Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008227.1 Hibiscus syriacus cultivar Beakdansim tig00110863_pilon, 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: 654371
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 3 of 3
Found at i:490635 original size:64 final size:63
Alignment explanation
Indices: 490460--490639 Score: 168
Period size: 65 Copynumber: 2.8 Consensus size: 63
490450 AATTAAATTG
* * * * * *
490460 AACATCGAATGCATTTCATGCATCGATGAACATACCATGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCACTTGATGCATCGATGCAC-CAGC-TGCACCGATGCACTCAGGATTTTATGAA
* * * *
490525 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTT-TG-
1 AACATCGAATGCACTTGATGCATCGATGCACCAG-C-TGCACCGATGCACTCAGGAT-TTTATGA
490588 A
63 A
*
490589 AACATCGAATGCACTTGATGCATTGATGCACTCTTAG-TGCACCGATGCACT
1 AACATCGAATGCACTTGATGCATCGATGCAC-C--AGCTGCACCGATGCACT
490640 AAGGGTCCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
64 44 0.44
65 50 0.51
66 3 0.03
67 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCACTTGATGCATCGATGCACCAGCTGCACCGATGCACTCAGGATTTTATGAA
Found at i:493073 original size:23 final size:22
Alignment explanation
Indices: 493043--493122 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
493033 GCATGGCCTT
493043 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
493065 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* * *
493087 GTGTATCGATGTATATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
493109 ATGCATCGATGCAC
1 GTGCATCGATGCAC
493123 TGTTAGGTGT
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
21 13 0.30
22 14 0.33
23 16 0.37
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:493097 original size:44 final size:42
Alignment explanation
Indices: 493047--493141 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
493037 GGCCTTGTGC
* *
493047 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCT-TCATGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGATGCA-CTGTCA-GGTGT
* * *
493091 ATCGATGTATATTCAAGGATGCATCGATGCACTGTTAGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
493133 ATCGATGCA
1 ATCGATGCA
493142 TGAAGCACGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 15 0.34
43 13 0.30
44 16 0.36
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
Found at i:499685 original size:18 final size:17
Alignment explanation
Indices: 499631--499679 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
499621 TTGGACCCTT
* *
499631 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
499649 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
499667 AGTGCATTCGATG
1 AGTGCA-TCGATG
499680 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:501942 original size:7 final size:8
Alignment explanation
Indices: 501924--501956 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
501914 ACCCGATTAG
501924 TTTTTATA
1 TTTTTATA
501932 TTTTTAT-
1 TTTTTATA
501939 TTTTTATA
1 TTTTTATA
501947 TTTTTTATA
1 -TTTTTATA
501956 T
1 T
501957 ATAATTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 8 0.35
9 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:510148 original size:2 final size:2
Alignment explanation
Indices: 510141--510183 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
510131 CTACTTTAAA
510141 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
510183 T
1 T
510184 TCTTCCCCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:516890 original size:17 final size:18
Alignment explanation
Indices: 516870--516915 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
516860 TCAAAGAGTT
516870 TTATGATTTTTAAA-AAA
1 TTATGATTTTTAAATAAA
* *
516887 TTATAATTTTAAAATAAA
1 TTATGATTTTTAAATAAA
516905 TTATGATTTTT
1 TTATGATTTTT
516916 TTTCTGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TTATGATTTTTAAATAAA
Found at i:523534 original size:3 final size:3
Alignment explanation
Indices: 523526--523556 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
523516 TCCTTTGTAT
523526 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
523557 GCCTTTCTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:524072 original size:22 final size:21
Alignment explanation
Indices: 524047--524104 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
524037 AGATATTTTT
524047 AAATTTAAAATAACATATAC-AA
1 AAATTTAAAATAA-AT-TACTAA
*
524069 AAATTAAAAATTAAATTACTAA
1 AAATTTAAAA-TAAATTACTAA
*
524091 AAAATTAAAATAAA
1 AAATTTAAAATAAA
524105 GGATAAGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 7 0.23
22 21 0.68
23 3 0.10
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATTTAAAATAAATTACTAA
Found at i:529412 original size:33 final size:33
Alignment explanation
Indices: 529348--529446 Score: 130
Period size: 33 Copynumber: 3.1 Consensus size: 33
529338 AAATATGAAA
*
529348 AATAAGTTGGCCACCTACCAA-A-GAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
*
529379 AATGAGTTGGCCACCAACCAAGATGAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
* * * *
