genome.fa.s23.2.7.7.80.10.50.1000.19.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  19  of  167  ( 19959 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)
5632031--5632193	19	8.5	21	82	11	81	40	15	7	36	1.76
5632031--5632088	22	2.6	22	81	7	64	41	18	5	34	1.73
5632067--5632193	19	6.9	19	90	7	192	38	14	9	37	1.79
5632044--5632205	54	2.9	55	85	10	206	39	14	9	37	1.78
5632060--5632193	36	3.7	38	85	10	192	38	15	8	37	1.79
5632806--5633055	129	1.9	128	86	2	349	36	18	17	27	1.93
5633688--5633782	25	3.7	26	75	8	86	60	2	8	29	1.38
5633688--5633739	27	1.9	27	92	7	88	63	0	5	30	1.18
5635969--5636260	45	6.5	45	72	8	184	27	23	18	30	1.98
5635887--5636219	89	3.8	88	79	4	325	27	22	18	31	1.97
5635925--5636074	45	3.4	43	75	13	153	28	27	15	28	1.96
5635925--5636083	44	3.6	44	76	9	155	28	25	17	27	1.98
5636197--5636880	132	5.2	132	90	1	1039	27	24	20	27	1.99
5636274--5636881	45	13.8	45	65	6	163	27	24	20	27	1.99
5639506--5639587	43	1.9	43	84	0	110	39	4	20	35	1.74
5643231--5643555	130	2.6	128	79	4	372	34	18	17	29	1.94
5644179--5644273	25	3.7	26	75	8	86	60	3	7	29	1.40
5644179--5644230	27	1.9	27	92	7	88	63	0	5	30	1.18
5644372--5644479	53	2.0	53	98	0	207	48	11	14	25	1.77
5644566--5644622	25	2.3	25	82	11	64	61	1	8	28	1.36
5644958--5645037	26	3.1	26	63	20	67	47	13	30	8	1.73
5644948--5645049	52	2.0	52	98	0	195	49	10	30	9	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5668590--5668692	40	2.6	40	92	1	172	29	5	25	39	1.79
5673211--5673557	38	9.1	38	89	0	514	20	20	25	33	1.97
5673211--5673538	76	4.3	76	97	0	602	20	20	25	33	1.97
5675891--5675924	16	2.1	17	88	5	52	41	5	23	29	1.78
5677569--5677621	18	2.9	18	88	0	79	26	15	24	33	1.95
5682960--5682993	16	2.1	17	88	5	52	41	5	23	29	1.78
5689802--5689830	13	2.2	13	100	0	58	31	0	13	55	1.39
5695238--5695286	6	7.6	7	93	6	54	14	2	0	83	0.73
5695245--5695285	6	6.8	6	100	0	82	14	0	0	85	0.60
5707480--5707519	21	2.0	20	90	5	62	42	22	0	35	1.54
5715880--5715968	45	2.0	45	86	4	126	22	13	24	39	1.90
5720358--5720458	43	2.3	43	86	6	134	23	16	25	33	1.96
5721593--5721619	11	2.5	11	100	0	54	29	37	25	7	1.83
5731471--5731521	24	2.1	24	88	0	75	9	37	27	25	1.87
5736878--5736904	13	2.1	13	100	0	54	29	22	0	48	1.51
5749941--5749966	13	2.0	13	100	0	52	53	15	0	30	1.42
5754455--5754521	30	2.2	30	84	10	84	58	11	4	25	1.52
5761519--5761574	20	2.9	21	84	10	66	71	3	0	25	1.02
5761955--5761986	3	10.7	3	100	0	64	34	0	0	65	0.93
5767464--5767558	47	2.0	47	100	0	190	27	21	8	43	1.81
5770468--5770504	14	2.8	13	92	8	58	0	0	8	91	0.41
5771881--5771913	5	6.6	5	100	0	66	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5772423--5772560	69	2.0	69	100	0	276	46	20	15	17	1.84
5778156--5778190	12	2.8	12	91	4	52	77	2	20	0	0.90
5779698--5779799	48	2.1	48	81	3	116	59	11	1	26	1.43
5788876--5788900	9	2.8	9	100	0	50	36	0	20	44	1.52
5792354--5792397	22	1.9	24	86	9	65	15	13	4	65	1.41
5792374--5792442	28	2.5	28	78	4	77	21	13	7	57	1.59
5795907--5795948	20	2.1	20	95	0	75	33	23	30	11	1.91
5796892--5797060	43	4.0	43	75	6	164	31	26	14	27	1.95
5796890--5797046	86	1.8	85	84	4	217	31	25	15	27	1.95
5800510--5800566	28	2.0	28	100	0	114	57	3	10	28	1.48
5814276--5814301	9	2.9	9	100	0	52	34	0	0	65	0.93
5815766--5815805	20	2.0	20	95	0	71	52	5	7	35	1.51
5817499--5817539	22	1.9	21	85	5	55	41	0	7	51	1.30
5821807--5821847	14	2.7	15	85	11	57	48	0	0	51	1.00
5822498--5822776	154	1.8	154	84	4	384	47	11	11	29	1.75
