Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002875.1 Hibiscus syriacus cultivar Beakdansim tig00005929_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: 1473696
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:356818 original size:20 final size:20
Alignment explanation
Indices: 356789--356829 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
356779 ATTGAACTTT
356789 TTAAAATTATAAAATAATTA
1 TTAAAATTATAAAATAATTA
* * *
356809 TTAAATTTATCAAATTATTA
1 TTAAAATTATAAAATAATTA
356829 T
1 T
356830 AAGATAATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAATTATAAAATAATTA
Found at i:377017 original size:24 final size:24
Alignment explanation
Indices: 376968--377022 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
376958 AAATAAACTC
*
376968 GTTTATATGTTCATGAACACTTTT
1 GTTTATATGTTCATGAACACTCTT
*
376992 GTTTATATGTTCATGAATA-TGCTT
1 GTTTATATGTTCATGAACACT-CTT
377016 GTTTATA
1 GTTTATA
377023 AACTCGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.51
Consensus pattern (24 bp):
GTTTATATGTTCATGAACACTCTT
Found at i:379117 original size:23 final size:23
Alignment explanation
Indices: 379091--379148 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
379081 ATAAACGAGT
379091 ATGTTCGCGAACGCTAATCGAAC
1 ATGTTCGCGAACGCTAATCGAAC
379114 ATGTTCGCGAACGCTAATCGAAC
1 ATGTTCGCGAACGCTAATCGAAC
*
379137 ATGTTCACGAAC
1 ATGTTCGCGAAC
379149 ATATAAACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
ATGTTCGCGAACGCTAATCGAAC
Found at i:379149 original size:12 final size:12
Alignment explanation
Indices: 379132--379183 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
379122 GAACGCTAAT
379132 CGAACATGTTCA
1 CGAACATGTTCA
* **
379144 CGAACATATAAA
1 CGAACATGTTCA
* *
379156 CGAATATGCTCA
1 CGAACATGTTCA
*
379168 CGAACACGTTCA
1 CGAACATGTTCA
379180 CGAA
1 CGAA
379184 GGTTGAATGA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.19
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:384597 original size:41 final size:42
Alignment explanation
Indices: 384520--384605 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 42
384510 GTGGGACTAT
* * * * *
384520 TTCATCAGTGTTCCCTTTTCCCTCTCATATTGATTCATGTTA
1 TTCACCAGTGTTCCCTTTCCCCTCCCACATTAATTCATGTTA
*
384562 TTCACCAGTTTTCCC-TTCCCCTCCCACATTAATTCATGTTA
1 TTCACCAGTGTTCCCTTTCCCCTCCCACATTAATTCATGTTA
384603 TTC
1 TTC
384606 TTCTGATTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
41 25 0.66
42 13 0.34
ACGTcount: A:0.17, C:0.31, G:0.07, T:0.44
Consensus pattern (42 bp):
TTCACCAGTGTTCCCTTTCCCCTCCCACATTAATTCATGTTA
Found at i:387089 original size:24 final size:24
Alignment explanation
Indices: 387033--387089 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
387023 AAGCTGACTT
387033 CTGCAGCTGTCACAATAGCTGCAG
1 CTGCAGCTGTCACAATAGCTGCAG
* * **
387057 CAGCTGCTGTTGCAA-AGGCTGCAG
1 CTGCAGCTGTCACAATA-GCTGCAG
387081 CTGCAGCTG
1 CTGCAGCTG
387090 CCAGTGTTGC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.21, C:0.28, G:0.30, T:0.21
Consensus pattern (24 bp):
CTGCAGCTGTCACAATAGCTGCAG
Found at i:394233 original size:24 final size:24
Alignment explanation
Indices: 394204--394268 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
394194 GCATCGATGC
394204 ATAAGGAGTGCATCGATGCACACG
1 ATAAGGAGTGCATCGATGCACACG
* *
394228 TTAAGG-GATGCATCGAT--ACGCG
1 ATAAGGAG-TGCATCGATGCACACG
394250 AT-AGGA-TGCATCGATGCAC
1 ATAAGGAGTGCATCGATGCAC
394269 TTCAAGGGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 7 0.21
23 1 0.03
24 14 0.41
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (24 bp):
ATAAGGAGTGCATCGATGCACACG
Found at i:398326 original size:24 final size:22
Alignment explanation
Indices: 398294--398355 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 22
398284 TCGATGCATA
*
398294 AGGAGTGCATCGATGCACACGTT
1 AGGA-TGCATCGATGCACACGAT
398317 AAGGGATGCATCGAT--ACACGAT
1 -A-GGATGCATCGATGCACACGAT
398339 AGGATGCATCGATGCAC
1 AGGATGCATCGATGCAC
398356 TTCTAGGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 12 0.35
21 1 0.03
22 8 0.24
24 10 0.29
25 3 0.09
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (22 bp):
AGGATGCATCGATGCACACGAT
Found at i:402478 original size:58 final size:57
Alignment explanation
Indices: 402402--402564 Score: 195
Period size: 57 Copynumber: 2.8 Consensus size: 57
402392 AAAATTATAG
*
402402 TTTAGGGATG-AATTGAAATATTTAAAAATTTAAGGATTAATTTAGAATAAGTCATAA
1 TTTAAGGATGAAATTGAAATATTT-AAAATTTAAGGATTAATTTAGAATAAGTCATAA
* * * * *
402459 TTTGAGGATTAAATTGAAATATTTAAAATTTCAAGGACTAATTCA-AATGAGTCATAA
1 TTTAAGGATGAAATTGAAATATTTAAAATTT-AAGGATTAATTTAGAATAAGTCATAA
* * * *
402516 TTTAATGATGAAATTGAAATAATTTAAAGTTTAAGAATTAATCTAGAAT
1 TTTAAGGATGAAATTGAAAT-ATTTAAAATTTAAGGATTAATTTAGAAT
402565 GGGAGTATAG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
57 51 0.58
58 37 0.42
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (57 bp):
TTTAAGGATGAAATTGAAATATTTAAAATTTAAGGATTAATTTAGAATAAGTCATAA
Found at i:402479 original size:29 final size:28
Alignment explanation
Indices: 402428--402537 Score: 87
Period size: 29 Copynumber: 3.8 Consensus size: 28
402418 AATATTTAAA
*
402428 AATTTAAGGATTAATTTAGAATAAGTCAT
1 AATTTAAGGATTAATTGA-AATAAGTCAT
* * * *
402457 AATTTGAGGATTAAATTGAAAT-ATTTAA
1 AATTTAAGGATT-AATTGAAATAAGTCAT
* * *
402485 AATTTCAAGGACTAATTCAAATGAGTCAT
1 AATTT-AAGGATTAATTGAAATAAGTCAT
* *
402514 AATTTAATGATGAAATTGAAATAA
1 AATTTAAGGAT-TAATTGAAATAA
402538 TTTAAAGTTT
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
28 20 0.33
29 36 0.59
30 5 0.08
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (28 bp):
AATTTAAGGATTAATTGAAATAAGTCAT
Found at i:406873 original size:2 final size:2
Alignment explanation
Indices: 406866--406892 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
406856 ACAACCCACA
406866 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
406893 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:406897 original size:2 final size:2
Alignment explanation
Indices: 406892--406933 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
406882 ATATATATAT
*
406892 AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
406934 TTAGGATCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:408466 original size:27 final size:27
Alignment explanation
Indices: 408435--408491 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
408425 TTAAAATTCA
408435 ATTGAGATTTTATATAGAAATTTACAG
1 ATTGAGATTTTATATAGAAATTTACAG
* *
408462 ATTGAGATTTTATATAGGAATTTATAG
1 ATTGAGATTTTATATAGAAATTTACAG
408489 ATT
1 ATT
408492 TTCGATCCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.44
Consensus pattern (27 bp):
ATTGAGATTTTATATAGAAATTTACAG
Found at i:412016 original size:33 final size:33
Alignment explanation
Indices: 411974--412040 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
411964 TTTTTCATTT
411974 AGACACTAAGAGGGATAATCATGGAGCAAATCC
1 AGACACTAAGAGGGATAATCATGGAGCAAATCC
* *
412007 AGACACTAAGAGGGATGATCATGTAGCAAATCC
1 AGACACTAAGAGGGATAATCATGGAGCAAATCC
412040 A
1 A
412041 CTCTATCTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (33 bp):
AGACACTAAGAGGGATAATCATGGAGCAAATCC
Found at i:414729 original size:43 final size:43
Alignment explanation
Indices: 414668--414749 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
414658 ACGAATCAAA
* *
414668 CGACTTTGGTAGTAAAAGAATTGTTATTATTTAATATTCCGAT
1 CGACTTTGATAGTAAAAGAATTGTTATTATTTAAGATTCCGAT
*
414711 CGACTTTGATAGTAAAAGAATTGTTATTCTTTAAGATTC
1 CGACTTTGATAGTAAAAGAATTGTTATTATTTAAGATTC
414750 TGAGTTCGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (43 bp):
CGACTTTGATAGTAAAAGAATTGTTATTATTTAAGATTCCGAT
Found at i:415330 original size:28 final size:29
Alignment explanation
Indices: 415265--415346 Score: 139
Period size: 28 Copynumber: 2.8 Consensus size: 29
415255 CTCACCTAAC
415265 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
415295 TAAATGATGTAAGCAATGACATC-TTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
415323 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
415347 ATTTTTGGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
28 27 0.54
29 19 0.38
30 4 0.08
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:420063 original size:29 final size:29
Alignment explanation
Indices: 420020--420102 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
420010 CTCACCTAAC
420020 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
420050 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
420079 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
420103 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:426978 original size:15 final size:16
Alignment explanation
Indices: 426942--426980 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
426932 AGAGCCTCTA
*
426942 AATCATTCAACATTTG
1 AATCATTCAACACTTG
*
426958 AATCATTCAGCACTT-
1 AATCATTCAACACTTG
426973 AATCATTC
1 AATCATTC
426981 TGAAGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (16 bp):
AATCATTCAACACTTG
Found at i:431258 original size:6 final size:6
Alignment explanation
Indices: 431247--431280 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
431237 AGTTGGGGTG
* *
431247 GGGTTC GGGTTC GGGTTC GGGTTA GGGTTA GGGT
1 GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC GGGT
431281 AAGGGTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.06, C:0.09, G:0.53, T:0.32