529412 AATAAGTCGGCCACCAACTAAGATAAAATTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
529445 AA
1 AA
529447 CTTGTCAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 19 0.32
32 1 0.02
33 39 0.66
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.23
Consensus pattern (33 bp):
AATAAGTTGGCCACCAACCAAGATGAATTTTCC
Found at i:532215 original size:21 final size:21
Alignment explanation
Indices: 532189--532228 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
532179 TAAATTGTAA
*
532189 ATCGATGCACTGTTACAGTGC
1 ATCGATGCACTGCTACAGTGC
532210 ATCGATGCACTGCTACAGT
1 ATCGATGCACTGCTACAGT
532229 ACTGTTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGC
Found at i:532833 original size:21 final size:21
Alignment explanation
Indices: 532784--532847 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
532774 ATATGAAATT
* * *
532784 TTGTCCCAAAGGACTTGTGAA
1 TTGTCCCGAAGGACCTATGAA
*
532805 TATGTCCCGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAA
532827 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
532848 ACCCTCTACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 20 0.54
22 17 0.46
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:541318 original size:2 final size:2
Alignment explanation
Indices: 541311--541352 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
541301 AATAAAAATA
541311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
541353 CGGGTCAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:545971 original size:29 final size:29
Alignment explanation
Indices: 545934--545992 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
545924 ATGCAATTAT
545934 AGTAGCATTGAAAGCAGGAAAAAGATAGG
1 AGTAGCATTGAAAGCAGGAAAAAGATAGG
545963 AGTAGCATTGAAAGCAGGAAAAAGATAGG
1 AGTAGCATTGAAAGCAGGAAAAAGATAGG
545992 A
1 A
545993 ATCAGTGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.31, T:0.14
Consensus pattern (29 bp):
AGTAGCATTGAAAGCAGGAAAAAGATAGG
Found at i:556053 original size:26 final size:26
Alignment explanation
Indices: 555992--556059 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
555982 TATCAAGTTC
555992 AACTCGAACTCAAAATATAATATTGA
1 AACTCGAACTCAAAATATAATATTGA
* *
556018 AACCCAAACTCAAAATATAATATTGA
1 AACTCGAACTCAAAATATAATATTGA
*
556044 AACTTGAACTCGAAAA
1 AACTCGAACTC-AAAA
556060 GGCTTGAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 32 0.89
27 4 0.11
ACGTcount: A:0.51, C:0.18, G:0.07, T:0.24
Consensus pattern (26 bp):
AACTCGAACTCAAAATATAATATTGA
Found at i:558401 original size:30 final size:30
Alignment explanation
Indices: 558355--558446 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
558345 ATTTAGTTGT
* *
558355 AATTGAGTGATATGATTATTATAATTGATA
1 AATTAAGTGATATGATTGTTATAATTGATA
* * *
558385 AATTAAGTGATTTGATTGTGACAATTGATA
1 AATTAAGTGATATGATTGTTATAATTGATA
** *
558415 AA-TAGAACGATCTGATTGTTATAATTGATA
1 AATTA-AGTGATATGATTGTTATAATTGATA
558445 AA
1 AA
558447 AAATTATCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 2 0.04
30 49 0.96
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.39
Consensus pattern (30 bp):
AATTAAGTGATATGATTGTTATAATTGATA
Found at i:575488 original size:2 final size:2
Alignment explanation
Indices: 575476--575512 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
575466 TTGTTAGATC
*
575476 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
575513 CATGGAGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:575681 original size:15 final size:15
Alignment explanation
Indices: 575661--575691 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
575651 CATTGTTCCG
575661 TTAAAATTAAATTAA
1 TTAAAATTAAATTAA
*
575676 TTAAAATTTAATTAA
1 TTAAAATTAAATTAA
575691 T
1 T
575692 CGATCGTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAATTAAATTAA
Found at i:576744 original size:32 final size:33
Alignment explanation
Indices: 576699--576768 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
576689 AACTTAGTGT
* *
576699 AGGGGTCCAATATAAAACT-ATAAATTTTT-GG
1 AGGGGTCAAATATAAAAATAATAAATTTTTAGG
*
576730 AGGGGTTCAAATATAAAAATAATTAATTTTTAGG
1 AGGGG-TCAAATATAAAAATAATAAATTTTTAGG
576764 AGGGG
1 AGGGG
576769 GCTAAAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 5 0.15
32 12 0.36
33 9 0.27
34 7 0.21
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (33 bp):
AGGGGTCAAATATAAAAATAATAAATTTTTAGG
Found at i:578458 original size:16 final size:16
Alignment explanation
Indices: 578437--578467 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
578427 ATTTATACAT
578437 AGATGGACTGAATATG
1 AGATGGACTGAATATG
*
578453 AGATGGATTGAATAT
1 AGATGGACTGAATAT
578468 AACCAGTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.29
Consensus pattern (16 bp):
AGATGGACTGAATATG
Found at i:585694 original size:42 final size:42
Alignment explanation
Indices: 585635--585714 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
585625 TTAAACAGAC
585635 ACTTTAGTTAATGGAAGCACTTCTTTGT-AGGATGCTTAGTAG
1 ACTTTAGTTAATGGAAGCACTTCTTTGTGA-GATGCTTAGTAG
585677 ACTTTAGTTAATGGAAGCACTTCTTTGTGAGATGCTTA
