genome.fa.s4.2.7.7.80.10.50.1000.14.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  14  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)
4460998--4461030	2	16.5	2	93	0	57	48	3	0	48	1.17
4475565--4475621	2	28.5	2	100	0	114	49	0	0	50	1.00
4479392--4479442	18	2.7	20	82	14	63	62	13	0	23	1.31
4480616--4480659	21	2.0	22	82	4	54	63	13	0	22	1.29
4486195--4486235	20	2.1	19	86	4	55	63	4	4	26	1.35
4486898--4487015	35	3.4	34	79	6	123	38	27	14	18	1.90
4501130--4501170	21	2.0	21	85	0	55	26	24	21	26	2.00
4505410--4505485	37	2.0	38	82	12	93	26	11	26	35	1.91
4509246--4509352	38	2.7	40	84	5	146	23	39	16	20	1.92
4509866--4509904	20	2.0	20	90	10	62	51	30	0	17	1.46
4511915--4512039	36	3.7	36	76	13	106	30	38	11	20	1.87
4516349--4516382	12	2.7	13	86	9	52	0	32	0	67	0.91
4536800--4536897	42	2.5	38	83	6	115	25	8	20	45	1.78
4536854--4537055	83	2.4	84	79	7	207	26	9	15	48	1.75
4536909--4537048	42	3.4	41	72	7	113	26	9	12	51	1.70
4537653--4537689	19	1.9	19	94	0	65	21	29	0	48	1.50
4538308--4538460	26	6.0	26	74	6	114	39	12	14	33	1.83
4538308--4538454	51	2.9	51	83	2	179	40	12	12	33	1.82
4539226--4539268	2	22.5	2	81	9	54	48	0	0	51	1.00
4545247--4545420	29	5.9	28	80	9	177	39	10	12	38	1.77
4545247--4545420	59	3.0	58	84	4	224	39	10	12	38	1.77
4545562--4545594	17	1.9	17	88	11	50	36	6	15	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4552557--4552581	2	12.5	2	100	0	50	52	0	48	0	1.00
4562579--4562608	15	2.0	15	100	0	60	53	6	20	20	1.67
4565832--4565856	13	1.9	13	100	0	50	48	8	0	44	1.32
4570202--4570252	25	2.0	25	96	0	93	25	3	13	56	1.54
4581311--4581383	34	2.1	35	87	2	103	34	27	10	27	1.90
4595572--4595615	22	2.0	22	81	0	52	31	18	13	36	1.90
4599694--4599729	17	2.0	19	89	10	58	25	16	5	52	1.65
4610014--4610054	21	2.0	21	90	0	64	9	46	17	26	1.79
4610391--4610653	132	2.0	130	97	2	492	31	6	16	44	1.74
4616037--4616149	37	3.1	37	89	7	176	25	36	9	28	1.88
4620226--4620269	23	1.9	23	85	0	61	2	27	0	70	0.99
4623408--4623462	28	2.0	28	92	0	92	61	18	1	18	1.43
4624955--4624997	21	2.2	20	87	8	61	58	2	30	9	1.42
4631258--4631299	20	2.2	19	87	8	59	42	16	19	21	1.89
4631709--4631780	35	2.1	35	83	0	90	30	8	26	34	1.86
4636029--4636077	24	2.0	24	100	0	98	53	16	12	18	1.73
4640809--4640841	17	1.9	17	88	11	50	42	12	3	42	1.57
4640992--4641440	29	15.6	28	79	6	418	38	11	10	38	1.76
4641002--4641440	28	15.3	28	79	6	216	38	12	10	38	1.76
4641002--4641440	57	7.6	56	78	8	393	38	12	10	38	1.76
4642854--4642967	37	3.1	37	82	7	160	25	33	9	31	1.88
4643761--4643835	25	3.2	25	65	27	74	50	4	38	6	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4643754--4643845	44	2.1	44	100	0	184	47	4	39	8	1.54
4660283--4660316	18	1.9	17	88	5	50	55	8	11	23	1.63
4661517--4661558	22	1.9	22	85	0	57	64	4	2	28	1.26
4661944--4661989	23	2.0	23	95	0	83	36	21	19	21	1.95
4663031--4663062	16	2.0	16	93	0	55	31	12	9	46	1.73
4670484--4670524	19	2.2	20	82	13	59	51	0	2	46	1.14
4672213--4672315	42	2.5	42	90	3	154	21	26	30	22	1.99
4672215--4672334	42	2.9	42	87	2	143	23	25	29	22	1.99
4672376--4672422	2	23.0	2	95	4	85	48	0	2	48	1.13
4673939--4674054	61	1.9	61	83	0	151	26	28	24	20	1.99
4675334--4675452	43	2.8	43	85	5	152	21	37	18	21	1.94
4680436--4680478	20	2.2	20	86	0	59	23	2	6	67	1.27
4683197--4683249	26	2.0	26	92	0	88	35	26	30	7	1.84
4692002--4692040	12	3.2	13	85	10	55	74	0	0	25	0.82
4692010--4692040	15	2.0	15	93	6	53	74	0	0	25	0.82
4693047--4693081	2	17.5	2	93	0	61	48	0	0	51	1.00
