genome.fa.s4.2.7.7.80.10.50.1000.27.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  27  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)
9378005--9378039	3	11.7	3	93	0	61	34	28	0	37	1.58
9378132--9378226	45	2.1	45	88	3	138	23	30	16	29	1.96
9385320--9385397	37	2.1	37	90	0	120	28	10	35	25	1.89
9391094--9391124	16	1.9	16	93	0	53	54	3	6	35	1.42
9392269--9392319	19	2.8	17	85	11	57	78	0	21	0	0.75
9392395--9392435	7	6.1	7	80	8	50	68	0	31	0	0.90
9392339--9392494	69	2.2	70	80	10	160	55	4	37	2	1.34
9392474--9392523	20	2.5	19	90	6	73	68	0	32	0	0.90
9392555--9392595	10	3.9	10	87	6	55	82	2	14	0	0.76
9393388--9393565	60	3.0	59	89	3	259	25	17	33	23	1.96
9414333--9414372	20	2.0	21	95	5	73	60	0	40	0	0.97
9414398--9414454	14	4.0	14	77	4	60	78	7	12	1	1.01
9426339--9426446	39	2.8	39	85	2	139	22	15	37	24	1.93
9451763--9451797	17	2.1	17	94	0	61	31	22	37	8	1.85
9460007--9460100	46	2.0	46	97	0	179	41	21	13	23	1.89
9465605--9465710	32	3.2	32	74	17	117	33	28	15	23	1.95
9465578--9465751	67	2.6	67	84	7	246	33	27	13	25	1.93
9465622--9465733	35	3.3	33	78	12	129	31	25	15	27	1.95
9467117--9467155	19	2.0	20	85	14	55	12	41	0	46	1.42
9474707--9474825	43	2.8	43	85	2	150	24	17	36	21	1.95
9474835--9474894	23	2.6	23	91	0	93	23	3	41	31	1.71
9475246--9475287	21	2.0	21	85	0	57	30	14	30	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9480505--9480653	35	4.5	32	76	13	140	38	27	11	22	1.89
9480479--9480653	67	2.6	67	85	3	237	36	26	12	25	1.91
9483942--9483974	17	1.9	17	93	0	57	78	0	0	21	0.75
9484605--9484659	20	2.8	18	76	15	56	45	5	1	47	1.36
9492907--9492952	15	3.1	15	78	15	51	45	13	17	23	1.83
9493726--9493844	37	3.2	37	83	7	170	24	35	10	30	1.88
9498245--9498284	20	2.0	20	85	5	53	72	5	2	20	1.15
9498256--9498303	20	2.4	20	85	0	60	68	6	2	22	1.23
9498266--9498340	27	2.6	30	80	19	88	66	8	0	25	1.18
9503089--9503141	28	1.9	27	88	3	79	28	22	18	30	1.98
9503186--9503231	20	2.3	20	88	7	67	45	17	4	32	1.68
9503656--9503819	29	5.5	28	78	9	157	36	8	13	41	1.75
9503653--9503818	59	2.8	58	83	5	190	37	9	13	40	1.76
9503970--9504002	17	1.9	17	88	11	50	39	3	15	42	1.62
9507975--9508022	2	23.5	2	79	12	53	45	0	6	47	1.27
9513170--9513198	14	2.0	15	93	6	51	51	6	20	20	1.70
9532741--9532828	39	2.3	39	88	4	124	39	22	15	21	1.91
9533186--9533309	42	3.0	42	92	0	203	20	32	23	23	1.98
9534642--9534680	18	2.2	18	85	0	51	69	2	2	25	1.14
9539043--9539194	54	2.9	53	90	5	245	23	44	13	19	1.86
9539344--9539375	2	16.0	2	100	0	64	50	0	0	50	1.00
9543259--9543373	43	2.7	43	86	0	149	24	20	35	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9543612--9543667	21	2.7	21	67	10	51	25	19	21	33	1.97
9545484--9545632	66	2.3	66	92	0	244	29	28	12	29	1.93
9545518--9545622	31	3.3	31	65	15	77	31	26	14	27	1.95
9547414--9547530	42	2.8	42	84	0	135	24	21	30	23	1.99
9553624--9553713	39	2.3	39	82	0	108	40	17	14	27	1.89
9576536--9576584	19	2.6	19	81	12	64	46	2	34	16	1.58
9578030--9578084	2	27.5	2	100	0	110	50	49	0	0	1.00
9580218--9580257	2	20.0	2	94	0	71	52	0	47	0	1.00
9583678--9583821	74	1.9	75	87	4	211	18	6	23	50	1.71
9592757--9592797	3	13.7	3	100	0	82	68	0	0	31	0.90
9593579--9593629	16	3.2	16	76	18	61	50	0	1	47	1.12
9593652--9593704	27	2.0	26	85	3	70	49	7	0	43	1.31
9593837--9593886	26	1.9	26	95	0	91	62	0	2	36	1.07
9593833--9593874	19	2.2	20	83	12	52	61	0	2	35	1.09
9593949--9593975	12	2.2	12	100	0	54	51	0	37	11	1.37
9596094--9597754	840	2.0	839	82	3	2052	33	18	15	32	1.92