1 ACTTTAGTTAATGGAAGCACTTCTTTGTGAGATGCTTA
585715 ATGAAAAAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (42 bp):
ACTTTAGTTAATGGAAGCACTTCTTTGTGAGATGCTTAGTAG
Found at i:589127 original size:35 final size:35
Alignment explanation
Indices: 589080--589165 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
589070 AAAACAATCA
* * *
589080 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
589115 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
589150 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
589166 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:589159 original size:21 final size:21
Alignment explanation
Indices: 589134--589176 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
589124 TTCTAAACCC
589134 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
589155 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
589176 T
1 T
589177 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:589251 original size:16 final size:17
Alignment explanation
Indices: 589230--589265 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
589220 AACGAATAAA
589230 ATATTTATA-TAAATGT
1 ATATTTATATTAAATGT
*
589246 ATATTTATATTAGATGT
1 ATATTTATATTAAATGT
589263 ATA
1 ATA
589266 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (17 bp):
ATATTTATATTAAATGT
Found at i:589321 original size:16 final size:18
Alignment explanation
Indices: 589291--589324 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
589281 TATTATTGTA
589291 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
589309 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
589325 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:590024 original size:130 final size:130
Alignment explanation
Indices: 589791--590038 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
589781 AATTTTCTTC
* * *
589791 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
589856 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
589921 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
589986 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
590039 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:593089 original size:79 final size:80
Alignment explanation
Indices: 592991--593148 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 80
592981 TTAATATTTT
* **
592991 TTTAATATTTTCAGTAAAGCGCTACCTAAAATATTA-TTTTTTCTACCGGAAATGTTAATATTAG
1 TTTAACATTTTCAGTAAAGCGCTACCTAAAATATTATTTTTTTCTACCAAAAATGTTAATATTAG
593055 GCGCTACCTAAAATG
66 GCGCTACCTAAAATG
*
593070 TTTAACATTTTC-GATAAAGCGCTACCTAAAATATTATTTTTTTCTACCAAAAATGTTAATATTG
1 TTTAACATTTTCAG-TAAAGCGCTACCTAAAATATTATTTTTTTCTACCAAAAATGTTAATATTA
* *
593134 GGTGTTACCTAAAAT
65 GGCGCTACCTAAAAT
593149 ATTAATTTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 33 0.46
80 37 0.52
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (80 bp):
TTTAACATTTTCAGTAAAGCGCTACCTAAAATATTATTTTTTTCTACCAAAAATGTTAATATTAG
GCGCTACCTAAAATG
Found at i:598751 original size:111 final size:111
Alignment explanation
Indices: 598615--598828 Score: 383
Period size: 111 Copynumber: 1.9 Consensus size: 111
598605 ATATATATCT
* *
598615 ACACTTTGCTGATACAGTAATATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATATTTAGT
1 ACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
*
598680 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
66 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
*
598726 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
1 ACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
*
598791 TGATTCATTTAATGTATGATTATTAGATTAAGAATTAA
66 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
598829 TTTTTGTAAT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 98 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (111 bp):
ACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
TGATTCATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
Found at i:600347 original size:18 final size:17
Alignment explanation
Indices: 600324--600375 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 17
600314 CAGCAGCCAC
600324 CGCAGCCATATATGATG
1 CGCAGCCATATATGATG
600341 TCGCAGCCATATATGATG
1 -CGCAGCCATATATGATG
600359 CTGCAGCCATATATGAT
1 C-GCAGCCATATATGAT
600376 ACCACCATCG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (17 bp):
CGCAGCCATATATGATG
Found at i:600719 original size:18 final size:18
Alignment explanation
Indices: 600698--600733 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
600688 CGACGACGAT
* *
600698 GACGATGACGATGGTGAC
1 GACGACGACGATGATGAC
600716 GACGACGACGATGATGAC
1 GACGACGACGATGATGAC
600734 AGCAAGGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.36, T:0.14
Consensus pattern (18 bp):
GACGACGACGATGATGAC
Found at i:600731 original size:21 final size:21
Alignment explanation
Indices: 600692--600731 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
600682 TCAGGACGAC
* *
600692 GACGATGACGATGACGATGGT
1 GACGACGACGACGACGATGGT
*
600713 GACGACGACGACGATGATG
1 GACGACGACGACGACGATG
