genome.fa.s4.2.7.7.80.10.50.1000.13.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  13  of  82  ( 9773 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)
4130882--4130941	30	2.1	30	84	9	81	70	5	25	0	1.08
4135826--4135860	16	2.3	15	90	5	52	71	0	25	2	1.00
4139749--4140436	345	2.0	344	91	0	1117	35	18	15	30	1.92
4142699--4142772	37	1.9	39	91	8	125	31	6	10	51	1.63
4144964--4145190	122	1.9	122	84	3	305	28	16	19	34	1.94
4149190--4149226	2	18.5	2	100	0	74	48	0	0	51	1.00
4152763--4152917	43	3.6	43	95	0	274	48	1	38	11	1.48
4155251--4155277	2	13.5	2	100	0	54	51	0	0	48	1.00
4157139--4157347	115	1.8	116	83	5	280	39	12	14	33	1.84
4164985--4165023	20	2.0	20	85	10	53	28	2	41	28	1.69
4165229--4165282	21	2.6	21	100	0	108	25	24	25	24	2.00
4166195--4166317	61	2.0	61	90	3	194	17	22	30	28	1.97
4167646--4167756	59	1.9	59	83	3	145	16	28	9	45	1.77
4169796--4169832	2	18.0	2	94	5	65	48	2	0	48	1.15
4170220--4170281	25	2.4	25	86	8	79	24	17	32	25	1.97
4188066--4188131	33	2.0	33	87	0	96	31	15	21	31	1.94
4198480--4198649	55	3.1	54	78	9	173	24	38	16	21	1.93
4200841--4200978	39	3.6	39	87	4	158	25	36	13	24	1.91
4203129--4203255	36	3.5	36	85	2	166	21	11	37	29	1.89
4204579--4204623	16	2.6	16	82	10	54	0	28	0	71	0.87
4206573--4206611	19	2.1	19	90	0	60	30	28	23	17	1.97
4208813--4208853	21	1.9	22	90	5	66	51	7	24	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4208813--4208857	20	2.2	21	84	11	58	55	6	22	15	1.63
4208811--4208858	21	2.3	20	79	10	60	56	6	22	14	1.61
4211751--4211862	43	2.6	43	87	2	154	24	18	35	21	1.95
4223938--4224029	39	2.4	39	88	0	130	21	20	25	32	1.98
4226385--4226583	29	6.9	29	86	4	242	40	9	13	37	1.77
4226389--4226583	87	2.3	87	87	2	268	40	9	12	36	1.77
4226563--4226620	22	2.6	22	97	2	107	39	8	15	36	1.78
4231686--4231724	20	1.9	21	89	5	62	66	7	5	20	1.36
4233798--4233919	43	2.8	43	82	2	156	25	18	33	22	1.97
4237147--4237325	88	2.0	88	86	0	250	33	20	13	32	1.92
4253865--4254035	39	4.6	36	84	8	150	20	14	41	23	1.89
4253902--4254048	39	3.8	39	86	3	183	21	13	40	25	1.89
4255817--4255844	2	14.0	2	100	0	56	50	0	0	50	1.00
4258124--4258282	54	2.9	54	90	0	246	26	40	13	20	1.89
4263795--4263823	14	2.0	15	93	6	51	48	10	20	20	1.79
4264692--4264733	19	2.2	19	83	8	50	59	0	19	21	1.38
4265716--4265754	10	3.9	10	86	6	53	38	0	10	51	1.36
4265809--4266009	104	1.9	104	93	0	348	20	12	41	24	1.87
4265959--4266067	36	2.9	37	78	9	116	21	17	33	27	1.95
4266105--4266141	2	18.5	2	88	0	56	45	2	2	48	1.30
4266364--4266411	22	2.2	22	96	0	87	35	20	18	25	1.95
4266364--4266427	22	3.0	22	88	2	76	34	21	18	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4268170--4268237	21	3.2	21	82	2	82	39	16	17	26	1.90
4269923--4269978	4	13.8	4	75	17	53	25	3	0	71	1.02
4269898--4269947	16	3.2	15	75	10	55	18	4	2	76	1.04
4269918--4269977	22	2.7	21	76	7	66	25	3	0	71	1.01
4281167--4281209	20	2.2	20	82	0	50	46	11	20	20	1.82
4282133--4282314	70	2.6	70	82	5	197	21	21	17	39	1.93
4283982--4284903	253	3.7	252	79	7	918	48	6	10	34	1.63
4284247--4284724	239	2.0	239	83	2	611	48	4	12	34	1.62
4285758--4285818	4	14.8	4	74	6	50	47	4	1	45	1.34
4285759--4285828	16	4.3	16	71	8	61	48	5	1	44	1.35
4285825--4286078	55	4.7	52	72	15	158	50	3	4	42	1.38
4285852--4286078	55	4.2	53	72	13	160	50	3	3	42	1.36
4285778--4286155	162	2.3	161	85	2	486	48	4	3	42	1.41
4286046--4286086	21	2.0	21	85	9	57	39	4	0	56	1.21
4286053--4286147	34	2.8	34	81	12	106	44	7	2	46	1.43
