genome.fa.s16.2.7.7.80.10.50.1000.11.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   

This is table  11  of  175  ( 20966 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3215642--3215696	19	2.9	19	81	10	60	16	3	3	76	1.07
3215643--3215695	27	2.0	27	84	0	70	16	1	3	77	1.01
3217283--3217360	5	15.0	5	72	17	52	16	1	6	75	1.07
3225771--3225872	30	3.4	31	79	5	111	29	21	3	45	1.70
3226140--3226182	19	2.3	19	88	11	63	69	0	30	0	0.88
3226242--3226313	3	24.0	3	78	16	62	69	0	30	0	0.89
3226245--3226273	10	2.9	10	100	0	58	62	0	37	0	0.96
3226242--3226287	13	3.7	13	81	18	62	63	0	36	0	0.95
3226440--3226485	23	2.0	23	100	0	92	69	4	26	0	1.07
3226606--3226664	17	3.6	16	82	13	75	79	1	18	0	0.81
3226616--3226660	23	2.0	23	86	8	65	82	2	15	0	0.77
3226603--3226651	16	3.2	16	88	5	75	83	0	16	0	0.64
3227018--3227060	16	2.6	16	88	3	59	32	13	11	41	1.81
3226985--3227072	33	2.6	33	82	7	88	28	17	9	45	1.78
3227018--3227506	17	28.3	17	69	13	205	32	11	11	44	1.76
3227018--3227226	38	5.7	38	74	10	154	35	12	9	41	1.76
3227053--3227226	74	2.4	72	81	7	181	37	12	8	41	1.74
3227020--3227366	35	9.7	35	71	16	171	34	12	10	42	1.77
3227504--3227542	20	2.0	20	89	0	60	46	7	0	46	1.31
3227533--3227570	16	2.3	17	81	4	51	36	15	10	36	1.82
3235258--3235301	20	2.2	20	88	8	63	47	15	4	31	1.66
3235259--3235301	21	2.0	22	91	8	72	48	13	4	32	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235428--3235599	67	2.5	67	85	3	220	29	13	23	33	1.93
3235747--3235844	52	1.9	51	89	6	153	29	12	18	39	1.87
3236069--3236314	121	2.1	116	87	7	352	26	13	22	37	1.91
3236277--3236539	90	3.0	85	78	14	268	26	18	17	38	1.92
3236627--3236834	52	4.0	54	83	13	249	29	16	17	36	1.92
3237109--3237164	28	1.9	29	82	7	69	32	23	5	39	1.77
3237578--3237623	3	15.0	3	82	13	58	63	0	36	0	0.95
3237581--3237609	10	2.9	10	100	0	58	62	0	37	0	0.96
3237578--3237623	13	3.7	13	81	18	62	63	0	36	0	0.95
3237578--3237637	24	2.5	24	86	2	77	68	0	31	0	0.90
3237719--3237749	11	2.8	11	90	0	53	90	6	0	3	0.55
3237895--3237956	6	10.8	6	70	16	51	79	0	20	0	0.74
3237894--3237959	7	9.1	7	75	18	55	78	0	21	0	0.75
3237891--3237956	21	3.0	21	82	8	80	78	0	21	0	0.75
3237906--3237942	10	3.6	10	85	7	56	72	0	27	0	0.84
3238464--3238530	19	3.7	18	74	18	68	31	13	11	43	1.80
3238454--3238704	17	14.3	18	70	13	166	31	13	9	46	1.75
3252555--3252710	67	2.3	68	81	3	181	30	22	30	16	1.95
3255354--3255393	18	2.2	20	78	17	50	60	0	0	40	0.97
3255359--3255393	18	2.0	18	88	5	54	60	0	0	40	0.97
3255380--3255430	12	4.2	12	77	7	50	41	1	0	56	1.10
3261080--3261146	32	2.1	32	86	2	91	47	10	4	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3263117--3263150	16	2.1	16	89	10	52	55	0	2	41	1.15
3263696--3263740	23	1.9	24	86	13	67	64	0	2	33	1.06
3270320--3270357	18	2.2	17	86	9	51	60	2	5	31	1.33
3284620--3284672	8	6.6	8	78	8	63	84	0	15	0	0.61
3284618--3284674	15	3.7	15	81	9	78	82	0	17	0	0.67
3284625--3284675	17	3.1	17	76	21	63	80	0	19	0	0.71
3284621--3284671	23	2.2	23	86	6	68	84	0	15	0	0.63
3284618--3284662	7	6.1	7	85	10	63	82	0	17	0	0.68
3284814--3284851	16	2.3	17	86	4	51	23	0	2	73	0.95
3285015--3285068	16	3.2	16	75	14	56	35	14	9	40	1.78
3284992--3285512	17	30.2	17	68	19	129	32	11	11	44	1.77
3285025--3285186	72	2.2	72	80	6	186	32	13	10	43	1.78
3285214--3285519	34	9.2	32	71	14	158	32	9	12	44	1.75
3285157--3285520	51	7.1	49	69	18	151	34	10	12	42	1.77
3285510--3285547	20	1.9	19	89	5	58	47	7	0	44	1.32
