genome.fa.s10.2.7.7.80.10.50.1000.17.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  17  of  172  ( 20562 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)
5456613--5456667	19	2.8	20	80	5	67	65	0	5	29	1.15
5457010--5457047	18	2.1	19	90	5	60	26	0	0	73	0.83
5457483--5457535	27	2.0	27	100	0	106	26	26	5	41	1.78
5467260--5467284	2	12.5	2	100	0	50	52	0	48	0	1.00
5473579--5473632	25	2.2	25	86	0	72	20	27	29	22	1.98
5473859--5473928	24	3.0	23	68	19	54	40	0	7	52	1.29
5476782--5476819	17	2.2	17	90	0	58	52	0	5	42	1.24
5477861--5478211	130	2.7	130	80	1	364	36	19	15	28	1.93
5478386--5479076	344	2.0	344	100	0	1382	46	13	12	27	1.78
5480643--5480688	21	2.2	20	84	3	56	6	8	23	60	1.49
5481273--5481329	28	2.0	30	86	6	82	50	0	0	49	1.00
5481282--5481337	18	3.1	18	73	14	53	55	0	0	44	0.99
5483580--5483626	20	2.3	20	75	7	51	48	0	0	51	1.00
5483788--5483812	13	1.9	13	100	0	50	64	0	0	36	0.94
5484216--5484259	18	2.5	18	85	3	54	47	2	4	45	1.35
5499710--5500061	175	2.0	179	85	3	489	35	13	17	33	1.89
5500370--5500413	17	2.6	16	82	10	52	56	4	36	2	1.32
5503518--5503547	3	10.0	3	100	0	60	33	0	0	66	0.92
5504278--5504373	46	2.1	46	90	0	147	28	10	20	40	1.85
5505214--5505322	31	3.6	30	71	12	89	49	7	12	30	1.68
5508012--5508053	12	3.5	12	93	0	66	11	19	38	30	1.88
5509977--5510022	9	4.9	9	84	7	56	41	2	2	54	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5509977--5510022	19	2.4	19	82	7	58	41	2	2	54	1.25
5530889--5530934	22	2.1	22	84	8	58	36	13	0	50	1.41
5536741--5536765	13	1.9	13	100	0	50	32	16	16	36	1.90
5537224--5537284	13	4.7	13	85	0	86	37	29	8	24	1.84
5537221--5537284	26	2.5	26	89	0	110	35	28	7	28	1.85
5537301--5537366	33	2.0	33	100	0	132	42	15	24	18	1.88
5549208--5549361	77	2.0	77	98	0	299	35	24	17	22	1.95
5552120--5552159	22	1.9	20	90	10	62	50	0	0	50	1.00
5556749--5556996	124	2.0	124	95	0	451	41	12	10	35	1.77
5557386--5557453	2	34.0	2	84	0	82	0	41	0	58	0.98
5563411--5563462	24	2.2	24	89	0	77	38	3	3	53	1.37
5567330--5567372	16	2.9	15	83	16	54	13	6	0	79	0.93
5574767--5574837	35	2.0	35	97	0	133	25	33	26	14	1.94
5575563--5575662	10	9.4	10	69	20	60	6	10	5	79	1.06
5590575--5590674	9	10.9	9	72	15	71	59	1	2	38	1.16
5590582--5590631	17	3.0	17	85	2	66	60	0	0	40	0.97
5590602--5590633	16	2.0	16	93	0	55	71	0	0	28	0.86
5593981--5594245	144	1.8	144	82	0	341	30	18	23	26	1.98
5594613--5595285	210	3.2	209	89	1	997	34	17	17	30	1.93
5595153--5595421	138	1.9	138	87	1	387	33	18	16	31	1.94
5594935--5595633	348	2.0	348	87	2	1021	33	19	16	30	1.94
5595283--5595674	210	1.9	210	87	2	581	34	19	16	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5595299--5595777	210	2.3	210	81	5	554	33	19	16	30	1.94
5597407--5597455	24	2.0	24	100	0	98	22	20	16	40	1.91
5599403--5599447	19	2.3	20	80	3	56	13	2	8	75	1.13
5599466--5599505	13	3.1	13	81	0	53	60	0	2	37	1.11
5600254--5600594	169	2.0	166	84	2	432	19	24	13	41	1.88
5602304--5602343	20	2.0	20	85	14	55	57	5	5	32	1.42
5618386--5618424	13	2.8	13	81	11	51	48	0	0	51	1.00
5618944--5619120	77	2.3	77	86	5	234	23	18	25	33	1.97
5621267--5621324	30	1.9	30	89	0	89	41	3	24	31	1.71
5621536--5621567	13	2.5	13	94	0	55	31	0	12	56	1.37
5621662--5621903	50	4.7	50	86	4	297	26	24	29	19	1.99
5621662--5621911	100	2.4	103	88	6	364	26	24	29	20	1.99
5631396--5631448	26	2.0	26	85	7	72	24	13	22	39	1.90
5634901--5634929	15	2.0	15	93	6	51	58	6	13	20	1.58
5635751--5635874	34	3.6	34	80	4	133	41	14	9	33	1.79