4694920--4694956	18	2.1	18	89	0	56	70	0	29	0	0.88
4697826--4697919	9	10.4	9	88	0	143	40	20	10	28	1.86
4698164--4698219	18	3.1	18	82	10	69	39	17	8	33	1.81
4702918--4703402	245	2.0	244	91	0	790	38	12	16	31	1.87
4709584--4709656	29	2.4	30	84	4	94	46	16	9	27	1.78
4709993--4710139	45	3.2	45	89	4	215	42	10	7	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4713860--4713899	20	2.0	20	85	0	53	17	40	7	35	1.78
4714704--4714796	43	2.2	43	96	0	168	23	16	35	24	1.95
4714699--4714836	43	3.1	46	83	9	151	23	14	34	27	1.94
4721130--4721173	2	22.0	2	100	0	88	50	0	50	0	1.00
4721928--4722020	43	2.2	43	88	3	134	24	13	34	26	1.93
4728568--4728605	20	2.0	20	94	5	69	21	21	15	42	1.89
4729399--4729510	43	2.6	43	85	0	161	24	19	35	20	1.96
4729845--4729890	21	2.2	21	84	7	58	23	26	21	28	1.99
4729867--4730016	60	2.5	61	90	1	221	24	19	22	34	1.97
4733190--4733236	22	2.1	22	84	11	60	23	14	8	53	1.69
4733523--4733698	67	2.6	67	87	3	239	35	26	14	24	1.93
4733551--4733698	35	4.4	32	77	12	145	34	27	14	22	1.94
4734109--4734151	20	2.2	20	82	0	50	20	20	11	46	1.82
4734557--4734594	17	2.2	17	95	0	67	7	34	23	34	1.84
4739268--4739389	43	2.8	43	86	4	158	22	32	17	27	1.96
4740902--4740926	2	12.5	2	100	0	50	52	48	0	0	1.00
4741827--4741864	19	2.0	20	94	5	69	36	15	26	21	1.93
4742820--4742859	20	2.0	20	90	0	62	40	10	35	15	1.80
4747915--4748011	32	2.9	33	80	9	117	31	30	11	25	1.91
4747915--4748041	67	1.9	67	86	3	184	33	29	12	24	1.92
4747915--4748041	35	3.8	33	75	9	96	33	29	12	24	1.92
4754433--4754473	15	2.7	15	85	10	57	21	2	19	56	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4759591--4759667	29	2.6	29	75	4	73	46	14	7	31	1.72
4759994--4760096	45	2.3	45	91	1	161	41	10	8	38	1.71
4766236--4766273	20	1.9	20	88	0	58	39	18	10	31	1.85
4769932--4769964	2	16.5	2	93	0	57	0	45	0	54	0.99
4770547--4770573	2	13.5	2	100	0	54	51	0	0	48	1.00
4778075--4778133	27	2.2	27	82	11	68	27	0	10	62	1.27
4785294--4785367	34	2.1	35	82	2	87	36	10	25	27	1.89
4786861--4787101	68	3.5	68	89	1	331	38	9	13	38	1.78
4786844--4787156	68	4.6	68	84	2	202	38	10	14	37	1.81
4786838--4787172	136	2.5	134	78	4	330	38	10	15	36	1.81
4799373--4799505	64	2.1	63	78	8	137	36	10	17	35	1.84
4802014--4802061	24	2.0	24	84	8	62	20	27	14	37	1.92
4810011--4810065	27	2.0	27	100	0	110	29	7	14	49	1.70
4818910--4818956	16	2.8	17	80	6	51	48	0	46	4	1.21
4818970--4819298	180	1.8	180	86	2	473	25	11	13	48	1.76
4820176--4820225	24	2.1	24	100	0	100	46	18	12	24	1.82
4824199--4824227	9	3.2	9	100	0	58	10	27	20	41	1.85
4832412--4832449	19	2.0	19	94	0	67	28	0	28	42	1.56
4836661--4836757	43	2.3	43	89	3	142	23	32	16	26	1.96
4854895--4854954	28	2.1	28	81	0	66	36	21	13	28	1.91
4856546--4856667	43	2.8	43	87	2	165	24	18	37	19	1.94
4863247--4863271	12	2.1	12	100	0	50	52	0	32	16	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4863932--4863970	14	2.8	14	96	0	69	25	20	23	30	1.98
4868079--4868117	21	1.9	20	89	5	60	7	5	2	84	0.84
4869498--4869531	15	2.3	15	89	0	50	41	8	35	14	1.77
4870880--4870920	3	13.7	3	94	0	73	36	0	29	34	1.58
4880726--4880794	35	2.0	34	82	2	84	24	13	26	36	1.92
4891975--4892174	72	2.8	72	85	0	247	41	17	20	21	1.90
4917071--4917111	20	2.1	19	90	4	64	68	0	31	0	0.90
4921147--4921282	68	2.0	69	88	1	202	35	22	11	31	1.89
4923888--4923934	20	2.3	20	85	10	69	44	25	0	29	1.54
4925168--4925222	29	1.9	29	89	10	87	23	23	23	29	1.99

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