genome.fa.s5.2.7.7.80.10.50.1000.13.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  13  of  103  ( 12320 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)
5032589--5032848	137	1.9	137	82	0	322	39	14	8	37	1.77
5037522--5037569	24	2.0	24	84	4	62	0	16	4	79	0.89
5039046--5039116	32	2.2	33	87	5	101	67	1	1	29	1.07
5053119--5053153	18	1.9	18	88	0	52	74	0	14	11	1.08
5053444--5053495	17	2.9	18	82	5	61	44	11	9	34	1.73
5057607--5057685	35	2.3	35	88	2	124	31	21	16	30	1.95
5067438--5067498	29	2.2	27	82	11	70	22	4	4	67	1.30
5081362--5081422	29	2.2	27	82	11	70	22	4	4	67	1.30
5081762--5081918	72	2.2	72	89	0	233	0	34	4	60	1.21
5081870--5081910	17	2.5	16	88	4	55	0	31	0	68	0.90
5081883--5081921	20	1.9	21	89	5	62	2	38	0	58	1.12
5081948--5081989	18	2.4	17	80	15	50	0	50	0	50	1.00
5082102--5082139	14	2.5	15	87	8	51	5	0	23	71	1.07
5082379--5082403	12	2.1	12	100	0	50	24	0	0	76	0.80
5082367--5082418	22	2.5	22	79	14	56	21	0	0	78	0.74
5082378--5082417	17	2.4	17	91	4	64	22	0	0	77	0.77
5082973--5083052	35	2.3	35	84	0	106	32	25	12	30	1.92
5084908--5084968	24	2.6	23	76	2	68	39	22	8	29	1.83
5086143--5086201	30	2.0	29	87	6	84	37	0	0	62	0.95
5086145--5086193	25	2.1	22	88	11	71	36	0	0	63	0.95
5086183--5086227	20	2.2	20	81	18	58	51	0	0	48	1.00
5108710--5108755	20	2.2	21	84	3	58	30	2	19	47	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109033--5109072	21	1.9	21	94	0	71	25	20	15	40	1.90
5109072--5109111	20	2.0	20	90	0	62	37	2	15	45	1.59
5113469--5113506	19	2.0	19	94	0	67	28	0	28	42	1.56
5116819--5116844	11	2.4	11	100	0	52	34	7	19	38	1.80
5134295--5134450	28	5.6	28	86	5	201	24	22	16	36	1.94
5134418--5134499	25	3.2	24	79	8	83	29	15	12	42	1.83
5138455--5138489	15	2.2	16	90	5	54	22	14	8	54	1.67
5146332--5148090	880	2.0	879	100	0	3509	28	16	25	29	1.97
5151497--5151567	23	3.0	24	77	20	69	47	0	1	50	1.09
5151508--5151567	27	2.4	23	86	10	75	53	0	1	45	1.10
5151522--5151630	53	2.1	52	79	10	114	44	1	2	50	1.26
5158810--5159073	102	2.6	103	83	1	325	25	12	24	37	1.91
5159029--5159072	22	2.0	23	90	4	72	18	15	27	38	1.91
5159637--5159695	29	2.0	29	100	0	118	23	13	30	32	1.93
5169929--5169985	17	3.1	18	77	7	53	64	17	0	17	1.29
5171677--5171791	51	2.3	51	87	0	158	35	15	5	43	1.69
5171825--5171862	17	2.2	18	85	4	51	42	0	7	50	1.31
5175418--5175462	16	2.7	16	80	19	56	37	0	2	60	1.09
5175413--5175471	30	2.0	28	84	12	75	38	0	1	59	1.08
5176077--5176124	18	2.5	20	86	6	73	47	0	0	52	1.00
5176073--5176147	10	7.4	10	71	18	57	46	0	1	52	1.09
5176099--5176192	45	2.1	45	90	4	145	46	0	5	47	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5176213--5176270	30	2.0	29	92	0	89	27	3	1	65	1.18
5176943--5177006	33	1.9	33	84	6	85	35	14	9	40	1.78
5177064--5177128	30	2.2	29	88	2	94	53	6	6	33	1.50
5177064--5177166	30	3.5	29	78	13	86	49	4	8	36	1.55
5180253--5180279	13	2.1	13	100	0	54	37	7	7	48	1.59
5180587--5180614	10	2.8	10	100	0	56	32	0	0	67	0.91
5180889--5180927	16	2.3	17	82	13	53	30	0	2	66	1.05
5181372--5181626	34	7.4	34	82	9	261	22	40	17	20	1.91
5181398--5181660	34	7.6	34	79	11	232	21	41	17	20	1.91
5181372--5181664	69	4.2	70	76	12	284	22	40	16	20	1.91
5183234--5183266	2	16.5	2	100	0	66	51	0	0	48	1.00
5183266--5183298	2	16.5	2	100	0	66	51	0	48	0	1.00
5184479--5184621	71	2.0	71	94	2	252	26	16	20	36	1.94
5203791--5203822	2	16.5	2	93	6	57	50	0	0	50	1.00
5212322--5212354	17	1.9	17	93	0	57	39	0	21	39	1.53
