignment explanation
Indices: 17884472--17884605 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 44
17884462 GTATGGCATG
17884472 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
1 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
** * * * ** *
17884516 TATA-AGGCA-ACTT--TTGAATG-TCGATATT-AGTTTGAATTTCTA
1 TATAGA-ATAGACTTAAATGAATGAT--ATTTTGAG-ATGTCTTTGTA
17884558 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
1 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
17884602 TATA
1 TATA
17884606 AGGCAACTTT
Statistics
Matches: 64, Mismatches: 16, Indels: 20
0.64 0.16 0.20
Matches are distributed among these distances:
40 1 0.02
41 8 0.12
42 16 0.25
43 10 0.16
44 20 0.31
45 8 0.12
46 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (44 bp):
TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTA
Found at i:17884617 original size:86 final size:86
Alignment explanation
Indices: 17884472--17884644 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
17884462 GTATGGCATG
17884472 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
1 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
17884537 CGATATTAGTTTGAATTTCTA
66 CGATATTAGTTTGAATTTCTA
17884558 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
1 TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
17884623 CGATATTAGTTTGAATTTCTA
66 CGATATTAGTTTGAATTTCTA
17884644 T
1 T
17884645 CTTTGATTGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (86 bp):
TATAGAATAGACTTAAATGAATGATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGT
CGATATTAGTTTGAATTTCTA
Found at i:17884629 original size:44 final size:44
Alignment explanation
Indices: 17884494--17884629 Score: 117
Period size: 44 Copynumber: 3.1 Consensus size: 44
17884484 TTAAATGAAT
17884494 GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
1 GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
* * * * *
17884538 GATATTAGTTTGA-AT-T-TCTATATAGAA--TAGAC--TTAAATGAAT-
1 GATA-T--TTTGAGATGTCTTTGTATATAAGGCA-ACTTTTGAATG--TC
17884580 GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
1 GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
17884624 GATATT
1 GATATT
17884630 AGTTTGAATT
Statistics
Matches: 68, Mismatches: 10, Indels: 28
0.64 0.09 0.26
Matches are distributed among these distances:
39 5 0.07
40 2 0.03
41 8 0.12
42 13 0.19
43 6 0.09
44 19 0.28
45 8 0.12
46 2 0.03
47 5 0.07
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (44 bp):
GATATTTTGAGATGTCTTTGTATATAAGGCAACTTTTGAATGTC
Found at i:17891851 original size:41 final size:42
Alignment explanation
Indices: 17891763--17891863 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 42
17891753 GGCCTTTGAG
* * *
17891763 CCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGAG
1 CCTAGCAGGCTA-AATGCCAGTGAAATGATATCGGGCTTTAAA
*
17891806 CCTAGCAGGCGAAATGCCAGTG-AATGA-ACTCGGG-TTTAAAA
1 CCTAGCAGGCTAAATGCCAGTGAAATGATA-TCGGGCTTT-AAA
*
17891847 CCTAGCATGCTAAATGC
1 CCTAGCAGGCTAAATGC
17891864 TGGTGATTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.08
41 26 0.52
42 9 0.18
43 11 0.22
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (42 bp):
CCTAGCAGGCTAAATGCCAGTGAAATGATATCGGGCTTTAAA
Found at i:17893347 original size:12 final size:13
Alignment explanation
Indices: 17893330--17893361 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
17893320 ATAGCACATT
17893330 TCAAAAC-ATGCA
1 TCAAAACTATGCA
17893342 TCAAAACTATGCA
1 TCAAAACTATGCA
17893355 -CAAAACT
1 TCAAAACT
17893362 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:17896667 original size:28 final size:28
Alignment explanation
Indices: 17896612--17896727 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
17896602 AGCATGGCTG
* *
17896612 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * * * *
17896638 CCACATACAGATAATTGTAGCAGGGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
17896666 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
17896694 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
*
17896722 GCAGAA
1 CCAGAA
17896728 CGCTTCCTCC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
26 3 0.04
27 7 0.09
28 66 0.87
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:17898006 original size:18 final size:18
Alignment explanation
Indices: 17897955--17898009 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
17897945 ATTCAGCTAT
*
17897955 AGAGGAAAATAAGAA-TA-
1 AGAGGAAAA-AAGAAGAAG
* *
17897972 AGA-GAAAATAGATGAAG
1 AGAGGAAAAAAGAAGAAG
17897989 AGAGGAAAAAAGAAGAAG
1 AGAGGAAAAAAGAAGAAG
17898007 AGA
1 AGA
17898010 AAAGAATTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 6 0.20
17 6 0.20
18 15 0.50
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (18 bp):
AGAGGAAAAAAGAAGAAG
Found at i:17898011 original size:15 final size:16
Alignment explanation
Indices: 17897959--17898012 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
17897949 AGCTATAGAG
*
17897959 GAAAATAAGAATAAGA
1 GAAAATAAGAAGAAGA
17897975 GAAAATAGATGAAG-AGA
1 GAAAATA-A-GAAGAAGA
17897992 GGAAAA-AAGAAGAAGA
1 -GAAAATAAGAAGAAGA
17898008 GAAAA
1 GAAAA
17898013 GAATTGTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 9 0.27
16 11 0.33
17 5 0.15
18 8 0.24
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (16 bp):
GAAAATAAGAAGAAGA
Found at i:17899024 original size:3 final size:3
Alignment explanation
Indices: 17899016--17899061 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
17899006 TTAAACCTAC
*
17899016 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17899062 CATCCAAATT
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:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:17902934 original size:24 final size:24
Alignment explanation
Indices: 17902902--17902949 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17902892 TTTTCATACT
* *
17902902 TTAGTCCATATGTTCAAAAACTAA
1 TTAGGCCATATATTCAAAAACTAA
17902926 TTAGGCCATATATTCAAAAACTAA
1 TTAGGCCATATATTCAAAAACTAA
17902950 CATTTAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (24 bp):
TTAGGCCATATATTCAAAAACTAA
Found at i:17904629 original size:39 final size:40
Alignment explanation
Indices: 17904581--17904657 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
17904571 TATGCTTTCG
* * *
17904581 TAATCTGTATAGAGAAT-TTGCACTTGAAGTTTAGACTCA
1 TAATATGTATAGAGAATATTGCAATTGAAGCTTAGACTCA
*
17904620 TAATATGTATGGAGAATATTGCAATTGAAGCTTAGACT
1 TAATATGTATAGAGAATATTGCAATTGAAGCTTAGACT
17904658 GTTTATGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 15 0.45
40 18 0.55
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (40 bp):
TAATATGTATAGAGAATATTGCAATTGAAGCTTAGACTCA
Found at i:17905210 original size:16 final size:16
Alignment explanation
Indices: 17905189--17905232 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
17905179 GTTAGTTATT
17905189 TATTTATTTTTATTAA
1 TATTTATTTTTATTAA
17905205 TATTTATTTTTATTAA
1 TATTTATTTTTATTAA
17905221 T-TATTATTTTTA
1 TAT-TTATTTTTA
17905233 ACTAGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 1 0.04
16 26 0.96
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTATTTTTATTAA
Found at i:17905223 original size:20 final size:20
Alignment explanation
Indices: 17905185--17905229 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17905175 TCTTGTTAGT
*
17905185 TATTTATTTATTTTTATTAA
1 TATTTATTTATTTTAATTAA
*
17905205 TATTTATTT-TTATTAATTAT
1 TATTTATTTATT-TTAATTAA
17905225 TATTT
1 TATTT
17905230 TTAACTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TATTTATTTATTTTAATTAA
Found at i:17906631 original size:19 final size:20
Alignment explanation
Indices: 17906607--17906650 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
17906597 TCCAAACACT
17906607 AGAAAAGTAAATCATTTT-C
1 AGAAAAGTAAATCATTTTCC
17906626 AGAAAAGTAAATCATTTTCC
1 AGAAAAGTAAATCATTTTCC
17906646 AGAAA
1 AGAAA
17906651 TTATTTTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.27
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCC
Found at i:17907294 original size:39 final size:39
Alignment explanation
Indices: 17907238--17907323 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
17907228 TACATTGCGC
17907238 CACCATCAACACGCAAGACACGCCAAAATCCGGCGTTGG
1 CACCATCAACACGCAAGACACGCCAAAATCCGGCGTTGG
* *
17907277 CACCATCAACGCTCAAGACACGCCAAAATCCGGCGTTGG
1 CACCATCAACACGCAAGACACGCCAAAATCCGGCGTTGG
*
17907316 CTCCATCA
1 CACCATCA
17907324 GCGCGCAGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.31, C:0.37, G:0.19, T:0.13
Consensus pattern (39 bp):
CACCATCAACACGCAAGACACGCCAAAATCCGGCGTTGG
Found at i:17908307 original size:21 final size:19
Alignment explanation
Indices: 17908283--17908333 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
17908273 TTCTCAAAAT
17908283 TATTATTTATATGTATTATTA
1 TATTATTTATA--TATTATTA
17908304 TATT-TTTCATATATTA-TA
1 TATTATTT-ATATATTATTA