Consensus pattern (6 bp):
GGGTTC
Found at i:431264 original size:12 final size:12
Alignment explanation
Indices: 431247--431287 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
431237 AGTTGGGGTG
*
431247 GGGTTCGGGTTC
1 GGGTTCGGGTTA
431259 GGGTTCGGGTTA
1 GGGTTCGGGTTA
* *
431271 GGGTTAGGGTAA
1 GGGTTCGGGTTA
431283 GGGTT
1 GGGTT
431288 GGTGGAAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.10, C:0.07, G:0.51, T:0.32
Consensus pattern (12 bp):
GGGTTCGGGTTA
Found at i:432144 original size:29 final size:29
Alignment explanation
Indices: 432071--432137 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
432061 CTAAGCTCAC
*
432071 CCGTGACACTACAGTGCAACTAATTTGGA
1 CCGTGACACTACAGTCCAACTAATTTGGA
*
432100 TCGTGACACTACAGTCCAACTAATTTGGA
1 CCGTGACACTACAGTCCAACTAATTTGGA
432129 CCGTGACAC
1 CCGTGACAC
432138 GCCAGTCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (29 bp):
CCGTGACACTACAGTCCAACTAATTTGGA
Found at i:434068 original size:68 final size:68
Alignment explanation
Indices: 433888--434224 Score: 454
Period size: 68 Copynumber: 5.0 Consensus size: 68
433878 TAAAAAAAAT
433888 AATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
1 AATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
433953 CTA
66 CTA
* * * * * * *
433956 TATAAAAAT--A-T-A-TATGAA-TTATATTAGATAATATATAAGTGACCAAATAGCTAGTTTAC
1 AATAATAATCGAGTGACCA-AAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTAC
434015 CCTA
65 CCTA
* *
434019 AATAATTATCGAGTGACCAAAACATAAATTAGA-AGATATATAAGTGACCAAATTGGTAGTTTAC
1 AATAATAATCGAGTGACCAAAACATAAATTAGATA-ATATATAAGTGACCAAATAGGTAGTTTAC
434083 CCTA
65 CCTA
* * * * **
434087 AATAATAATCGAGTGATCAAAACATAAATTAGACAATATATAAGTGACAAAACAGACAGTTTACC
1 AATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
434152 CTA
66 CTA
*
434155 AATAATAATCGAGTGGCCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
1 AATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
*
434220 TTA
66 CTA
434223 AA
1 AA
434225 AAACCCCTAA
Statistics
Matches: 229, Mismatches: 31, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
63 49 0.21
64 3 0.01
65 2 0.01
66 2 0.01
67 4 0.02
68 168 0.73
69 1 0.00
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (68 bp):
AATAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
CTA
Found at i:438695 original size:62 final size:62
Alignment explanation
Indices: 438598--438719 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
438588 AGAACCTAAC
* *
438598 GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTTGTTAAAGGAATCGG
1 GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTAGTTAAAAGAATCGG
438660 GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTAGTTAAAAGAATC
1 GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTAGTTAAAAGAATC
438720 ATTATTGTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (62 bp):
GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTAGTTAAAAGAATCGG
Found at i:452147 original size:17 final size:16
Alignment explanation
Indices: 452127--452165 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
452117 TTAAAAGTGA
*
452127 TAAATTTTTAATGTATT
1 TAAATTTATAATGT-TT
*
452144 TAAATATATAATGTTT
1 TAAATTTATAATGTTT
452160 TAAATT
1 TAAATT
452166 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
TAAATTTATAATGTTT
Found at i:454934 original size:11 final size:10
Alignment explanation
Indices: 454906--454948 Score: 63
Period size: 9 Copynumber: 4.4 Consensus size: 10
454896 CGATCGAAAT
454906 CGGTC-AAAC
1 CGGTCAAAAC
454915 CGGTCAAAAC
1 CGGTCAAAAC
454925 CGGTTCAAAAC
1 CGG-TCAAAAC
454936 CGGTC-AAAC
1 CGGTCAAAAC
454945 CGGT
1 CGGT
454949 TTTCAGCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.14
Consensus pattern (10 bp):
CGGTCAAAAC
Found at i:454936 original size:21 final size:20
Alignment explanation
Indices: 454911--454949 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
454901 GAAATCGGTC
454911 AAACCGGTCAAAACCGGTTCA
1 AAACCGGTC-AAACCGGTTCA
454932 AAACCGGTCAAACCGGTT
1 AAACCGGTCAAACCGGTT
454950 TTCAGCCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (20 bp):
AAACCGGTCAAACCGGTTCA
Found at i:461226 original size:62 final size:62
Alignment explanation
Indices: 461129--461250 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
461119 AGAACCTAAC
* *
461129 GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTTGTTAAAGGAATCGG
1 GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTAGTTAAAAGAATCGG
461191 GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTAGTTAAAAGAATC
1 GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTAGTTAAAAGAATC
461251 ATTATTGTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (62 bp):
GATGTTTTAAATAGTTAGGTTACTAGCACGAATCATCTTACCTCAGTAGTTAAAAGAATCGG
Found at i:474674 original size:17 final size:16
Alignment explanation
Indices: 474654--474692 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
474644 TTAAAAGTGA
*
474654 TAAATTTTTAATGTATT
1 TAAATTTATAATGT-TT
*
474671 TAAATATATAATGTTT
1 TAAATTTATAATGTTT
474687 TAAATT
1 TAAATT
474693 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
TAAATTTATAATGTTT
Found at i:477461 original size:11 final size:10
Alignment explanation
Indices: 477433--477475 Score: 63
Period size: 9 Copynumber: 4.4 Consensus size: 10
477423 CGATCGAAAT
477433 CGGTC-AAAC
1 CGGTCAAAAC
477442 CGGTCAAAAC
1 CGGTCAAAAC
477452 CGGTTCAAAAC
1 CGG-TCAAAAC
477463 CGGTC-AAAC
1 CGGTCAAAAC
477472 CGGT
1 CGGT
477476 TTTCAGCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.14
Consensus pattern (10 bp):
CGGTCAAAAC
Found at i:477463 original size:21 final size:20
Alignment explanation
Indices: 477438--477476 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
477428 GAAATCGGTC
477438 AAACCGGTCAAAACCGGTTCA
1 AAACCGGTC-AAACCGGTTCA
477459 AAACCGGTCAAACCGGTT
1 AAACCGGTCAAACCGGTT
477477 TTCAGCCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (20 bp):
AAACCGGTCAAACCGGTTCA
Found at i:486708 original size:14 final size:14
Alignment explanation
Indices: 486689--486716 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
486679 AGGTAGGATC
486689 GGGTCGAAACTCGT
1 GGGTCGAAACTCGT
486703 GGGTCGAAACTCGT
1 GGGTCGAAACTCGT
486717 CCCCTGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (14 bp):
GGGTCGAAACTCGT
Found at i:488881 original size:4 final size:4
Alignment explanation
Indices: 488872--488959 Score: 142
Period size: 4 Copynumber: 22.2 Consensus size: 4
488862 GATGAAGCAA
*
488872 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGA ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
488920 ATGT ATGT ATGT ATGT ATGA ATGT AT-A ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
488960 CATTGGGGAA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
3 2 0.03
4 75 0.97
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:490480 original size:2 final size:2
Alignment explanation
Indices: 490475--490501 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
490465 TAACAGTGTG
490475 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
490502 GAGTAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:492078 original size:21 final size:22
Alignment explanation
Indices: 492053--492097 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
492043 AAAATAGTTC
*
492053 AATAAA-TTTAATGATCATTTT
1 AATAAATTTTAATAATCATTTT
*
492074 AATAAATTTTAATAATTATTTT
1 AATAAATTTTAATAATCATTTT
492096 AA
1 AA
492098 AGATATTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
AATAAATTTTAATAATCATTTT
Found at i:493610 original size:18 final size:18
Alignment explanation
Indices: 493584--493618 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
493574 ATATCAAACT
493584 AATAAATTTTAATAAAAA
1 AATAAATTTTAATAAAAA
* *
493602 AATATATTTTATTAAAA
1 AATAAATTTTAATAAAA
493619 CTTATCCCTC
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAAATTTTAATAAAAA
Found at i:503077 original size:53 final size:50
Alignment explanation
Indices: 503028--503142 Score: 122
Period size: 52 Copynumber: 2.2 Consensus size: 50
503018 TCAATAATAT
* * *
503028 ATATATATATTTATTAGAATTTATCACTTTAACGTGACAAATTTAAATAAAAA
1 ATATAT-TATTTATTAAAATTAATCACTTCAACGTGACAAATTTAAAT--AAA
* * * * * *
503081 ATATATTCTTTTTTAAAATTAATCACTTCGACTTAATAAATTTAAATAAA
1 ATATATTATTTATTAAAATTAATCACTTCAACGTGACAAATTTAAATAAA
503131 ATATATTATTTA
1 ATATATTATTTA
503143 AACAAACTTA
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
50 13 0.25
52 32 0.63
53 6 0.12
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (50 bp):
ATATATTATTTATTAAAATTAATCACTTCAACGTGACAAATTTAAATAAA
Found at i:507849 original size:19 final size:19
Alignment explanation
Indices: 507825--507862 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
507815 TTAAAGGTCA
*
507825 TATAAAATATTATATATAT
1 TATAAAATATTAAATATAT
*
507844 TATAAAATTTTAAATATAT
1 TATAAAATATTAAATATAT
507863 AATTAATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAAAATATTAAATATAT
Found at i:515600 original size:12 final size:12
Alignment explanation
Indices: 515583--515609 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
515573 AGATTTGATA
515583 AAAAAAAAAAGG
1 AAAAAAAAAAGG
515595 AAAAAAAAAAGG
1 AAAAAAAAAAGG
515607 AAA
1 AAA
515610 GTTGAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGG
Found at i:518235 original size:20 final size:20
Alignment explanation
