genome.fa.s4.2.7.7.80.10.50.1000.40.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  40  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)
14865171--14865199	15	1.9	15	100	0	58	20	3	20	55	1.58
14872957--14872982	11	2.4	11	100	0	52	26	7	30	34	1.85
14877556--14877596	21	1.9	21	85	5	55	19	24	7	48	1.74
14890611--14890939	145	2.3	145	85	1	435	31	22	16	29	1.96
14893095--14893195	31	3.3	31	72	5	96	24	34	15	24	1.95
14893085--14893256	62	2.8	62	83	1	202	29	31	13	25	1.94
14893127--14893226	31	3.2	31	68	10	78	29	32	16	23	1.95
14900306--14900347	19	2.2	19	83	8	50	59	0	19	21	1.38
14901068--14901184	2	58.5	2	91	0	189	47	1	2	47	1.25
14901290--14901360	37	1.9	37	85	0	97	21	21	30	26	1.98
14904389--14904546	73	2.2	73	79	6	169	39	18	21	20	1.93
14905287--14905584	86	3.5	86	83	4	357	29	28	17	25	1.97
14909353--14909510	31	5.1	31	87	1	185	36	21	15	27	1.93
14909851--14909979	63	2.0	64	86	1	179	34	16	30	18	1.93
14912467--14912594	7	18.6	7	73	14	81	1	17	3	78	0.96
14912461--14912594	8	16.5	8	70	20	57	1	17	2	77	0.97
14912467--14912521	26	2.2	26	86	3	76	1	10	3	83	0.84
14912461--14912594	12	11.4	12	68	14	75	1	17	2	77	0.97
14913487--14913526	18	2.2	18	90	0	62	52	17	7	22	1.69
14917687--14917747	26	2.3	26	88	0	95	36	36	1	26	1.66
14917757--14917909	43	3.6	43	88	1	209	22	36	17	23	1.95
14927259--14927332	35	2.1	35	85	7	98	27	0	13	59	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14937369--14937425	29	2.0	29	82	6	71	19	43	21	15	1.87
14938740--14938822	30	2.8	30	96	0	148	27	18	16	37	1.92
14939031--14939069	11	3.5	11	92	3	60	38	20	7	33	1.81
14939160--14939195	15	2.4	15	100	0	72	25	11	16	47	1.79
14942136--14942184	21	2.3	21	89	0	80	16	14	30	38	1.88
14942174--14942505	26	13.5	26	75	8	277	25	13	23	36	1.92
14942153--14942505	95	3.6	95	79	3	364	25	13	24	37	1.92
14942293--14942375	21	3.6	22	83	8	87	25	18	25	31	1.97
14942488--14942596	23	4.8	23	82	2	121	27	12	25	33	1.93
14942466--14942597	46	2.8	45	82	4	147	27	12	25	34	1.92
14942628--14942676	21	2.3	21	85	3	62	44	22	8	24	1.79
14943827--14943862	17	2.1	17	100	0	72	52	5	11	30	1.59
14944675--14944730	24	2.4	23	82	5	67	32	1	3	62	1.23
14961054--14961199	5	28.4	5	71	20	97	23	1	0	73	0.96
14961079--14961200	4	31.5	4	71	21	50	24	0	0	73	0.88
14961134--14961200	19	3.4	19	83	4	80	20	0	0	79	0.74
14961085--14961214	44	2.9	45	78	12	135	24	0	0	73	0.87
14961073--14961214	40	3.3	41	76	16	135	25	0	0	73	0.88
14961010--14961210	14	14.4	14	67	23	79	24	0	1	71	1.02
14961073--14961210	68	2.0	68	80	13	151	25	0	0	73	0.88
14961135--14961215	34	2.3	35	85	4	110	22	0	0	77	0.76
14962387--14962481	35	2.7	35	93	1	163	32	34	10	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14962461--14962549	37	2.4	37	98	1	171	25	49	13	11	1.75
14965059--14965083	2	12.5	2	100	0	50	0	0	48	52	1.00
14965654--14965709	2	28.0	2	77	0	58	44	5	5	44	1.49
14965654--14965709	16	3.5	16	85	0	76	44	5	5	44	1.49
14966210--14966400	55	3.6	55	86	4	250	25	37	15	21	1.92
14985553--14985585	10	3.4	10	87	8	50	0	30	0	69	0.88
14986952--14986991	19	2.1	19	95	0	71	37	10	37	15	1.80
14987622--14987701	40	2.0	40	90	0	124	32	15	11	41	1.82
15001238--15001370	42	3.1	42	89	3	196	24	16	33	24	1.96
15001399--15001439	2	20.5	2	94	0	73	51	0	0	48	1.00
15001907--15001946	19	2.1	19	90	0	62	27	27	25	20	1.99
15007816--15007889	28	2.6	28	89	4	105	31	14	14	39	1.87
15007895--15007933	17	2.4	17	86	4	53	56	12	2	28	1.50
15008077--15008194	60	2.0	60	91	3	193	46	15	9	28	1.76
15010534--15010573	18	2.2	18	95	0	71	70	5	12	12	1.33
