genome.fa.s7.2.7.7.80.10.50.1000.14.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  14  of  79  ( 9388 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)
4703839--4703882	20	2.2	20	92	4	72	63	4	0	31	1.14
4705248--4705289	20	2.1	20	95	0	75	33	11	14	40	1.82
4707600--4708565	44	22.0	44	76	7	703	29	22	16	31	1.96
4707630--4708569	89	10.7	89	81	7	958	29	22	16	31	1.96
4707602--4708569	177	5.5	174	79	8	851	29	22	16	31	1.96
4707630--4708565	347	2.7	346	81	7	951	29	22	16	31	1.96
4707602--4708569	266	3.7	263	85	5	1074	29	22	16	31	1.96
4720807--4720849	17	2.5	17	76	0	50	74	0	6	18	1.04
4724741--4724969	116	2.0	116	92	0	386	20	9	19	51	1.74
4734365--4734408	5	8.8	5	100	0	88	40	0	20	38	1.53
4737875--4738308	215	2.0	216	99	0	852	38	20	13	27	1.90
4744409--4744448	22	1.9	22	90	10	66	67	12	2	17	1.33
4744628--4744676	3	16.3	3	91	0	80	65	2	0	32	1.04
4747855--4747908	19	2.9	17	74	15	54	74	5	1	18	1.11
4747898--4747988	18	5.2	18	74	18	84	65	0	5	28	1.14
4747895--4748014	27	4.5	26	74	13	91	66	1	4	27	1.19
4748567--4748658	17	5.2	17	71	16	62	35	3	1	59	1.21
4752021--4752059	18	2.2	17	86	13	53	33	0	20	46	1.51
4752278--4752398	23	5.3	23	83	4	136	21	21	25	31	1.98
4752277--4752398	46	2.7	46	89	2	174	22	21	25	31	1.98
4755421--4755446	4	6.5	4	100	0	52	50	0	0	50	1.00
4757492--4757729	122	1.9	123	96	1	442	35	10	10	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4759896--4759922	2	13.5	2	100	0	54	0	51	0	48	1.00
4761454--4761478	11	2.3	11	100	0	50	48	8	24	20	1.76
4779557--4779617	30	2.0	30	100	0	122	13	16	19	50	1.77
4781079--4781122	18	2.8	17	77	22	51	6	11	4	77	1.11
4785058--4785117	31	2.0	31	90	3	95	38	10	16	35	1.82
4786042--4786079	20	1.9	20	88	0	58	57	7	0	34	1.28
4791216--4791259	23	1.9	23	95	0	79	36	38	0	25	1.56
4791231--4791261	16	1.9	16	93	0	53	35	38	0	25	1.56
4804480--4804507	2	14.0	2	100	0	56	50	0	0	50	1.00
4810703--4810755	21	2.5	21	81	0	70	30	33	9	26	1.88
4816517--4816575	3	19.3	3	85	3	82	38	1	0	59	1.08
4817940--4818043	33	2.9	38	75	16	103	20	19	22	38	1.94
4817963--4818037	33	2.3	33	90	0	114	21	17	21	40	1.92
4818032--4818078	6	7.7	6	81	13	60	17	17	17	48	1.81
4820260--4820430	64	2.6	63	78	7	173	45	12	21	20	1.84
4820237--4820430	33	6.0	31	76	10	160	45	13	21	19	1.84
4820241--4820430	97	2.0	95	85	6	258	44	13	21	20	1.85
4836903--4836960	25	2.4	24	82	2	71	32	13	24	29	1.94
4838064--4838088	11	2.3	11	100	0	50	64	0	0	36	0.94
4840019--4840065	25	1.9	24	95	0	76	31	17	34	17	1.92
4840048--4840165	50	2.4	50	78	16	129	36	16	27	18	1.93
4840112--4840165	25	2.2	25	83	6	65	38	18	25	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4843126--4843164	19	2.0	19	85	14	53	71	2	0	25	0.98
4843520--4843571	20	2.7	19	85	8	61	71	0	1	26	0.97
4843541--4843575	14	2.5	14	86	13	54	74	0	0	25	0.82
4853369--4853407	19	2.0	19	85	14	53	71	2	0	25	0.98
4853763--4853814	20	2.7	19	85	8	61	71	0	1	26	0.97
4853784--4853818	14	2.5	14	86	13	54	74	0	0	25	0.82
4859997--4860062	17	3.7	17	70	16	53	48	1	6	43	1.36
4860130--4860634	23	22.8	23	79	9	498	27	0	23	48	1.54
4860130--4860589	89	5.2	87	88	3	611	27	0	24	47	1.55
4860130--4860634	66	7.6	67	79	10	481	27	0	23	48	1.54
4860678--4860733	25	2.3	24	93	6	96	44	14	0	41	1.45
4862391--4862428	20	1.9	20	84	10	51	55	7	2	34	1.43
4869767--4869822	24	2.3	24	100	0	112	51	3	0	44	1.18
4870977--4871521	298	1.8	290	81	8	661	27	13	16	42	1.85
4881251--4881338	45	2.0	45	93	0	149	42	4	4	48	1.44
