genome.fa.s11.2.7.7.80.10.50.1000.17.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: Chr12
Parameters: 2 7 7 80 10 50 1000
Length:  24583705

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   

This is table  17  of  75  ( 8944 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)
4813143--4813167	13	1.9	13	100	0	50	48	4	0	48	1.20
4814010--4814065	23	2.4	23	90	3	85	44	5	3	46	1.43
4817301--4817334	17	2.1	16	88	5	50	44	5	0	50	1.26
4817353--4817405	23	2.3	23	90	0	88	39	16	11	32	1.85
4819254--4819312	23	2.6	23	91	0	91	20	27	20	32	1.97
4821958--4822004	22	2.0	25	84	12	64	46	0	17	36	1.48
4829559--4829584	2	13.0	2	100	0	52	50	0	0	50	1.00
4838815--4838850	6	6.0	6	86	0	54	61	0	22	16	1.35
4838769--4838915	75	1.9	76	80	11	169	49	6	17	26	1.70
4845217--4845258	22	2.0	21	85	4	57	54	4	0	40	1.21
4846850--4846884	3	11.7	3	100	0	70	68	0	0	31	0.90
4848580--4848637	26	2.3	26	84	3	82	27	17	15	39	1.90
4861431--4861721	151	1.9	151	89	1	449	25	28	18	26	1.98
4864087--4864321	117	2.0	118	99	0	463	34	9	4	52	1.53
4864870--4864915	25	1.9	23	86	8	65	54	4	2	39	1.32
4866126--4866165	14	2.9	14	84	0	53	42	17	7	32	1.77
4866091--4866157	34	1.9	35	84	3	91	46	10	8	34	1.70
4868113--4868138	5	5.2	5	100	0	52	80	0	0	19	0.71
4868623--4868666	18	2.4	19	88	3	63	20	11	0	68	1.20
4871453--4871515	16	3.9	16	72	8	56	73	0	1	25	0.93
4871472--4871517	22	2.0	22	83	4	56	76	0	0	23	0.79
4871463--4871512	15	3.4	15	76	17	52	70	0	2	28	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4875859--4876054	51	3.9	50	77	4	196	30	28	17	23	1.97
4877361--4877414	16	3.4	15	87	10	72	40	7	24	27	1.81
4877931--4877981	24	2.1	24	82	7	59	25	7	1	64	1.31
4880242--4880278	17	2.2	17	100	0	74	67	5	16	10	1.38
4892459--4892495	3	12.7	3	83	16	51	67	0	32	0	0.91
4892459--4892491	17	1.9	17	88	11	50	66	0	33	0	0.92
4892522--4892554	12	2.5	13	90	9	50	72	0	21	6	1.05
4892459--4892554	14	6.8	14	70	16	56	63	1	29	6	1.25
4899502--4899534	13	2.5	13	95	0	57	18	0	12	69	1.18
4906662--4907000	169	2.0	170	99	0	671	51	10	14	22	1.73
4908901--4908975	38	2.0	38	94	0	132	32	12	6	49	1.66
4911247--4911321	23	3.3	23	92	0	123	34	26	21	17	1.95
4915487--4915542	19	3.1	18	82	7	60	50	5	0	44	1.25
4915479--4915539	28	2.2	28	82	5	70	47	6	0	45	1.28
4915622--4915792	84	2.0	85	98	1	335	28	10	11	49	1.71
4918213--4918336	43	2.9	43	82	0	167	34	26	15	23	1.94
4927922--4927994	36	2.0	37	97	2	139	26	8	5	60	1.47
4928525--4928692	89	2.0	84	82	10	207	45	29	1	23	1.60
4931293--4931381	40	2.3	40	90	3	137	24	22	23	29	1.99
4933738--4933806	18	3.7	19	74	14	65	52	1	2	43	1.25
4937510--4937542	17	1.9	17	93	0	57	9	0	27	63	1.24
4937667--4937828	80	2.0	80	100	0	324	24	29	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4942010--4942037	10	2.8	10	100	0	56	75	0	17	7	1.03
4941981--4942028	24	2.0	24	83	0	60	70	4	18	6	1.25
4946504--4946679	72	2.4	72	81	0	208	25	17	23	34	1.96
4950744--4950778	12	2.9	12	91	0	61	40	0	40	20	1.52
4956778--4956812	12	2.8	12	86	4	52	40	2	0	57	1.14
4958197--4958230	17	2.0	17	94	0	59	61	0	5	32	1.20
4958487--4958580	45	2.1	44	86	5	127	31	4	29	34	1.77
4958735--4958769	18	2.0	17	88	5	52	54	0	0	45	0.99
4967336--4967364	3	9.7	3	100	0	58	0	0	31	68	0.89
4968786--4968859	34	2.1	35	82	7	89	60	5	5	28	1.41
4969183--4969331	47	3.2	47	98	1	282	53	13	10	22	1.70
4985771--4985796	7	3.7	7	100	0	52	88	0	0	11	0.52
4987576--4987662	43	2.0	43	88	4	131	33	21	4	40	1.74
4988614--4988687	36	2.1	35	84	2	94	56	9	4	29	1.49