15018166--15018207	20	2.2	20	87	8	61	21	19	16	42	1.89
15028778--15028832	27	2.0	28	82	7	67	25	20	23	30	1.98
15030986--15031028	19	2.3	18	81	14	52	18	4	9	67	1.36
15043048--15043074	2	13.5	2	100	0	54	48	0	51	0	1.00
15046285--15046328	15	3.0	14	75	12	52	45	6	13	34	1.70
15050167--15050205	16	2.4	16	91	4	60	87	5	7	0	0.68
15050163--15050212	21	2.4	21	83	12	68	84	4	12	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15050662--15050690	2	14.5	2	100	0	58	51	0	0	48	1.00
15050742--15050776	2	18.5	2	88	11	56	54	0	0	45	0.99
15050739--15050777	20	2.0	20	100	0	78	56	0	0	43	0.99
15053267--15053475	105	2.0	104	94	0	355	22	13	24	39	1.90
15068169--15068214	21	2.2	20	84	7	56	15	21	6	56	1.61
15068174--15068214	21	1.9	22	90	5	66	17	24	7	51	1.70
15072905--15073022	42	2.8	42	89	0	173	22	20	32	24	1.98
15073069--15073102	2	17.0	2	87	0	50	47	2	0	50	1.16
15076000--15076064	22	3.0	21	88	6	103	27	7	24	40	1.82
15081963--15082001	20	2.0	19	90	10	53	15	10	20	51	1.72
15093905--15094009	40	2.6	40	95	0	192	19	19	37	24	1.94
15098262--15098329	31	2.2	31	80	10	77	48	5	26	19	1.71
15098270--15098329	31	1.9	32	83	6	79	46	6	26	20	1.75
15098812--15098853	22	1.9	22	85	9	59	47	0	26	26	1.52
15098994--15099019	13	2.0	13	100	0	52	76	0	23	0	0.78
15103803--15103827	10	2.5	10	100	0	50	36	0	12	52	1.39
15106412--15106459	22	2.2	22	85	3	62	25	20	4	50	1.66
15118277--15118380	28	3.7	28	83	6	138	31	18	16	33	1.93
15118253--15118374	56	2.2	56	86	2	165	31	20	15	32	1.94
15118271--15118393	28	4.4	28	75	12	108	34	21	13	30	1.93
15119898--15119940	19	2.3	18	84	4	59	53	0	4	41	1.21
15120302--15120343	2	22.5	2	81	13	54	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15123387--15123556	43	4.0	43	89	1	234	24	17	34	23	1.95
15128883--15129020	73	1.9	72	88	4	206	43	19	18	18	1.88
15128883--15129046	73	2.3	72	82	5	161	43	19	18	17	1.88
15135614--15135665	15	3.5	15	86	0	68	63	11	9	15	1.52
15144741--15144775	17	2.1	17	88	0	52	37	8	17	37	1.80
15144855--15144906	23	2.2	24	86	3	70	50	17	5	26	1.69
15149980--15150079	2	51.0	2	89	7	143	49	0	3	47	1.17
15154871--15154981	52	2.1	52	91	0	177	21	17	22	38	1.93
15162615--15162641	14	1.9	14	100	0	54	22	0	0	77	0.76
15165513--15165542	16	1.9	15	93	6	51	36	0	0	63	0.95
15165520--15165579	27	2.3	27	80	13	72	46	0	0	53	1.00
15165749--15165801	17	3.1	17	78	10	54	32	5	1	60	1.31
15171238--15171276	19	2.1	18	85	4	51	0	28	0	71	0.86
15174595--15174632	19	2.0	19	94	0	67	42	28	0	28	1.56
15175140--15175204	30	2.2	30	94	0	112	35	24	13	26	1.93
15176606--15176649	21	2.1	21	100	0	88	25	27	13	34	1.93
15179404--15179556	43	3.5	43	76	15	145	26	16	33	22	1.95
15186344--15186515	73	2.4	73	85	0	227	37	20	18	23	1.94
15186987--15187055	35	2.0	35	85	0	93	30	10	26	33	1.89
15193797--15193842	2	23.0	2	100	0	92	50	0	0	50	1.00
15193960--15194065	38	2.7	40	84	5	128	20	16	38	24	1.92
15199440--15199552	42	2.7	42	87	0	154	21	16	36	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15199599--15199646	2	24.0	2	100	0	96	50	0	0	50	1.00
15205188--15205323	73	1.9	73	83	6	177	41	20	19	19	1.91
15207254--15207405	69	2.2	69	85	2	198	31	26	18	23	1.97
15207471--15207662	80	2.4	80	81	1	215	29	25	17	28	1.98
15208726--15208792	21	3.2	21	63	12	57	43	17	8	29	1.80
15208721--15208823	41	2.5	41	95	0	188	40	18	10	30	1.84
15209020--15209050	16	1.9	16	100	0	62	70	16	0	12	1.16
15209788--15210057	49	5.5	50	76	8	200	22	15	17	44	1.86
15209788--15210057	147	1.8	147	80	7	325	22	15	17	44	1.86
15210740--15210791	24	2.1	24	82	7	59	71	5	5	17	1.26

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