17908322 TATTTATTTATA
1 TA-TTATTTATA
17908334 CATATTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 4 0.15
19 10 0.37
20 6 0.22
21 7 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTATTTATATATTATTA
Found at i:17908318 original size:19 final size:19
Alignment explanation
Indices: 17908296--17908352 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
17908286 TATTTATATG
17908296 TATTATTATATTTTTCATA
1 TATTATTATATTTTTCATA
*
17908315 TATTA-TATATTTATTTATA
1 TATTATTATATTT-TTCATA
* *
17908334 CA-TATTAT-TTTTACATA
1 TATTATTATATTTTTCATA
17908351 TA
1 TA
17908353 AACTTTCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 5 0.16
18 12 0.39
19 14 0.45
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTATATTTTTCATA
Found at i:17908337 original size:23 final size:23
Alignment explanation
Indices: 17908290--17908338 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
17908280 AATTATTATT
*
17908290 TATATGTATTATTATATTTTTCA
1 TATATGTATTATTATATTTTACA
17908313 TATAT-TATATATT-TATTTATACA
1 TATATGTAT-TATTATATTT-TACA
17908336 TAT
1 TAT
17908339 TATTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATGTATTATTATATTTTACA
Found at i:17908340 original size:21 final size:20
Alignment explanation
Indices: 17908285--17908341 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
17908275 CTCAAAATTA
*
17908285 TTATTTATATGTATTATTATAT
1 TTATTTATA-ATATTA-TATAT
*
17908307 TT-TTCAT-ATATTATATAT
1 TTATTTATAATATTATATAT
17908325 TTATTTATACATATTAT
1 TTATTTATA-ATATTAT
17908342 TTTTACATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 7 0.24
19 9 0.31
21 11 0.38
22 2 0.07
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATTTATAATATTATATAT
Found at i:17908433 original size:16 final size:15
Alignment explanation
Indices: 17908412--17908467 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 15
17908402 TATTGTACAA
17908412 TATTTATTATGTATTAT
1 TATTTA-TAT-TATTAT
17908429 T-TTTATATTACTTAT
1 TATTTATATTA-TTAT
17908444 TATTTATA-TA-TAT
1 TATTTATATTATTAT
*
17908457 TATGTATATTA
1 TATTTATATTA
17908468 CATATTACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 10 0.29
14 4 0.11
15 10 0.29
16 10 0.29
17 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (15 bp):
TATTTATATTATTAT
Found at i:17908466 original size:22 final size:22
Alignment explanation
Indices: 17908411--17908467 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 22
17908401 TTATTGTACA
*
17908411 ATATTTATTATGTAT-T-ATTT
1 ATATATATTATGTATATTATTT
*
17908431 -T-TATATTA-CT-TATTATTT
1 ATATATATTATGTATATTATTT
17908449 ATATATATTATGTATATTA
1 ATATATATTATGTATATTA
17908468 CATATTACCA
Statistics
Matches: 28, Mismatches: 3, Indels: 10
0.68 0.07 0.24
Matches are distributed among these distances:
16 1 0.04
17 2 0.07
18 10 0.36
19 2 0.07
20 7 0.25
21 1 0.04
22 5 0.18
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (22 bp):
ATATATATTATGTATATTATTT
Found at i:17912407 original size:14 final size:14
Alignment explanation
Indices: 17912388--17912417 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17912378 AAGACATTCT
17912388 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
17912402 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
17912416 TT
1 TT
17912418 AAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:17920573 original size:119 final size:119
Alignment explanation
Indices: 17920403--17920885 Score: 664
Period size: 119 Copynumber: 4.0 Consensus size: 119
17920393 AATAAGCCGC
* * *
17920403 AATATAGCAGAT-CTAGCTTTCAGAT-ATTTATACTGAAACAGATCCAAGATGATTTGGTATTCT
1 AATATAGCAGATCCAAAC-TTCAGATGA-TTATACTGAAGCAGATCCAAGATGATTTGGTATTCT
*
17920466 TGTGTTTACAAGAAACAAATCGAGGACATAGCAGATATGACTCTCAGATGTTCTCA
64 TGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
* *
17920522 AATATAGCAGATCCAAACTTCAGATGATTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTA
1 AATATAGCAGATCCAAACTTCAGATGATTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* * * * *
17920587 TGTTTACAAGGAACAAATAGAGGACATAACAGATTTGACTCTTAGACGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
* * *
17920641 GATATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
1 AATATAGCAGATCCAAACTTCAGATGATTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
*
17920706 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
* * * * * * **
17920760 GACACATGGCAGATCTAACCTTTAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTC
1 -A-ATATAGCAGATCCAAACTTCAGATGATTATACTGAAG-CAGATCCAAGATGATTTGGTATTC
* * * *
17920825 TTGTGTTTACAAGAAACAAGTCGAGGACATAGTAGATTTGACTCTCAAATGTTCTCC
63 TTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
17920882 AATA
1 AATA
17920886 GACTCCAGAT
Statistics
Matches: 326, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
119 212 0.65
120 6 0.02
121 34 0.10
122 74 0.23
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (119 bp):
AATATAGCAGATCCAAACTTCAGATGATTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
TGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
Found at i:17921736 original size:39 final size:39
Alignment explanation
Indices: 17921644--17921736 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
17921634 TACATCGCGC
* * * *
17921644 CACCATCGACGTGCAAGACACGGCAAAATCCGGCGTTGG
1 CACCATCAACGCGCAAGACACGCCAAAATCCGGCGTTAG
*
17921683 CACCATCAATGCGCAAGACACGCCAAAATCCGGCGTTAG
1 CACCATCAACGCGCAAGACACGCCAAAATCCGGCGTTAG
* *
17921722 CTCCATCAGCGCGCA
1 CACCATCAACGCGCA
17921737 GACTCCAGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.29, C:0.34, G:0.24, T:0.13
Consensus pattern (39 bp):
CACCATCAACGCGCAAGACACGCCAAAATCCGGCGTTAG
Found at i:17925065 original size:11 final size:11
Alignment explanation
Indices: 17925051--17925075 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17925041 ATGATAAATA
17925051 CTTGATTTGTT
1 CTTGATTTGTT
17925062 CTTGATTTGTT
1 CTTGATTTGTT
17925073 CTT
1 CTT
17925076 AATTATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.12, G:0.16, T:0.64
Consensus pattern (11 bp):
CTTGATTTGTT
Found at i:17925536 original size:13 final size:13
Alignment explanation
Indices: 17925520--17925552 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17925510 TTTGATTAAA
*
17925520 TTAGTTAATTAGT
1 TTAGATAATTAGT
17925533 TTAGATAATTAGT
1 TTAGATAATTAGT
17925546 TTA-ATAA
1 TTAGATAA
17925553 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:17928173 original size:3 final size:3
Alignment explanation
Indices: 17928165--17928196 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
17928155 TTTAATTGTT
*
17928165 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17928197 TCTTTATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:17928217 original size:17 final size:16
Alignment explanation
Indices: 17928168--17928227 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 16
17928158 AATTGTTTTA
*
17928168 TTATTACTATTAT-TA
1 TTATTACTATTATATC
* *
17928183 TTATTATTATTATTTC
1 TTATTACTATTATATC
*
17928199 TTTATTACTATTCTATC
1 -TTATTACTATTATATC
*
17928216 TTATTTCTATTA
1 TTATTACTATTA
17928228 GATTTATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.33
16 11 0.31
17 13 0.36
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTACTATTATATC
Found at i:17937844 original size:24 final size:24
Alignment explanation
Indices: 17937799--17937848 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
17937789 AGTTGGACCG
17937799 ATTTTTATATGTTTTAATATTTCT
1 ATTTTTATATGTTTTAATATTTCT
*
17937823 ATTTTTA-ATGTTTTAATAATT-T
1 ATTTTTATATGTTTTAATATTTCT
17937845 ATTT
1 ATTT
17937849 GCTTTGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
23 13 0.52
24 7 0.28
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (24 bp):
ATTTTTATATGTTTTAATATTTCT
Found at i:17941404 original size:30 final size:30
Alignment explanation
Indices: 17941360--17941416 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17941350 TAAAGGGTTT
* *
17941360 TAGTTGAGCTATAAAAACTAAGAAGGATTC
1 TAGTTAAGCCATAAAAACTAAGAAGGATTC
*
17941390 TAGTTAAGCCATAAAAACTAGGAAGGA
1 TAGTTAAGCCATAAAAACTAAGAAGGA
17941417 GGTTCTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.23
Consensus pattern (30 bp):
TAGTTAAGCCATAAAAACTAAGAAGGATTC
Found at i:17942151 original size:6 final size:6
Alignment explanation
Indices: 17942140--17942182 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
17942130 ATCATTAACC
* * *
17942140 ATAATT ATAATT ATAATA ATAATT AAAATT ATAATA ATAATT A
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT A
17942183 ATATACTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
ATAATT
Found at i:17942194 original size:18 final size:18
Alignment explanation
Indices: 17942140--17942183 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
17942130 ATCATTAACC
*
17942140 ATAATTATAATTATAATA
1 ATAATTAAAATTATAATA
17942158 ATAATTAAAATTATAATA
1 ATAATTAAAATTATAATA
17942176 ATAATTAA