4990871--4990920	24	2.1	24	88	0	73	54	4	4	38	1.38
4992015--4992061	12	3.7	13	80	11	53	38	2	0	59	1.09
4993703--4993737	18	2.0	17	94	5	61	68	0	2	28	1.04
5001312--5001466	43	3.6	43	74	6	109	32	26	16	24	1.96
5001986--5002024	19	2.0	20	85	9	55	51	28	0	20	1.48
5005392--5005436	23	2.0	23	86	4	65	37	6	17	37	1.76
5007798--5007842	19	2.4	19	85	7	56	26	24	11	37	1.89
5012401--5012823	45	9.5	45	78	6	319	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5012411--5012823	90	4.6	89	81	3	429	31	18	23	25	1.98
5013044--5013457	132	3.1	131	85	5	548	29	18	25	26	1.98
5020067--5020198	45	2.9	45	89	0	183	33	17	25	24	1.96
5020086--5020153	21	3.1	21	69	10	64	35	22	22	20	1.96
5022493--5022539	20	2.3	20	82	7	60	29	8	0	61	1.25
5023480--5023522	17	2.5	17	85	7	61	41	9	4	44	1.57
5025780--5025839	31	2.0	31	93	3	104	41	13	5	40	1.66
5026698--5027002	123	2.4	124	84	5	375	34	14	23	28	1.93
5034584--5034617	6	5.7	6	100	0	68	32	0	0	67	0.91
5034586--5034626	18	2.3	18	87	8	57	36	2	0	60	1.10
5035194--5035490	147	2.0	148	99	0	587	50	10	5	32	1.60
5037189--5037228	16	2.5	16	87	0	53	32	2	0	65	1.06
5038920--5039010	27	3.2	28	83	10	114	43	10	26	18	1.83
5038921--5039009	28	3.2	28	84	7	110	42	11	26	19	1.84
5038954--5039001	13	3.5	13	72	10	51	37	12	31	18	1.88
5038958--5039037	30	2.8	28	81	7	97	45	12	25	17	1.83
5038958--5039067	58	1.9	58	83	7	143	45	10	25	19	1.81
5040661--5040760	52	1.9	52	100	0	200	30	8	7	55	1.56
5041749--5041867	21	5.7	21	72	0	76	47	20	18	14	1.83
5041739--5041867	42	3.1	41	82	4	143	46	19	18	15	1.84
5041826--5041881	21	2.7	21	86	5	69	48	16	17	17	1.82
5047008--5047034	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5047820--5047951	43	3.1	42	83	8	160	31	28	19	19	1.97
5048838--5048938	49	2.1	48	90	7	161	43	11	3	40	1.60
5050829--5050929	42	2.4	42	83	3	123	45	17	21	14	1.85
5050829--5050958	21	6.2	21	70	10	86	46	16	21	16	1.84
5050829--5050958	42	3.1	41	77	4	118	46	16	21	16	1.84
5051411--5052030	307	2.0	308	99	0	1224	40	16	7	35	1.76
5061956--5062048	24	3.9	24	70	16	66	31	20	16	32	1.94
5061945--5062036	48	1.9	48	86	0	130	29	20	16	33	1.94
5062709--5062771	31	2.0	31	100	0	126	41	6	12	39	1.69
5066816--5066855	20	1.9	20	85	10	53	62	5	0	32	1.17
5067925--5067950	2	13.0	2	100	0	52	0	50	0	50	1.00
5069676--5069718	22	2.0	22	86	9	61	62	0	4	32	1.15
5069689--5069730	22	2.0	21	85	4	57	66	0	7	26	1.17
5070486--5070532	9	5.0	9	78	16	51	34	0	12	53	1.39
5070655--5070794	40	3.5	40	74	8	117	26	16	24	32	1.96
5075849--5075976	43	3.0	43	79	15	156	32	30	16	21	1.95
5080117--5080170	25	2.1	27	89	6	85	31	22	22	24	1.98
5080134--5080188	25	2.2	25	83	0	65	36	20	21	21	1.95
5080858--5080889	5	6.2	5	92	7	55	40	18	0	40	1.51
5091405--5091441	16	2.3	16	90	0	56	48	0	5	45	1.25
5101381--5101413	17	1.9	17	100	0	66	48	0	9	42	1.35
5102487--5102582	45	2.1	46	88	3	140	47	3	6	42	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5107055--5107089	15	2.4	15	90	4	54	48	0	8	42	1.33
5108774--5108836	4	15.5	4	78	18	60	23	1	0	74	0.90
5108774--5108840	31	2.2	29	84	10	82	23	2	0	73	0.97
5110042--5110089	20	2.2	20	82	10	51	81	0	4	14	0.84
5110655--5110689	15	2.4	15	90	4	54	48	0	8	42	1.33
5111835--5111951	41	2.9	42	90	2	132	35	26	24	13	1.93
5112011--5112249	41	5.8	41	81	5	252	20	23	25	30	1.98
5112011--5112249	82	2.9	81	83	6	286	20	23	25	30	1.98
5112015--5112249	123	1.9	123	85	3	321	20	22	25	31	1.98
5113396--5113497	44	2.3	43	80	8	116	28	24	20	26	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