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: Chr6
Parameters: 2 7 7 80 10 50 1000
Length:  47432654

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   

This is table  17  of  136  ( 16211 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)
5316640--5316701	21	2.9	21	77	13	65	24	0	37	38	1.56
5317233--5317304	29	2.5	30	77	6	85	31	0	31	36	1.58
5322129--5322456	43	7.6	42	84	4	327	25	19	28	26	1.99
5322163--5322456	129	2.3	128	85	3	367	26	19	28	25	1.99
5323097--5323130	16	2.2	16	89	5	52	82	2	2	11	0.89
5323545--5323634	42	2.2	41	88	4	128	23	25	20	31	1.98
5335020--5335060	16	2.6	16	96	0	73	34	14	14	36	1.87
5337025--5337066	22	2.0	22	86	13	61	14	9	4	71	1.28
5340431--5340464	3	11.3	3	100	0	68	32	0	0	67	0.91
5345401--5345435	14	2.5	14	85	0	52	71	0	14	14	1.15
5346745--5347391	44	14.7	44	84	4	689	32	12	23	31	1.92
5348880--5348913	3	11.3	3	100	0	68	32	0	0	67	0.91
5377642--5377728	45	1.9	45	93	4	149	33	24	17	25	1.96
5377737--5377924	51	3.7	49	77	3	160	31	29	15	23	1.95
5382821--5382852	14	2.1	16	88	11	50	46	9	12	31	1.73
5389011--5389107	48	2.0	48	97	0	185	21	17	14	46	1.84
5395904--5395990	40	2.3	37	80	7	102	50	4	2	42	1.35
5399939--5399982	22	2.0	21	83	12	54	4	38	0	56	1.20
5403635--5403700	27	2.3	29	82	7	73	36	0	3	60	1.12
5404904--5404938	3	11.7	3	100	0	70	68	0	0	31	0.90
5405057--5405109	25	2.1	25	100	0	106	28	13	26	32	1.93
5405338--5405363	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5405558--5405583	2	13.0	2	100	0	52	50	0	0	50	1.00
5405197--5405640	220	2.0	220	99	0	879	43	12	8	35	1.73
5407426--5407450	12	2.1	12	100	0	50	40	0	24	36	1.55
5407578--5408220	321	2.0	321	100	0	1286	30	16	16	37	1.91
5434174--5434611	215	2.0	217	86	4	610	26	23	15	35	1.94
5434892--5434933	22	1.9	22	95	0	75	21	21	4	52	1.65
5442613--5442637	12	2.1	12	100	0	50	40	0	8	52	1.31
5443039--5443104	20	3.3	20	71	0	60	25	22	15	36	1.93
5443776--5443827	21	2.5	21	96	0	95	38	9	19	32	1.84
5445734--5445780	15	3.2	15	71	17	53	36	12	17	34	1.87
5452147--5452460	25	12.6	25	70	15	152	27	12	22	37	1.89
5452154--5452475	50	6.5	50	81	2	333	27	11	22	38	1.88
5452172--5452445	99	2.8	98	82	3	334	27	12	21	38	1.89
5452398--5452475	25	3.1	24	77	20	88	23	11	29	35	1.90
5461557--5461635	31	2.6	31	87	2	115	43	10	16	30	1.81
5463278--5463316	20	2.0	20	84	0	51	17	41	5	35	1.72
5473774--5473839	33	2.0	33	96	0	123	24	16	21	37	1.93
5475248--5475309	26	2.4	26	80	0	79	35	12	12	38	1.82
5476019--5476085	34	2.0	33	85	8	91	20	23	23	31	1.98
5478794--5478875	17	4.8	16	76	15	76	75	4	7	12	1.16
5478806--5478882	10	7.6	10	71	17	61	76	5	6	11	1.13
5478915--5478965	26	2.0	26	84	7	68	70	1	5	21	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5479020--5479063	23	2.0	22	90	4	70	75	2	0	22	0.92
5478989--5479055	16	4.4	15	72	20	59	73	1	4	20	1.09
5486400--5486429	11	2.7	11	100	0	60	40	26	6	26	1.81
5494592--5494648	30	1.9	30	85	0	78	38	8	22	29	1.85
5494984--5495034	26	2.0	26	92	0	84	21	23	31	23	1.98
5495010--5495375	43	8.7	42	78	10	331	23	16	25	34	1.95
5495010--5495330	128	2.5	126	90	3	486	23	15	25	35	1.94
5495010--5495374	85	4.3	86	84	6	344	23	16	25	34	1.95
5503516--5503582	3	22.3	3	93	0	116	64	0	1	34	1.03
5518882--5518968	25	3.5	25	73	7	88	22	21	22	32	1.98
5520245--5520302	29	2.0	29	93	3	100	24	39	20	15	1.91
5520894--5520936	12	3.6	12	87	0	59	55	0	2	41	1.12
5520977--5521205	107	2.1	107	95	0	404	45	16	8	29	1.77
5526980--5527011	15	2.2	14	94	5	55	0	15	0	84	0.63
