genome.fa.s5.2.7.7.80.10.50.1000.14.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  14  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)
5385067--5385137	32	2.3	29	80	17	90	19	23	12	43	1.86
5385075--5385143	32	2.2	32	91	0	120	18	21	14	44	1.85
5387033--5387069	2	18.5	2	94	0	65	48	2	0	48	1.15
5390287--5390326	20	2.0	20	85	0	53	32	7	22	37	1.82
5390525--5390549	13	1.9	13	100	0	50	48	16	12	24	1.79
5392703--5392751	24	2.0	24	88	0	71	40	6	6	46	1.53
5393049--5393096	17	2.8	17	81	9	62	41	6	0	52	1.27
5400812--5400855	19	2.2	20	84	8	54	38	22	6	31	1.81
5406245--5406280	18	2.0	18	89	10	56	75	0	0	25	0.81
5406965--5407019	11	4.8	12	76	14	53	76	5	3	14	1.10
5407540--5407765	62	3.6	61	76	7	204	38	15	38	7	1.75
5409242--5409307	29	2.3	28	79	10	80	72	0	3	24	0.98
5411679--5411717	16	2.4	16	82	0	51	43	2	5	48	1.38
5412138--5412185	15	2.9	17	81	15	64	37	4	12	45	1.61
5423139--5423203	26	2.5	26	84	0	85	27	20	16	35	1.94
5423298--5423506	108	2.0	106	95	2	366	26	21	13	38	1.90
5431620--5431653	14	2.4	14	85	0	50	29	0	11	58	1.33
5432254--5432291	19	2.0	19	94	0	67	26	0	28	44	1.54
5438385--5438587	40	5.0	40	81	4	212	21	1	18	58	1.47
5438383--5438536	21	7.4	21	64	20	65	20	0	19	59	1.42
5438386--5438587	81	2.5	79	83	5	233	21	1	18	58	1.46
5443339--5443415	16	4.9	16	70	19	63	38	2	1	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5443333--5443415	32	2.7	31	87	9	125	42	2	1	54	1.21
5443368--5443409	19	2.2	19	91	4	66	35	2	0	61	1.09
5450561--5450627	35	1.9	35	93	0	116	26	0	20	52	1.47
5459359--5459406	20	2.3	20	82	7	60	39	18	6	35	1.76
5460015--5460065	22	2.3	22	83	6	59	39	11	13	35	1.82
5463691--5463729	2	19.5	2	100	0	78	48	0	0	51	1.00
5473827--5474074	96	2.7	91	79	11	265	45	4	6	44	1.47
5480589--5480640	23	2.3	23	96	0	95	15	13	30	40	1.86
5484275--5484326	26	2.0	26	92	0	86	21	11	9	57	1.62
5484600--5484656	23	2.5	23	76	0	60	33	12	21	33	1.90
5484926--5485001	23	3.3	22	69	10	55	28	10	26	34	1.90
5486249--5486652	216	1.9	216	94	0	718	24	22	19	33	1.97
5487487--5487517	15	2.1	15	93	0	53	35	16	12	35	1.87
5487590--5487622	15	2.2	15	94	0	57	39	15	12	33	1.84
5487474--5487728	103	2.5	103	93	0	447	36	24	12	26	1.92
5500627--5500658	6	5.3	6	100	0	64	0	15	65	18	1.27
5501650--5501960	146	2.1	146	95	1	552	24	21	22	31	1.98
5503282--5503592	170	1.8	169	82	8	400	33	16	11	37	1.86
5503448--5503764	169	1.9	167	81	7	388	32	13	14	39	1.85
5504670--5504780	43	2.6	43	85	2	152	24	19	36	19	1.95
5504672--5504793	43	2.8	43	82	2	147	24	18	37	19	1.94
5507273--5507414	70	2.0	70	87	4	207	33	5	5	54	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5507575--5507657	41	2.0	41	83	4	105	42	20	1	36	1.60
5509844--5509908	27	2.4	27	75	14	71	72	0	21	6	1.06
5518323--5518366	10	4.4	10	97	0	79	47	0	20	31	1.50
5527354--5527383	14	2.1	15	93	6	53	20	3	6	70	1.25
5532902--5533264	180	2.0	184	84	4	484	23	19	7	50	1.72
5533192--5533504	159	2.0	156	87	8	447	25	14	9	50	1.72
5551123--5551158	16	2.2	17	90	5	56	61	0	8	30	1.26
5551689--5551735	23	2.2	21	85	11	60	31	0	0	68	0.90
5553176--5553201	3	8.7	3	100	0	52	30	0	0	69	0.89
5563195--5563230	18	1.9	18	88	5	54	41	16	8	33	1.78
5565318--5565355	20	1.9	20	100	0	76	28	5	21	44	1.73
5565712--5565770	30	1.9	31	83	10	77	50	3	20	25	1.63
5566614--5566638	13	1.9	13	100	0	50	44	0	8	48	1.32
5569022--5569069	21	2.3	20	79	10	60	14	22	6	56	1.61
5569027--5569067	21	1.9	22	90	5	66	17	24	7	51	1.70