5218069--5218102	12	3.1	11	91	8	52	55	0	2	41	1.15
5227521--5227555	15	2.3	15	90	0	52	2	20	8	68	1.29
5227841--5227933	7	12.9	7	79	12	91	18	1	1	79	0.85
5227830--5227933	17	5.9	17	74	19	97	18	0	0	79	0.84
5227831--5227933	37	2.9	34	83	12	127	17	0	0	80	0.82
5227830--5227926	10	10.6	9	75	20	69	18	1	1	79	0.85
5240523--5240557	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5245378--5245411	17	2.0	17	88	11	52	47	14	0	38	1.45
5245557--5245719	28	5.6	28	79	8	148	38	11	9	41	1.73
5245556--5245716	59	2.8	58	83	6	170	39	11	8	40	1.72
5252478--5253192	253	2.8	250	83	6	827	48	8	9	33	1.67
5255322--5255348	2	13.5	2	100	0	54	48	0	0	51	1.00
5260480--5260504	3	8.3	3	100	0	50	68	0	0	32	0.90
5261146--5261216	37	1.9	37	94	0	124	40	16	18	23	1.90
5261709--5261754	24	1.9	24	81	0	56	23	32	34	8	1.86
5264941--5264969	2	14.5	2	100	0	58	51	0	0	48	1.00
5265795--5265861	27	2.4	29	87	9	95	62	1	0	35	1.04
5265850--5265919	27	2.5	28	79	9	70	52	5	0	41	1.25
5265905--5265961	13	4.6	12	75	14	53	68	3	0	28	1.06
5266557--5266610	21	2.7	20	83	13	74	51	0	0	48	1.00
5274832--5274865	16	2.1	16	94	0	59	23	11	23	41	1.87
5283898--5283950	22	2.4	22	87	0	79	62	1	28	7	1.33
5286935--5286959	13	1.9	13	100	0	50	48	8	0	44	1.32
5288330--5288367	19	2.0	19	94	0	67	42	28	0	28	1.56
5288913--5289021	35	3.2	35	69	12	100	31	12	24	31	1.93
5303553--5303577	13	1.9	13	100	0	50	48	8	0	44	1.32
5304718--5304770	28	1.9	27	88	3	79	28	22	18	30	1.98
5304815--5304860	20	2.3	20	88	7	67	45	17	4	32	1.68
5311736--5311812	34	2.3	34	86	0	100	31	10	23	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5311937--5311978	10	4.2	10	85	11	50	78	0	19	2	0.86
5311971--5312058	25	3.5	25	88	0	131	50	12	21	15	1.77
5312107--5312166	28	2.1	28	96	0	111	51	10	23	15	1.72
5312572--5312600	2	14.5	2	100	0	58	51	0	0	48	1.00
5314532--5314822	38	7.7	38	76	11	278	22	13	39	25	1.90
5314596--5314656	19	3.2	19	63	9	52	21	14	37	26	1.92
5314460--5314822	185	1.9	188	89	1	570	22	12	39	24	1.90
5319113--5319143	2	15.5	2	100	0	62	51	48	0	0	1.00
5319168--5319245	37	2.1	37	97	0	147	24	37	10	28	1.88
5326089--5326156	9	7.6	9	77	0	73	38	17	13	30	1.88
5326089--5326163	18	4.2	18	89	0	114	38	16	13	32	1.87
5329286--5329334	8	5.6	8	77	17	53	48	20	12	18	1.79
5329280--5329337	18	3.2	18	97	0	107	50	17	10	22	1.76
5329291--5329337	10	5.1	10	75	19	57	51	19	10	19	1.75
5340049--5340078	2	15.0	2	92	0	51	3	50	0	46	1.18
5344122--5344161	21	1.9	21	89	0	62	85	2	7	5	0.83
5344661--5344719	29	2.0	29	83	9	75	33	8	3	54	1.48
5349455--5349500	23	2.0	23	91	0	74	26	8	17	47	1.76
5350740--5350801	25	2.4	25	86	2	88	37	0	1	61	1.06
5350732--5350773	19	2.2	20	87	12	61	35	0	0	64	0.94
5351083--5351363	141	2.0	141	92	0	472	32	13	17	36	1.89
5352220--5352263	7	6.3	7	82	10	54	25	0	2	72	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5361723--5362101	211	1.8	208	90	3	609	45	2	9	42	1.50
5362001--5362133	70	1.9	70	83	9	173	46	1	6	45	1.39
5364199--5364229	2	15.5	2	93	0	53	51	0	0	48	1.00
5366259--5366294	18	1.9	19	94	5	65	19	30	16	33	1.94
5371226--5371291	29	2.2	29	89	7	98	54	0	43	0	1.00
5371219--5371278	2	31.5	2	85	9	81	53	0	45	0	1.00
5373799--5373835	19	1.9	19	100	0	74	40	10	5	43	1.63
5373801--5373843	19	2.3	19	91	0	68	37	13	9	39	1.78
5376135--5376344	108	1.9	108	89	1	323	42	4	16	36	1.67
5385012--5385085	29	2.6	28	83	6	98	20	18	13	47	1.82

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