Indices: 518203--518243 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
518193 TATTTTTAAA
*
518203 TATAAGTTTAAAAATATATT
1 TATAAGTTTAAAAATAAATT
518223 TATAA-TTTCAAAAATAAATT
1 TATAAGTTT-AAAAATAAATT
518243 T
1 T
518244 TGAAAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TATAAGTTTAAAAATAAATT
Found at i:522472 original size:16 final size:16
Alignment explanation
Indices: 522442--522471 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
522432 TTACCGGATT
522442 AAAAATCGGATTTTTA
1 AAAAATCGGATTTTTA
522458 AAAAATCGG-TTTTT
1 AAAAATCGGATTTTT
522472 TTCAAATCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (16 bp):
AAAAATCGGATTTTTA
Found at i:523926 original size:28 final size:29
Alignment explanation
Indices: 523887--523954 Score: 95
Period size: 28 Copynumber: 2.3 Consensus size: 29
523877 AATTTTTCTG
523887 TATTTATAATTAGGG-CTCTCAAT-TTTTA
1 TATTTATAATTAGGGCCTCT-AATATTTTA
523915 TATTTATAATTAGGGCCTCTAATATTTTA
1 TATTTATAATTAGGGCCTCTAATATTTTA
523944 TAATTTCATAA
1 T-ATTT-ATAA
523955 AATTTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
28 18 0.50
29 10 0.28
30 4 0.11
31 4 0.11
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (29 bp):
TATTTATAATTAGGGCCTCTAATATTTTA
Found at i:535153 original size:18 final size:18
Alignment explanation
Indices: 535112--535168 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
535102 TTCCTTTTCC
*
535112 TTCTTGTCTTTCTTAT-T
1 TTCTTCTCTTTCTTATCT
*
535129 TTCCTTCTCTTTCTTGTCT
1 TT-CTTCTCTTTCTTATCT
*
535148 TTCTTCT-TTTCCTTCTCT
1 TTCTTCTCTTT-CTTATCT
535166 TTC
1 TTC
535169 ATCTTCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 5 0.15
18 26 0.76
19 3 0.09
ACGTcount: A:0.02, C:0.28, G:0.04, T:0.67
Consensus pattern (18 bp):
TTCTTCTCTTTCTTATCT
Found at i:535162 original size:9 final size:9
Alignment explanation
Indices: 535127--535186 Score: 52
Period size: 9 Copynumber: 6.3 Consensus size: 9
535117 GTCTTTCTTA
535127 TTTTCCTTC
1 TTTTCCTTC
*
535136 TCTTT-CTTG
1 T-TTTCCTTC
535145 TCTTT-CTTC
1 T-TTTCCTTC
535154 TTTTCCTTC
1 TTTTCCTTC
535163 TCTTTCATCTTC
1 T-TTTC--CTTC
535175 TTTTCCTTC
1 TTTTCCTTC
535184 TTT
1 TTT
535187 CCGTGGTCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 3 0.07
9 25 0.57
10 7 0.16
11 4 0.09
12 5 0.11
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTCCTTC
Found at i:535165 original size:27 final size:27
Alignment explanation
Indices: 535096--535168 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
535086 TCTTCTCGGG
* *
535096 CTTCTTTTCCTTTTCCTTCTTGTCTTT
1 CTTCTTTTCCTTCTCTTTCTTGTCTTT
*
535123 CTTATTTTCCTTCTCTTTCTTGTCTTT
1 CTTCTTTTCCTTCTCTTTCTTGTCTTT
535150 CTTCTTTTCCTTCTCTTTC
1 CTTCTTTTCCTTCTCTTTC
535169 ATCTTCTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.01, C:0.30, G:0.03, T:0.66
Consensus pattern (27 bp):
CTTCTTTTCCTTCTCTTTCTTGTCTTT
Found at i:550042 original size:2 final size:2
Alignment explanation
Indices: 550035--550060 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
550025 GTAGACTTTA
550035 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
550061 TAGATTACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:551649 original size:30 final size:30
Alignment explanation
Indices: 551614--551672 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
551604 ATTTTAAAAA
551614 ATAATTT-TTATAATTAATCTATA-ATTTTAT
1 ATAATTTCTT-TAATTAATC-ATACATTTTAT
*
551644 ATAATTTCTTTAATTACTCATACATTTTA
1 ATAATTTCTTTAATTAATCATACATTTTA
551673 AATCTATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (30 bp):
ATAATTTCTTTAATTAATCATACATTTTAT
Found at i:551657 original size:19 final size:19
Alignment explanation
Indices: 551614--551658 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
551604 ATTTTAAAAA
551614 ATAATTTTTATAATTAATCT
1 ATAATTTTTATAATT-ATCT
551634 ATAATTTTATATAATT-TCT
1 ATAATTTT-TATAATTATCT
*
551653 TTAATT
1 ATAATT
551659 ACTCATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
ATAATTTTTATAATTATCT
Found at i:562605 original size:15 final size:15
Alignment explanation
Indices: 562585--562615 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
562575 CCACTCGTCT
562585 CAATTGAATAATCAC
1 CAATTGAATAATCAC
562600 CAATTGAATAATCAC
1 CAATTGAATAATCAC
562615 C
1 C
562616 GCTAGCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (15 bp):
CAATTGAATAATCAC
Found at i:564153 original size:23 final size:23
Alignment explanation
Indices: 564127--564202 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
564117 GTGTTGGCCG
564127 TAGGTCGCCATGTCGGGCG-CTAC
1 TAGGTCGCC-TGTCGGGCGACTAC
*
564150 TAGGTCGCCTTTCGGGCGACCTAC
1 TAGGTCGCCTGTCGGGCGA-CTAC
* *
564174 TAGGTCATGTCT-TCCGGCGACTAC
1 TAGGTC--GCCTGTCGGGCGACTAC
564198 TAGGT
1 TAGGT
564203 ATGTCTTCCG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
22 8 0.17
23 9 0.20
24 19 0.41
25 7 0.15
26 3 0.07
ACGTcount: A:0.14, C:0.29, G:0.30, T:0.26
Consensus pattern (23 bp):
TAGGTCGCCTGTCGGGCGACTAC
Found at i:564210 original size:23 final size:25
Alignment explanation
Indices: 564164--564221 Score: 93
Period size: 23 Copynumber: 2.4 Consensus size: 25
564154 TCGCCTTTCG
564164 GGCGACCTACTAGGTCATGTCTTCC
1 GGCGACCTACTAGGTCATGTCTTCC
564189 GGCGA-CTACTAGGT-ATGTCTTCC
1 GGCGACCTACTAGGTCATGTCTTCC
*
564212 GGCGAGCTAC
1 GGCGACCTAC
564222 AAGAGATTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.44
24 13 0.41
25 5 0.16
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.26
Consensus pattern (25 bp):
GGCGACCTACTAGGTCATGTCTTCC
Found at i:564298 original size:34 final size:34
Alignment explanation
Indices: 564260--564325 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
564250 AACACGCTGG
* *
564260 GCATCTGAGGCCATCCGACCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCAACCGAGGCCATCCGAGA
*
564294 GCATCCGAGGCCATCCAACCGAGGCTATCCGA
1 GCATCCGAGGCCATCCAACCGAGGCCATCCGA
564326 ACGAGCTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.24, C:0.36, G:0.27, T:0.12
Consensus pattern (34 bp):
GCATCCGAGGCCATCCAACCGAGGCCATCCGAGA
Found at i:564364 original size:33 final size:33
Alignment explanation
Indices: 564322--564396 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
564312 CCGAGGCTAT
* * *
564322 CCGAACGAGCTATGCGAGGGCATCCGAGGGCAA-
1 CCGAGCGAGCTATGCGAGAGAATCCGAGGG-AAG
564355 CCGAGCGAGCTATGCGAGAGAATCCGAGGGAAG
1 CCGAGCGAGCTATGCGAGAGAATCCGAGGGAAG
564388 CCGAGCGAG
1 CCGAGCGAG
564397 GTAGGTCGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 2 0.05
33 36 0.95
ACGTcount: A:0.28, C:0.25, G:0.39, T:0.08
Consensus pattern (33 bp):
CCGAGCGAGCTATGCGAGAGAATCCGAGGGAAG
Found at i:567281 original size:35 final size:35
Alignment explanation
Indices: 567204--567283 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
567194 AACACAATCA
*
567204 TCAATTACATCTTAAACCCCAAATTCCAAAATACT
1 TCAATTATATCTTAAACCCCAAATTCCAAAATACT
* *
567239 TCAATTATATTTTAAACCTCAAATTCCAAAATACT
1 TCAATTATATCTTAAACCCCAAATTCCAAAATACT
567274 TCAATTATAT
1 TCAATTATAT
567284 GCCCAACCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (35 bp):
TCAATTATATCTTAAACCCCAAATTCCAAAATACT
Found at i:567292 original size:35 final size:35
Alignment explanation
Indices: 567217--567299 Score: 121
Period size: 35 Copynumber: 2.4 Consensus size: 35
567207 ATTACATCTT
* ***
567217 AAACCCCAAATTCCAAAATACTTCAATTATATTTT
1 AAACCTCAAATTCCAAAATACTTCAATTATATGCC
567252 AAACCTCAAATTCCAAAATACTTCAATTATATGCC
1 AAACCTCAAATTCCAAAATACTTCAATTATATGCC
*
567287 CAACCTCAAATTC
1 AAACCTCAAATTC
567300 ATAATCCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.42, C:0.27, G:0.01, T:0.30
Consensus pattern (35 bp):
AAACCTCAAATTCCAAAATACTTCAATTATATGCC
Found at i:568110 original size:35 final size:35
Alignment explanation
Indices: 568071--568150 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
568061 GGGGTTGGGC
*
568071 ATGTAATTGAAGTATTTTAGAATTTGAGGTTTAGA
1 ATGTAATTGAAGAATTTTAGAATTTGAGGTTTAGA
* *
568106 ATGTAATTGAAGAATTTTAGAATTTGGGGTTTAGG
1 ATGTAATTGAAGAATTTTAGAATTTGAGGTTTAGA
568141 ATGTAATTGA
1 ATGTAATTGA
568151 TGATTTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (35 bp):
ATGTAATTGAAGAATTTTAGAATTTGAGGTTTAGA
Found at i:578979 original size:33 final size:33
Alignment explanation
Indices: 578940--579030 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 33
578930 GTGACCTAGC
* *
578940 CTCGCTCGGCTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGATGCCCTCGGATGCCCTCGCATAG
*
578973 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGATGCCCTCGGATGCCCTCGCATAG
* *
579006 CTCGTTCGGATGGCCTCGGATGCCC
1 CTCGCTCGGATGCCCTCGGATGCCC
579031 AACGTGTTGG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.09, C:0.40, G:0.27, T:0.24
Consensus pattern (33 bp):
CTCGCTCGGATGCCCTCGGATGCCCTCGCATAG
Found at i:578996 original size:10 final size:10
Alignment explanation
Indices: 578944--579030 Score: 57
Period size: 10 Copynumber: 8.1 Consensus size: 10
578934 CCTAGCCTCG
*
578944 CTCGGCTGCC
1 CTCGGATGCC
*
578954 CTCGGATTCC
1 CTCGGATGCC
*
578964 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
578976 GCTCGGTTGCC
1 -CTCGGATGCC
578987 CTCGGATGCC
1 CTCGGATGCC
*
578997 CTCGCATAGCTC
1 CTCGGAT-GC-C
* *
579009 GTTCGGATGGC
1 -CTCGGATGCC
579020 CTCGGATGCC
1 CTCGGATGCC
579030 C
1 C
579031 AACGTGTTGG
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
10 38 0.66
11 5 0.09
12 5 0.09
13 10 0.17