5569332--5569396	28	2.3	28	97	0	121	35	13	20	30	1.91
5571628--5571669	21	1.9	23	85	9	61	50	19	7	23	1.72
5575974--5576021	21	2.3	20	82	10	69	14	22	4	58	1.54
5575979--5576019	21	1.9	22	95	5	75	17	24	4	53	1.63
5576830--5576867	18	2.2	18	86	13	53	86	2	7	2	0.74
5577283--5577325	20	2.2	19	84	12	52	76	4	13	4	1.10
5578393--5578454	31	2.0	31	100	0	124	22	16	16	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5579590--5579709	58	2.1	58	84	3	152	26	16	32	24	1.96
5579666--5579968	47	6.5	47	82	1	349	28	21	28	22	1.99
5580645--5580835	31	6.3	31	83	7	250	21	19	20	37	1.94
5580645--5580821	88	2.0	88	87	2	257	21	19	20	38	1.94
5585637--5585680	21	2.1	21	82	0	52	25	15	36	22	1.94
5587188--5587664	118	4.1	118	87	1	618	28	28	20	21	1.98
5591280--5591385	31	3.4	31	90	5	169	37	18	17	25	1.93
5591250--5591385	62	2.2	62	89	0	209	36	17	19	27	1.94
5591742--5591864	63	2.0	63	85	0	165	31	13	33	21	1.92
5592618--5592658	16	2.7	16	79	20	52	21	2	4	70	1.18
5597449--5597504	29	1.9	28	82	13	69	55	0	10	33	1.35
5602402--5602494	38	2.4	38	77	12	91	25	5	0	68	1.10
5602452--5602583	30	4.5	28	71	20	101	28	4	0	66	1.11
5602430--5602506	38	2.0	38	82	0	91	27	3	0	68	1.06
5611018--5611080	27	2.3	26	82	12	74	34	15	11	38	1.83
5611080--5611153	27	2.7	27	81	4	87	31	17	21	29	1.96
5611179--5611297	27	4.4	27	75	0	94	27	17	17	36	1.93
5611705--5611754	2	26.0	2	92	8	86	52	0	0	48	1.00
5612514--5612556	20	2.0	22	86	8	63	60	9	4	25	1.47
5618493--5618528	17	2.1	17	94	0	63	55	0	8	36	1.30
5628065--5628098	11	3.1	11	82	0	50	26	17	23	32	1.97
5629319--5629406	43	2.0	43	91	0	140	35	14	14	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5638805--5638832	2	14.0	2	100	0	56	50	0	0	50	1.00
5646544--5646575	16	2.0	16	100	0	64	43	25	12	18	1.85
5648889--5648938	20	2.6	20	81	6	59	26	6	12	56	1.58
5652690--5652726	2	18.5	2	100	0	74	48	0	0	51	1.00
5656362--5656397	2	18.0	2	100	0	72	50	0	0	50	1.00
5673531--5673574	23	2.0	22	81	4	52	40	0	6	52	1.28
5673249--5673630	192	2.0	190	93	1	649	47	5	4	42	1.46
5673642--5673735	45	2.1	45	88	4	136	45	5	2	46	1.37
5687700--5687746	23	2.0	24	84	12	62	59	0	2	38	1.09
5689000--5689024	5	5.0	5	100	0	50	0	20	0	80	0.72
5690813--5690892	21	3.8	21	93	0	133	43	16	5	35	1.69
5700232--5700271	21	1.9	21	90	10	64	42	12	5	40	1.64
5700233--5700283	21	2.4	21	84	12	61	39	19	5	35	1.76
5700302--5700386	45	1.9	44	90	2	134	50	11	9	28	1.70
5702186--5702223	14	2.8	14	88	11	53	10	5	10	73	1.23
5703060--5703111	22	2.4	22	80	0	59	3	34	5	55	1.42
5703131--5703282	33	4.3	34	73	16	103	1	41	6	50	1.36
5703164--5703212	22	2.2	22	92	0	80	2	42	8	46	1.45
5703075--5703283	55	3.8	55	87	3	289	3	39	5	51	1.42
5703131--5703282	16	8.6	17	65	21	55	1	41	6	50	1.36
5703129--5703286	6	23.1	7	67	22	61	1	41	6	51	1.35
5703748--5703808	8	6.8	8	79	17	50	18	1	1	78	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5710677--5710796	64	1.9	64	89	3	188	43	11	5	39	1.65
5710662--5710842	64	3.0	58	77	12	170	43	12	7	37	1.70
5710741--5710852	57	2.0	57	85	3	154	41	13	8	35	1.76
5711312--5711854	50	11.0	50	81	4	503	34	21	15	28	1.94
5711312--5711854	99	5.5	100	77	6	482	34	21	15	28	1.94
5711320--5711838	149	3.5	147	81	4	492	34	21	15	29	1.94
5711825--5711885	33	1.9	31	90	6	95	39	22	16	21	1.92
5714112--5714282	36	4.7	36	88	3	236	21	12	36	29	1.90
5715290--5715474	92	2.0	92	97	0	352	38	27	11	22	1.89
5718472--5718585	51	2.3	50	73	10	117	39	22	15	21	1.92

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