600732 ACAGCAAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.38, T:0.15
Consensus pattern (21 bp):
GACGACGACGACGACGATGGT
Found at i:607404 original size:15 final size:16
Alignment explanation
Indices: 607378--607414 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
607368 TATACTTTTC
607378 GTATTATATTC-ATGAT
1 GTATTATATTCAAT-AT
607394 GTATT-TATTCAATAT
1 GTATTATATTCAATAT
607409 GTATTA
1 GTATTA
607415 ATAAGATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (16 bp):
GTATTATATTCAATAT
Found at i:607703 original size:23 final size:23
Alignment explanation
Indices: 607668--607715 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
607658 ATCAAGTACA
* *
607668 ATAATATATTAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
607691 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
607714 AT
1 AT
607716 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:608448 original size:182 final size:182
Alignment explanation
Indices: 608141--608591 Score: 743
Period size: 182 Copynumber: 2.5 Consensus size: 182
608131 AATTTTTTAC
* * *
608141 TACCGGTTTTGTCATTTGGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGA
1 TACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * *
608206 TATATTTTTATAAAGTATAGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
* *
608271 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAGCTCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
608323 TACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
608388 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCATAAG
66 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
*
608453 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
*
608505 TA-CTGTTTTGTCATTTAT-AGA-CGGTTTTGTCAT-TTTTTACCTGTTATATTGTTATGGATCG
1 TACCGGTTTTGTCATTT-TGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCG
*
608566 ATACA-TTTT-TAAAGTATCGACACTTT
65 ATATATTTTTATAAAGTATCGACACTTT
608592 CAATATATCC
Statistics
Matches: 256, Mismatches: 12, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
177 17 0.07
178 4 0.02
179 32 0.12
180 12 0.05
181 16 0.06
182 175 0.68
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
Found at i:608680 original size:110 final size:109
Alignment explanation
Indices: 608467--608712 Score: 424
Period size: 107 Copynumber: 2.2 Consensus size: 109
608457 GATACTTATA
* * *
608467 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACTGTTTTGTCATTTATAGACGGTTT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACTGTTTTCTCATTTATAGACGGTTT
608532 TGTCATTTTTTACCTGTTATATTGTTATGGATCGATACA-TTTT
66 TGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
608575 -TAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTCTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTA-CTGTTTTCTCATTTATAGA-CGGT
608639 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
64 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
608686 ATAAAGTATCGACACTTTCAATATATC
1 ATAAAGTATCGACACTTTCAATATATC
608713 TGTTGAGTTA
Statistics
Matches: 130, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
107 37 0.28
108 18 0.14
109 11 0.08
110 34 0.26
111 4 0.03
112 26 0.20
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (109 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACTGTTTTCTCATTTATAGACGGTTT
TGTCATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:609551 original size:45 final size:46
Alignment explanation
Indices: 609463--609551 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
609453 TTGAAAACGC
*
609463 CTGAGTGCATCAATGCATGGTATTGTGCATCGATGCATCAAATGTA
1 CTGAGTGCATCAATGCATGGTATTGTGCATCGATGCATAAAATGTA
*
609509 CTGAGTGCATCGATGCATGGTA-TGTGCATCGATGCATAAAATG
1 CTGAGTGCATCAATGCATGGTATTGTGCATCGATGCATAAAATG
609552 CATTCGATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 20 0.49
46 21 0.51
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCAATGCATGGTATTGTGCATCGATGCATAAAATGTA
Found at i:609598 original size:20 final size:20
Alignment explanation
Indices: 609573--609610 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
609563 TGAAAAATTA
609573 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
609593 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
609611 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:610765 original size:21 final size:21
Alignment explanation
Indices: 610739--610783 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
610729 GCCGGAGGAG
*
610739 TAGGAGGAGCACGAGAAGAGC
1 TAGGAGCAGCACGAGAAGAGC
* *
610760 TAGGAGCAGCTCGTGAAGAGC
1 TAGGAGCAGCACGAGAAGAGC
610781 TAG
1 TAG
610784 CTCCCGGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.40, T:0.11
Consensus pattern (21 bp):
TAGGAGCAGCACGAGAAGAGC
Found at i:618315 original size:26 final size:25
Alignment explanation
Indices: 618245--618315 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 25
618235 TTGAAAACGC
618245 CTGAGTGCATCGATGCATGGTA--T
1 CTGAGTGCATCGATGCATGGTATGT
* ***
618268 -T--GTGCATCGATACATCAAATGT
