genome.fa.s5.2.7.7.80.10.50.1000.11.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  11  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)
4277104--4277174	32	2.2	33	87	7	110	32	23	12	30	1.92
4287078--4287110	2	16.5	2	100	0	66	51	0	0	48	1.00
4287378--4287402	6	4.2	6	100	0	50	16	0	20	64	1.30
4293159--4293208	3	16.7	3	79	8	57	32	4	36	28	1.76
4303774--4303815	14	3.1	14	80	13	52	52	7	0	40	1.29
4315008--4315046	19	2.1	19	90	0	60	61	2	0	35	1.10
4324695--4324733	20	2.0	20	85	10	53	48	0	0	51	1.00
4327707--4327740	17	2.0	17	88	11	52	41	5	0	52	1.25
4328079--4328173	30	3.2	30	82	7	104	48	9	7	34	1.64
4333876--4333953	33	2.4	33	89	4	122	34	1	19	44	1.59
4338685--4338774	2	42.5	2	91	4	117	45	1	46	5	1.33
4343258--4343344	32	2.8	31	81	11	99	50	12	18	18	1.77
4343292--4343356	29	2.1	31	83	8	80	49	7	21	21	1.74
4343721--4343750	11	2.6	11	94	5	51	80	0	20	0	0.72
4343906--4343956	21	2.5	20	78	15	61	70	3	21	3	1.20
4344120--4344163	23	1.9	23	86	9	63	43	0	2	54	1.12
4345247--4345333	29	3.0	29	75	8	77	54	6	14	24	1.65
4345896--4345941	22	2.0	24	84	12	62	13	10	2	73	1.17
4349813--4349972	67	2.4	67	86	4	207	34	26	13	25	1.93
4349841--4349975	35	4.0	34	73	9	107	36	27	12	23	1.91
4356208--4356840	317	2.0	316	97	0	1178	31	19	10	38	1.86
4357970--4358121	35	4.6	32	76	8	142	34	25	13	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4357933--4358121	67	2.8	67	86	1	236	33	25	13	27	1.94
4359637--4359686	19	2.8	18	85	8	59	68	4	0	28	1.08
4360344--4360400	28	2.1	27	83	6	71	36	14	19	29	1.91
4362557--4362589	12	2.8	12	90	4	50	48	0	0	51	1.00
4364697--4364771	27	2.8	28	84	9	95	41	12	20	26	1.87
4365566--4365672	7	14.1	7	73	16	72	78	2	1	16	0.96
4365612--4365671	8	7.6	8	78	10	70	85	0	1	13	0.69
4365567--4365671	23	4.2	24	71	19	63	80	2	1	15	0.93
4365566--4365671	16	6.4	16	70	12	72	79	2	1	16	0.94
4365634--4365664	9	3.6	9	95	4	55	90	0	0	9	0.46
4365899--4365927	1	29.0	1	100	0	58	0	0	100	0	0.00
4374509--4374561	26	2.0	26	100	0	106	26	33	11	28	1.91
4382476--4383150	62	10.9	62	86	3	837	28	13	21	36	1.91
4383401--4383487	30	2.9	29	77	19	88	78	2	2	17	0.97
4383400--4383493	39	2.4	40	83	13	108	77	3	2	17	0.99
4383881--4383928	18	2.7	18	80	6	53	72	10	2	14	1.19
4384571--4384616	23	2.0	23	82	0	56	63	2	2	32	1.19
4384996--4385034	15	2.7	15	88	7	55	79	0	0	20	0.73
4385004--4385039	19	1.9	18	94	5	63	75	0	0	25	0.81
4387361--4387400	21	1.9	21	89	0	62	45	5	2	47	1.38
4389162--4389270	31	3.5	30	82	9	130	29	15	18	36	1.92
4389950--4389995	21	2.2	21	88	0	65	21	21	41	15	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4393133--4393497	118	3.1	116	88	1	523	22	18	30	29	1.97
4393332--4393405	31	2.4	31	77	8	78	22	13	32	31	1.93
4397363--4397436	31	2.4	31	86	4	105	40	20	13	25	1.89
4398122--4398518	94	4.2	93	82	3	422	25	29	16	27	1.97
4398122--4398518	141	2.8	140	82	5	487	25	29	16	27	1.97
4398122--4398545	47	9.0	47	81	5	378	25	29	16	28	1.96
4399150--4399184	7	5.3	7	90	10	56	77	0	0	22	0.78
4399137--4399203	11	6.4	11	70	19	54	73	0	1	25	0.92
4399547--4399576	10	3.0	10	90	0	51	83	0	0	16	0.65
4399612--4399672	32	1.9	31	87	9	88	14	3	24	57	1.53
4399816--4399875	25	2.4	25	86	8	77	70	0	30	0	0.88
4400189--4400225	5	7.6	5	91	8	51	78	0	2	18	0.87
4400484--4400523	3	13.3	3	83	0	53	62	2	0	35	1.09
4401248--4401282	17	2.1	17	94	0	61	80	0	0	20	0.72
4403130--4403158	2	15.0	2	92	7	51	51	0	0	48	1.00