ACGTcount: A:0.09, C:0.39, G:0.28, T:0.24
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:580364 original size:23 final size:23
Alignment explanation
Indices: 580338--580387 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
580328 CAAACGGGGG
580338 AATCACATTCCATTCCCCCCGAT
1 AATCACATTCCATTCCCCCCGAT
* *
580361 AATCACATTTCATTCCCCCCGGT
1 AATCACATTCCATTCCCCCCGAT
580384 AATC
1 AATC
580388 TTAGATAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.40, G:0.06, T:0.28
Consensus pattern (23 bp):
AATCACATTCCATTCCCCCCGAT
Found at i:581945 original size:29 final size:30
Alignment explanation
Indices: 581904--582035 Score: 158
Period size: 30 Copynumber: 4.4 Consensus size: 30
581894 ATGTCTTGAT
* *
581904 TCTGCATGAGATTTATTCCCCGTCCTGA-T
1 TCTGCATGAGATTTATTCCCCGTTCTGACA
*
581933 TCTGCATGGGATTTATTCCCCGTTCTGACA
1 TCTGCATGAGATTTATTCCCCGTTCTGACA
* **
581963 TCTGTATGAGATAAATTCCCCGTTCTGACA
1 TCTGCATGAGATTTATTCCCCGTTCTGACA
* ** *
581993 TCTGCATGGGATAAATTTCCCGTTCTGACA
1 TCTGCATGAGATTTATTCCCCGTTCTGACA
*
582023 TCTACATGAGATT
1 TCTGCATGAGATT
582036 ATAACTCTGT
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 26 0.29
30 63 0.71
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (30 bp):
TCTGCATGAGATTTATTCCCCGTTCTGACA
Found at i:585459 original size:14 final size:14
Alignment explanation
Indices: 585440--585471 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
585430 GAATTGTTAT
585440 TTTGGTTTTTAGAC
1 TTTGGTTTTTAGAC
585454 TTTGGTTTTTAGAC
1 TTTGGTTTTTAGAC
585468 TTTG
1 TTTG
585472 AATTTGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.06, G:0.22, T:0.59
Consensus pattern (14 bp):
TTTGGTTTTTAGAC
Found at i:589197 original size:38 final size:38
Alignment explanation
Indices: 589120--589195 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
589110 ACTATAAGAT
* * *
589120 ATTTATATATTTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTAAATATTTTTCTTTAAAAAATTGAAAATCATAAA
* *
589158 ATTTAAATATTTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTAAATATTTTTCTTTAAAAAATTGAAAATCATAAA
589195 A
1 A
589196 ATGTTTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
37 6 0.18
38 27 0.82
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (38 bp):
ATTTAAATATTTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:593308 original size:31 final size:32
Alignment explanation
Indices: 593258--593318 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
593248 TTAGGTAAAG
*
593258 TACATATTTATTACCTAAACTATT-AATTTTAT
1 TACATATTTAGTACCTAAACT-TTGAATTTTAT
*
593290 TACAT-TTTAGTACTTAAACTTTGAATTTT
1 TACATATTTAGTACCTAAACTTTGAATTTT
593319 CAAAATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.08
31 19 0.73
32 5 0.19
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (32 bp):
TACATATTTAGTACCTAAACTTTGAATTTTAT
Found at i:593426 original size:32 final size:31
Alignment explanation
Indices: 593378--593461 Score: 87
Period size: 32 Copynumber: 2.7 Consensus size: 31
593368 TTAAAATTTA
* * *
593378 GGTACTAAAATAAAACAAAAAATTAATAGCG
1 GGTACCAAAATAAAACAAAAAATTAACAACG
* * *
593409 GGATACCAAAATGAAACAAAAAGTTAACAATG
1 GG-TACCAAAATAAAACAAAAAATTAACAACG
* *
593441 GGTACTAAAATTAAACAAAAA
1 GGTACCAAAATAAAACAAAAA
593462 GTAAACATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 19 0.43
32 25 0.57
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (31 bp):
GGTACCAAAATAAAACAAAAAATTAACAACG
Found at i:593451 original size:31 final size:31
Alignment explanation
Indices: 593378--593468 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
593368 TTAAAATTTA
* * *
593378 GGTACTAAAATAAAACAAAAAATTAATAGCG
1 GGTACTAAAATAAAACAAAAAGTTAACAACG
* * *
593409 GGATACCAAAATGAAACAAAAAGTTAACAATG
1 GG-TACTAAAATAAAACAAAAAGTTAACAACG
* *
593441 GGTACTAAAATTAAACAAAAAGTAAACA
1 GGTACTAAAATAAAACAAAAAGTTAACA
593469 TTAGGTACGG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 25 0.50
32 25 0.50
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (31 bp):
GGTACTAAAATAAAACAAAAAGTTAACAACG
Found at i:593476 original size:31 final size:31
Alignment explanation
Indices: 593375--593476 Score: 96
Period size: 31 Copynumber: 3.3 Consensus size: 31
593365 CTGTTAAAAT
* *
593375 TTAGGTACTAAAATAAAACAAAAAATTAATA
1 TTAGGTACTAAAATAAAACAAAAAGTTAACA
*** * *
593406 GCGGGATACCAAAATGAAACAAAAAGTTAACA
1 TTAGG-TACTAAAATAAAACAAAAAGTTAACA
* * * *
593438 ATGGGTACTAAAATTAAACAAAAAGTAAACA
1 TTAGGTACTAAAATAAAACAAAAAGTTAACA
593469 TTAGGTAC
1 TTAGGTAC
593477 GGTTTTAAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
31 31 0.55
32 25 0.45
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.21
Consensus pattern (31 bp):
TTAGGTACTAAAATAAAACAAAAAGTTAACA
Found at i:601911 original size:30 final size:30
Alignment explanation
Indices: 601877--602066 Score: 328
Period size: 30 Copynumber: 6.3 Consensus size: 30
601867 AGCATCTCCA
601877 ACTCTCTCATTAGCCACCAGTTCCTGATCG
1 ACTCTCTCATTAGCCACCAGTTCCTGATCG
*
601907 ACTCTCTGATTAGCTC-CCAGTTCCTGATCG
1 ACTCTCTCATTAGC-CACCAGTTCCTGATCG
601937 ACTCTCTCATTAGCCACCAGTTCCTGATCG
1 ACTCTCTCATTAGCCACCAGTTCCTGATCG
*
601967 ACTCTCTCATTAGCTACCAGTTCCTGATCG
1 ACTCTCTCATTAGCCACCAGTTCCTGATCG
601997 ACTCTCTCATTAGCCACCAGTTCCTGATCG
1 ACTCTCTCATTAGCCACCAGTTCCTGATCG
* *
602027 ACTCTCTGATTAGCCACCAGTTCCTCATCG
1 ACTCTCTCATTAGCCACCAGTTCCTGATCG
602057 ACTCTCTCAT
1 ACTCTCTCAT
602067 CATCACCAAC
Statistics
Matches: 151, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
29 1 0.01
30 149 0.99
31 1 0.01
ACGTcount: A:0.19, C:0.36, G:0.13, T:0.32
Consensus pattern (30 bp):
ACTCTCTCATTAGCCACCAGTTCCTGATCG
Found at i:605481 original size:17 final size:18
Alignment explanation
Indices: 605454--605488 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
605444 ATATTTAATA
*
605454 GATAGTATTAAAGTTTAG
1 GATAGTATTAAACTTTAG
605472 GATA-TATTAAACTTTAG
1 GATAGTATTAAACTTTAG
605489 TATTTCAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (18 bp):
GATAGTATTAAACTTTAG
Found at i:606752 original size:20 final size:19
Alignment explanation
Indices: 606729--606792 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
606719 AAATTTCATA
606729 TTTAATCATTATATTTTAAT
1 TTTAATCATT-TATTTTAAT
606749 TTT-ATCACATTTATTTTAAT
1 TTTAAT--CATTTATTTTAAT
*
606769 TTTAAT-ATTT-TTTAAAT
1 TTTAATCATTTATTTTAAT
606786 TTTAATC
1 TTTAATC
606793 TGAATCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 12 0.31
18 4 0.10
19 2 0.05
20 15 0.38
21 6 0.15
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATCATTTATTTTAAT
Found at i:610171 original size:13 final size:13
Alignment explanation
Indices: 610153--610177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
610143 TAAATGATGT
610153 TCTATGTTGCAGA
1 TCTATGTTGCAGA
610166 TCTATGTTGCAG
1 TCTATGTTGCAG
610178 GGGATAGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (13 bp):
TCTATGTTGCAGA
Found at i:618912 original size:31 final size:30
Alignment explanation
Indices: 618854--618948 Score: 138
Period size: 31 Copynumber: 3.1 Consensus size: 30
618844 TTAACTCTCG
*
618854 TTCGATTTTAGTCCCTCA-TTTGTCACATA
1 TTCGATTTTAGTCCCTCAGTGTGTCACATA
618883 TTCGATTTTAGTCCCTCAGCTGTGTCACATA
1 TTCGATTTTAGTCCCTCAG-TGTGTCACATA
* *
618914 TTCGATTTTTGTCCCTCAGTTGTGTCACTTA
1 TTCGATTTTAGTCCCTCAG-TGTGTCACATA
618945 TTCG
1 TTCG
618949 TTAAGAGTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.30
31 42 0.70
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.44
Consensus pattern (30 bp):
TTCGATTTTAGTCCCTCAGTGTGTCACATA
Found at i:630255 original size:27 final size:27
Alignment explanation
Indices: 630220--630271 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
630210 ATTTGTATAT
**
630220 TAGTATTGATGATACTTATCTTTCATA
1 TAGTATTGAAAATACTTATCTTTCATA
*
630247 TAGTATTGAAAATATTTATCTTTCA
1 TAGTATTGAAAATACTTATCTTTCA
630272 CAGTCGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (27 bp):
TAGTATTGAAAATACTTATCTTTCATA
Found at i:630345 original size:17 final size:17
Alignment explanation
Indices: 630302--630353 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
630292 TGTACAGTAG
*
630302 AAACTCTTTAAATTAAT
1 AAACTCTCTAAATTAAT
**
630319 --ACTCGGTAAATTAAT
1 AAACTCTCTAAATTAAT
*
630334 AAACTCTCTAAAATAAT
1 AAACTCTCTAAATTAAT
630351 AAA
1 AAA
630354 TTTGTCCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (17 bp):
AAACTCTCTAAATTAAT
Found at i:632900 original size:20 final size:21
Alignment explanation
Indices: 632871--632929 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
632861 ATTTTAGGAT
*
632871 TTAGGGTTTAGAGTTTAG-AA
1 TTAGGATTTAGAGTTTAGCAA
*
632891 TTAGGATTTAGGGTTT-GCAA
1 TTAGGATTTAGAGTTTAGCAA
*
632911 TTCAAGATTTAGAGTTTAG
1 TT-AGGATTTAGAGTTTAG
632930 GATTTGAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 18 0.56
21 12 0.38
22 1 0.03
ACGTcount: A:0.29, C:0.03, G:0.27, T:0.41
Consensus pattern (21 bp):
TTAGGATTTAGAGTTTAGCAA
Found at i:632939 original size:21 final size:21
Alignment explanation
Indices: 632877--632940 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
632867 GGATTTAGGG
*
632877 TTTAGAGTTTAGAATTAG-GA
1 TTTAGAGTTTAGAATTTGAGA
* **
632897 TTTAGGGTTT-GCAATTCAAGA
1 TTTAGAGTTTAG-AATTTGAGA
*
632918 TTTAGAGTTTAGGATTTGAGA
1 TTTAGAGTTTAGAATTTGAGA
632939 TT
1 TT
632941 GGGGTAAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.03
20 13 0.38
21 19 0.56