1 CTGAGTGCATCGATGCATGGTATGT
618290 ACTGAGTGCATCGATGCATGGTATGT
1 -CTGAGTGCATCGATGCATGGTATGT
618316 GCATCGATGC
Statistics
Matches: 34, Mismatches: 8, Indels: 9
0.67 0.16 0.18
Matches are distributed among these distances:
20 14 0.41
22 2 0.06
24 1 0.03
26 17 0.50
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (25 bp):
CTGAGTGCATCGATGCATGGTATGT
Found at i:618333 original size:45 final size:46
Alignment explanation
Indices: 618245--618333 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
618235 TTGAAAACGC
*
618245 CTGAGTGCATCGATGCATGGTATTGTGCATCGATACATCAAATGTA
1 CTGAGTGCATCGATGCATGGTATTGTGCATCGATACATAAAATGTA
*
618291 CTGAGTGCATCGATGCATGGTA-TGTGCATCGATGCATAAAATG
1 CTGAGTGCATCGATGCATGGTATTGTGCATCGATACATAAAATG
618334 CATTCGATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 19 0.46
46 22 0.54
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTATTGTGCATCGATACATAAAATGTA
Found at i:618380 original size:20 final size:20
Alignment explanation
Indices: 618355--618392 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
618345 TGAAAAATTA
618355 ATTGGTGCATCGATGCATGT
1 ATTGGTGCATCGATGCATGT
*
618375 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
618393 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGT
Found at i:618769 original size:112 final size:112
Alignment explanation
Indices: 618640--618850 Score: 370
Period size: 112 Copynumber: 1.9 Consensus size: 112
618630 GTTTTCAACA
* *
618640 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGA-CTGTTTTTGTCATTTTTTTACCTGTT
1 ATATCCGGTAGCGCTTTACCTGTTTTGTAATTTATAGAGC-GGTTTTGTCATTTTTTTACCTGTT
*
618704 ATATTGTTATGGATCAATATATTTTTATAAAGTATAGACACTTTCAAT
65 ATATTGTTATAGATCAATATATTTTTATAAAGTATAGACACTTTCAAT
*
618752 ATATCTGGTAGCGCTTTACCTGTTTTGTAATTTATAGAGCGGTTTTGTCATTTTTTTACCTGTTA
1 ATATCCGGTAGCGCTTTACCTGTTTTGTAATTTATAGAGCGGTTTTGTCATTTTTTTACCTGTTA
618817 TATTGTTATAGATCAATATATTTTTATAAAGTAT
66 TATTGTTATAGATCAATATATTTTTATAAAGTAT
618851 CAACACAAAT
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
112 93 0.99
113 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (112 bp):
ATATCCGGTAGCGCTTTACCTGTTTTGTAATTTATAGAGCGGTTTTGTCATTTTTTTACCTGTTA
TATTGTTATAGATCAATATATTTTTATAAAGTATAGACACTTTCAAT
Found at i:625714 original size:33 final size:33
Alignment explanation
Indices: 625677--625739 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
625667 TGCAGAGGAT
*
625677 GCATCCACCGCATCTGATGCAGCAGACCTTGGA
1 GCATCCACCACATCTGATGCAGCAGACCTTGGA
* *
625710 GCATCCACCACGTCTGTTGCAGCAGACCTT
1 GCATCCACCACATCTGATGCAGCAGACCTT
625740 CGATGTCGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (33 bp):
GCATCCACCACATCTGATGCAGCAGACCTTGGA
Found at i:628475 original size:66 final size:66
Alignment explanation
Indices: 628389--628528 Score: 235
Period size: 66 Copynumber: 2.1 Consensus size: 66
628379 ACTAGTCTCA
* * *
628389 TTGAATGATCACTGGTGGAGTTCAAATTATTCGCATGTCGAACTATTTGATGGATTTTCATCAAT
1 TTGAATGATCACTGGAGGAGTTCAAATTATTCGCATGTCGAACTATTCGATGAATTTTCATCAAT
628454 T
66 T
* *
628455 TTGAATGATCATTGGAGGAGTTCAAATTATTCGCATGTCGAACTATTCGATGAATTTTCGTCAAT
1 TTGAATGATCACTGGAGGAGTTCAAATTATTCGCATGTCGAACTATTCGATGAATTTTCATCAAT
628520 T
66 T
628521 TTGAATGA
1 TTGAATGA
628529 ATTTCATGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (66 bp):
TTGAATGATCACTGGAGGAGTTCAAATTATTCGCATGTCGAACTATTCGATGAATTTTCATCAAT
T
Found at i:638260 original size:24 final size:24
Alignment explanation
Indices: 638232--638278 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
638222 TTAGTCACGC
*
638232 ACAAAATATGTCACAAAACTAGGT
1 ACAAAATATATCACAAAACTAGGT
* *
638256 ACAAAATATATCACGAAATTAGG
1 ACAAAATATATCACAAAACTAGG
638279 CAAATTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (24 bp):
ACAAAATATATCACAAAACTAGGT
Found at i:638612 original size:41 final size:41
Alignment explanation
Indices: 638555--638639 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
638545 TGAGTCGACT
*
638555 CACACGTTGAGATTCTAAGAAACAGTCAAGGCTGGCCACCC
1 CACACGTTGAGATTCTAAGAAACAGACAAGGCTGGCCACCC
638596 CACACGTTGAGATTCTAAGAAACAGACAAGGCTGGCCACCC
1 CACACGTTGAGATTCTAAGAAACAGACAAGGCTGGCCACCC
638637 CAC
1 CAC
638640 GAACAAAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (41 bp):
CACACGTTGAGATTCTAAGAAACAGACAAGGCTGGCCACCC
Found at i:640027 original size:14 final size:16
Alignment explanation
Indices: 639996--640027 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
639986 ATTAGTATTT
639996 TTTTAATGAAATACTA
1 TTTTAATGAAATACTA
640012 TTTTAA-GAAA-ACTA
1 TTTTAATGAAATACTA
640026 TT
1 TT
640028 GAAAAATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTTAATGAAATACTA
Found at i:643457 original size:109 final size:109
Alignment explanation
Indices: 643307--643525 Score: 257
Period size: 109 Copynumber: 2.0 Consensus size: 109
643297 AAATTATAAA
* * * * *
643307 AAATATTTAAAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAG-CTCTTTTCTTTGATATTG
1 AAATATTTAAAATACCAGAAAAGGACATCCAGGTGCATTAAGACAGTC-CTTTTCTTCGATATTG
* *