1 ATAATTAA
17942184 TATACTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAATTAAAATTATAATA
Found at i:17943068 original size:15 final size:15
Alignment explanation
Indices: 17943048--17943082 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
17943038 ACACACGGCC
*
17943048 GTGTCGCATGGTCGT
1 GTGTCGCATGGCCGT
17943063 GTGTCGCATGGCCGT
1 GTGTCGCATGGCCGT
17943078 GTGTC
1 GTGTC
17943083 ACACACAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.23, G:0.40, T:0.31
Consensus pattern (15 bp):
GTGTCGCATGGCCGT
Found at i:17954633 original size:16 final size:15
Alignment explanation
Indices: 17954602--17954640 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
17954592 TTTTACTCTC
*
17954602 TTATTTCCTTTGTTAT
1 TTATTT-CTTTATTAT
17954618 TTACTTTCTTTATTAT
1 TTA-TTTCTTTATTAT
17954634 TTATTTC
1 TTATTTC
17954641 ATAACAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 14 0.67
17 3 0.14
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATTTCTTTATTAT
Found at i:17967525 original size:33 final size:33
Alignment explanation
Indices: 17967450--17967525 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
17967440 ATATTTTATT
* * * *
17967450 TAAATTAGTAGATATTTATTATTTACTATTATTA
1 TAAATAAG-AGATATTTATTAATTACAATAATTA
*
17967484 TAATTAAGAGATATTTATTAATTA-AATAATTA
1 TAAATAAGAGATATTTATTAATTACAATAATTA
17967516 TAACATAAGA
1 TAA-ATAAGA
17967526 TTTTTATGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 9 0.26
33 20 0.57
34 6 0.17
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (33 bp):
TAAATAAGAGATATTTATTAATTACAATAATTA
Found at i:17967761 original size:12 final size:12
Alignment explanation
Indices: 17967740--17967769 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17967730 GAAGCATTCG
*
17967740 AAAAGAGAAAGA
1 AAAAGGGAAAGA
17967752 AAAAGGGAAAGA
1 AAAAGGGAAAGA
17967764 AAAAGG
1 AAAAGG
17967770 AAAAACTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
AAAAGGGAAAGA
Found at i:17968829 original size:39 final size:39
Alignment explanation
Indices: 17968774--17968862 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
17968764 TATTGTTACC
*
17968774 GTTACTGTTACCGATTC-GACACTTTGTGTGTCGAATACT
1 GTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACT
*
17968813 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACT
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACT
17968852 GTTACTGTTAC
1 GTTACTGTTAC
17968863 TGCTACTGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 46 0.98
40 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (39 bp):
GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACT
Found at i:17968879 original size:18 final size:18
Alignment explanation
Indices: 17968848--17968882 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17968838 GTGTGTTGAA
* *
17968848 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
17968866 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
17968883 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:17969917 original size:31 final size:31
Alignment explanation
Indices: 17969879--17969937 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
17969869 TTAGATTGGT
17969879 CATTCCAATGGCTAATCATTTACAAACCGGC
1 CATTCCAATGGCTAATCATTTACAAACCGGC
17969910 CATTCCAATGGCTAATCATTTACAAACC
1 CATTCCAATGGCTAATCATTTACAAACC
17969938 CTTTTCTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (31 bp):
CATTCCAATGGCTAATCATTTACAAACCGGC
Found at i:17973578 original size:44 final size:44
Alignment explanation
Indices: 17973530--17973759 Score: 123
Period size: 44 Copynumber: 5.2 Consensus size: 44
17973520 CCAGTGTCAT
*
17973530 TTCAAGGAGAAAAGATTTGTAGCCTCGATCTACTTCGCTGAAAC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTTCGCTGAAAC
* * *** * *
17973574 TTCAAGGAGATACGAACCGTGGCTTCGAGC-AGC-TC-C--AATACC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTA-CTTCGCTGAA-A-C
* * *
17973616 ATTCCAAGGAGAAGAGATTTGTAGCCTCGTTCTAC-TCTGCTGAAAC
1 -TT-CAAGGAGAAAAGATTTGTAGCTTCGATCTACTTC-GCTGAAAC
* * ** * * ** ** *
17973662 TTCAAGGAGATACGAACTGTAGCTTCGAGC-AGCTCCAATGCCAT
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTA-CTTCGCTGAAAC
* * *
17973706 TTCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAAC
1 TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTTCGCTGAAAC
17973750 TTCAAGGAGA
1 TTCAAGGAGA
17973760 TACGAACTGT
Statistics
Matches: 129, Mismatches: 44, Indels: 26
0.65 0.22 0.13
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 2 0.02
43 6 0.05
44 108 0.84
45 5 0.04
46 2 0.02
47 1 0.01
48 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
TTCAAGGAGAAAAGATTTGTAGCTTCGATCTACTTCGCTGAAAC
Found at i:17973771 original size:44 final size:44
Alignment explanation
Indices: 17973646--17973862 Score: 133
Period size: 44 Copynumber: 4.9 Consensus size: 44
17973636 GTAGCCTCGT
* * *
17973646 TCTACTCTGCTGAAACTTCAAGGAGATACGAACTGTAGCTTCGA
1 TCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTAGCTTTGA
* ** ** *
17973690 GC-AGCTCCAATGCCATTTCAAGGAGA-A-GAGATTTGTAGCTTTGA
1 TCTA-CTCCGCTGAAACTTCAAGGAGATACGA-A-TTGTAGCTTTGA
*
17973734 TCTACTCCGCTGAAACTTCAAGGAGATACGAACTGTAG-TTTCGA
1 TCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTAGCTTT-GA
* ** * ** * * *
17973778 GCCGCTCCAAC-GCCATTTTAGGGAGA-A-GAGATTTGTAGCTTTGA
1 TCTACTCC-GCTGAAACTTCAAGGAGATACGA-A-TTGTAGCTTTGA
* *
17973822 TCTACTCTGCTGAAACTTCAAGGAGATACGAATTGTGGCTT
1 TCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTAGCTT
17973863 CGAGCCGCTC
Statistics
Matches: 122, Mismatches: 37, Indels: 28
0.65 0.20 0.15
Matches are distributed among these distances:
42 4 0.03
43 9 0.07
44 96 0.79
45 9 0.07
46 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTAGCTTTGA
Found at i:17974004 original size:88 final size:88
Alignment explanation
Indices: 17973504--17974024 Score: 668
Period size: 88 Copynumber: 5.9 Consensus size: 88
17973494 GATAAGGTTA
* * * * * *
17973504 GTGGCTTCGATCTGCTCCAGTGTCATTTCAAGGAGAAAAGATTTGTAGCCTCGATCTACTTCGCT
1 GTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCT
*
17973569 GAAACTTCAAGGAGATACGAACC
66 GAAACTTCAAGGAGATACGAACT
* * * * *
17973592 GTGGCTTCGAGCAGCTCCAATACCATTCCAAGGAGAAGAGATTTGTAGCCTCGTTCTACTCTGCT
1 GTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCT
17973657 GAAACTTCAAGGAGATACGAACT
66 GAAACTTCAAGGAGATACGAACT
* * * *
17973680 GTAGCTTCGAGCAGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCT
1 GTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCT
17973745 GAAACTTCAAGGAGATACGAACT
66 GAAACTTCAAGGAGATACGAACT
* * * * * * * *
17973768 GTAGTTTCGAGCCGCTCCAACGCCATTTTAGGGAGAAGAGATTTGTAGCTTTGATCTACTCTGCT
1 GTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCT
*
17973833 GAAACTTCAAGGAGATACGAATT
66 GAAACTTCAAGGAGATACGAACT
* * *
17973856 GTGGCTTCGAGCCGCTCTAGTGCCATTTC-AGGAAGAAGGGATTTGTAGCCTCGATCTACTCCGC
1 GTGGCTTCGAGCCGCTCCAATGCCATTTCAAGG-AGAAGAGATTTGTAGCCTCGATCTACTCCGC
*
17973920 TAAAACTTCAAGGAGATACGAACT
65 TGAAACTTCAAGGAGATACGAACT
* * * * * *
17973944 ATGGCTTCGAGCCGCTCCAACT-CCATTTTAGGGAAAAGAGATTTGTAGCATCGATCTACTCCAC
1 GTGGCTTCGAGCCGCTCCAA-TGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGC
* * *
17974008 TAAAACTTTAAGAAGAT
65 TGAAACTTCAAGGAGAT
17974025 CTGAATTGTT
Statistics
Matches: 381, Mismatches: 49, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
87 2 0.01
88 376 0.99
89 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (88 bp):
GTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCT
GAAACTTCAAGGAGATACGAACT
Found at i:17974196 original size:88 final size:88
Alignment explanation
Indices: 17974044--17974460 Score: 611
Period size: 88 Copynumber: 4.7 Consensus size: 88
17974034 TGATTTCAAC
*
17974044 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCTTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* *
17974109 GGTTAAGGGTTACCATCTTTGAT
66 GGTTAAGGCTCACCATCTTTGAT
* * * * *
17974132 CTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTTAGCTTGTTACCCTACTACATAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
17974197 GGTTAAGGCTCACCATCTTTGAT
66 GGTTAAGGCTCACCATCTTTGAT
*
17974220 CTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* *
17974285 GGTTAAGGTTCACCGTCTTTGAT
66 GGTTAAGGCTCACCATCTTTGAT
* * * * *
17974308 CTGCTCCATTACTACTTAGGGAGACAAGATCTATAATTTTCAGTCTGTTACTCTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* *
17974373 AGTTAAGGCTCACCGTCTTTGAT
66 GGTTAAGGCTCACCATCTTTGAT
* * * **
17974396 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTACT-CCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACC-CTACTGCTTAGG
17974460 G
65 G
17974461 AGATAGGATG
Statistics
Matches: 296, Mismatches: 32, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
87 1 0.00
88 295 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (88 bp):
CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