22 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (21 bp):
TTTAGAGTTTAGAATTTGAGA
Found at i:642627 original size:31 final size:30
Alignment explanation
Indices: 642565--642640 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
642555 ATAAAAAAGT
*
642565 AATACATACCTAAAG-TATGTTTTGATCAA
1 AATAGATACCTAAAGTTATGTTTTGATCAA
* * *
642594 AATA-AGTACCTAAAGTTATCTTTTTGGTTAA
1 AATAGA-TACCTAAAGTTAT-GTTTTGATCAA
642625 AATAGATACCTAAAGT
1 AATAGATACCTAAAGT
642641 ATTCAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.03
29 13 0.32
30 3 0.08
31 22 0.55
32 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (30 bp):
AATAGATACCTAAAGTTATGTTTTGATCAA
Found at i:642761 original size:27 final size:27
Alignment explanation
Indices: 642723--642775 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
642713 TGAAAAAATT
*
642723 TAAAAACTTTAGATACCTATTTTGACG
1 TAAAAACTTTAGATACATATTTTGACG
*
642750 TAAAATAC-TTAGGTACATATTTTGAC
1 TAAAA-ACTTTAGATACATATTTTGAC
642776 CAAAAAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (27 bp):
TAAAAACTTTAGATACATATTTTGACG
Found at i:642781 original size:27 final size:28
Alignment explanation
Indices: 642731--642787 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
642721 TTTAAAAACT
* **
642731 TTAGATACCTATTTTGA-CGTAAAATAC
1 TTAGATACATATTTTGACCAAAAAATAC
*
642758 TTAGGTACATATTTTGACCAAAAAATAC
1 TTAGATACATATTTTGACCAAAAAATAC
642786 TT
1 TT
642788 TAAATGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (28 bp):
TTAGATACATATTTTGACCAAAAAATAC
Found at i:648152 original size:15 final size:16
Alignment explanation
Indices: 648126--648159 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
648116 TTTGTAAAAA
648126 AAATTATAAATTTTAT
1 AAATTATAAATTTTAT
*
648142 AAATT-TAAATTTTTT
1 AAATTATAAATTTTAT
648157 AAA
1 AAA
648160 GAAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTATAAATTTTAT
Found at i:648666 original size:14 final size:14
Alignment explanation
Indices: 648647--648673 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
648637 TTTCTTTGAA
648647 GTATTTGTGTAGTT
1 GTATTTGTGTAGTT
648661 GTATTTGTGTAGT
1 GTATTTGTGTAGT
648674 ATTATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (14 bp):
GTATTTGTGTAGTT
Found at i:651585 original size:200 final size:204
Alignment explanation
Indices: 651221--651628 Score: 761
Period size: 200 Copynumber: 2.0 Consensus size: 204
651211 AAGGTAATTT
651221 AAGAGAAATTAGAGTTTTATAAATATAATATTATTTTTAATTTGTTTAAAAATAGTTTTTAAAAT
1 AAGAGAAATTAGAGTTTTATAAATATAATATTA--TTT-ATTTGTTTAAAAATAGTTTTTAAAAT
651286 TATTAGAATGTGACACGTGTCACTTAACGAAGGAAATTAATATTGTTTACGGATCGAGTATCTAA
63 TATTAGAATGTGACACGTGTCACTTAACGAAGGAAATTAATATTGTTTACGGATCGAGTATCTAA
651351 AATGATAACGTTTGTAACATTAGGTACCTAAATCGTTTAAAAATTAATTTAACCACTTATTAATG
128 AATGATAACGTTTGTAACATTAGGTACCTAAATCGTTTAAAAATTAATTTAACCACTTATTAATG
651416 TAAAGTGCTATA
193 TAAAGTGCTATA
651428 AAGAGAAATTAGAG-TTTATAAATATAATATTA-TT-TTTGTTTAAAAATAG-TTTTAAAATTAT
1 AAGAGAAATTAGAGTTTTATAAATATAATATTATTTATTTGTTTAAAAATAGTTTTTAAAATTAT
651489 TAGAATGTGACACGTGTCACTTAACGAAGGAAATTAATATTGTTTACGGATCGAGTATCTAAAAT
66 TAGAATGTGACACGTGTCACTTAACGAAGGAAATTAATATTGTTTACGGATCGAGTATCTAAAAT
651554 GATAACGTTTGTAACATTAGGTACCTAAATCGTTTAAAAATTAATTTAACCACTTATTAATGTAA
131 GATAACGTTTGTAACATTAGGTACCTAAATCGTTTAAAAATTAATTTAACCACTTATTAATGTAA
651619 AGTGCTATA
196 AGTGCTATA
651628 A
1 A
651629 TTTGGGCACT
Statistics
Matches: 201, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
200 152 0.76
201 15 0.07
203 2 0.01
206 18 0.09
207 14 0.07
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (204 bp):
AAGAGAAATTAGAGTTTTATAAATATAATATTATTTATTTGTTTAAAAATAGTTTTTAAAATTAT
TAGAATGTGACACGTGTCACTTAACGAAGGAAATTAATATTGTTTACGGATCGAGTATCTAAAAT
GATAACGTTTGTAACATTAGGTACCTAAATCGTTTAAAAATTAATTTAACCACTTATTAATGTAA
AGTGCTATA
Found at i:654837 original size:31 final size:31
Alignment explanation
Indices: 654802--654862 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
654792 ATTTAAGTTC
* *
654802 CTAACGTTATTGATCAGTTCGATTTTAATCT
1 CTAACATTATCGATCAGTTCGATTTTAATCT
* *
654833 CTAACATTATCGTTCAGTTCTATTTTAATC
1 CTAACATTATCGATCAGTTCGATTTTAATC
654863 CCTTATGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (31 bp):
CTAACATTATCGATCAGTTCGATTTTAATCT
Found at i:658663 original size:25 final size:24
Alignment explanation
Indices: 658634--658704 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 24
658624 ACATTAAGAA
658634 ACAAAGAAAATTAAATAAAAACATT
1 ACAAA-AAAATTAAATAAAAACATT
* *
658659 ACAAACTAAA-TAATTAAAAA-ATT
1 ACAAA-AAAATTAAATAAAAACATT
*
658682 --AAAAAAATTAAATACAAACATT
1 ACAAAAAAATTAAATAAAAACATT
658704 A
1 A
658705 AATACAAACG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 3 0.08
21 11 0.30
22 3 0.08
23 3 0.08
24 9 0.24
25 8 0.22
ACGTcount: A:0.68, C:0.08, G:0.01, T:0.23
Consensus pattern (24 bp):
ACAAAAAAATTAAATAAAAACATT
Found at i:658706 original size:13 final size:13
Alignment explanation
Indices: 658688--658713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
658678 AATTAAAAAA
658688 ATTAAATACAAAC
1 ATTAAATACAAAC
658701 ATTAAATACAAAC
1 ATTAAATACAAAC
658714 GTCGCAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
ATTAAATACAAAC
Found at i:672520 original size:6 final size:6
Alignment explanation
Indices: 672509--672539 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
672499 ATTTCGCATT
672509 ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
672540 GACGAGACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:673042 original size:6 final size:6
Alignment explanation
Indices: 673031--673055 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
673021 CCGTCTCGTC
673031 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
673056 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:673104 original size:20 final size:20
Alignment explanation
Indices: 673079--673186 Score: 83
Period size: 20 Copynumber: 5.3 Consensus size: 20
673069 GACACGTCCG
673079 ACGCGAAATGGAAAATCGCA
1 ACGCGAAATGGAAAATCGCA
* **
673099 ACGCG-ACTGTAGACTATCGCA
1 ACGCGAAATG--GAAAATCGCA
673120 ACGCGAAATGGAAAATCGCA
1 ACGCGAAATGGAAAATCGCA
** ** **
673140 ACGCGATCTCCATCTATCGCA
1 ACGCGAAATGGA-AAATCGCA
* *
673161 ACGCGAAATAGAAAAACGCA
1 ACGCGAAATGGAAAATCGCA
673181 ACGCGA
1 ACGCGA
673187 TTTTCAACTA
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
19 3 0.05
20 32 0.49
21 27 0.42
22 3 0.05
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (20 bp):
ACGCGAAATGGAAAATCGCA
Found at i:673136 original size:41 final size:40
Alignment explanation
Indices: 673079--673208 Score: 161
Period size: 41 Copynumber: 3.2 Consensus size: 40
673069 GACACGTCCG
*
673079 ACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCA
1 ACGCGAAATGGAAAATCGCAACGCGACTCTA-ACTATCGCA
* *
673120 ACGCGAAATGGAAAATCGCAACGCGATCTCCATCTATCGCA
1 ACGCGAAATGGAAAATCGCAACGCGA-CTCTAACTATCGCA
* * * *
673161 ACGCGAAATAGAAAAACGCAACGCGATTTTCAACTATCGCA
1 ACGCGAAATGGAAAATCGCAACGCGACTCT-AACTATCGCA
*
673202 ATGCGAA
1 ACGCGAA
673209 TTAGAGATCG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 73 0.95
42 3 0.04
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (40 bp):
ACGCGAAATGGAAAATCGCAACGCGACTCTAACTATCGCA
Found at i:674931 original size:60 final size:59
Alignment explanation
Indices: 674834--674966 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 59
674824 AAAAAAGAGT
* * *
674834 AAAG-TACACAAATGGTCCCTTTACTATAAGGTGTTGCTTTTTTTGAGTACC-CGACTATTA
1 AAAGTTACA-AAATGGTCCCTTGACTATAAGGTATTGC-TTTATTGAGT-CCTCGACTATTA
* * *
674894 AAAGTTATAAAATGGTCCCTTGATTAT-AGGATATTGCTTTATTGAGTCCTTTGACTATTA
1 AAAGTTACAAAATGGTCCCTTGACTATAAGG-TATTGCTTTATTGAGTCC-TCGACTATTA
674954 AAAGTTACAAAAT
1 AAAGTTACAAAAT
674967 CATCATATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
58 2 0.03
59 12 0.19
60 45 0.73
61 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (59 bp):
AAAGTTACAAAATGGTCCCTTGACTATAAGGTATTGCTTTATTGAGTCCTCGACTATTA
Found at i:675652 original size:22 final size:23
Alignment explanation
Indices: 675609--675655 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
675599 CATCACCATT
*
675609 AATTTTTTAACGGAAAGGTGATA
1 AATTTTTTAACGGAAAGATGATA
*
675632 AATTTTTTAAC-GAATGATGATA
1 AATTTTTTAACGGAAAGATGATA
675654 AA
1 AA
675656 AATGAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (23 bp):
AATTTTTTAACGGAAAGATGATA
Found at i:678971 original size:14 final size:14
Alignment explanation
Indices: 678952--678982 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
678942 CGTTAGGTGA
678952 TTCGTTCATTTATG
1 TTCGTTCATTTATG
*
678966 TTCGTTTATTTATG
1 TTCGTTCATTTATG
678980 TTC
1 TTC
678983 TCCAAACCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (14 bp):
TTCGTTCATTTATG
Found at i:679196 original size:24 final size:24
Alignment explanation
Indices: 679159--679210 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
679149 CCCAATTAAT
* *
679159 TTTATGTTCGTTCGTTTGTGTTCA
1 TTTATATTCATTCGTTTGTGTTCA
*
679183 TTTATATTCATTCGTTTGTGTTCG
1 TTTATATTCATTCGTTTGTGTTCA
679207 TTTA
1 TTTA
679211 CGTTTCTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.60
Consensus pattern (24 bp):
TTTATATTCATTCGTTTGTGTTCA
Found at i:689832 original size:21 final size:22
Alignment explanation
Indices: 689807--689883 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 22
689797 ATACTTTTAT
*
689807 ATTTATGTCATAATT-TATTAA