4403132--4403157	13	2.0	13	100	0	52	53	0	0	46	1.00
4403130--4403158	15	1.9	15	100	0	58	51	0	0	48	1.00
4403842--4403966	62	2.0	65	84	4	166	34	12	17	36	1.87
4411012--4411131	37	3.3	37	85	4	163	30	8	37	24	1.85
4418672--4418777	38	2.7	37	81	8	122	22	16	37	23	1.93
4426755--4426794	18	2.2	18	95	0	71	0	30	0	70	0.88
4426765--4426794	15	2.1	14	93	6	51	0	26	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4431179--4431212	6	5.7	6	89	0	50	67	8	0	23	1.18
4431179--4431212	12	2.8	12	95	0	59	67	8	0	23	1.18
4440361--4440412	26	2.0	26	92	0	86	13	17	25	44	1.85
4450999--4451071	23	3.2	23	92	3	112	26	15	13	45	1.83
4469251--4469289	20	1.9	21	84	5	53	7	7	10	74	1.22
4469471--4469512	15	2.8	15	100	0	84	73	0	11	14	1.09
4482919--4482951	16	1.9	18	88	11	52	63	0	3	33	1.10
4488046--4488074	2	14.5	2	100	0	58	51	0	0	48	1.00
4489025--4489050	7	3.7	7	100	0	52	84	0	0	15	0.62
4510477--4510509	13	2.6	13	90	4	50	30	6	0	63	1.18
4526888--4526955	28	2.4	27	83	9	84	50	7	19	23	1.72
4527230--4527364	28	4.8	28	90	3	119	47	8	22	21	1.78
4527268--4527366	29	3.4	29	94	1	164	50	8	19	22	1.73
4527234--4527394	57	2.8	56	80	6	164	47	8	20	22	1.77
4529078--4529246	49	3.4	49	87	0	257	23	14	36	25	1.93
4530776--4530805	13	2.2	14	94	5	53	70	6	0	23	1.11
4537167--4537340	33	5.2	33	78	6	161	31	36	10	21	1.87
4537169--4537338	32	5.1	32	76	9	133	31	36	10	21	1.88
4537167--4537363	101	1.9	104	87	3	292	30	37	10	22	1.87
4538572--4538652	27	3.0	26	73	8	72	35	18	9	35	1.84
4539819--4539902	43	2.0	43	82	0	105	44	2	5	47	1.40
4539865--4539904	15	2.4	18	80	12	50	45	0	5	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4540725--4540793	30	2.3	29	87	7	95	65	1	4	28	1.21
4540957--4541013	30	1.9	30	92	0	96	31	3	15	49	1.62
4543778--4543848	31	2.4	28	88	6	97	40	4	1	53	1.29
4547856--4547909	23	2.3	23	96	0	99	44	5	9	40	1.60
4551912--4551994	33	2.5	32	88	7	121	68	1	1	28	1.04
4552214--4552276	15	4.2	15	72	0	54	38	14	3	44	1.61
4552674--4552900	122	1.9	121	85	2	321	40	13	10	35	1.79
4557709--4557940	114	2.0	114	87	3	333	34	9	22	34	1.86
4558918--4559030	59	1.9	58	91	5	183	44	8	0	46	1.35
4559090--4559197	34	3.3	34	82	7	118	46	9	0	43	1.42
4559145--4559247	45	2.3	46	86	1	136	46	4	1	46	1.35
4559215--4559261	18	2.4	20	89	10	71	48	0	2	48	1.13
4562150--4562312	84	1.9	84	83	4	213	43	8	17	30	1.79
4565995--4566035	13	3.3	13	86	13	52	17	0	7	75	1.02
4570989--4571028	21	1.9	21	89	0	62	25	20	17	37	1.94
4586503--4586553	16	3.1	16	85	2	75	19	35	17	27	1.94
4591860--4591884	13	1.9	13	100	0	50	52	0	0	48	1.00
4593027--4593069	15	2.9	14	83	10	50	25	2	18	53	1.56
4606816--4607008	73	2.7	74	82	4	223	23	20	21	35	1.96
4610442--4610476	11	3.2	11	87	0	52	0	0	17	82	0.66
4610443--4610475	17	1.9	17	93	0	57	0	0	18	81	0.68
4610716--4610751	12	2.9	12	91	4	54	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4610726--4610765	17	2.4	17	91	4	64	22	0	0	77	0.77
4610900--4610961	23	2.7	23	97	2	115	32	25	17	24	1.97
4615395--4615776	190	2.0	190	91	1	622	35	18	13	32	1.90
4617963--4618062	36	2.8	35	87	3	137	32	21	18	29	1.96
4619649--4619682	2	17.0	2	100	0	68	50	50	0	0	1.00
4621928--4621968	21	2.1	19	86	9	55	34	0	4	60	1.18
4627416--4627692	139	2.0	138	95	0	491	35	19	9	35	1.84
4628416--4628453	19	2.0	19	94	0	67	42	28	0	28	1.56
4629321--4629361	21	2.1	19	86	9	55	29	0	9	60	1.28
4632030--4632086	27	2.1	27	93	0	96	35	19	14	31	1.91

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