genome.fa.s12.2.7.7.80.10.50.1000.15.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:  43060996

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   

This is table  15  of  128  ( 15303 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)
4327959--4328028	22	3.3	20	74	16	52	31	5	2	60	1.35
4327970--4328030	21	2.9	20	79	13	77	34	6	1	57	1.34
4328971--4329012	21	2.0	20	82	13	50	47	0	2	50	1.14
4329989--4330033	18	2.3	20	85	11	58	64	6	11	17	1.46
4341836--4341872	17	2.1	19	85	10	51	37	2	27	32	1.71
4343889--4343988	49	2.1	48	90	1	155	46	3	6	45	1.43
4353752--4353819	29	2.4	27	74	13	64	57	4	8	29	1.49
4354483--4354513	1	31.0	1	100	0	62	100	0	0	0	0.00
4360294--4360349	16	3.5	16	85	0	67	39	3	25	32	1.73
4360510--4360626	59	2.0	58	83	5	146	50	1	3	44	1.28
4360515--4360643	59	2.2	59	81	5	145	48	3	3	44	1.36
4363934--4363965	15	2.0	17	88	11	50	18	25	31	25	1.98
4367608--4367670	26	2.4	26	89	0	90	42	11	12	33	1.78
4367608--4367683	26	2.9	26	84	3	73	43	9	14	32	1.77
4369854--4369910	17	3.2	17	67	13	51	24	8	10	56	1.61
4369850--4369920	37	1.9	37	97	0	133	21	8	14	56	1.64
4370446--4370517	6	12.0	6	82	11	85	33	0	2	63	1.08
4370444--4370506	22	3.0	22	90	4	103	33	0	3	63	1.10
4370568--4370747	100	1.8	99	90	1	288	46	11	2	40	1.53
4371179--4371587	202	2.0	205	90	1	653	42	14	10	33	1.79
4382698--4382773	19	4.1	18	77	16	66	61	1	2	34	1.18
4384461--4384836	187	2.0	189	98	1	738	34	5	11	49	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4385518--4385557	15	2.5	17	77	22	50	62	5	0	32	1.17
4388509--4388579	27	2.6	27	81	4	97	46	8	1	43	1.42
4388518--4388579	27	2.2	28	88	2	99	46	6	0	46	1.28
4388576--4388616	16	2.5	16	92	4	64	87	7	2	2	0.70
4388648--4388725	27	2.9	27	96	0	138	30	28	29	11	1.92
4391569--4391607	14	2.7	15	84	8	53	61	5	5	28	1.39
4391581--4391609	14	2.1	14	100	0	58	55	0	6	37	1.27
4393913--4393947	18	2.0	18	88	5	54	5	5	5	82	0.93
4393948--4394016	28	2.5	29	93	6	117	49	0	10	40	1.37
4394045--4394084	18	2.4	17	87	8	55	70	5	0	25	1.08
4394045--4394095	19	2.7	19	84	3	59	66	7	0	25	1.18
4394798--4394948	10	15.1	10	64	22	59	0	31	0	67	1.00
4394799--4394919	18	6.0	22	75	15	79	0	32	0	66	1.04
4394828--4394911	28	3.0	28	79	6	82	1	33	1	64	1.09
4394830--4394940	14	7.9	13	67	17	53	0	32	0	65	1.05
4394773--4394936	38	4.3	38	78	14	144	0	32	0	66	1.01
4394868--4394949	28	2.7	30	74	22	82	0	32	1	65	1.00
4394775--4394950	18	10.0	17	69	17	78	0	32	0	65	1.01
4394997--4395075	27	3.0	27	94	1	133	12	30	29	27	1.93
4395134--4395197	27	2.4	26	92	5	101	46	1	9	42	1.45
4396390--4396442	24	2.2	25	89	3	81	30	11	0	58	1.33
4399114--4399152	17	2.2	18	86	4	53	12	2	5	79	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4403688--4403764	39	2.0	39	89	0	118	42	12	18	25	1.86
4419859--4419988	69	1.9	69	83	13	169	48	6	16	28	1.71
4419907--4419936	6	5.0	6	100	0	60	66	0	16	16	1.25
4421417--4421473	22	2.6	23	81	13	66	12	22	19	45	1.83
4432332--4432401	25	2.8	25	86	0	95	27	25	18	28	1.98
4434198--4434240	21	2.1	20	83	12	52	67	11	9	11	1.42
4435538--4435650	33	3.4	33	85	0	127	22	22	13	42	1.87
4438876--4438923	24	2.1	24	85	11	66	41	6	20	31	1.77
4441734--4441778	14	3.4	13	84	12	56	28	2	2	66	1.15
4441766--4441943	72	2.5	71	90	1	275	37	2	8	50	1.49
4443945--4444016	19	3.8	19	84	0	108	37	9	13	38	1.78
4444108--4444152	23	2.0	23	86	4	65	37	6	17	37	1.76
4444776--4444817	21	2.0	21	100	0	84	33	0	0	66	0.92
4444778--4444823	21	2.2	21	92	0	74	34	4	0	60	1.16
4444855--4444913	31	1.9	31	82	6	75	15	6	8	69	1.34