GGTTAAGGCTCACCATCTTTGAT
Found at i:17974370 original size:44 final size:44
Alignment explanation
Indices: 17974050--17974374 Score: 153
Period size: 44 Copynumber: 7.4 Consensus size: 44
17974040 CAACCTGCTC
* *
17974050 CACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTA
1 CACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGTCTGTTA
* ** * ** * ** *
17974094 C-CTTACTGCTTAGGGGGTTAAGGGT-TACCATCTTTGA-TCTACTC
1 CAC-TACTGCTTAGGGAGACAA-GATCTATAAT-TTTCAGTCTGTTA
* *
17974138 CACTACTGCTTAGGGAGACAAGATCTGTAATTTTTAG-CTTGTTA
1 CACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGTC-TGTTA
* * * * ** * ** * * *
17974182 CCCTACTACATAGGGGGTTAAG-GCTCACCATCTTTGA-TCTGCTC
1 CACTACTGCTTAGGGAGACAAGATCT-ATAAT-TTTCAGTCTGTTA
*
17974226 CACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGCCTGTTA
1 CACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGTCTGTTA
* * ** * *** * * *
17974270 CCCTACTGCTTAGGGGGTTAAGGT-TCACCGTCTTTGA-TCTGCTC
1 CACTACTGCTTAGGGAGACAAGATCT-ATAAT-TTTCAGTCTGTTA
* *
17974314 CATTACTACTTAGGGAGACAAGATCTATAATTTTCAGTCTGTTA
1 CACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGTCTGTTA
*
17974358 CTCTACTGCTTAGGGAG
1 CACTACTGCTTAGGGAG
17974375 TTAAGGCTCA
Statistics
Matches: 188, Mismatches: 77, Indels: 32
0.63 0.26 0.11
Matches are distributed among these distances:
43 19 0.10
44 150 0.80
45 19 0.10
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (44 bp):
CACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGTCTGTTA
Found at i:17974408 original size:44 final size:44
Alignment explanation
Indices: 17974097--17974553 Score: 184
Period size: 44 Copynumber: 10.4 Consensus size: 44
17974087 CCTGTTACCT
* * * * *
17974097 TACTGCTTAGGGGGTTAAGGGTTACCATCTTTGATCTACTCCAC
1 TACTGCTTAGGGAGATAAGGATCACCATCTTTGATCTGCTCCAC
* *** * * *
17974141 TACTGCTTAGGGAGACAA-GATCTGTAAT-TTTTAGCTTGTTACC-C
1 TACTGCTTAGGGAGATAAGGATC-ACCATCTTTGATC-TGCT-CCAC
* * * * *
17974185 TACTACATAGGGGGTTAAGGCTCACCATCTTTGATCTGCTCCAC
1 TACTGCTTAGGGAGATAAGGATCACCATCTTTGATCTGCTCCAC
* ** * * *
17974229 TACTGCTTAGGGAGACAA-GATCTATAAT-TTTCAGCCTGTTACC-C
1 TACTGCTTAGGGAGATAAGGATC-ACCATCTTTGA-TCTGCT-CCAC
* * * * *
17974273 TACTGCTTAGGGGGTTAAGGTTCACCGTCTTTGATCTGCTCCAT
1 TACTGCTTAGGGAGATAAGGATCACCATCTTTGATCTGCTCCAC
* * ** * * * *
17974317 TACTACTTAGGGAGACAA-GATCTATAAT-TTTCAGTCTGTTACTC
1 TACTGCTTAGGGAGATAAGGATC-ACCATCTTTGA-TCTGCTCCAC
* * *
17974361 TACTGCTTAGGGAGTTAAGGCTCACCGTCTTTGATCTGCTCCAC
1 TACTGCTTAGGGAGATAAGGATCACCATCTTTGATCTGCTCCAC
* * * * *
17974405 TACTGCTTAGGGAGATAA-GATCTGCAATC-TTCAGCCTACTCCAC
1 TACTGCTTAGGGAGATAAGGATC-ACCATCTTTGA-TCTGCTCCAC
* *** **
17974449 TACTGCTTAGGGAGAT-AGGATGA-TGGCTTAAATCTGCTCCAC
1 TACTGCTTAGGGAGATAAGGATCACCATCTTTGATCTGCTCCAC
* * * ** * * * * *
17974491 AACTGGTTAGGGAGACAA-GATTTGCCGTCTTCGACCTACTCTAC
1 TACTGCTTAGGGAGATAAGGA-TCACCATCTTTGATCTGCTCCAC
17974535 TACTGCTTAGGGAGATAAG
1 TACTGCTTAGGGAGATAAG
17974554 ATCTATGAAT
Statistics
Matches: 287, Mismatches: 102, Indels: 47
0.66 0.23 0.11
Matches are distributed among these distances:
42 24 0.08
43 36 0.13
44 201 0.70
45 26 0.09
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (44 bp):
TACTGCTTAGGGAGATAAGGATCACCATCTTTGATCTGCTCCAC
Found at i:17974461 original size:88 final size:88
Alignment explanation
Indices: 17974044--17974511 Score: 600
Period size: 88 Copynumber: 5.3 Consensus size: 88
17974034 TGATTTCAAC
*
17974044 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCTTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* * * *
17974109 GGTTAAGGGTTACCATCTTTGAT
66 AGTTAAGGCTCACCGTCTTTGAT
* * * * *
17974132 CTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTTAGCTTGTTACCCTACTACATAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* *
17974197 GGTTAAGGCTCACCATCTTTGAT
66 AGTTAAGGCTCACCGTCTTTGAT
*
17974220 CTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
* *
17974285 GGTTAAGGTTCACCGTCTTTGAT
66 AGTTAAGGCTCACCGTCTTTGAT
* * * * *
17974308 CTGCTCCATTACTACTTAGGGAGACAAGATCTATAATTTTCAGTCTGTTACTCTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
17974373 AGTTAAGGCTCACCGTCTTTGAT
66 AGTTAAGGCTCACCGTCTTTGAT
* * * **
17974396 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTACT-CCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACC-CTACTGCTTAGG
* * * * * **
17974460 GAGAT-AGGATGA-TGGCTTAAAT
65 GAGTTAAGGCTCACCGTCTTTGAT
* *
17974482 CTGCTCCACAACTGGTTAGGGAGACAAGAT
1 CTGCTCCACTACTGCTTAGGGAGACAAGAT
17974512 TTGCCGTCTT
Statistics
Matches: 337, Mismatches: 42, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
86 33 0.10
87 6 0.02
88 298 0.88
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (88 bp):
CTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG
AGTTAAGGCTCACCGTCTTTGAT
Found at i:17974522 original size:86 final size:86
Alignment explanation
Indices: 17974394--17974551 Score: 237
Period size: 86 Copynumber: 1.8 Consensus size: 86
17974384 ACCGTCTTTG
* *
17974394 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTC-AGCCTACTCCACTACTGCTTA
1 ATCTGCTCCACAACTGCTTAGGGAGACAAGATCTGCAATCTTCGA-CCTACTCCACTACTGCTTA
17974458 GGGAGATAGGATGATGGCTTAA
65 GGGAGATAGGATGATGGCTTAA
* * ** *
17974480 ATCTGCTCCACAACTGGTTAGGGAGACAAGATTTGCCGTCTTCGACCTACTCTACTACTGCTTAG
1 ATCTGCTCCACAACTGCTTAGGGAGACAAGATCTGCAATCTTCGACCTACTCCACTACTGCTTAG
17974545 GGAGATA
66 GGAGATA
17974552 AGATCTATGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
86 63 0.98
87 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (86 bp):
ATCTGCTCCACAACTGCTTAGGGAGACAAGATCTGCAATCTTCGACCTACTCCACTACTGCTTAG
GGAGATAGGATGATGGCTTAA
Found at i:17974726 original size:64 final size:64
Alignment explanation
Indices: 17974625--17974752 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
17974615 TCATGTATCT
*
17974625 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
*
17974689 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
17974753 TTATGAATGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:17980000 original size:30 final size:30
Alignment explanation
Indices: 17979966--17980026 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
17979956 ACATAGGTAC
17979966 AGATGTATCTCGAAAACGATCCACTATTCT
1 AGATGTATCTCGAAAACGATCCACTATTCT
*
17979996 AGATGTATCTCGAAAGCGATCCACTATTCT
1 AGATGTATCTCGAAAACGATCCACTATTCT
17980026 A
1 A
17980027 CACGGAGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (30 bp):
AGATGTATCTCGAAAACGATCCACTATTCT
Found at i:17981238 original size:3 final size:3
Alignment explanation
Indices: 17981230--17981262 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
17981220 TGCATGAAAT
*
17981230 ATA ATA ATA ATA ATA ATA ATG ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17981263 ATCATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:17983887 original size:22 final size:22
Alignment explanation
Indices: 17983842--17983882 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
17983832 AACATGTTCT
17983842 AAGCTTAATTTCTATCAATTTC
1 AAGCTTAATTTCTATCAATTTC
17983864 AAGCTTAA-TTC-ATCAATTT
1 AAGCTTAATTTCTATCAATTT
17983883 ATCAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.44
Consensus pattern (22 bp):
AAGCTTAATTTCTATCAATTTC
Found at i:17987547 original size:39 final size:39
Alignment explanation
Indices: 17987462--17987549 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
17987452 TTTAAGATAC
*
17987462 ATTTTTTTTAGGATTATCACCGTATGTACAAGTGTAAAT
1 ATTTTTTTTAGGATTATCACCGTATATACAAGTGTAAAT
** * *
17987501 ACGTTTTTTAGGATTATCACCGTATATACGAGTGTTAAGT
1 ATTTTTTTTAGGATTATCACCGTATATACAAGTG-TAAAT
*
17987541 TTTTTTTTT
1 ATTTTTTTT
17987550 TTTGGTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 30 0.75
40 10 0.25
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (39 bp):
ATTTTTTTTAGGATTATCACCGTATATACAAGTGTAAAT
Found at i:17989262 original size:45 final size:43
Alignment explanation
Indices: 17989189--17989349 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 43
17989179 ATATGTGTTA
* *
17989189 TCGTGTAAGACCACGTCTGGAACGTTGGCATCGACTTCTGTTTT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTCTGTTTT
*
17989233 TGCGTGTAAGACCACGTCTGGGACATTGGCATCG-TATCTG-ATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGAT-TCTGTTTT
* * * *
17989276 TCGTGTAAGACC-CTGTCTGGGATAGTGGCATCGATGTTTG-ATT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TCTGTTTT
* * *
17989319 ACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCAT
17989350 TGTATATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 28 0.28
43 35 0.35
44 6 0.06
45 30 0.30
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTCTGTTTT
Found at i:18008660 original size:31 final size:29
Alignment explanation
Indices: 18008624--18008681 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 29
18008614 CTTTTATCAA
18008624 TTTTCTTATACCTACAAATAATGTTAAAATT
1 TTTTCTTATACCTAC--ATAATGTTAAAATT