4892594--4892636	20	2.0	22	86	8	63	30	0	6	62	1.21
4895625--4895665	5	7.6	5	84	15	55	41	53	0	4	1.22
4895613--4895655	18	2.4	18	88	0	59	41	44	2	11	1.53
4895773--4895839	9	7.4	9	91	0	98	25	8	23	41	1.83
4896454--4896533	26	3.1	26	71	8	74	22	22	18	36	1.95
4896549--4896594	24	1.9	24	91	8	76	19	19	19	41	1.91
4896882--4896912	15	2.0	16	93	6	55	41	12	0	45	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4898582--4898613	16	2.0	16	93	0	55	25	15	0	59	1.36
4904209--4904301	48	1.9	48	86	0	132	21	16	19	43	1.88
4909049--4909119	36	2.0	36	94	0	124	30	8	18	42	1.80
4909344--4909439	48	2.0	48	89	0	147	20	17	20	40	1.91
4922935--4922985	3	17.3	3	77	18	54	68	0	31	0	0.90
4922935--4922984	20	2.5	20	87	9	66	68	0	32	0	0.90
4922934--4922985	14	3.8	14	87	7	72	67	0	32	0	0.91
4923172--4923208	19	1.9	19	100	0	74	32	0	18	48	1.49
4923262--4924275	49	20.7	49	96	1	1822	32	1	12	53	1.50
4924318--4924355	19	2.0	19	89	0	58	36	5	7	50	1.54
4924595--4924653	22	2.6	22	84	10	75	67	0	1	30	1.00
4924801--4924838	19	2.0	19	89	0	58	50	7	5	36	1.54
4928462--4928533	27	2.7	27	93	0	126	19	38	26	15	1.91
4935943--4936000	22	2.6	22	81	7	64	41	17	5	36	1.72
4935956--4936089	19	6.8	19	86	3	169	39	14	7	38	1.74
4935979--4936082	38	2.7	38	96	0	190	39	12	7	40	1.72
4936372--4936478	43	2.4	44	78	6	119	30	26	14	28	1.95
4940921--4940966	24	1.9	24	86	0	65	10	26	17	45	1.81
4944220--4944354	19	6.7	21	77	11	79	41	13	5	40	1.66
4944220--4944278	22	2.7	22	84	7	75	42	16	3	37	1.66
4944234--4944367	19	6.8	19	84	3	151	40	13	6	39	1.71
4944259--4944367	57	1.9	57	90	0	173	40	11	7	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4944257--4944360	38	2.7	38	92	0	172	40	11	6	41	1.68
4947938--4947999	28	2.2	28	80	2	81	66	1	0	32	1.02
4948417--4948468	24	2.2	24	89	0	77	53	7	1	36	1.41
4951180--4951222	21	2.0	21	86	8	61	37	2	4	55	1.33
4951223--4951280	31	1.9	29	82	6	71	39	3	5	51	1.41
4951250--4951366	62	1.9	62	84	5	159	41	3	5	49	1.41
4953817--4953923	53	2.0	54	98	1	207	42	14	3	39	1.64
4954739--4954872	41	3.2	41	82	7	139	27	25	19	27	1.99
4957903--4957963	28	2.1	30	81	6	72	21	40	26	11	1.87
4962235--4962303	25	2.8	25	93	0	120	33	18	31	15	1.93
4962287--4962359	25	2.8	27	74	15	73	32	23	26	17	1.97
4962426--4962485	25	2.4	25	94	0	102	46	18	23	11	1.81
4982628--4982691	9	7.2	9	75	10	69	51	10	3	34	1.53
4982617--4982691	27	2.8	26	76	9	89	50	13	2	33	1.55
4982617--4982691	17	4.2	17	76	8	78	50	13	2	33	1.55
4991492--4991564	24	3.0	24	75	15	78	41	21	32	4	1.72
4991500--4991647	66	2.2	66	84	2	190	40	23	31	4	1.75
4991653--4991713	30	2.0	30	83	0	77	36	21	32	9	1.86
4991755--4991803	24	2.0	24	84	0	62	32	26	30	10	1.89
4995260--4995298	20	2.0	19	85	5	51	33	0	10	56	1.33
4996236--4996318	42	2.0	42	87	0	121	34	19	16	28	1.94
5001335--5001389	25	2.2	25	86	0	74	27	14	27	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5005117--5005143	3	9.0	3	100	0	54	33	33	0	33	1.58
5005064--5005206	72	2.0	72	95	0	259	25	34	9	30	1.88
5010940--5011131	98	2.0	93	94	6	332	28	13	18	40	1.88
5015083--5015191	57	1.9	57	100	0	218	33	24	11	30	1.91
5021854--5021882	5	5.8	5	100	0	58	17	0	0	82	0.66
5024760--5024968	92	2.3	91	86	5	278	45	3	3	46	1.39
5024896--5024943	26	1.9	25	84	16	64	45	0	2	52	1.12
5025118--5025159	15	2.7	16	82	14	52	45	0	2	52	1.13
5025109--5025150	15	2.9	15	82	10	52	47	0	0	52	1.00
5025370--5025416	16	2.9	16	96	0	85	21	36	4	38	1.73

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