4447822--4447878	24	2.4	25	73	8	64	24	8	0	66	1.20
4447833--4447982	72	2.1	73	97	1	284	33	8	0	58	1.27
4447833--4448006	72	2.4	72	90	4	235	33	9	0	56	1.35
4448658--4448710	24	2.2	24	96	0	97	35	15	15	33	1.88
4449092--4449245	76	2.0	77	98	1	301	46	10	11	31	1.74
4455199--4455249	18	2.8	18	77	16	52	66	0	5	27	1.14
4455605--4455643	13	3.1	12	85	10	51	41	10	12	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4458469--4458503	18	2.0	17	88	5	52	31	17	22	28	1.96
4468912--4468937	13	2.0	13	100	0	52	30	7	15	46	1.74
4468971--4469010	19	2.0	20	85	4	55	25	20	7	47	1.75
4470879--4470918	19	2.1	19	86	9	55	15	17	5	62	1.49
4471831--4471873	7	6.1	7	84	10	61	67	2	16	13	1.33
4471835--4471880	14	3.4	14	80	14	60	67	2	15	15	1.33
4471831--4471872	21	2.0	21	90	4	68	66	2	16	14	1.35
4472969--4473716	89	8.4	89	99	0	1478	31	18	23	25	1.98
4475918--4475968	3	17.0	3	76	15	52	25	1	0	72	0.95
4475918--4475968	16	3.2	16	83	13	61	25	1	0	72	0.95
4479152--4479203	24	2.2	24	89	0	77	50	9	3	36	1.54
4483448--4483499	24	2.2	24	85	0	68	48	9	5	36	1.60
4488798--4489029	97	2.4	99	89	5	362	39	1	18	40	1.60
4489076--4489366	126	2.3	126	90	0	465	33	17	20	28	1.95
4491587--4491789	112	1.8	112	91	0	334	50	5	5	37	1.51
4491686--4491753	34	2.0	34	82	2	82	51	5	5	36	1.50
4492179--4492213	18	1.9	18	88	0	52	37	8	31	22	1.85
4492276--4492334	30	2.0	30	82	0	73	6	18	44	30	1.76
4494196--4494277	40	2.0	41	80	4	94	20	26	25	26	1.99
4499603--4499712	45	2.4	45	86	0	139	24	20	17	37	1.94
4499615--4499776	45	3.6	45	88	0	225	20	22	17	38	1.93
4502917--4502979	31	2.0	32	90	3	101	42	14	15	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4503701--4503768	25	2.6	27	86	13	97	26	27	7	38	1.83
4504798--4504831	17	2.0	17	100	0	68	11	35	17	35	1.87
4509695--4509733	10	4.1	10	80	12	55	51	0	0	48	1.00
4509694--4509733	14	2.9	13	82	10	53	50	0	0	50	1.00
4509763--4509847	32	2.6	33	77	5	93	44	18	10	25	1.82
4509824--4509900	14	5.0	15	71	20	52	42	15	9	32	1.78
4509840--4509879	20	2.0	20	90	0	62	50	12	10	27	1.72
4509828--4509894	34	1.9	35	90	3	109	46	13	8	31	1.74
4515230--4515784	287	1.9	287	98	0	1074	38	19	9	32	1.84
4515785--4515862	40	1.9	39	85	10	104	20	34	25	19	1.96
4519030--4519082	19	2.9	19	76	15	58	64	3	0	32	1.12
4525500--4525538	20	2.0	19	85	5	51	46	17	0	35	1.49
4528621--4528648	8	3.5	8	100	0	56	75	0	0	25	0.81
4535721--4535767	21	2.2	22	81	11	62	29	0	6	63	1.19
4546223--4546290	9	7.4	9	82	9	75	23	10	25	41	1.86
4549730--4549764	2	17.5	2	93	0	61	48	2	0	48	1.16
4551131--4551208	33	2.4	32	80	6	84	26	23	16	33	1.96
4551083--4551275	101	1.9	99	87	2	278	25	26	16	31	1.97
4554383--4554428	15	3.1	15	73	17	51	58	10	6	23	1.55
4592791--4592852	23	3.1	19	73	22	54	3	24	19	53	1.60
4593211--4593261	13	3.9	13	76	0	57	33	25	9	31	1.88
4594482--4594548	7	8.7	7	78	15	53	74	1	2	20	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4595092--4595128	16	2.3	16	95	0	65	5	43	40	10	1.63
4596032--4596723	82	8.4	82	93	0	1080	22	20	25	32	1.98
4597018--4597055	16	2.5	15	87	8	58	34	7	21	36	1.82
4610029--4610095	7	8.7	7	78	15	53	74	1	2	20	1.03
4614708--4614833	66	1.9	66	91	0	207	37	11	23	26	1.90
4625112--4625168	6	10.2	6	78	14	59	36	1	10	50	1.47
4625107--4625165	27	2.1	28	90	3	93	35	3	8	52	1.49
4629207--4629236	2	15.0	2	92	0	51	53	0	0	46	1.00
4630537--4630566	2	15.0	2	92	0	51	53	0	0	46	1.00
4639452--4639480	2	15.0	2	92	7	51	51	0	0	48	1.00

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