643371 ATAAATATTAAT-TTAAATTAAATAATATTTT-AAAAAATTAATTATT
65 A-AAA-ATAAATATTAAAATAAATAAT-TTTTAAAAAAATTAATTATT
* * * *
643417 AAAT-TTTAAAATACCAGAATAGGACATCCAGTTGTATTAAGACTGTCCTTTTCTTCGATATTGA
1 AAATATTTAAAATACCAGAAAAGGACATCCAGGTGCATTAAGACAGTCCTTTTCTTCGATATTGA
* *
643481 AAAATAAATATTAAAATAATTTATTTTTAAAAAAATTAATTATT
66 AAAATAAATATTAAAATAAATAATTTTTAAAAAAATTAATTATT
643525 A
1 A
643526 TTTATTATAT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
107 9 0.10
108 30 0.32
109 49 0.53
110 5 0.05
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (109 bp):
AAATATTTAAAATACCAGAAAAGGACATCCAGGTGCATTAAGACAGTCCTTTTCTTCGATATTGA
AAAATAAATATTAAAATAAATAATTTTTAAAAAAATTAATTATT
Found at i:644423 original size:15 final size:14
Alignment explanation
Indices: 644399--644440 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
644389 TGACATTAAG
*
644399 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
644414 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
644428 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
644441 GTTGAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:644431 original size:20 final size:20
Alignment explanation
Indices: 644399--644440 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
644389 TGACATTAAG
*
644399 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
644419 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
644439 TT
1 TT
644441 GTTGAGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:644925 original size:3 final size:3
Alignment explanation
Indices: 644909--644992 Score: 93
Period size: 3 Copynumber: 28.7 Consensus size: 3
644899 TGTAATATTA
* * * *
644909 AAT AAT -AT ATT AAT AAT AAT AAT AAT TAT AAT TAT AAT TAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
644956 TAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
644993 AAATGAAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
2 6 0.09
3 59 0.88
4 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:644986 original size:12 final size:12
Alignment explanation
Indices: 644901--644996 Score: 67
Period size: 12 Copynumber: 7.8 Consensus size: 12
644891 TTTGGGCTTG
644901 TAATATTAAATAA
1 TAATA-TAAATAA
*
644914 T-ATATTAATAA
1 TAATATAAATAA
*
644925 TAATA-ATAATTA
1 TAATATA-AATAA
644937 TAATTATAATTATAA
1 TAA-TATAA--ATAA
644952 TAAT-TATAATAA
1 TAATATA-AATAA
644964 TAATA-ATAATAA
1 TAATATA-AATAA
644976 TAATATAAATAA
1 TAATATAAATAA
*
644988 -AATAAAAAT
1 TAATATAAAT
644997 GAAAAAAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
11 15 0.22
12 38 0.55
13 7 0.10
14 3 0.04
15 6 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATATAAATAA
Found at i:645394 original size:113 final size:113
Alignment explanation
Indices: 645234--646010 Score: 1110
Period size: 113 Copynumber: 7.0 Consensus size: 113
645224 AAGTTCTTCT
** * * * ***
645234 CTGGAAAAACTGACCCATCAAGTAATGGATTTGAGCAAAAAACTGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
* *
645299 AACTTCTTCTTCCTTCTTCAGATGGGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
* * * * * *
645347 CTGGAAAAGATAATCTATCAAGTGATAGATTTGAGCAGAAGGTTGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
* *
645412 AACTTCTTCATCTATTTCTTCAGATAAGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATC--CTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
* * * * * *
645462 CTGGAAAAGATAATCTATCAAGTGATAGATTTGATCAAAAGGTTGAATAAGTTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
645527 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
* *
645575 CTGGAAAAGTTGATCCATCAAGTGATGGATTAGATCAAAAGGTTGAATAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
645640 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
*
645688 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTTTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
645753 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
645801 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
***
645866 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCT
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
* * * *
645914 CTGGAAAAGTTG----AT---GT--T-GA-TTAAACTAAA-GTCGAACAAATTCTTCTCATTATG
1 CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
* * * *
645967 AACTTCTTCTTCTTTCTTCAGATGAATTCCTCTCATTATGAACT
66 AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
646011 TCTTTTCTTC
Statistics
Matches: 620, Mismatches: 42, Indels: 16
0.91 0.06 0.02
Matches are distributed among these distances:
101 63 0.10
102 7 0.01
103 2 0.00
104 1 0.00
106 2 0.00
109 2 0.00
113 437 0.70
115 106 0.17
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (113 bp):
CTGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATG
AACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAA
Found at i:646037 original size:42 final size:40
Alignment explanation
Indices: 645950--646058 Score: 164
Period size: 42 Copynumber: 2.7 Consensus size: 40
645940 AAAGTCGAAC
*
645950 AAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* *