1 ATTTATATCATAATTATATTAA
*
689828 ATTTATATGATAATTATATTTAA
1 ATTTATATCATAATTATA-TTAA
* *
689851 A---ATATAATATATTATATTAT
1 ATTTATATCATA-ATTATATTAA
689871 ATTATATATCATA
1 ATT-TATATCATA
689884 TTAAACTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
20 11 0.25
21 19 0.43
22 2 0.05
23 5 0.11
24 7 0.16
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTTATATCATAATTATATTAA
Found at i:689878 original size:17 final size:17
Alignment explanation
Indices: 689852--689886 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
689842 TATATTTAAA
*
689852 ATATAATATATTATATT
1 ATATAATATATCATATT
*
689869 ATATTATATATCATATT
1 ATATAATATATCATATT
689886 A
1 A
689887 AACTTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATAATATATCATATT
Found at i:694848 original size:21 final size:22
Alignment explanation
Indices: 694801--694850 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
694791 ATTTGTAAAT
694801 ATTAAATTTAAAAAATATATTC
1 ATTAAATTTAAAAAATATATTC
**
694823 A--AAATTTTGAAAA-ATATTC
1 ATTAAATTTAAAAAATATATTC
694842 ATTAAATTT
1 ATTAAATTT
694851 CTTAAAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 7 0.29
20 10 0.42
21 6 0.25
22 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTAAATTTAAAAAATATATTC
Found at i:695052 original size:13 final size:13
Alignment explanation
Indices: 695031--695094 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
695021 ATAAAACAAC
695031 TAATCAAATCAAT
1 TAATCAAATCAAT
** *
695044 TTCTCAAATCAAC
1 TAATCAAATCAAT
*
695057 TAATCAAATTAAT
1 TAATCAAATCAAT
695070 TAATCAAATCAAT
1 TAATCAAATCAAT
* *
695083 TATTGAAATCAA
1 TAATCAAATCAA
695095 CTACCAGCTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.33
Consensus pattern (13 bp):
TAATCAAATCAAT
Found at i:695056 original size:26 final size:26
Alignment explanation
Indices: 695027--695081 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
695017 CTATATAAAA
**
695027 CAACTAATCAAATCAATTTCTCAAAT
1 CAACTAATCAAATCAATTAATCAAAT
*
695053 CAACTAATCAAATTAATTAATCAAAT
1 CAACTAATCAAATCAATTAATCAAAT
695079 CAA
1 CAA
695082 TTATTGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (26 bp):
CAACTAATCAAATCAATTAATCAAAT
Found at i:702784 original size:19 final size:18
Alignment explanation
Indices: 702760--702851 Score: 78
Period size: 19 Copynumber: 4.8 Consensus size: 18
702750 AATGACCAAC
702760 AAAATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAA-A
**
702779 AAAATCGCAACGCGATTTA
1 AAAATCGCAACGCGA-AAA
* *
702798 GAAATCGCAACGTTGAAAA
1 AAAATCGCAACG-CGAAAA
702817 GAAAATCGCAACG-GTCAAAA
1 -AAAATCGCAACGCG--AAAA
*
702837 GAAATCGCAACGCGA
1 AAAATCGCAACGCGA
702852 TTCCAAGAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.03
19 39 0.66
20 18 0.31
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.13
Consensus pattern (18 bp):
AAAATCGCAACGCGAAAA
Found at i:702824 original size:20 final size:19
Alignment explanation
Indices: 702797--702848 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
702787 AACGCGATTT
* *
702797 AGAAATCGCAACGTTGAAA
1 AGAAATCGCAACGGTCAAA
702816 AGAAAATCGCAACGGTCAAA
1 AG-AAATCGCAACGGTCAAA
702836 AGAAATCGCAACG
1 AGAAATCGCAACG
702849 CGATTCCAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (19 bp):
AGAAATCGCAACGGTCAAA
Found at i:702864 original size:20 final size:20
Alignment explanation
Indices: 702839--702993 Score: 221
Period size: 20 Copynumber: 7.8 Consensus size: 20
702829 GGTCAAAAGA
702839 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
702859 AATCGCAATGCGATT-AAGAG
1 AATCGCAACGCGATTCCA-AG
702879 AATCGCAACGCGATCTCCAAG
1 AATCGCAACGCGAT-TCCAAG
702900 AATCGCAACGCGATT-C-AG
1 AATCGCAACGCGATTCCAAG
702918 AAAT-GCAACGCGATTCCAAG
1 -AATCGCAACGCGATTCCAAG
702938 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
702958 AATCGCAACGCGATTCCAAAG
1 AATCGCAACGCGATTCC-AAG
702979 AATCG-AACGCGATTC
1 AATCGCAACGCGATTC
702994 AGAAAATGAG
Statistics
Matches: 123, Mismatches: 4, Indels: 16
0.86 0.03 0.11
Matches are distributed among these distances:
18 13 0.11
19 9 0.07
20 75 0.61
21 25 0.20
22 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.21, T:0.16
Consensus pattern (20 bp):
AATCGCAACGCGATTCCAAG
Found at i:703001 original size:79 final size:79
Alignment explanation
Indices: 702836--702998 Score: 260
Period size: 79 Copynumber: 2.1 Consensus size: 79
702826 AACGGTCAAA
*
702836 AGAAATCGCAACGCGATTCCAAGAATCGCAATGCGATTAAGAGAATCGCAACGCGATCTCCAAGA
1 AGAAAT-GCAACGCGATTCCAAGAATCGCAACGCGATTAAGAGAATCGCAACGCGATCTCCAAGA
702901 ATCGCAACGCGATTC
65 ATCGCAACGCGATTC
*
702916 AGAAATGCAACGCGATTCCAAGAATCGCAACGCGATTCCA-AGAATCGCAACGCGAT-TCCAAAG
1 AGAAATGCAACGCGATTCCAAGAATCGCAACGCGATT-AAGAGAATCGCAACGCGATCTCC-AAG
702979 AATCG-AACGCGATTC
64 AATCGCAACGCGATTC
702994 AGAAA
1 AGAAA
702999 ATGAGTAAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
78 18 0.23
79 54 0.68
80 7 0.09
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (79 bp):
AGAAATGCAACGCGATTCCAAGAATCGCAACGCGATTAAGAGAATCGCAACGCGATCTCCAAGAA
TCGCAACGCGATTC
Found at i:703104 original size:6 final size:6
Alignment explanation
Indices: 703093--703167 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
703083 GACACGTATT
703093 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
703141 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
703168 CGAGACGAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:703676 original size:6 final size:6
Alignment explanation
Indices: 703665--703782 Score: 211
Period size: 6 Copynumber: 19.5 Consensus size: 6
703655 TCTCGTCTCG
703665 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
703713 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGGTCCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT -GGT-CGT
703763 GGTCGT GGTCGT -GTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGT
703783 AATAGTGTCT
Statistics
Matches: 109, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.05
6 95 0.87
7 6 0.06
8 3 0.03
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:703902 original size:20 final size:20
Alignment explanation
Indices: 703877--704283 Score: 374
Period size: 20 Copynumber: 20.2 Consensus size: 20
703867 GAATTTACTC
703877 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
703897 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
703917 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
703937 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
703957 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
703977 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
703997 ATTTT-TGGAATCGTGTTGCG
1 ATTTTCT-GAATCGCGTTGCG
* *
704017 ATTTTCTTAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
704037 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
704057 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
704077 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
704097 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTGAATCGCGTTGCG
*
704117 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
704137 ATTCTT-GGAAGATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
* * *
704159 ATTCTCTTAATCGCATTGCG
1 ATTTTCTGAATCGCGTTGCG
*
704179 ATTCTT-GGAATATCGCGTTGCG
1 ATT-TTCTG-A-ATCGCGTTGCG
704201 ATTTTCTTTTG-A-C-CGTTGCG
1 ATTTTC---TGAATCGCGTTGCG
** *
704221 A-TTTCT-TTTCAACGTTGCG
1 ATTTTCTGAATC-GCGTTGCG
*
704240 ATTTTCTAAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCG
*
704260 ATTTT-T-ATTTCGCGTTGCG
1 ATTTTCTGA-ATCGCGTTGCG
704279 ATTTT
1 ATTTT
704284 GTTGGTCATT
Statistics
Matches: 320, Mismatches: 39, Indels: 57
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.00
17 1 0.00
18 1 0.00
19 37 0.12
20 230 0.72
21 21 0.07
22 28 0.09
25 1 0.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
ATTTTCTGAATCGCGTTGCG
Found at i:704227 original size:19 final size:19
Alignment explanation
Indices: 704194--704243 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
704184 TGGAATATCG
* *
704194 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGA-TTTCTTTTCAA
704214 CGTTGCGATTTCTTTTCAA
1 CGTTGCGATTTCTTTTCAA
704233 CGTTGCGATTT
1 CGTTGCGATTT
704244 TCTAAATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (19 bp):
CGTTGCGATTTCTTTTCAA
Found at i:715837 original size:23 final size:25
Alignment explanation
Indices: 715805--715855 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
715795 TCATCATTAG
* *
715805 AATGATT-AAAATTTGACTCGATTT
1 AATGATTAAAAATTCGACTCGATCT
715829 AATG-TTAAAAATTCGACTCGATCT
1 AATGATTAAAAATTCGACTCGATCT
715853 AAT
1 AAT
715856 TCGACTCGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (25 bp):
AATGATTAAAAATTCGACTCGATCT
Found at i:722506 original size:21 final size:20
Alignment explanation
Indices: 722480--722540 Score: 52
Period size: 23 Copynumber: 2.9 Consensus size: 20
722470 TTAAGAGTGT
722480 AATTTATTAAATAAAATATA
1 AATTTATTAAATAAAATATA
*
722500 GAATTTAATATATATAAAGAT-TA
1 -AATTT-AT-TAAATAAA-ATATA
**
722523 TTTTTATTAAATAAAATA
1 AATTTATTAAATAAAATA
722541 GAAAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
19 2 0.06
20 7 0.22
21 7 0.22
22 5 0.16
23 9 0.28
24 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (20 bp):
AATTTATTAAATAAAATATA
Found at i:723755 original size:31 final size:31
Alignment explanation
Indices: 723715--723786 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