*
18008655 TTTTCTTATACCTACTTAATGTTAAAA
1 TTTTCTTATACCTACATAATGTTAAAA
18008682 AAAAATCTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.42
31 15 0.58
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTTCTTATACCTACATAATGTTAAAATT
Found at i:18010660 original size:22 final size:23
Alignment explanation
Indices: 18010607--18010665 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
18010597 CACCCTTTAG
*
18010607 TGGTATCGCGATATCCTCTTTTT
1 TGGTATCGCGATATCCTCTTCTT
18010630 TGGTATCGCGATATCCTCTTCTT
1 TGGTATCGCGATATCCTCTTCTT
18010653 T-GTATCGCGATAT
1 TGGTATCGCGATAT
18010666 TTATAGCGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 12 0.34
23 23 0.66
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (23 bp):
TGGTATCGCGATATCCTCTTCTT
Found at i:18013976 original size:32 final size:32
Alignment explanation
Indices: 18013934--18013997 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
18013924 TCGGGCAATG
*
18013934 CTAATGAAAGTAACCAAATAGAGGTTAACTAT
1 CTAATAAAAGTAACCAAATAGAGGTTAACTAT
18013966 CTAATAAAAGTAACCAAATAGAGGTTAACTAT
1 CTAATAAAAGTAACCAAATAGAGGTTAACTAT
18013998 GTAGAGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.25
Consensus pattern (32 bp):
CTAATAAAAGTAACCAAATAGAGGTTAACTAT
Found at i:18014231 original size:27 final size:27
Alignment explanation
Indices: 18014192--18014253 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
18014182 GAGGATGTGC
*
18014192 CAGAGGCGGCACTGGTGAAGCCTCTGT
1 CAGAGGCGACACTGGTGAAGCCTCTGT
18014219 CAGAGGCGACACTGGTGAAGCCTCTGT
1 CAGAGGCGACACTGGTGAAGCCTCTGT
18014246 CAGAGGCG
1 CAGAGGCG
18014254 GCACCAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.37, T:0.16
Consensus pattern (27 bp):
CAGAGGCGACACTGGTGAAGCCTCTGT
Found at i:18027326 original size:219 final size:219
Alignment explanation
Indices: 18026947--18027380 Score: 733
Period size: 219 Copynumber: 2.0 Consensus size: 219
18026937 CTCCTTACAG
* * *
18026947 TTGCTCAATATGGGAATAAGAACGTGCTCCCAATAGCATTTGCCATCGTAGATAAGGAGAACATG
1 TTGCTCAATATGGCAATAAGAACCTGCTCCCAATAGCATTTGCCATCATAGATAAGGAGAACATG
* * *
18027012 GAATCTTAGGAATTCTTCTTTACCAACTTGTGGAGGTATGTTATTAGCAACGATAATATTTACAT
66 GAATCTTAGGAATTCTTCCTTACCAACTTGCGGAGGTATGTTATTAGCAACAATAATATTTACAT
* * *
18027077 CATCTCCGATAGAGGGAAAAGATTAATTGCCACAATTAGGCATTCCGGTGTGCTATGGAGATCTG
131 CATCTCCAATAGAGGGAAAAGACTAATTGCCACAATTAGGCATTCCGGTGTGCTATGGAGATCCG
18027142 TTTACTGCATCCGTCACATTACGA
196 TTTACTGCATCCGTCACATTACGA
* *
18027166 TTGCTCAATATGGCAATAAGAACCTGCTCCCAATAGCATTTTCCATTATAGATAAGGAGAACATG
1 TTGCTCAATATGGCAATAAGAACCTGCTCCCAATAGCATTTGCCATCATAGATAAGGAGAACATG
* *
18027231 GAATCTTGGGAATTCTTCCTTACCAACTTGCGGAGGTATGTTATTAGCAACAATAATATTTGCAT
66 GAATCTTAGGAATTCTTCCTTACCAACTTGCGGAGGTATGTTATTAGCAACAATAATATTTACAT
* *
18027296 CATTTCCAATAGAGGGAAAAGACTAATTGCCTCAATTAGGCATTCCGGTGTGCTATGGAGATCCG
131 CATCTCCAATAGAGGGAAAAGACTAATTGCCACAATTAGGCATTCCGGTGTGCTATGGAGATCCG
18027361 TTTACTGCATCCGTCACATT
196 TTTACTGCATCCGTCACATT
18027381 GCGGCTAACT
Statistics
Matches: 200, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 200 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (219 bp):
TTGCTCAATATGGCAATAAGAACCTGCTCCCAATAGCATTTGCCATCATAGATAAGGAGAACATG
GAATCTTAGGAATTCTTCCTTACCAACTTGCGGAGGTATGTTATTAGCAACAATAATATTTACAT
CATCTCCAATAGAGGGAAAAGACTAATTGCCACAATTAGGCATTCCGGTGTGCTATGGAGATCCG
TTTACTGCATCCGTCACATTACGA
Found at i:18031504 original size:17 final size:17
Alignment explanation
Indices: 18031479--18031516 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
18031469 CTCAAAAAAA
18031479 TTATTT-TTTT-GTATT
1 TTATTTATTTTCGTATT
18031494 TTATTTATTTTCGTATT
1 TTATTTATTTTCGTATT
18031511 TTATTT
1 TTATTT
18031517 TTTCATTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 4 0.19
17 11 0.52
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (17 bp):
TTATTTATTTTCGTATT
Found at i:18031547 original size:16 final size:16
Alignment explanation
Indices: 18031479--18031560 Score: 76
Period size: 16 Copynumber: 5.1 Consensus size: 16
18031469 CTCAAAAAAA
18031479 TTATTTTTTT-GTATT
1 TTATTTTTTTAGTATT
*
18031494 TTATTTATTTTCGTATT
1 TTATTT-TTTTAGTATT
* * **
18031511 TTATTTTTTCATTAAG
1 TTATTTTTTTAGTATT
*
18031527 ATATTTTTTTAGTATT
1 TTATTTTTTTAGTATT
* *
18031543 TTATTTTTATACTATT
1 TTATTTTTTTAGTATT
18031559 TT
1 TT
18031561 TGTAAAAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
15 6 0.12
16 35 0.67
17 11 0.21
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.71
Consensus pattern (16 bp):
TTATTTTTTTAGTATT
Found at i:18032000 original size:18 final size:18
Alignment explanation
Indices: 18031963--18031998 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18031953 TACCTTTTTT
*
18031963 TCCCTCTTTTTCCTTCCC
1 TCCCTCTTTTTCCCTCCC
18031981 TCCCTCTTTTTCTCCTCC
1 TCCCTCTTTTTC-CCTCC
18031999 TCATTCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
TCCCTCTTTTTCCCTCCC
Found at i:18032061 original size:3 final size:3
Alignment explanation
Indices: 18032047--18032096 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
18032037 GTGCCGCCTC
* *
18032047 CTT CTC CTT CTT CTT CTT C-T CTT CTT -TT CTT CTT CTC CTT CTTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT
18032091 CTT CTT
1 CTT CTT
18032097 TCTTTCAGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:18032071 original size:11 final size:11
Alignment explanation
Indices: 18032055--18032100 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
18032045 TCCTTCTCCT
18032055 TCTTCTTCTTC
1 TCTTCTTCTTC
18032066 TCTTCTT-TTC
1 TCTTCTTCTTC
*
18032076 TTCTTCTCCTTC
1 -TCTTCTTCTTC
18032088 T-TTCTTCTT-
1 TCTTCTTCTTC
18032097 TCTT
1 TCTT
18032101 TCAGCCGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 1 0.03
10 12 0.40
11 14 0.47
12 3 0.10
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:18032076 original size:25 final size:24
Alignment explanation
Indices: 18032048--18032097 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
18032038 TGCCGCCTCC
*
18032048 TTCTCCTTCTTCTTCTTCTCTTCTT
1 TTCTCCTTCTCCTTCTT-TCTTCTT
*
18032073 TTCTTCTTCTCCTTCTTTCTTCTT
1 TTCTCCTTCTCCTTCTTTCTTCTT
18032097 T
1 T
18032098 CTTTCAGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (24 bp):
TTCTCCTTCTCCTTCTTTCTTCTT
Found at i:18032078 original size:19 final size:16
Alignment explanation
Indices: 18032047--18032096 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
18032037 GTGCCGCCTC
18032047 CTTCTCCTTC-TTCTT
1 CTTCTCCTTCTTTCTT
18032062 CTTCT-CTTCTTTTCTT
1 CTTCTCCTTC-TTTCTT
18032078 CTTCTCCTTCTTTCTT
1 CTTCTCCTTCTTTCTT
18032094 CTT
1 CTT
18032097 TCTTTCAGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.12
15 5 0.16
16 19 0.59
17 4 0.12
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTCTCCTTCTTTCTT
Found at i:18032078 original size:28 final size:28
Alignment explanation
Indices: 18032047--18032101 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18032037 GTGCCGCCTC
*
18032047 CTTCTCCTTCTTC-TTCTTCTCTTCTTTT
1 CTTCTCCTCCTTCTTTCTTCT-TTCTTTT
*
18032075 CTTCTTCTCCTTCTTTCTTCTTTCTTT
1 CTTCTCCTCCTTCTTTCTTCTTTCTTT
18032102 CAGCCGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (28 bp):
CTTCTCCTCCTTCTTTCTTCTTTCTTTT
Found at i:18032081 original size:22 final size:21
Alignment explanation
Indices: 18032053--18032093 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
18032043 CCTCCTTCTC
*
18032053 CTTCTTCTTCTTCTCTTCTTTT
1 CTTCTTCTCCTTCT-TTCTTTT
18032075 CTTCTTCTCCTTCTTTCTT
1 CTTCTTCTCCTTCTTTCTT
18032094 CTTTCTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
CTTCTTCTCCTTCTTTCTTTT
Found at i:18033393 original size:47 final size:47
Alignment explanation
Indices: 18033321--18033587 Score: 269
Period size: 47 Copynumber: 5.8 Consensus size: 47
18033311 CCTTGATTGG
18033321 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
* ** ** * ** * *
18033368 AGTTACATTGATTTGGCTATTGGCCATGAAATAGGTATTTTGAGATG
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
* *
18033415 AGTTACATTGATTTGGCTACGGGCCATGGTATGGGTACTCCGGGATA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
** * * ** * *
18033462 AGTTACCTTGATTT-G--A----CCATGAAATAAGTATTTTGAGAGA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
*
18033502 AGTTACCTTGGTTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
** *
18033549 AGTTAGTTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
18033588 TATTGATTAT
Statistics
Matches: 170, Mismatches: 43, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
40 28 0.16
41 1 0.01
43 1 0.01
44 1 0.01
46 1 0.01
47 138 0.81
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.33
Consensus pattern (47 bp):
AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA
Found at i:18033539 original size:87 final size:87
Alignment explanation
Indices: 18033391--18033563 Score: 276
Period size: 87 Copynumber: 2.0 Consensus size: 87