5639626--5639660	16	2.1	17	89	5	54	37	0	5	57	1.23
5643499--5643870	47	7.9	47	71	11	226	22	29	19	28	1.98
5643503--5643866	94	3.9	94	76	7	319	22	29	19	28	1.98
5643503--5643814	141	2.2	141	79	8	339	23	28	19	28	1.98
5649747--5649863	62	1.9	62	86	5	168	41	1	4	52	1.31
5649972--5650021	25	2.0	26	88	4	75	38	8	12	42	1.71
5650671--5650700	15	2.0	15	93	0	51	13	10	6	70	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5652358--5652475	62	1.9	59	86	5	164	42	3	4	50	1.38
5653995--5654036	10	4.3	10	81	6	50	35	7	2	54	1.41
5653995--5654036	19	2.2	20	86	4	59	35	7	2	54	1.41
5654024--5654079	30	1.9	28	85	7	76	39	3	3	53	1.36
5654067--5654144	30	2.6	29	78	8	75	38	1	1	58	1.14
5653995--5654201	108	1.9	106	84	3	272	34	3	2	59	1.29
5654891--5654944	24	2.2	24	80	0	63	48	3	18	29	1.65
5660296--5660340	22	2.0	22	91	0	72	48	15	2	33	1.57
5664178--5664222	22	2.0	22	91	0	72	48	15	2	33	1.57
5667157--5667201	20	2.2	20	80	0	54	31	20	17	31	1.96
5669249--5669305	28	2.0	28	100	0	114	31	15	7	45	1.73
5669909--5670097	95	2.0	95	95	0	342	31	10	15	43	1.80
5674378--5674793	40	10.6	40	78	7	417	22	27	16	33	1.95
5675976--5676013	17	2.2	17	100	0	76	18	5	18	57	1.58
5676874--5677005	62	2.2	57	84	6	156	50	3	4	41	1.41
5677495--5677520	13	2.0	13	100	0	52	38	7	0	53	1.30
5678599--5678629	16	1.9	16	93	0	53	74	9	6	9	1.23
5682434--5682694	131	2.0	131	95	0	468	44	19	5	29	1.73
5686570--5686732	86	1.9	86	91	2	265	37	18	15	28	1.91
5686679--5686786	54	2.0	54	98	0	207	39	18	13	27	1.89
5686947--5687050	54	1.9	54	96	0	190	37	18	14	29	1.90
5686648--5687427	126	6.1	127	87	5	1104	37	19	14	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5687073--5687176	54	1.9	54	96	0	190	38	18	14	28	1.90
5702886--5703192	105	2.9	105	93	2	508	31	17	15	34	1.92
5709822--5709869	14	3.4	14	73	21	55	33	0	8	58	1.28
5709816--5709873	28	2.1	28	100	0	116	39	0	6	53	1.28
5716878--5716985	54	2.0	54	98	0	207	30	18	17	33	1.94
5719638--5719675	19	2.0	19	85	10	51	39	7	2	50	1.46
5726350--5726439	23	4.0	23	77	7	78	22	17	20	40	1.92
5731008--5731048	21	1.9	22	85	5	57	36	7	9	46	1.65
5733070--5733102	17	2.0	16	94	5	57	54	3	0	42	1.15
5735499--5735538	15	2.6	15	92	4	62	22	27	17	32	1.96
5737223--5737257	14	2.3	15	90	9	54	71	0	0	28	0.86
5737220--5737259	15	2.6	14	85	14	53	67	0	0	32	0.91
5738157--5738189	14	2.3	15	89	5	50	39	3	0	57	1.14
5738577--5738645	9	7.0	9	73	15	57	30	2	1	65	1.16
5738574--5738647	32	2.4	32	80	14	93	32	2	1	63	1.17
5738577--5738646	31	2.3	29	86	11	97	31	2	1	64	1.17
5741030--5741084	27	2.0	27	96	0	101	30	16	14	38	1.89
5744751--5745518	386	2.0	387	99	0	1520	35	9	21	33	1.86
5745860--5745974	44	2.6	44	85	2	149	35	13	22	27	1.92
5745860--5745993	46	3.0	45	82	4	153	35	14	23	26	1.93
5747107--5747176	29	2.3	29	80	4	77	30	10	18	41	1.83
5747344--5747438	31	3.1	29	81	6	100	41	11	10	36	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5759604--5759693	45	2.0	45	89	4	137	38	22	18	20	1.93
5761514--5761566	12	4.6	12	77	17	58	22	0	9	67	1.19
5761526--5761577	22	2.4	22	87	9	72	21	0	7	71	1.11
5762069--5762106	20	1.9	20	88	0	58	28	0	10	60	1.30
5762075--5762108	10	3.4	10	83	0	50	23	0	5	70	1.09
5763645--5763713	17	4.4	17	74	22	60	5	30	1	62	1.27
5763694--5763723	11	2.6	11	94	5	51	6	26	0	66	1.16
5767330--5767362	15	2.1	16	88	5	50	51	9	12	27	1.69
5783199--5783284	43	2.0	43	95	0	154	34	17	15	32	1.91
5784531--5784609	19	4.2	19	83	9	108	36	12	16	34	1.87

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