723705 GACGATAAAG
*
723715 TGATCATTTTATTATAAATCAATAATATTAA
1 TGATTATTTTATTATAAATCAATAATATTAA
723746 TGATTATTTTATTATAAATCAATAATATTAA
1 TGATTATTTTATTATAAATCAATAATATTAA
723777 TGATTGATTT
1 TGATT-ATTT
723787 GTTATTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (31 bp):
TGATTATTTTATTATAAATCAATAATATTAA
Found at i:729791 original size:29 final size:29
Alignment explanation
Indices: 729759--729823 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
729749 TTTTTTTGTT
***
729759 AAAATAAAAATATAATTTATTTTTTAATC
1 AAAATAAAAATATAAAGAATTTTTTAATC
* * *
729788 AAAATAGATATTTAAAGAATTTTTTAATC
1 AAAATAAAAATATAAAGAATTTTTTAATC
729817 AAAATAA
1 AAAATAA
729824 GTATTCAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAATAAAAATATAAAGAATTTTTTAATC
Found at i:729828 original size:29 final size:29
Alignment explanation
Indices: 729777--729838 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
729767 AATATAATTT
*
729777 ATTTTTTAATCAAAATAGATATTTAAAGA
1 ATTTTTTAATCAAAATAGATATTCAAAGA
*
729806 ATTTTTTAATCAAAATA-AGTATTCAAAGT
1 ATTTTTTAATCAAAATAGA-TATTCAAAGA
729835 ATTT
1 ATTT
729839 AACTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (29 bp):
ATTTTTTAATCAAAATAGATATTCAAAGA
Found at i:731852 original size:222 final size:222
Alignment explanation
Indices: 731286--733519 Score: 3253
Period size: 222 Copynumber: 10.1 Consensus size: 222
731276 AAGAGGTGTC
* * *
731286 GTCGATGGAGAAATTGGTGAAATATAAATTGGAGGAAGTTGGATTGAAAGAGAAATATTTGGAGA
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
*
731351 GATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAAG
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAAG
* * *
731416 CGATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTATTCGAGATCTTGGAGTTTA
131 CGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGAGTCTTCGAGATCTT-GAGTTTA
* *
731481 GTGTGAAACACCGCGAGGATGAGGTTAA
195 GTGTGAAACAACGTGAGGATGAGGTTAA
*
731509 GTTGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTG-AAGTAGAAAGATTTGGAG
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAG-AGAAAGATTTGGAG
* * * *
731573 AGATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTTGGGTTGAAAGAAAAGAGTTTCAAGAA
65 AAATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAA
* * * *
731638 GCAATTTATGGAGTTTGAGTTGGAAGAAAAAGCTTCGAAAGTA-AGTCTTCGAGATCTTGAGTGT
130 GCGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAG-AGAGTCTTCGAGATCTTGAGTTT
*
731702 AGTGTGAAACAACATGAGGATGAGGTTAA
194 AGTGTGAAACAACGTGAGGATGAGGTTAA
*
731731 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGGTTTGGAGA
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
* * * * * *
731796 GACGCTTGAAAGAGTATGAGTTGAAAGAAGAGCAATTAGGGTCGAAAGATAAGAGTTTCGAGAAG
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAAG
* * * *
731861 AGATTTACAGAATTTGAGTTGGAAGAAAAGGCTTCGAAAGAGTGTCTTCGAGATCTTGAGTTTAG
131 CGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGAGTCTTCGAGATCTTGAGTTTAG
* * *
731926 TATGAAACACCGCGAGGATGAGGTTAA
196 TGTGAAACAACGTGAGGATGAGGTTAA
*
731953 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGATTTGGAGA
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
* * *
732018 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTAAAAGAAAAGAGTTTTGAGAAG
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAAG
* * * * * *
732083 CGATTTATGGAGTTTGAGTTGGAAGAAAAGGATTTGAAAGAAAGTCTTCAAGATCTTGAGTTTAA
131 CGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGAGTCTTCGAGATCTTGAGTTTAG
* *
732148 TGTGAAATAAAGTGAGGATGAGGTTAA
196 TGTGAAACAACGTGAGGATGAGGTTAA
* *
732175 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGATGAAGTTGGATTGAAGGAGAAAGATTTGGAGA
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
* * * *
732240 AATGCTTGCTG-GAGTATGAGTTGAAAGAAAAGCAATTCTGGTTGAAAGAGAAGAGTTTCAAGAA
66 AATGCTTG-AGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAA
* *
732304 GCGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGCGTCTTCGAGATCGTGAGTTTA
130 GCGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGAGTCTTCGAGATCTTGAGTTTA
*
732369 GTGTGAAAAAACGTGAGGATGAGGTTAA
195 GTGTGAAACAACGTGAGGATGAGGTTAA
* *
732397 GTCGATGGATAAATTGATGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
* *
732462 AATGCTTGCTG-GAGTATGGGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAA
66 AATGCTTG-AGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAA
* * * *
732526 GTGATTTATGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGTA-AGTCTTTGAGATTTTGAGTTT
130 GCGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAG-AGAGTCTTCGAGATCTTGAGTTT
* *
732590 AGTGTAAAACAACGTGGGGATGAGGTTAA
194 AGTGTGAAACAACGTGAGGATGAGGTTAA
* * *
732619 GTCAATGGAGAAATTGGTGAAAAATAAGTTGGAGGAAGTTGGATTGAAGGAGAAAGATTTGGAGA
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
732684 AATGCTTGATG-GAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAA
66 AATGCTTGA-GAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAA
* * * * * *
732748 GTGACTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCAAAAGAGCGTTTTTGAGATCTTGAGTTTA
130 GCGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGAGTCTTCGAGATCTTGAGTTTA
*
732813 GTGTGAAACATCGTGAGGATGAGGTTAA
195 GTGTGAAACAACGTGAGGATGAGGTTAA
732841 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAA-AGTTTGGAG
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGA-TTTGGAG
* * * * *
732905 AGATGCTTGAAACAGTATGAGTTGAAAGAAGAGCAATTAGGGTCGAAAGAGAAGAGTTTCGAGAA
65 AAATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAA
* * * * ** *
732970 GAGATTTACAGAATTTGAGTTGGAAGAAAAGGCTTCGAAAAAGCTTCTTTGAGATCTTGAGTTTA
130 GCGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGAGTCTTCGAGATCTTGAGTTTA
* * *
733035 TTGTGAAGCAACGTGGGGATGAGGTTAA
195 GTGTGAAACAACGTGAGGATGAGGTTAA
* * * *
733063 GTCTACGGAGAAATTGGTGAAAGATAAGTTGGAGGATGTTGGATTGAAGGAGAAAGATTTGGAGA
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
* * * * ** *
733128 AATGCTTGCTG-GAGTATGAATGGAAAGAAGAGAAATTTAGGTTGAAAGAGAGGAGTTTCGAGAA
66 AATGCTTG-AGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAA
* * **
733192 GCTATTTACGGAGTTTAAGTTGGAAGAAAAAACTTCGAAAGA-ACGTCTTCGAGATCTTGAGTTT
130 GCGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGA-GTCTTCGAGATCTTGAGTTT
*
733256 AGTGTGAAACAACGTGAGGACGAGGTTAA
194 AGTGTGAAACAACGTGAGGATGAGGTTAA
* *
733285 GTCGATGGAGAAATTGGTAAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGACTTGGAGA
1 GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
* * *
733350 AATGTTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGCTGAAAGAGAATAGTTTCGAGAAG
66 AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAAG
* * * * *
733415 CGATTTATGGAGTTTGAGATGGAAGAAAAGGCTTCGAAAGAGCGTCTTTGAGATCTTGAATTTAG
131 CGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGAGTCTTCGAGATCTTGAGTTTAG
**
733480 TGTGAAACAACGCAAGGATGAGGTTAA
196 TGTGAAACAACGTGAGGATGAGGTTAA
*
733507 GTCAATGGAGAAA
1 GTCGATGGAGAAA
733520 GATTTGGAGA
Statistics
Matches: 1806, Mismatches: 190, Indels: 31
0.89 0.09 0.02
Matches are distributed among these distances:
221 4 0.00
222 1625 0.90
223 176 0.10
224 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.32, T:0.25
Consensus pattern (222 bp):
GTCGATGGAGAAATTGGTGAAAGATAAGTTGGAGGAAGTTGGATTGAAAGAGAAAGATTTGGAGA
AATGCTTGAGAGAGTATGAGTTGAAAGAAGAGCAATTCGGGTTGAAAGAGAAGAGTTTCGAGAAG
CGATTTACGGAGTTTGAGTTGGAAGAAAAGGCTTCGAAAGAGAGTCTTCGAGATCTTGAGTTTAG
TGTGAAACAACGTGAGGATGAGGTTAA
Found at i:739868 original size:20 final size:20
Alignment explanation
Indices: 739838--739897 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
739828 AGCCGTTGGG
739838 GCCTAATGGTATCGATACTAT
1 GCCT-ATGGTATCGATACTAT
739859 GCCTATGGTATCGATACTAT
1 GCCTATGGTATCGATACTAT
739879 GCCTATGGTATCGATACTA
1 GCCTATGGTATCGATACTA
739898 CTATACAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
20 35 0.90
21 4 0.10
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
GCCTATGGTATCGATACTAT
Found at i:743392 original size:18 final size:18
Alignment explanation
Indices: 743365--743400 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
743355 ATTTATTGCA
743365 TATTAGCATAATCATCAT
1 TATTAGCATAATCATCAT
*
743383 TATTATCATAATCATCAT
1 TATTAGCATAATCATCAT
743401 CGTCTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.42
Consensus pattern (18 bp):
TATTAGCATAATCATCAT
Found at i:743666 original size:56 final size:56
Alignment explanation
Indices: 743565--743690 Score: 146
Period size: 56 Copynumber: 2.2 Consensus size: 56
743555 TAGGAGTCTT
* * * ** *
743565 GAAATCGAGTATATCTATAAGTTGTTGTCATTAATAAGTATAAAAATA-GGGCCCCC
1 GAAATCGAGTATATATATAAGTTGTTGCCATTAAGAAACAAAAAAATATGGG-CCCC
* * *
743621 GAAATCGAGTATATATATCAGTTGTTGCCATTAAGAAACAAAAAAATATGGGGCTC
1 GAAATCGAGTATATATATAAGTTGTTGCCATTAAGAAACAAAAAAATATGGGCCCC
*
743677 GAAATCGAATATAT
1 GAAATCGAGTATAT
743691 CTAAAAAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 56 0.95
57 3 0.05
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (56 bp):
GAAATCGAGTATATATATAAGTTGTTGCCATTAAGAAACAAAAAAATATGGGCCCC
Found at i:746689 original size:22 final size:22
Alignment explanation
Indices: 746642--746694 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
746632 CGTATAATTA
*
746642 TAAATTAATTAAAAATTTAAATG
1 TAAATT-ATTAAAAATTTAAAGG
*
746665 TAAATTATTTAAAA-TTAAAGGG
1 TAAATTATTAAAAATTTAAA-GG
746687 TAAATTAT
1 TAAATTAT