5823242--5823270	12	2.3	13	94	5	51	41	6	0	51	1.28
5824830--5824875	18	2.6	18	96	3	85	54	10	8	26	1.64
5829275--5829328	23	2.2	25	84	12	69	18	9	22	50	1.75
5829360--5829419	30	2.0	30	96	0	111	36	5	30	28	1.78
5830017--5830117	49	2.1	49	92	0	166	43	4	24	26	1.74
5831654--5831708	28	2.0	28	85	0	74	32	29	14	23	1.94
5838645--5838685	19	2.2	18	86	4	55	43	0	7	48	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5845824--5845943	38	3.1	38	81	3	134	20	19	25	35	1.96
5846971--5847030	16	3.6	16	78	8	75	23	8	0	68	1.16
5846963--5847031	34	2.0	34	100	0	138	27	11	0	60	1.31
5846963--5847013	17	3.0	17	66	11	50	29	13	0	56	1.38
5851460--5851511	6	8.8	6	82	4	52	73	5	7	13	1.24
5851466--5851511	18	2.6	18	85	0	65	73	4	6	15	1.19
5851469--5851509	12	3.4	12	93	0	64	73	4	4	17	1.19
5853168--5853202	16	2.2	16	90	10	54	62	8	2	25	1.38
5865530--5865607	30	2.7	29	82	4	102	34	16	16	32	1.92
5867638--5867712	29	2.6	29	73	2	78	52	4	9	34	1.53
5876863--5876922	30	2.0	30	100	0	120	30	20	10	40	1.85
5886695--5886759	21	3.2	21	70	12	73	12	26	23	38	1.90
5886677--5886761	39	2.2	39	95	0	152	12	27	24	35	1.92
5886677--5886775	39	2.5	39	91	0	135	13	26	25	35	1.92
5891923--5891969	24	2.0	24	88	8	71	42	6	4	46	1.48
5894089--5894124	18	1.9	19	88	5	56	33	0	5	61	1.19
5894435--5894471	7	5.3	7	86	0	56	56	2	2	37	1.28
5894435--5894478	14	3.1	14	93	0	61	54	4	4	36	1.41
5894439--5894478	21	1.9	21	89	0	62	52	5	5	37	1.45
5894801--5894845	20	2.3	19	81	11	54	62	0	2	35	1.08
5904349--5904417	24	2.9	24	86	0	84	13	43	2	40	1.58
5904351--5904428	24	3.3	23	78	3	75	11	42	2	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5907812--5908121	155	2.0	154	93	0	530	35	20	11	32	1.89
5910723--5910750	14	2.0	14	100	0	56	42	0	21	35	1.53
5919573--5919627	27	2.0	27	96	0	101	30	12	14	41	1.83
5934985--5935047	30	2.1	31	85	8	85	57	3	1	38	1.24
5935652--5935684	16	2.0	17	88	5	50	36	6	0	57	1.23
5949582--5949629	25	1.9	25	86	0	69	50	0	0	50	1.00
5949607--5949654	17	2.8	16	79	20	53	54	4	2	39	1.32
5949581--5949638	25	2.4	24	80	11	64	50	0	1	48	1.11
5950319--5950346	12	2.3	12	100	0	56	39	0	0	60	0.97
5955124--5955392	25	10.8	25	71	11	101	18	24	18	37	1.93
5955124--5955354	49	4.7	49	77	10	168	17	24	19	38	1.93
5955147--5955354	25	8.3	26	70	14	118	16	24	20	38	1.92
5957212--5957245	16	2.1	16	94	0	59	11	8	11	67	1.42
5960697--5960917	73	3.0	73	98	0	424	32	12	18	37	1.88
5965128--5965283	33	4.7	33	72	9	129	30	17	27	24	1.98
5965295--5965415	45	2.7	45	84	2	145	35	16	22	25	1.95
5965428--5966422	46	21.6	46	98	0	1882	42	14	25	17	1.88
5966394--5966449	29	1.9	29	85	0	76	50	3	25	21	1.65
5967683--5967771	43	2.1	43	95	0	160	41	12	12	33	1.80
5972053--5972082	15	2.0	15	93	0	51	33	36	13	16	1.88
5982776--5982828	20	2.5	20	81	9	52	69	3	13	13	1.31
5983742--5983767	8	3.2	8	100	0	52	88	0	11	0	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5984446--5984650	68	3.0	68	87	1	286	26	20	25	27	1.99
5984658--5984988	87	3.8	87	87	1	450	19	24	21	34	1.97
5984667--5985256	44	13.7	43	65	12	260	20	23	20	34	1.96
5984837--5985120	131	2.2	131	89	1	435	19	24	20	35	1.96
5984968--5985256	87	3.4	87	86	2	395	20	23	20	35	1.96
5989807--5989852	9	4.8	10	77	17	53	50	13	17	19	1.78
5989807--5989852	19	2.4	19	85	7	58	50	13	17	19	1.78
5992750--5992787	16	2.4	16	82	13	51	78	2	13	5	1.02
5993639--5993705	30	2.2	31	81	5	75	50	8	1	38	1.43
5997713--5997760	22	2.2	22	100	0	96	37	16	22	22	1.94

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