genome.fa.s6.2.7.7.80.10.50.1000.16.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: chr6
Parameters: 2 7 7 80 10 50 1000
Length:  26303135

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   

This is table  16  of  66  ( 7821 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)
5574749--5574817	29	2.4	29	82	4	77	30	18	24	26	1.98
5577351--5577443	39	2.3	40	88	1	134	32	22	18	26	1.97
5577728--5577754	2	13.5	2	100	0	54	51	48	0	0	1.00
5579845--5579887	19	2.3	19	83	0	59	51	9	11	27	1.69
5580928--5580987	30	2.1	29	81	6	68	31	8	21	38	1.83
5583531--5583574	22	2.0	22	95	0	79	31	2	22	43	1.66
5589107--5589166	30	2.1	29	81	6	68	31	8	21	38	1.83
5592647--5592769	49	2.5	48	83	9	142	28	8	8	54	1.60
5593085--5593117	17	2.0	16	94	5	57	36	6	0	57	1.23
5594762--5594793	2	16.0	2	100	0	64	50	0	0	50	1.00
5595378--5595418	5	8.4	5	86	8	50	75	0	24	0	0.80
5595455--5595525	25	2.8	25	87	4	99	49	11	18	21	1.78
5595455--5595538	25	3.3	24	83	9	80	51	9	19	20	1.74
5597550--5597590	11	3.7	11	90	0	55	31	0	19	48	1.49
5597552--5597593	22	1.9	22	95	0	75	33	0	14	52	1.42
5597620--5597659	5	8.0	5	85	0	53	42	0	20	37	1.52
5602021--5602103	34	2.4	34	85	0	121	16	12	31	39	1.85
5602047--5602113	34	2.0	34	84	0	89	19	13	28	38	1.89
5602432--5602466	19	1.9	19	88	11	56	80	0	20	0	0.72
5602501--5602582	25	3.3	24	85	10	112	53	9	15	20	1.70
5605271--5605316	20	2.3	20	88	7	67	32	4	17	45	1.68
5605361--5605413	28	1.9	27	88	3	79	30	18	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5605361--5605419	28	2.1	28	84	6	75	30	20	23	25	1.98
5612357--5612394	20	1.9	20	100	0	76	44	21	5	28	1.73
5626474--5626518	15	2.9	15	78	15	56	68	8	0	22	1.16
5630891--5630923	15	2.3	14	94	5	57	48	3	9	39	1.50
5633498--5633548	2	25.5	2	100	0	102	50	0	0	49	1.00
5633643--5633754	54	2.1	54	93	3	190	19	13	41	25	1.88
5635511--5635556	21	2.1	22	88	8	67	30	21	6	41	1.78
5636599--5636725	30	4.4	28	76	14	109	31	21	14	33	1.93
5636599--5636670	28	2.5	28	86	4	99	30	22	15	31	1.94
5637500--5637539	21	1.9	21	85	10	55	17	22	7	52	1.69
5637770--5637808	20	2.0	20	94	0	69	41	17	10	30	1.83
5639145--5639247	38	2.6	40	86	8	142	23	40	15	20	1.90
5644077--5644169	43	2.2	43	90	0	141	25	17	32	24	1.97
5644097--5644186	43	2.1	44	82	13	109	23	12	35	28	1.91
5645887--5645956	34	2.0	34	83	5	86	35	22	12	28	1.91
5653403--5653550	80	1.9	80	84	5	201	33	8	20	36	1.84
5661451--5661497	21	2.2	21	77	7	51	34	21	8	36	1.84
5672219--5672246	2	14.0	2	100	0	56	50	0	0	50	1.00
5677550--5677592	21	2.0	21	82	13	52	62	9	13	13	1.53
5680510--5680591	37	2.2	37	88	0	119	23	35	12	29	1.91
5689867--5689905	3	13.0	3	86	10	53	0	30	2	66	1.05
5694085--5694226	42	3.4	42	89	0	221	23	23	30	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5694246--5694307	26	2.4	26	94	0	106	20	3	41	33	1.69
5699181--5699230	21	2.3	21	83	10	57	46	10	6	38	1.62
5699478--5699568	34	2.6	35	83	10	116	30	30	9	28	1.89
5699478--5699584	35	3.1	35	83	2	135	31	30	8	28	1.87
5699526--5699593	35	1.9	35	84	0	91	33	33	4	27	1.77
5707127--5707538	42	9.8	42	90	0	619	23	22	31	23	1.98
5707777--5707838	26	2.4	26	91	0	97	25	3	38	32	1.72
5708964--5709004	22	2.0	20	85	9	55	29	17	12	41	1.85
5708959--5709142	72	2.6	71	81	6	239	25	13	13	48	1.78
5709098--5709135	20	1.9	20	94	0	67	31	5	13	50	1.63
5714603--5714755	25	6.1	25	77	10	125	20	13	23	42	1.88
5716177--5716223	18	2.6	18	83	6	51	12	25	19	42	1.86
5717937--5718033	44	2.2	44	88	1	151	22	9	15	52	1.71
5718246--5718290	23	2.0	23	81	0	54	24	15	26	33	1.95