5530479--5530678	44	4.5	44	77	16	207	31	16	22	31	1.95
5530488--5530592	51	2.1	51	96	0	192	30	15	23	30	1.95
5530551--5530630	37	2.2	37	95	0	142	30	17	18	33	1.94
5533314--5533366	24	2.2	25	86	3	72	45	5	22	26	1.74
5535398--5535501	3	33.7	3	70	12	68	57	2	6	32	1.39
5535537--5535580	17	2.5	19	79	20	51	56	2	13	27	1.49
5535744--5535887	3	47.0	3	76	4	54	54	8	6	30	1.55
5544047--5544080	12	2.8	12	87	12	52	23	5	0	70	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5544030--5544073	17	2.7	15	82	10	52	20	6	0	72	1.07
5546967--5546996	12	2.4	12	94	5	51	60	0	0	40	0.97
5547047--5547264	107	2.0	107	97	0	409	44	15	8	31	1.76
5568065--5568204	29	4.8	29	81	6	158	33	24	5	36	1.79
5568065--5568204	59	2.4	58	84	8	185	33	24	5	36	1.79
5568267--5568314	24	2.0	24	95	0	87	12	52	16	18	1.75
5568372--5568418	24	1.9	24	83	12	60	65	2	23	8	1.31
5568729--5568805	13	6.0	12	83	11	82	74	0	24	1	0.90
5568733--5568805	6	11.3	6	81	10	74	75	0	23	1	0.88
5569038--5569081	23	2.0	23	86	4	63	27	43	27	2	1.67
5569186--5569224	20	2.0	20	94	0	69	84	0	15	0	0.62
5575496--5575528	7	4.7	7	92	7	50	0	15	0	84	0.61
5575491--5575528	15	2.6	14	84	16	51	2	18	0	78	0.86
5579057--5579264	51	4.2	51	83	8	286	32	15	23	28	1.95
5579106--5579256	44	3.3	43	77	18	151	33	15	23	28	1.95
5579057--5579265	95	2.2	95	91	0	328	32	15	23	28	1.95
5583980--5584083	3	33.7	3	69	12	59	58	2	6	31	1.39
5584119--5584162	17	2.5	19	79	20	51	56	2	13	27	1.49
5584387--5584420	12	2.8	12	86	0	50	55	5	11	26	1.58
5587865--5588031	3	54.7	3	80	3	109	56	4	7	31	1.48
5595214--5595266	27	1.9	27	85	11	72	18	32	32	16	1.94
5600882--5600911	12	2.4	12	94	5	51	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5604369--5605122	375	2.0	378	97	1	1444	50	11	9	28	1.69
5606017--5606054	20	2.0	21	85	15	55	21	5	10	63	1.46
5606557--5607047	44	11.5	43	73	9	260	27	20	19	31	1.97
5606592--5606749	39	3.9	39	81	5	165	27	20	19	32	1.97
5606710--5607047	175	1.9	175	93	1	579	28	20	18	32	1.96
5609448--5610549	551	2.0	551	100	0	2204	25	24	14	35	1.94
5625244--5625291	24	2.0	24	84	8	62	47	0	2	50	1.12
5626852--5626903	18	2.7	19	75	16	54	7	17	1	73	1.16
5626852--5626909	21	2.9	20	74	20	59	8	17	1	72	1.18
5633236--5633265	7	4.4	7	95	4	53	13	10	0	76	1.01
5639094--5639132	15	2.6	15	95	0	69	71	5	7	15	1.26
5644250--5644291	20	2.0	21	86	13	61	52	7	9	30	1.61
5658217--5658250	18	1.9	17	88	5	50	14	5	0	79	0.91
5658870--5658912	17	2.5	17	92	0	77	20	20	32	25	1.97
5659930--5660021	11	8.9	11	70	20	65	39	2	0	58	1.10
5659881--5660021	40	3.5	40	91	2	212	36	2	0	60	1.11
5659961--5660021	31	2.0	30	87	12	88	39	1	0	59	1.08
5665024--5665101	30	2.6	30	81	6	95	38	11	2	47	1.54
5665086--5665113	14	2.0	14	100	0	56	35	7	0	57	1.26
5671579--5671613	12	2.9	12	91	0	52	48	8	11	31	1.69
5678192--5678235	17	2.6	17	100	0	88	13	47	29	9	1.74
5686642--5686924	22	12.9	22	86	1	352	43	19	8	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5686642--5686926	88	3.2	87	90	3	428	43	19	8	27	1.80
5689870--5689919	23	2.2	23	100	0	100	72	16	12	0	1.13
5698493--5698662	66	2.6	66	83	1	216	30	26	15	27	1.96
5698550--5698673	30	3.9	31	76	15	103	29	25	17	27	1.98
5714255--5714315	29	2.1	29	93	0	104	37	29	18	14	1.90
5719455--5719532	40	2.0	38	80	9	86	53	1	1	43	1.16
5720506--5720542	7	5.3	7	86	0	56	54	0	0	45	1.00
5724145--5724193	1	49.0	1	95	0	89	0	0	2	97	0.14
5736771--5736839	21	3.3	22	76	8	72	26	18	33	21	1.97
5740974--5741019	24	1.9	24	81	0	56	50	8	17	23	1.74

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