4296276--4296385	37	3.0	37	79	1	114	27	33	11	27	1.92
4309551--4309590	21	1.9	21	89	0	62	30	17	20	32	1.95
4309796--4309841	22	2.1	22	84	8	58	41	13	8	36	1.75
4309875--4309958	21	3.9	21	81	4	96	52	13	4	29	1.60
4309875--4309959	43	2.0	43	85	0	116	51	14	4	29	1.62
4310046--4310093	21	2.2	22	88	3	71	50	16	2	31	1.57
4310059--4310120	21	3.0	21	82	0	70	48	19	9	22	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4310230--4310418	98	1.9	96	84	2	252	38	12	11	38	1.79
4312630--4312676	22	2.1	23	84	11	62	27	6	17	48	1.71
4318590--4318628	20	2.0	20	89	0	60	41	10	7	41	1.68
4318770--4318850	21	3.8	21	74	12	58	48	13	6	32	1.67
4318813--4318858	22	2.1	22	87	0	65	43	15	4	36	1.66
4318892--4318975	21	3.9	21	81	4	96	52	13	3	30	1.57
4318892--4318989	43	2.3	43	89	1	144	52	13	4	30	1.59
4318770--4319035	140	1.9	139	81	6	324	45	15	7	32	1.73
4322507--4322547	3	13.7	3	94	0	73	36	31	0	31	1.58
4322532--4322616	43	1.9	46	88	7	131	24	35	14	25	1.93
4326618--4326656	2	19.5	2	100	0	78	51	0	0	48	1.00
4327436--4327473	19	2.0	20	89	5	60	39	15	23	21	1.92
4329603--4329900	55	5.4	54	78	7	289	36	17	12	32	1.88
4329603--4329903	109	2.7	106	82	6	325	36	17	12	32	1.88
4329603--4329903	27	11.0	27	82	3	307	36	17	12	32	1.88
4331232--4331289	29	2.0	30	93	3	100	39	3	27	29	1.73
4332786--4332986	49	4.1	50	79	10	218	27	14	21	35	1.93
4339336--4339385	2	25.0	2	100	0	100	50	0	0	50	1.00
4339504--4339587	42	2.0	43	85	2	116	19	34	21	25	1.96
4345228--4345259	2	16.0	2	100	0	64	50	0	0	50	1.00
4352269--4352407	68	2.0	68	91	0	224	27	28	12	31	1.92
4355621--4356076	174	2.6	173	92	1	716	40	14	23	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4358556--4358593	19	1.9	20	84	10	51	36	0	0	63	0.95
4366811--4366863	19	2.8	19	97	0	97	26	32	0	41	1.56
4377331--4378014	85	8.1	85	87	3	950	41	4	13	41	1.64
4377427--4377459	13	2.5	13	90	9	50	45	0	12	42	1.41
4380688--4380741	25	2.2	25	82	0	63	40	1	9	48	1.46
4382603--4382679	38	2.1	37	87	4	118	41	2	14	40	1.59
4386891--4386944	25	2.2	25	82	0	63	40	1	9	48	1.46
4389514--4389547	18	1.9	17	94	5	59	23	0	2	73	0.97
4403090--4403327	62	4.0	59	84	5	266	23	31	17	26	1.97
4404775--4404826	3	17.7	3	81	15	56	30	0	0	69	0.89
4404777--4404826	14	3.7	14	80	19	54	30	0	0	70	0.88
4404775--4404826	27	2.0	26	88	3	77	30	0	0	69	0.89
4404768--4404832	11	5.4	12	74	18	55	27	1	0	70	0.96
4404794--4404842	23	2.1	23	81	7	55	26	2	0	71	0.97
4410311--4410674	62	6.0	62	86	2	454	23	31	17	28	1.97
4410311--4410674	123	3.0	122	85	5	454	23	31	17	28	1.97
4412133--4412169	17	2.2	17	90	9	58	27	0	0	72	0.84
4413891--4414087	86	2.3	86	79	5	202	43	8	9	39	1.67
4420748--4420785	16	2.3	17	86	13	53	21	26	0	52	1.47
4425508--4425585	40	2.0	40	87	5	113	20	21	24	33	1.97
4427915--4427949	17	2.0	18	88	5	54	20	0	5	74	1.02
4428121--4428196	36	2.1	35	87	2	116	35	10	19	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4446632--4446796	27	6.1	27	81	6	174	30	20	13	35	1.91
4447238--4447355	59	2.0	60	88	5	177	47	13	9	29	1.74
4450593--4450811	112	1.9	114	90	1	352	28	17	11	42	1.84
4451388--4451444	28	2.1	27	81	12	71	31	22	19	26	1.98
4452699--4452808	43	2.6	43	89	2	159	22	18	38	20	1.94
4452700--4452821	43	2.8	42	82	7	138	22	16	39	21	1.92
4452807--4452869	20	3.2	20	90	2	101	25	1	39	33	1.65
4460804--4460922	43	2.8	43	89	2	177	21	21	37	19	1.94
4460814--4460935	43	2.8	43	88	2	174	22	18	39	18	1.92
4460921--4460983	20	3.2	20	90	2	101	25	3	41	30	1.71

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