746695 ACTAGTGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 5 0.19
22 16 0.59
23 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.40
Consensus pattern (22 bp):
TAAATTATTAAAAATTTAAAGG
Found at i:747454 original size:21 final size:22
Alignment explanation
Indices: 747419--747459 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
747409 GATTAATGGT
747419 ATAATTTACCCTTTAAATTTAA
1 ATAATTTACCCTTTAAATTTAA
747441 ATAATTTA-CCTTTAAATTT
1 ATAATTTACCCTTTAAATTT
747460 TCAACTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATTTACCCTTTAAATTTAA
Found at i:752287 original size:108 final size:108
Alignment explanation
Indices: 752098--752314 Score: 400
Period size: 108 Copynumber: 2.0 Consensus size: 108
752088 AATTTGAAAA
752098 GCCAAAGCCAAGTTCAGAGAAGGTCTCAAGCACTACTAACATAGATATTGTGGAACACAGCCTCA
1 GCCAAAGCCAAGTTCAGAGAAGGTCTCAAGCACTACTAACATAGATATTGTGGAACACAGCCTCA
752163 ATAGTTTGGCTGAGAAGACAAACAAAGAGATGGCCTTGACGGT
66 ATAGTTTGGCTGAGAAGACAAACAAAGAGATGGCCTTGACGGT
*
752206 GCCAAAGCCAAGTTCAGAGAAGGTCTCAAGCACTACTAACAT-GCATATTGTGGAACAGAGCCTC
1 GCCAAAGCCAAGTTCAGAGAAGGTCTCAAGCACTACTAACATAG-ATATTGTGGAACACAGCCTC
*
752270 AATGGTTTGGCTGAGAAGACAAACAAAGAGATGGCCTTGACGGT
65 AATAGTTTGGCTGAGAAGACAAACAAAGAGATGGCCTTGACGGT
752314 G
1 G
752315 AATAGTTTGG
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 1 0.01
108 105 0.99
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (108 bp):
GCCAAAGCCAAGTTCAGAGAAGGTCTCAAGCACTACTAACATAGATATTGTGGAACACAGCCTCA
ATAGTTTGGCTGAGAAGACAAACAAAGAGATGGCCTTGACGGT
Found at i:752492 original size:45 final size:45
Alignment explanation
Indices: 752279--753270 Score: 617
Period size: 45 Copynumber: 22.5 Consensus size: 45
752269 CAATGGTTTG
** * * * * * **
752279 GCTGAGAAGACAAACAAAGAGATGGCCTTGACGGTGAATAGTTTG
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * * * *
752324 GCTGAGAAGA-CAGACAAAGAGATGGCCTTGACGGTGAATAG-TCCA
1 GCTGAGAAGATGA-AGAAAGAGACGGCCTTGACAGTAAATAGCT-CA
* * * * * * *
752369 TCTGAGAAGATGAAGAATGATATGTCCGTGACAGTAACTAGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * ** *
752414 ACTGAGGAGATG-AG--AGAGAC-AACTTCA-AG-AAATAGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * * * ** *
752453 GCTGAGAAGATGAACAAAGAGATGGCCTTGAAAATAAATAATTCG
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * * ** *
752498 GCTGAAAATATGAAAAAAGAGACGGCCACGCCAGTAAATAGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
752543 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* *
752588 GTTGAGAAGGTGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * * * * * ***
752633 GTTGAGAAGGTGAAGAAAGTGGCAGCCTTGACAATAAATAAAGCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * * *
752678 CCTGAGAAGATGAAGAAAGAGATGGCCATGACAGTAAACAGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * * * * *
752723 ACAGAGAAGATG-AGACAAGAGACAG--AT-ACAATAAATAACTCA
1 GCTGAGAAGATGAAGA-AAGAGACGGCCTTGACAGTAAATAGCTCA
* * * *
752765 GCTGAGAAGAT---GAAAGAGATGTCATTGACAGTAAATAGCTTA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * ** * * * *
752807 GCAGAGAAGGTGAAGAAAGAGATTGCCGTGAAAGTGAATGGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* *
752852 GCTGAGAAGATGAAG---GAGACGGCATTGACAGTAAATAACTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * ** * * * *
752894 GCAGAGAAGGTGAAGAAAGAGATTGCCGTGAAAGTGAATGGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
*
752939 GCTGAGAAGAT---GAAAGAGACGGCATTGACAGTAAATAGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * ** * * *
752981 GCAGAGAAGGTGAAGAAAGAGATTG-CTGTGAAAGTGAATGGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCT-TGACAGTAAATAGCTCA
* ** * * *
753026 GCTGAGAAGGTGAAGAAAGAGATTG-CTGTGAAAGTGAATGGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCT-TGACAGTAAATAGCTCA
* * * * *
753071 GCTGAGAAGGTGAAGAAAGAGA-GAG-TTGTGAAAGTGAATGGCTCA
1 GCTGAGAAGATGAAGAAAGAGACG-GCCT-TGACAGTAAATAGCTCA
* * * *
753116 GCTGAGAAGAT---GAAAGAGACGACATCGACTGTAAATAGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
* * ** * * *
753158 GCAGAGAAGGTGAAGAAAGAGATTG-CTGTGAAAGTGAATGGCTCA
1 GCTGAGAAGATGAAGAAAGAGACGGCCT-TGACAGTAAATAGCTCA
* * *
753203 GCTGAGAAGGTGAAGAAAGAGA-GAG-CTGTGGA-AGTGAATGGCTCA
1 GCTGAGAAGATGAAGAAAGAGACG-GCCT-T-GACAGTAAATAGCTCA
*
753248 GCTGAGAAGATGAAAAAAGAGAC
1 GCTGAGAAGATGAAGAAAGAGAC
753271 AACTGTGACA
Statistics
Matches: 750, Mismatches: 163, Indels: 67
0.77 0.17 0.07
Matches are distributed among these distances:
39 25 0.03
40 5 0.01
41 4 0.01
42 144 0.19
43 8 0.01
44 10 0.01
45 550 0.73
46 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (45 bp):
GCTGAGAAGATGAAGAAAGAGACGGCCTTGACAGTAAATAGCTCA
Found at i:752879 original size:87 final size:87
Alignment explanation
Indices: 752529--753216 Score: 687
Period size: 87 Copynumber: 7.8 Consensus size: 87
752519 ACGGCCACGC
* * ** * * * *
752529 CAGTAAATAGCTCAGCTGAGAAGATGAAGAAAGAGACGGCCT-TGACAGTAAATAGCTCAGTTGA
1 CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTG-CTGTGAAAGTGAATGGCTCAGCTGA
* *
752593 GAAGGTGAAGAAAGAGACGGCCTTGA
65 GAA---GATGAAAGAGACGGCATTGA
** * *** * **** *
752619 CAGTAAATAGCTCAGTTGAGAAGGTGAAGAAAGTGGCAGCCT-TGACAA-TAAATAAAGCACCTG
1 CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTG-CTGTGA-AAGTGAATGGCTCAGCTG
*
752682 AGAAGATGAAGAAAGAGATGGCCA-TGA
64 AGAAGAT---GAAAGAGACGG-CATTGA
* * * * * **
752709 CAGTAAACAGCTCAACAGAGAAGATG-AGACAAGAGA---CAGAT-ACAA-TAAATAACTCAGCT
1 CAGTAAATAGCTCAGCAGAGAAGGTGAAGA-AAGAGATTGCTG-TGA-AAGTGAATGGCTCAGCT
* *
752768 GAGAAGATGAAAGAGATGTCATTGA
63 GAGAAGATGAAAGAGACGGCATTGA
* *
752793 CAGTAAATAGCTTAGCAGAGAAGGTGAAGAAAGAGATTGCCGTGAAAGTGAATGGCTCAGCTGAG
1 CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAG
*
752858 AAGATGAAGGAGACGGCATTGA
66 AAGATGAAAGAGACGGCATTGA
* *
752880 CAGTAAATAACTCAGCAGAGAAGGTGAAGAAAGAGATTGCCGTGAAAGTGAATGGCTCAGCTGAG
1 CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAG
752945 AAGATGAAAGAGACGGCATTGA
66 AAGATGAAAGAGACGGCATTGA
752967 CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAG
1 CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAG
* **
753032 AAGGTGAAGAAAGAGATTGC-TGTGA
66 AA---GATGAAAGAGACGGCAT-TGA
* * * * ** *
753057 AAGTGAATGGCTCAGCTGAGAAGGTGAAGAAAGAGAGAGTTGTGAAAGTGAATGGCTCAGCTGAG
1 CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAG
* *
753122 AAGATGAAAGAGACGACATCGA
66 AAGATGAAAGAGACGGCATTGA
*
753144 CTGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAG
1 CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAG
*
753209 AAGGTGAA
66 AAGATGAA
753217 GAAAGAGAGA
Statistics
Matches: 512, Mismatches: 66, Indels: 43
0.82 0.11 0.07
Matches are distributed among these distances:
83 2 0.00
84 41 0.08
85 3 0.01
86 4 0.01
87 287 0.56
88 2 0.00
89 4 0.01
90 167 0.33
91 2 0.00
ACGTcount: A:0.40, C:0.12, G:0.31, T:0.17
Consensus pattern (87 bp):
CAGTAAATAGCTCAGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAG
AAGATGAAAGAGACGGCATTGA
Found at i:753033 original size:132 final size:129
Alignment explanation
Indices: 752834--753262 Score: 454
Period size: 132 Copynumber: 3.3 Consensus size: 129
752824 AGAGATTGCC
* * * * * * * * *
752834 GTGAAAGTGAATGGCTCAGCTGAGAAGATGAAGGAGACGGCATTGACAGTAAATAACTCAGCAGA
1 GTGAAAGTAAATAGCTCAGCAGAGAAGATGAAAGAGAAGACATCGACTGTAAATAGCTCAGCAGA
*
752899 GAAGGTGAAGAAAGAGATTGCCGTGAAAGTGAATGGCTCAGCTGAGAAGATGAAAGAGACG-GCA
66 GAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAGAAGATGAAAGAGA-GAG-A
752963 T
129 T
* * * *
752964 -TGACAGTAAATAGCTCAGCAGAGAAGGTG-AAGA-AAGAGATTG-CTGTGAAAGTGAATGGCTC
1 GTGAAAGTAAATAGCTCAGCAGAGAAGATGAAAGAGAAGACATCGACTGT-AAA-T--A--GCTC
* *
753025 AGCTGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAGAAGGTGAAGAAAG
60 AGCAGAGAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAGAA---GATGAAAG
*
753090 AGAGAGTT
122 AGAGAGAT
* * * *
753098 GTGAAAGTGAATGGCTCAGCTGAGAAGATGAAAGAGACGACATCGACTGTAAATAGCTCAGCAGA
1 GTGAAAGTAAATAGCTCAGCAGAGAAGATGAAAGAGAAGACATCGACTGTAAATAGCTCAGCAGA
*
753163 GAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAGAAGGTGAAGAAAGAGAGAG
66 GAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAGAA---GATGAAAGAGAGAG
*
753228 CT
128 AT
* * * *
753230 GTGGAAGTGAATGGCTCAGCTGAGAAGATGAAA
1 GTGAAAGTAAATAGCTCAGCAGAGAAGATGAAA
753263 AAAGAGACAA
Statistics
Matches: 259, Mismatches: 26, Indels: 26
0.83 0.08 0.08
Matches are distributed among these distances:
126 3 0.01
127 9 0.03
128 4 0.02
129 24 0.09
130 1 0.00
132 162 0.63
134 3 0.01
135 35 0.14
136 5 0.02
137 9 0.03
138 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.34, T:0.17
Consensus pattern (129 bp):
GTGAAAGTAAATAGCTCAGCAGAGAAGATGAAAGAGAAGACATCGACTGTAAATAGCTCAGCAGA
GAAGGTGAAGAAAGAGATTGCTGTGAAAGTGAATGGCTCAGCTGAGAAGATGAAAGAGAGAGAT
Found at i:753038 original size:21 final size:21
Alignment explanation
Indices: 753005--753084 Score: 54
Period size: 21 Copynumber: 3.7 Consensus size: 21
752995 GAAAGAGATT
*
753005 GCTGTGAAAGTGAATGGCTCA
1 GCTGAGAAAGTGAATGGCTCA
* * * *
753026 GCTGAGAAGGTGAAGAAAGAGAT-T
1 GCTGAGAAAGT---GAATG-GCTCA
*
753050 GCTGTGAAAGTGAATGGCTCA
1 GCTGAGAAAGTGAATGGCTCA
*
753071 GCTGAGAAGGTGAA
1 GCTGAGAAAGTGAA
753085 GAAAGAGAGA
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
20 2 0.05
21 25 0.60
24 13 0.31
25 2 0.05
ACGTcount: A:0.34, C:0.10, G:0.36, T:0.20
Consensus pattern (21 bp):
GCTGAGAAAGTGAATGGCTCA
Done.