18033381 TGGCTATTGG
* *
18033391 CCATGAAATAGGTATTTTGAGATGAGTTACATTGATTTGGCTACGGGCCATGGTATGGGTACTCC
1 CCATGAAATAAGTATTTTGAGATGAGTTACATTGATTTGGCTACGGGCCATGGTATAGGTACTCC
18033456 GGGATAAGTTACCTTGATTTGA
66 GGGATAAGTTACCTTGATTTGA
* *
18033478 CCATGAAATAAGTATTTTGAGA-GAAGTTACCTTGGTTTGGCTACGGGCCATGGTATAGGTACTC
1 CCATGAAATAAGTATTTTGAGATG-AGTTACATTGATTTGGCTACGGGCCATGGTATAGGTACTC
**
18033542 CGGGATAAGTTAGTTTGATTTG
65 CGGGATAAGTTACCTTGATTTG
18033564 GCTATGGGCC
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 1 0.01
87 78 0.99
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (87 bp):
CCATGAAATAAGTATTTTGAGATGAGTTACATTGATTTGGCTACGGGCCATGGTATAGGTACTCC
GGGATAAGTTACCTTGATTTGA
Found at i:18039143 original size:40 final size:40
Alignment explanation
Indices: 18039080--18039188 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
18039070 CTATGTTCGA
*
18039080 CACTAAGTGTGCGATTTGAAATAGCTTCAGCTATAAAT-A-G
1 CACTAAGTGTGCGAATTGAAATAGCTTCAGCTAT--ATGAGG
* * *
18039120 CACTAAGTGTGCGAATTGGAATAGGTTCGGCTATATGAGG
1 CACTAAGTGTGCGAATTGAAATAGCTTCAGCTATATGAGG
* *
18039160 CACTAAGTGTGCGATATCGAGATAGCTTC
1 CACTAAGTGTGCGA-ATTGAAATAGCTTC
18039189 GGTTATTTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.03
39 1 0.02
40 45 0.78
41 10 0.17
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (40 bp):
CACTAAGTGTGCGAATTGAAATAGCTTCAGCTATATGAGG
Found at i:18046500 original size:40 final size:40
Alignment explanation
Indices: 18046428--18046503 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
18046418 ACTATGTTCG
* * *
18046428 GCACTAAGTGTGTGATTTGAAATAGCTCCGGCTATAAATA
1 GCACTAAGTGTGCGAATTGAAATACCTCCGGCTATAAATA
* *
18046468 GCACTAAGTGTGCGAATTGGAATACCTTCGGCTATA
1 GCACTAAGTGTGCGAATTGAAATACCTCCGGCTATA
18046504 TGAGGCAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (40 bp):
GCACTAAGTGTGCGAATTGAAATACCTCCGGCTATAAATA
Found at i:18052475 original size:43 final size:43
Alignment explanation
Indices: 18052339--18052508 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 43
18052329 ATATAGCTCG
* * * *
18052339 TACAATGCC-ATATCCCAGAAATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * * *
18052380 TATCAATGGCACTGTCCCAGACAGGGTCTTACACGAAATCGATTAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATC-A-CAA
* * *
18052426 T--GATGCCAATGTTCCAGACACGGTCTTACACGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * *
18052467 TACAATGCCAATGTCCTAGATATGGTCTTACATGTGATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
18052509 TCTCGATAAC
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
41 5 0.05
42 7 0.07
43 84 0.85
44 1 0.01
46 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
Found at i:18069389 original size:43 final size:43
Alignment explanation
Indices: 18069341--18069443 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
18069331 TGTTGCTGTT
* * * *
18069341 CCAGACAGGGTCTTACACAAAATC-GATTAACGATGCCAATGTC
1 CCAGACATGGTCTTACACAAAATCACAAT-ACAATGCCAATGTC
* **
18069384 CCAGACATGGTATTACACGTAATCACAATACAATGCCAATGTC
1 CCAGACATGGTCTTACACAAAATCACAATACAATGCCAATGTC
18069427 CCAGACATGGTCTTACA
1 CCAGACATGGTCTTACA
18069444 TGTAATCACA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 49 0.96
44 2 0.04
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (43 bp):
CCAGACATGGTCTTACACAAAATCACAATACAATGCCAATGTC
Found at i:18075716 original size:26 final size:26
Alignment explanation
Indices: 18075651--18075721 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
18075641 GCCAATATCT
*
18075651 GGAAGCTC-CGGAGAACCATTAATTA
1 GGAAGCTCACGAAGAACCATTAATTA
* *
18075676 GGAAGCT-ACCAAAGAACCTTTAATT-
1 GGAAGCTCA-CGAAGAACCATTAATTA
*
18075701 GGAAAGCTCACGAAGAGCCAT
1 GG-AAGCTCACGAAGAACCAT
18075722 ATATCGGGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
25 9 0.25
26 26 0.72
27 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACGAAGAACCATTAATTA
Found at i:18079392 original size:22 final size:22
Alignment explanation
Indices: 18079366--18079419 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
18079356 GTGGGAGCAT
*
18079366 TTTGGCACTTCGGTGCGACTCA
1 TTTGGCACTTCAGTGCGACTCA
* *
18079388 TTTGGCACTTCAGTGTGATTCA
1 TTTGGCACTTCAGTGCGACTCA
18079410 TTCTGGCACT
1 TT-TGGCACT
18079420 ATGGTGCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (22 bp):
TTTGGCACTTCAGTGCGACTCA
Found at i:18081216 original size:16 final size:16
Alignment explanation
Indices: 18081184--18081215 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
18081174 ATTATTTTAA
18081184 TCTTTTATTTAATTTT
1 TCTTTTATTTAATTTT
18081200 TCTTTT-TTTAATTTT
1 TCTTTTATTTAATTTT
18081215 T
1 T
18081216 TAATTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (16 bp):
TCTTTTATTTAATTTT
Found at i:18081645 original size:3 final size:3
Alignment explanation
Indices: 18081637--18081661 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18081627 AATATTTTCT
18081637 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
18081662 GAATTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18081838 original size:20 final size:20
Alignment explanation
Indices: 18081805--18081842 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18081795 AATTATTTTT
18081805 AATTTATTATTATTTTTTAA
1 AATTTATTATTATTTTTTAA
18081825 AATTT-TTATGTATTTTTT
1 AATTTATTAT-TATTTTTT
18081843 TAATTTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
AATTTATTATTATTTTTTAA
Found at i:18081847 original size:19 final size:19
Alignment explanation
Indices: 18081800--18081848 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
18081790 TAAATAATTA
18081800 TTTTTAATTTATTATTATT
1 TTTTTAATTTATTATTATT
*
18081819 TTTTAAAATTT-TTATGTATT
1 TTTT-TAATTTATTAT-TATT
18081839 TTTTTAATTT
1 TTTTTAATTT
18081849 CTATAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTAATTTATTATTATT
Found at i:18083712 original size:47 final size:48
Alignment explanation
Indices: 18083640--18083736 Score: 178
Period size: 47 Copynumber: 2.0 Consensus size: 48
18083630 TTCCACACAC
*
18083640 CTCTTCGTTACCATTTCATTTCTTTATTACTTTTTCACTTACAAATTT
1 CTCTTCGTTACCATTTCATTCCTTTATTACTTTTTCACTTACAAATTT
18083688 CTCTT-GTTACCATTTCATTCCTTTATTACTTTTTCACTTACAAATTT
1 CTCTTCGTTACCATTTCATTCCTTTATTACTTTTTCACTTACAAATTT
18083735 CT
1 CT
18083737 AACTTATCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 43 0.90
48 5 0.10
ACGTcount: A:0.21, C:0.24, G:0.02, T:0.54
Consensus pattern (48 bp):
CTCTTCGTTACCATTTCATTCCTTTATTACTTTTTCACTTACAAATTT
Found at i:18092332 original size:56 final size:56
Alignment explanation
Indices: 18092201--18092392 Score: 287
Period size: 56 Copynumber: 3.4 Consensus size: 56
18092191 TCCCAAACAG
* * * *
18092201 GGTCTTACTCGCACACGTAGATCGGAATCACATATCGATGCCAACGTACT-AAAGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAAAGT
* *
18092256 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGTCAACATATTAAAAGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAAAGT
* * *
18092312 GGTCTTACTCGTACAAATATATCGAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAAAGT
*
18092368 GGTCTTACTTGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
18092393 TGCCATGGTC
Statistics
Matches: 122, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 44 0.36
56 78 0.64
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAAAGT
Found at i:18103843 original size:140 final size:142
Alignment explanation
Indices: 18103597--18103865 Score: 416
Period size: 140 Copynumber: 1.9 Consensus size: 142
18103587 GTTACCTCTA
* * *
18103597 GATCTCTACACTCTTTTGCGTTCGCCTAAGGATCTCTCCTATTTTTTTTGTTCGTCCCCTTTAGG
1 GATCTCCACACTCTTTTGCGTTCGCCTAAGGATCTCTCCTACTTTTTTTGTTCGCCCCCTTTAGG
* * * *
18103662 GTTTCCTCCTTTGGTTTTTTATAATATTTTTCCTTAGGGTAAATCCAACTA-CCCATGATATCTA
66 GTTTCCTCCTTTAGATTTTTATAATATTTTTCCCTAGGGTAAATCCAAATAGCCCATGATATCTA
18103726 TTGTTGTGTCCG
131 TTGTTGTGTCCG
* * * *
18103738 GATCTCCACACTTTTTTGTGTTTGCCTAAGGATCTCTCCT-CTTTTTTTGTTTGCCCCCTTTAGG
1 GATCTCCACACTCTTTTGCGTTCGCCTAAGGATCTCTCCTACTTTTTTTGTTCGCCCCCTTTAGG
*
18103802 GTTTCCTCTTTTAGATTTTTATAATATTTTTCCCTAGGGTAAATCCAAATAGCCCATGATATCT
66 GTTTCCTCCTTTAGATTTTTATAATATTTTTCCCTAGGGTAAATCCAAATAGCCCATGATATCT
18103866 TCTCCTTTTT
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
140 67 0.58
141 48 0.42
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.45
Consensus pattern (142 bp):
GATCTCCACACTCTTTTGCGTTCGCCTAAGGATCTCTCCTACTTTTTTTGTTCGCCCCCTTTAGG
GTTTCCTCCTTTAGATTTTTATAATATTTTTCCCTAGGGTAAATCCAAATAGCCCATGATATCTA
TTGTTGTGTCCG
Found at i:18104626 original size:40 final size:39
Alignment explanation
Indices: 18104575--18104651 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 39
18104565 TGTGTTTTTG
* *
18104575 TTTCATATAATATTATTATAATAGGGGGTTTAGCATGTTT
1 TTTCATATAATATTACTATAATA-GGGATTTAGCATGTTT
18104615 TTTCATATAATATTACTATAATAGGGATTTAGCATGT
1 TTTCATATAATATTACTATAATAGGGATTTAGCATGT