9605266--9605298	5	6.4	5	96	3	57	81	0	0	18	0.68
9612060--9612098	2	19.5	2	100	0	78	51	0	48	0	1.00
9612342--9612370	8	3.8	8	95	4	51	20	0	0	79	0.74
9616245--9616293	23	2.1	23	88	0	71	28	38	6	26	1.80
9616303--9616405	43	2.4	43	83	3	127	21	35	18	24	1.95
9619227--9619262	18	2.0	18	88	0	54	30	13	8	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9625807--9625866	25	2.4	25	83	5	68	30	31	13	25	1.93
9628299--9628337	19	2.1	19	90	9	62	41	5	0	53	1.23
9628710--9628905	75	2.6	74	83	2	259	21	17	19	41	1.90
9630005--9630093	21	4.2	21	81	8	110	24	19	22	33	1.97
9632065--9632111	22	2.1	23	84	11	62	48	17	6	27	1.71
9634124--9634250	36	3.5	36	87	9	161	28	35	14	22	1.93
9636317--9636412	48	2.0	48	95	0	174	36	17	13	32	1.89
9640971--9640995	2	12.5	2	100	0	50	48	0	0	52	1.00
9641030--9641112	37	2.2	38	89	2	132	27	10	36	25	1.89
9650045--9650154	43	2.6	43	82	2	123	20	35	18	25	1.95
9659884--9660046	73	2.2	72	78	10	163	39	17	21	20	1.92
9664129--9664154	2	13.0	2	100	0	52	50	0	0	50	1.00
9665841--9665882	20	2.2	19	84	16	52	30	2	26	40	1.69
9670651--9670768	52	2.3	52	100	0	236	38	15	11	33	1.84
9676460--9676494	15	2.2	16	90	5	54	25	0	8	65	1.21
9678272--9678437	43	3.9	43	82	1	190	25	18	33	22	1.97
9705275--9705438	43	3.9	43	88	5	235	23	32	17	26	1.96
9705275--9705438	85	1.9	84	86	4	231	23	32	17	26	1.96
9707661--9707946	61	4.7	61	86	0	383	27	29	17	25	1.98
9714893--9715115	61	3.7	61	88	0	338	25	31	20	22	1.98
9718699--9718830	42	3.1	42	89	5	203	24	36	17	21	1.95
9720471--9720509	20	2.0	20	84	0	51	15	35	0	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9720813--9720912	49	2.0	49	98	0	191	38	14	20	28	1.91
9725211--9725378	55	3.0	55	80	6	187	20	14	39	24	1.91
9731621--9731805	68	2.7	69	80	6	198	35	12	20	31	1.91
9731679--9731814	67	2.0	68	84	4	177	38	11	19	30	1.87
9733457--9733575	43	2.8	43	80	5	116	26	15	34	23	1.95
9741198--9741361	75	2.3	68	77	15	186	41	16	9	32	1.81
9741224--9741385	75	2.2	74	87	3	245	40	17	8	33	1.79
9747649--9747825	39	4.6	39	85	2	189	25	34	14	24	1.94
9748962--9749010	20	2.4	20	86	10	64	0	32	0	67	0.91
9763126--9763163	20	2.0	20	94	5	69	21	26	15	36	1.93
9769122--9769162	21	1.9	22	85	5	57	19	24	7	48	1.74
9777201--9777241	21	1.9	22	90	5	66	17	24	7	51	1.70
9777255--9777293	11	3.8	11	83	16	57	0	23	7	69	1.14
9798388--9798423	2	18.0	2	88	0	54	44	2	2	50	1.31
9798464--9798659	42	4.7	42	82	3	225	20	34	20	23	1.96
9800936--9801143	101	2.1	101	87	0	299	29	15	19	36	1.92
9803405--9803501	39	2.5	39	84	3	115	25	16	36	21	1.94
9805292--9805337	24	1.9	24	83	16	60	8	21	2	67	1.29
9810117--9810293	43	4.1	43	81	7	189	27	17	33	22	1.96
9813793--9813847	21	2.6	21	94	0	92	23	27	20	29	1.99
9814872--9814911	20	2.0	20	85	0	53	40	7	35	17	1.78
9819804--9819936	42	3.1	43	90	5	218	24	34	17	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9821630--9821698	30	2.3	30	92	0	111	36	4	7	52	1.49
9824370--9824491	60	2.1	59	83	6	149	37	10	18	33	1.85
9824477--9824568	37	2.5	37	85	3	123	35	14	19	30	1.91
9834860--9834899	20	2.0	20	95	0	71	37	10	37	15	1.80
9839584--9839631	25	1.9	25	87	8	71	29	16	25	29	1.97
9839648--9839707	32	1.9	31	93	3	102	30	16	26	26	1.97
9846943--9847052	57	1.9	57	90	0	175	20	19	40	20	1.92
9850513--9850629	35	3.4	35	84	4	141	46	12	5	35	1.67
9854963--9855104	35	4.1	35	86	0	167	32	29	11	26	1.91
9855038--9855114	35	2.2	35	83	0	100	29	33	7	28	1.85

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