645990 GAATTCCTCTCATTATGAACTTCTTTTCTTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTC--TTCTTCCTTCTTCAGAT
*
646032 AAATTCTTCTCATTATGAACTTTTTCT
1 AAATTCTTCTCATTATGAACTTCTTCT
646059 GGAAAAGTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 25 0.41
42 36 0.59
ACGTcount: A:0.22, C:0.23, G:0.06, T:0.50
Consensus pattern (40 bp):
AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:646098 original size:256 final size:264
Alignment explanation
Indices: 645743--646282 Score: 789
Period size: 256 Copynumber: 2.1 Consensus size: 264
645733 AACAAATTTT
* *
645743 TCTCATTATGAACTTC--TTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGA
1 TCTCATTATGAACTTCTTTTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCGAACTGGA
* * *
645806 AAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
66 AAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
*
645871 CTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-CTCTGGAAAAG-T-T-GAT-GT-
131 CTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAAGATATCCATAGTA
* * *
645930 T-GA-TTAAACTAAA-GTCGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGA
195 TAGATTTAAACAAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGA
645992 ATTCC
260 ATTCC
* ****
645997 TCTCATTATGAACTTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTTTCTGGA
1 TCTCATTATGAACTTCTTTTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCGAACTGGA
646062 AAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
66 AAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
*
646127 CTTCATCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGATAATCCATCAAG
131 CTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGAT-ATCCAT--AG
*
646192 TGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGA
193 T-ATAGATTTAAACAAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGA
* *
646257 TGAGTTCT
257 TGAATTCC
646265 TCTCATTATGAAC-TCTTT
1 TCTCATTATGAACTTCTTT
646283 CTGGAAAAGA
Statistics
Matches: 253, Mismatches: 18, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
254 16 0.06
256 151 0.60
257 2 0.01
259 1 0.00
260 2 0.01
263 2 0.01
265 1 0.00
266 2 0.01
267 14 0.06
268 62 0.25
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (264 bp):
TCTCATTATGAACTTCTTTTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCGAACTGGA
AAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGATATCCATAGTAT
AGATTTAAACAAAAGGTCGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAA
TTCC
Found at i:646191 original size:113 final size:113
Alignment explanation
Indices: 645991--646317 Score: 537
Period size: 113 Copynumber: 2.9 Consensus size: 113
645981 TCTTCAGATG
* * * * *
645991 AATTCCTCTCATTATGAACTTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTT
1 AATTCTTCTCATTATGAACTTC--TTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT
* * *
646056 TCTGGAAAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
64 TCTGGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACA
* **
646106 AATTCTTCTCATTATGAACTTCTTCATCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
1 AATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTC
646171 TGGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACA
66 TGGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACA
646219 AATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTC
1 AATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTC
646284 TGGAAAAGATAATCCATCAAGTGATAGATTTAAA
66 TGGAAAAGATAATCCATCAAGTGATAGATTTAAA
646318 TCTTTGCTAA
Statistics
Matches: 198, Mismatches: 14, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
113 177 0.89
115 21 0.11
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (113 bp):
AATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTC
TGGAAAAGATAATCCATCAAGTGATAGATTTAAACAAAAGGTTGAACA
Found at i:646255 original size:369 final size:367
Alignment explanation
Indices: 645624--646291 Score: 1129
Period size: 369 Copynumber: 1.8 Consensus size: 367
645614 AGGTTGAATA
* * *
645624 AATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AATTCCTCTCATTATGAACTTCTTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCGAAC
* * * *
645689 TGGAAAAGTTGATCCATCAAGTGATGGATTTGATCAAAAGGTTGAACAAATTTTTCTCATTATGA
66 TGGAAAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
* *
645754 ACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCAT
131 ACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCAT
* * *
645819 CAAGTGATGGATTTGATCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTT
196 CAAGTGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTT
645884 CAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATGTTGATTAAACTAAAGTCGAA
261 CAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATGTTGATTAAACTAAAGTCGAA
645949 CAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATG
326 CAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATG
* ***
645991 AATTCCTCTCATTATGAACTTCTTTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTT
1 AATTCCTCTCATTATGAACTTC--TTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCGA
*
646056 TCTGGAAAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
64 ACTGGAAAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTAT
* * *
646121 GAACTTCTTCATCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGATAATCC
129 GAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCC
646186 ATCAAGTGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTC
194 ATCAAGTGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTC
*
646251 TTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGGAAAAG
259 TTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAG
646292 ATAATCCATC
Statistics
Matches: 278, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
367 21 0.08
369 257 0.92
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (367 bp):
AATTCCTCTCATTATGAACTTCTTCATCCTTCTTCAGATAAATTCTTCTCATTATGAACTCGAAC
TGGAAAAGTTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGATAATCCAT
CAAGTGATAGATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTT
CAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATGTTGATTAAACTAAAGTCGAA
CAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATG
Found at i:647213 original size:105 final size:105
Alignment explanation
Indices: 647031--647287 Score: 496
Period size: 105 Copynumber: 2.4 Consensus size: 105
647021 GTAGTTCCTA
*
647031 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTAC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTAC
647096 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCCG
66 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCCG
647136 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTAC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTAC
*
647201 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTG
66 TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCCG
647241 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
647288 AGCAAATTCA
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 150 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (105 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTAC
TATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCCG
Found at i:647344 original size:83 final size:83
Alignment explanation
Indices: 647200--647370 Score: 324
Period size: 83 Copynumber: 2.1 Consensus size: 83
647190 CTTATTTTTA
*
647200 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
647265 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
647283 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
647348 GAACATTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
647366 CTATT
1 CTATT
647371 GAGTCTCCTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 86 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (83 bp):
CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:647417 original size:188 final size:188
Alignment explanation
Indices: 647095--647483 Score: 751
Period size: 188 Copynumber: 2.1 Consensus size: 188
647085 CTTATTTTTA
*
647095 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCCGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCCGCCAAACCAGATCAGATAACTCAAA
647160 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTACTATGAGCAAATTCATCTTCCAAAT
66 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTACTATGAGCAAATTCATCTTCCAAAT
647225 TCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 TCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
*
647283 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCCGCCAAACCAGATCAGATAACTCAAA
*
647348 GAACATTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTACTATGAGCAAATTCATCTTCCAAAT
66 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTACTATGAGCAAATTCATCTTCCAAAT
647413 TCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 TCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
647471 CTATTAGCAAATT
1 CTATTAGCAAATT
647484 GCATTTATTC
Statistics
Matches: 198, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 198 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (188 bp):
CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCCGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTACTATGAGCAAATTCATCTTCCAAAT
TCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:647423 original size:105 final size:105
Alignment explanation
Indices: 647283--647475 Score: 368
Period size: 105 Copynumber: 1.8 Consensus size: 105
647273 CCAGAAGATG
*
647283 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
647348 GAACATTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTA
66 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTA
647388 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
647453 GAACACTTCCAGAAGATGCTATT
66 GAACACTTCCAGAAGATGCTATT
647476 AGCAAATTGC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 86 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (105 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTA
Done.