18104652 CACAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.37
40 22 0.63
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (39 bp):
TTTCATATAATATTACTATAATAGGGATTTAGCATGTTT
Found at i:18112814 original size:43 final size:43
Alignment explanation
Indices: 18112767--18112849 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
18112757 ATGATTGATT
** *
18112767 TTGAAATGGCAAAGATGATAAATGAATATGAGATAAGAAAATA
1 TTGAAATGAAAAAGATGAGAAATGAATATGAGATAAGAAAATA
* * * *
18112810 TTGAAATGAAAAATATGAGAAATGATTATGTGATGAGAAA
1 TTGAAATGAAAAAGATGAGAAATGAATATGAGATAAGAAA
18112850 TGAAATATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.52, C:0.01, G:0.22, T:0.25
Consensus pattern (43 bp):
TTGAAATGAAAAAGATGAGAAATGAATATGAGATAAGAAAATA
Found at i:18114031 original size:49 final size:49
Alignment explanation
Indices: 18113954--18114050 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
18113944 TCTAGAAGGG
* * *
18113954 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAAACCAAGTTTAGAAATGT
* *
18114003 ATAAATAGTTATAAGAGTGTAGATAGTGGAAAACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGTAGAAAGTGGAAAACCAAGTTTAGAAATG
18114051 CATAGCATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.44, C:0.04, G:0.25, T:0.27
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGAAAGTGGAAAACCAAGTTTAGAAATGT
Found at i:18117084 original size:7 final size:7
Alignment explanation
Indices: 18117072--18117104 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18117062 ACATAGTCAT
18117072 TTCTTAA
1 TTCTTAA
18117079 TTCTTAA
1 TTCTTAA
18117086 TTCTTAA
1 TTCTTAA
18117093 TTCTTAA
1 TTCTTAA
18117100 TTCTT
1 TTCTT
18117105 TTTACAACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (7 bp):
TTCTTAA
Found at i:18124984 original size:25 final size:25
Alignment explanation
Indices: 18124950--18124998 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
18124940 GTGGATTTTT
18124950 CCTTAGGTATTGTCTTAATTCAATA
1 CCTTAGGTATTGTCTTAATTCAATA
18124975 CCTTAGGTATTGTCTTAATTCAAT
1 CCTTAGGTATTGTCTTAATTCAAT
18124999 CGGTTTTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (25 bp):
CCTTAGGTATTGTCTTAATTCAATA
Found at i:18126259 original size:17 final size:17
Alignment explanation
Indices: 18126237--18126272 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18126227 TTGATTTTAA
18126237 TTTTCTCTTCTATTTTT
1 TTTTCTCTTCTATTTTT
* *
18126254 TTTTCTCTTTTCTTTTT
1 TTTTCTCTTCTATTTTT
18126271 TT
1 TT
18126273 GATTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTCTTCTATTTTT
Found at i:18127238 original size:20 final size:20
Alignment explanation
Indices: 18127213--18127265 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
18127203 TTATTTTTTC
*
18127213 TATTATTTTTATTATTAATA
1 TATTATTATTATTATTAATA
* *
18127233 TATTATTATTATTCTTAATG
1 TATTATTATTATTATTAATA
18127253 TATTATTATTATT
1 TATTATTATTATT
18127266 TATCTTCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTATTATTATTAATA
Found at i:18127271 original size:23 final size:23
Alignment explanation
Indices: 18127213--18127271 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 23
18127203 TTATTTTTTC
*
18127213 TATTATT-TTTATTATTAATATAT
1 TATTATTATTTA-TCTTAATATAT
*
18127236 TATTATTA--T-TCTTAATGTAT
1 TATTATTATTTATCTTAATATAT
18127256 TATTATTATTTATCTT
1 TATTATTATTTATCTT
18127272 CCACTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
20 17 0.57
22 2 0.07
23 11 0.37
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTATTATTTATCTTAATATAT
Found at i:18127287 original size:3 final size:3
Alignment explanation
Indices: 18127198--18127265 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
18127188 TATTTTTTTG
* * *
18127198 TAT TAT TAT T-T TTT CTAT TAT TTT TAT TAT TAA TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
18127242 TAT TCT TAAT GTAT TAT TAT TAT T
1 TAT TAT T-AT -TAT TAT TAT TAT T
18127266 TATCTTCCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 4 0.07
3 44 0.81
4 5 0.09
5 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18127298 original size:22 final size:23
Alignment explanation
Indices: 18127253--18127306 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
18127243 ATTCTTAATG
18127253 TATTATTATTATTTATCTTCCAC
1 TATTATTATTATTTATCTTCCAC
18127276 T-TTATTATTATTGTA-CTAT-CAC
1 TATTATTATTATT-TATCT-TCCAC
18127298 TATTATTAT
1 TATTATTAT
18127307 CATCATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.28, C:0.13, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTATTATTATTTATCTTCCAC
Found at i:18127433 original size:18 final size:17
Alignment explanation
Indices: 18127412--18127451 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
18127402 TCATTGTTGG
* *
18127412 TATTTGTATCGTTATTAT
1 TATTTATATCATTATT-T
18127430 TATTTATATCATTATTT
1 TATTTATATCATTATTT
18127447 TATTT
1 TATTT
18127452 TTTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (17 bp):
TATTTATATCATTATTT
Found at i:18132401 original size:10 final size:10
Alignment explanation
Indices: 18132386--18132410 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18132376 CCTATACAAG
18132386 AAGGACTTCA
1 AAGGACTTCA
18132396 AAGGACTTCA
1 AAGGACTTCA
18132406 AAGGA
1 AAGGA
18132411 AAGTGTACGC
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:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (10 bp):
AAGGACTTCA
Found at i:18133377 original size:45 final size:45
Alignment explanation
Indices: 18133309--18133435 Score: 121
Period size: 45 Copynumber: 2.8 Consensus size: 45
18133299 TGATAGATCA
* * * ** *
18133309 ATTGAAAAAGCTACAGATTCTATACCCTTGATTTGTAGCAGAACGG
1 ATTG-AAAAGATACAAATCCTATACCCTTGAGCTGCAGCAGAACGG
* * *
18133355 ATTGAAAAGATACAAATCCTATACCCTTGAGCTGCAGTAGGATGG
1 ATTGAAAAGATACAAATCCTATACCCTTGAGCTGCAGCAGAACGG
* * *
18133400 ATTGAAGATGAAACAAATCCTATACCC-TGAGTTGCA
1 ATTGAA-AAGATACAAATCCTATACCCTTGAGCTGCA
18133436 ATGGGTTGGA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
45 46 0.68
46 22 0.32
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (45 bp):
ATTGAAAAGATACAAATCCTATACCCTTGAGCTGCAGCAGAACGG
Found at i:18133446 original size:45 final size:45
Alignment explanation
Indices: 18133353--18133456 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
18133343 GTAGCAGAAC
* *
18133353 GGATTGAAAAGATACAAATCCTATACCCTTGAGCTGCAGTAGGAT
1 GGATTGAAAAGAAACAAATCCTATACCCTTGAGCTGCAATAGGAT
* * * *
18133398 GGATTGAAGATGAAACAAATCCTATACCC-TGAGTTGCAATGGGTT
1 GGATTGAA-AAGAAACAAATCCTATACCCTTGAGCTGCAATAGGAT
*
18133443 GGA-TGAAAAAAAAC
1 GGATTGAAAAGAAAC
18133457 CCTAAAGTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 5 0.10
44 4 0.08
45 23 0.46
46 18 0.36
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (45 bp):
GGATTGAAAAGAAACAAATCCTATACCCTTGAGCTGCAATAGGAT
Found at i:18133877 original size:44 final size:44
Alignment explanation
Indices: 18133776--18134439 Score: 401
Period size: 44 Copynumber: 15.3 Consensus size: 44
18133766 AAATTCACAG
* * *
18133776 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAG--G-CACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACA-A
* * * * *
18133818 ATCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAA
* * * * *
18133862 ATCCTATCTCCCTAAGCAGTAGTGGAATAGATCGAATATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAA
* * * * *
18133906 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCT--C-C
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAG-ATGACAA
* * * * * *
18133948 ATCCTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAAATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TGACAA
* * * *
18133992 ATCCTATTTCCCCTAAGCAGTAGTGGAGCAGATAGAAGATGGA-AA
1 ATCTTATCT-CCCTAAGCAGTAGTGGAGTAGATTGAAGAT-GACAA
* * * * * * ** *
18134037 ATCTTGTCTTCCTAAGTAGTAGTGGAGCATATTTAAG-CCAC-C
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAA
* * * * * *
18134079 ATCCTATCTCTCTAAGCAATAGTGGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TGACAA
* * * ** *
18134123 ATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAA
* * * * ** *
18134167 ATCTTGTCTCCTTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-C
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAA
* * *
18134209 ATCTTGTCTCCCTAAGCAGTAGTGGAATAGATCGAAGATGGA-AA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGAT-GACAA
* * **
18134253 ATCTTGTCTCCCTAAGCAGTAGTGGAATAGATCAAAGATGGA-AA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGAT-GACAA
* * ** *
18134297 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTTAAG-CCAC-C
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAA
* * * * * *
18134339 ATCCTATCTCTCTAAGCAATAGTGGAGTAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA-TGACAA
* * * *
18134383 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAA
* *
18134427 ATATTGTCTCCCT
1 ATCTTATCTCCCT
18134440 GATACGTGAT
Statistics
Matches: 478, Mismatches: 121, Indels: 44
0.74 0.19 0.07