3285539--3285575	17	2.3	17	81	9	51	37	16	10	35	1.83
3287275--3287308	17	2.0	17	100	0	68	52	17	5	23	1.66
3290780--3290822	17	2.6	16	78	7	50	48	9	2	39	1.48
3293224--3293248	13	1.9	13	100	0	50	72	28	0	0	0.86
3294770--3294795	2	13.0	2	100	0	52	50	0	0	50	1.00
3294850--3294887	12	3.2	12	82	10	51	55	0	10	34	1.34
3294841--3294887	24	2.0	24	87	8	69	57	0	10	31	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3296391--3296974	89	6.6	89	82	3	631	28	25	15	30	1.96
3296393--3296941	133	4.1	134	89	1	764	28	25	16	30	1.96
3298130--3298177	14	3.4	14	80	13	55	16	18	2	62	1.42
3301021--3301067	19	2.5	20	86	6	62	44	8	19	27	1.79
3302848--3302907	24	2.4	25	80	2	68	70	1	8	20	1.22
3303070--3303107	12	3.2	12	82	10	51	55	0	10	34	1.34
3303061--3303107	24	2.0	24	87	8	69	57	0	10	31	1.33
3310748--3311064	44	7.2	45	67	12	147	31	20	21	25	1.98
3310738--3311155	132	3.2	132	90	0	658	32	21	22	24	1.98
3312561--3312606	19	2.3	21	92	7	78	19	4	2	73	1.10
3312845--3312886	4	10.5	4	80	19	52	21	4	0	73	1.01
3315026--3315056	10	2.9	11	95	4	55	77	12	0	9	0.99
3315844--3315896	23	2.3	23	83	3	70	32	5	3	58	1.39
3320425--3320485	31	2.0	31	90	0	95	57	22	1	18	1.49
3322095--3322141	19	2.6	18	77	9	60	34	0	0	65	0.93
3322113--3322179	22	3.0	22	70	12	57	31	2	1	64	1.18
3322728--3322791	29	2.2	30	83	8	78	31	7	21	39	1.82
3322736--3322804	29	2.3	30	80	2	77	33	5	17	43	1.73
3329553--3329859	94	3.3	94	68	13	258	28	21	19	29	1.98
3329383--3330277	44	19.7	44	67	15	240	28	22	18	30	1.98
3329559--3329906	183	1.9	183	87	2	511	28	21	20	29	1.98
3329827--3330005	99	1.8	98	82	3	234	27	22	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3329875--3330228	181	1.9	182	84	6	466	29	22	16	31	1.96
3331164--3331205	22	1.9	22	90	9	68	0	9	4	85	0.72
3339966--3340008	20	2.1	21	91	4	70	53	2	0	44	1.13
3339966--3340008	10	4.3	10	82	11	61	53	2	0	44	1.13
3343648--3343688	20	2.0	20	85	4	55	29	0	2	68	1.03
3344453--3344494	19	2.2	20	86	4	59	47	2	7	42	1.43
3344733--3344813	29	2.7	30	81	9	85	48	11	7	33	1.67
3348712--3348761	20	2.6	19	81	12	59	38	14	10	38	1.79
3349781--3349908	64	2.0	64	89	3	195	46	7	4	40	1.53
3351593--3351620	13	2.2	13	100	0	56	28	25	14	32	1.94
3352454--3352519	32	2.1	32	97	0	123	21	10	18	50	1.77
3359088--3359128	6	6.8	6	100	0	82	31	0	51	17	1.46
3362360--3362412	21	2.5	21	87	0	79	32	35	9	22	1.86
3366592--3366770	23	8.0	23	84	3	213	41	21	18	17	1.90
3369267--3369308	19	2.2	19	86	0	57	52	21	14	11	1.73
3369662--3369760	31	3.2	30	77	8	110	40	2	6	51	1.38
3373891--3373924	9	3.8	9	96	0	59	20	29	23	26	1.99
3374839--3374893	19	2.9	19	86	10	69	54	7	0	38	1.28
3377649--3377695	4	11.5	4	80	13	51	25	2	0	72	0.96
3377646--3377692	15	3.1	16	74	25	57	25	4	0	70	1.05
3377658--3377701	20	2.2	20	84	8	54	22	6	0	70	1.11
3381525--3381574	19	2.6	20	84	12	61	32	22	4	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3389031--3389142	43	2.6	43	80	9	129	33	25	16	24	1.96
3389284--3389414	31	4.3	31	83	4	167	46	15	8	29	1.75
3389294--3389424	60	2.1	62	83	5	169	45	14	7	32	1.73
3391753--3392096	44	7.5	44	74	10	165	32	16	22	29	1.95
3391912--3392041	51	2.5	51	84	0	179	33	18	18	29	1.95
3391912--3392060	51	2.9	51	83	0	172	33	16	20	29	1.95
3393634--3393741	44	2.4	44	87	3	144	29	23	13	33	1.93
3394149--3394182	9	3.9	9	84	7	52	2	17	0	79	0.86
3394149--3394182	17	2.0	17	94	0	59	2	17	0	79	0.86
3394191--3394262	5	14.4	5	75	20	62	55	4	1	38	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175