5718248--5718442	83	2.3	83	82	5	225	26	15	24	34	1.95
5718437--5718517	38	2.1	38	93	0	135	20	9	30	38	1.86
5718475--5718644	60	2.8	60	86	0	223	24	12	30	33	1.92
5718376--5718584	98	2.1	99	87	4	298	21	11	30	36	1.90
5718573--5718727	83	1.9	83	90	2	249	26	15	27	30	1.96
5718656--5718787	60	2.2	60	94	0	237	25	15	28	30	1.96
5718521--5718853	143	2.3	143	86	0	468	26	13	27	32	1.94
5719631--5719672	19	2.3	19	88	12	61	14	28	2	54	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5721398--5721470	20	3.6	19	73	15	58	36	13	10	38	1.80
5721857--5721997	67	2.1	67	81	2	158	34	19	11	34	1.87
5724463--5724492	16	1.9	15	93	6	51	73	10	3	13	1.21
5728682--5728746	23	2.9	23	79	2	69	44	24	9	21	1.81
5728704--5728790	22	3.9	22	69	13	70	37	28	12	20	1.89
5728723--5728824	44	2.3	44	81	0	105	38	30	8	22	1.85
5728794--5728846	22	2.4	22	83	0	61	39	28	5	26	1.79
5728754--5728879	66	1.9	66	83	3	164	38	29	7	25	1.82
5730787--5730811	13	1.9	13	100	0	50	44	0	8	48	1.32
5735381--5735441	25	2.4	25	81	7	70	26	31	16	26	1.96
5738440--5738495	20	2.6	21	83	13	69	71	5	0	23	1.06
5739486--5739643	80	2.0	82	93	3	268	38	9	10	41	1.71
5739722--5739757	2	18.0	2	94	0	63	52	0	0	47	1.00
5742227--5742273	20	2.3	20	89	7	69	63	4	14	17	1.45
5745989--5746054	9	7.3	9	72	13	55	80	0	16	3	0.84
5747253--5748216	31	31.4	30	66	15	330	33	19	18	28	1.96
5747253--5748238	61	16.1	61	81	6	1041	33	19	18	28	1.96
5748275--5748325	25	2.0	25	88	0	75	25	27	9	37	1.87
5748320--5748378	21	2.8	21	75	10	66	35	28	8	27	1.86
5748653--5748709	20	2.6	22	83	13	82	70	5	0	24	1.08
5752967--5753007	21	2.0	21	95	0	73	2	26	0	70	0.99
5753992--5754031	19	2.0	20	85	4	55	40	10	0	50	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5754125--5754149	11	2.3	11	100	0	50	28	0	0	72	0.86
5758249--5758287	19	2.1	19	90	4	62	51	0	0	48	1.00
5768225--5768305	27	3.0	26	76	16	69	43	1	2	53	1.22
5768234--5768301	34	2.0	34	82	0	82	41	1	2	54	1.24
5768266--5768315	27	2.0	26	84	11	68	46	4	2	48	1.32
5775801--5775872	2	35.5	2	83	2	90	43	0	48	6	1.30
5778971--5779036	35	1.9	35	84	3	89	39	19	21	19	1.93
5778871--5779022	69	2.2	69	80	2	180	35	19	25	20	1.95
5782802--5783240	22	19.6	22	67	17	131	32	22	11	34	1.89
5783050--5783156	24	4.6	24	72	10	96	34	25	7	32	1.84
5785261--5785400	40	3.7	37	84	8	144	60	12	0	26	1.38
5785297--5785400	14	7.7	14	64	16	58	58	13	0	26	1.42
5785384--5785435	27	2.0	27	84	3	70	63	15	3	17	1.45
5785437--5785471	16	2.2	16	90	10	54	37	0	5	57	1.23
5785953--5786002	19	2.6	19	84	6	57	46	4	6	44	1.47
5787232--5787340	31	3.5	31	96	1	191	17	20	4	57	1.57
5787224--5787430	31	6.8	31	77	9	153	18	17	4	58	1.56
5787911--5787937	6	4.5	6	100	0	54	51	14	0	33	1.43
5787937--5787962	2	13.0	2	100	0	52	50	50	0	0	1.00
5790258--5790611	178	2.0	176	96	1	654	35	19	12	32	1.89
5792794--5792818	13	1.9	13	100	0	50	48	8	0	44	1.32
5803309--5803355	18	2.5	20	82	6	62	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5803328--5803416	45	2.0	45	91	4	144	50	1	4	43	1.29
5803462--5803532	23	3.1	23	72	8	72	53	4	0	42	1.20
5808209--5808311	38	2.6	40	89	3	147	19	38	20	21	1.93
5809197--5809241	23	2.0	23	86	0	63	44	2	35	17	1.62
5813376--5813507	43	3.1	43	78	2	149	25	18	34	21	1.96
5813504--5813563	23	2.6	23	89	0	84	26	1	38	33	1.67
5814855--5814911	15	3.8	15	80	0	69	35	5	22	36	1.77
5815127--5815208	33	2.4	33	85	4	101	29	6	0	64	1.17
5816492--5816556	25	2.6	25	95	2	114	35	12	15	36	1.85
5820728--5820866	69	2.0	69	80	2	154	34	21	28	15	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