Matches are distributed among these distances:
42 155 0.32
43 6 0.01
44 282 0.59
45 35 0.07
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGACAA
Found at i:18133952 original size:86 final size:86
Alignment explanation
Indices: 18133824--18134439 Score: 370
Period size: 86 Copynumber: 7.1 Consensus size: 86
18133814 CACCATCCTA
* * * ** * * *
18133824 TCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGCAGTAGTGGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCTAC--ATCTTGTCTCCCTAAGCAGTAGTGGAG
*
18133889 TAGATCGAATATGGCAAATCTTG
64 TAGATCGAAGATGGCAAATCTTG
* * * * *
18133912 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCTCCATCCTATCTCCCTAAGTAGTAGTGGAGTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCTACATCTTGTCTCCCTAAGCAGTAGTGGAGTA
* * * * * * *
18133977 GGTTGAAAATTGTAGATCCTATT
66 GATCGAAGATGGCAAAT-CT-TG
* * * * *
18134000 TC-CCCTAAGCAGTAGTGGAGCAGATAGAAG-ATGGAAAATCTTGTCTTCCTAAGTAGTAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCT---ACATCTTGTCTCCCTAAGCAGTAGTGGA
* * ** * * * *
18134063 GCATAT-TTA-A-GCCACCATCCTA
63 GTAGATCGAAGATGGCA-AATCTTG
* * * * ** * *
18134085 TCTCTCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTAGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAG--CCTACATCTTGTCTCCCTAAGCAGTAGTGGAG
* *
18134150 CAGATCAAAGATGGCAAATCTTG
64 TAGATCGAAGATGGCAAATCTTG
* * *
18134173 TCTCCTTAAGCAGTAGTGGAGCAGATTTAAGCC-ACCATCTTGTCTCCCTAAGCAGTAGTGGAAT
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCTA-CATCTTGTCTCCCTAAGCAGTAGTGGAGT
*
18134237 AGATCGAAGATGGAAAATCTTG
65 AGATCGAAGATGGCAAATCTTG
** ** * *
18134259 TCTCCCTAAGCAGTAGTGGAATAGATCAAAG-ATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCT---ACATCTTGTCTCCCTAAGCAGTAGTGGA
** * * * *
18134323 GTAGAT-TTA-A-GCCACCATCCTA
63 GTAGATCGAAGATGGCA-AATCTTG
* * * * ** * * *
18134345 TCTCTCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAG--CCTACATCTTGTCTCCCTAAGCAGTAGTGGAG
* *
18134410 CAGATCGAAGATGGCAAATATTG
64 TAGATCGAAGATGGCAAATCTTG
18134433 TCTCCCT
1 TCTCCCT
18134440 GATACGTGAT
Statistics
Matches: 403, Mismatches: 100, Indels: 50
0.73 0.18 0.09
Matches are distributed among these distances:
85 6 0.01
86 224 0.56
87 34 0.08
88 104 0.26
89 35 0.09
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (86 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCCTACATCTTGTCTCCCTAAGCAGTAGTGGAGTA
GATCGAAGATGGCAAATCTTG
Found at i:18134201 original size:130 final size:130
Alignment explanation
Indices: 18133776--18134439 Score: 934
Period size: 130 Copynumber: 5.1 Consensus size: 130
18133766 AAATTCACAG
* *
18133776 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGGCACCATCCTATCTCCCTAAGCAATAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGT
** * ** * *
18133841 GGAGTAGGTTGAAGATTACAGATCCTATCTCCCTAAGCAGTAGTGGAATAGATCGAATATGGCAA
66 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
* * *
18133906 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCTCCATCCTATCTCCCTAAGTAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGT
* * * *
18133971 GGAGTAGGTTGAAAATTGTAGATCCTATTTCCCCTAAGCAGTAGTGGAGCAGAT-AGAAGATGGA
66 GGAGTAGGTTGAAGATTGTAGATCTTATCT-CCCTAAGCAGTAGTGGAGCAGATCA-AAGATGGC
18134035 AA
129 AA
* * * *
18134037 ATCTTGTCTTCCTAAGTAGTAGTGGAGCATATTTAAGCCACCATCCTATCTCTCTAAGCAATAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGT
* *
18134102 GGAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCAA
66 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
* * * *
18134167 ATCTTGTCTCCTTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCTTGTCTCCCTAAGCAGTAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGT
* * * * * * * ** *
18134232 GGAATAGATCGAAGATGGAAAATCTTGTCTCCCTAAGCAGTAGTGGAATAGATCAAAGATGGAAA
66 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
* *
18134297 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCTCTAAGCAATAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGT
* *
18134362 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAA
66 GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
*
18134427 ATATTGTCTCCCT
1 ATCTTGTCTCCCT
18134440 GATACGTGAT
Statistics
Matches: 467, Mismatches: 64, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
130 353 0.76
131 114 0.24
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (130 bp):
ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAATAGT
GGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
Found at i:18140218 original size:43 final size:43
Alignment explanation
Indices: 18140115--18140281 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
18140105 GGTTACCGAG
* * * * * *
18140115 ATGTGATTACATGCAAGACCGTGTCTGGGACATTGGCATTGTA
1 ATGTGATTACGTGTAAGACCATATCTGGGATATTGGCATCGTA
* * *
18140158 TTGTGATTACGTATAAGACCATGTCTGGGATATTGGCATCGTTA
1 ATGTGATTACGTGTAAGACCATATCTGGGATATTGGCATCG-TA
* * * * *
18140202 AT-TAATTTCGTGTAAGACCCTATTTGGGATAGTGGCATCG-A
1 ATGTGATTACGTGTAAGACCATATCTGGGATATTGGCATCGTA
* *
18140243 TATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -ATGTGATTACGTGTAAGACCATATCTGGGATATTGGCAT
18140282 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 88 0.88
44 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATATCTGGGATATTGGCATCGTA
Found at i:18144053 original size:17 final size:17
Alignment explanation
Indices: 18144031--18144067 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18144021 GTAGCGATTC
18144031 AATACTTTAATTCAGTT
1 AATACTTTAATTCAGTT
*
18144048 AATACTTTAATTCGGTT
1 AATACTTTAATTCAGTT
18144065 AAT
1 AAT
18144068 TAGGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (17 bp):
AATACTTTAATTCAGTT
Found at i:18147565 original size:24 final size:24
Alignment explanation
Indices: 18147537--18147583 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
18147527 TTTTAACTAT
* *
18147537 TTTTTTATTTTATTTTTATTTTTCC
1 TTTTTT-TCTTATTCTTATTTTTCC
*
18147562 TTTTTTTCTTATTCTTCTTTTT
1 TTTTTTTCTTATTCTTATTTTT
18147584 TCTAGAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTCTTATTCTTATTTTTCC
Found at i:18152322 original size:3 final size:3
Alignment explanation
Indices: 18152314--18152338 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18152304 TAAATAACAG
18152314 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
18152339 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:18152343 original size:3 final size:3
Alignment explanation
Indices: 18152337--18152361 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18152327 AATAATAATA
18152337 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
18152362 ATGATGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:18161925 original size:20 final size:20
Alignment explanation
Indices: 18161900--18161965 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
18161890 TACTTAAGTA
18161900 CCCCTGATTACACATACATG
1 CCCCTGATTACACATACATG
* * * *
18161920 CCCCTGTTTATAC-TTCAGTA
1 CCCCTGATTACACATACA-TG
* * *
18161940 CCCTTGATTGCACATACGTG
1 CCCCTGATTACACATACATG
18161960 CCCCTG
1 CCCCTG
18161966 TATGTACTTT
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 3 0.09
20 27 0.84
21 2 0.06
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (20 bp):
CCCCTGATTACACATACATG
Found at i:18161985 original size:20 final size:19
Alignment explanation
Indices: 18161960--18162024 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
18161950 CACATACGTG
18161960 CCCCTGTATGTACTTTGGTA
1 CCCCTGT-TGTACTTTGGTA
* *
18161980 CCCCTGGTTGCACTTAT-GTG
1 CCCCT-GTTGTACTT-TGGTA
* *
18162000 CCCCTATTTGTACTTCGGTA
1 CCCCT-GTTGTACTTTGGTA
18162020 CCCCT
1 CCCCT
18162025 AATTGCACTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 32 0.91
21 3 0.09
ACGTcount: A:0.12, C:0.32, G:0.18, T:0.37
Consensus pattern (19 bp):
CCCCTGTTGTACTTTGGTA
Found at i:18161991 original size:40 final size:40
Alignment explanation
Indices: 18161860--18162059 Score: 195
Period size: 40 Copynumber: 5.0 Consensus size: 40
18161850 GTACTTTGAC
* ** **
18161860 ACCCCTAATTGCACATATATGCCCCTA-TTGTACTTAAGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
* * * * *
18161899 ACCCCTGATTACACATACATGCCCCTGTTTATACTTCAGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
* * * *
18161939 ACCCTTGATTGCACATACGTGCCCCTGTATGTACTTTGGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
* * *
18161979 ACCCCTGGTTGCACTTATGTGCCCCTATTTGTACTTCGGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
* * * * *
18162019 ACCCCTAATTGCACTTCCGTGCCCCTATTTTTACTCCGGT
1 ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
18162059 A
1 A
18162060 ACTCTAAATC
Statistics
Matches: 134, Mismatches: 26, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 23 0.17
40 111 0.83
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.34
Consensus pattern (40 bp):
ACCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGT
Done.