genome.fa.s7.2.7.7.80.10.50.1000.17.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: 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  17  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)
5556871--5556907	17	2.2	17	95	0	65	24	2	21	51	1.61
5557655--5557725	23	3.0	24	62	22	60	30	5	30	32	1.81
5557654--5557792	46	3.0	45	89	4	206	34	8	27	29	1.87
5574968--5575388	209	2.0	208	99	0	833	38	12	14	35	1.84
5581275--5581310	5	7.2	5	100	0	72	19	0	0	80	0.71
5581628--5581683	27	2.1	27	100	0	112	44	7	17	30	1.76
5585617--5585688	27	2.7	27	97	0	135	41	23	22	12	1.88
5590159--5590245	12	7.2	12	71	12	52	29	16	8	45	1.75
5595183--5595224	22	2.0	21	85	4	57	23	7	0	69	1.13
5603309--5603374	15	4.3	15	77	7	60	30	15	1	53	1.51
5603336--5603372	17	2.1	18	90	5	58	21	16	2	59	1.49
5606573--5606833	130	2.0	131	99	0	515	39	13	11	36	1.81
5610195--5610248	16	3.2	17	75	17	51	40	0	0	59	0.98
5610220--5610247	6	4.7	6	100	0	56	32	0	0	67	0.91
5610355--5610434	38	2.1	39	81	9	92	41	1	5	52	1.31
5610503--5610551	16	3.1	16	82	8	64	59	2	0	38	1.09
5619924--5620008	42	2.0	41	86	2	116	25	17	32	23	1.97
5631923--5632132	105	2.0	105	98	0	402	31	25	9	33	1.88
5637521--5637553	16	2.1	16	100	0	66	30	33	6	30	1.82
5650121--5650167	15	3.1	15	78	6	58	21	6	12	59	1.55
5651441--5651474	16	2.2	16	89	5	52	29	14	20	35	1.93
5652347--5652376	7	4.3	7	100	0	60	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5654675--5654717	17	2.5	18	77	11	54	46	2	0	51	1.13
5655617--5655643	14	1.9	14	100	0	54	7	22	22	48	1.75
5655601--5655719	59	2.0	59	98	0	229	14	16	17	51	1.77
5655676--5655702	14	1.9	14	100	0	54	7	22	22	48	1.75
5662420--5662521	42	2.4	42	85	6	127	21	3	43	31	1.71
5675386--5675427	22	1.9	22	85	9	59	40	19	0	40	1.51
5687776--5687828	27	2.0	27	96	0	97	37	15	1	45	1.57
5690743--5690973	46	5.0	46	92	0	363	28	25	9	36	1.87
5696935--5696997	19	3.3	19	77	4	54	46	0	3	50	1.17
5698022--5698123	46	2.2	46	89	0	150	39	20	10	29	1.86
5699533--5699563	14	2.2	14	94	0	53	25	0	3	70	1.02
5699795--5699819	13	1.9	13	100	0	50	56	4	0	40	1.18
5711874--5711952	3	26.3	3	100	0	158	32	0	0	67	0.91
5712091--5712131	19	2.2	19	95	0	73	39	7	0	53	1.29
5716356--5716418	31	2.0	31	87	0	90	50	15	3	30	1.60
5729882--5730024	54	2.6	53	79	8	153	27	20	26	25	1.99
5731152--5731187	15	2.4	15	95	0	63	41	11	27	19	1.85
5734715--5734931	92	2.4	92	85	1	285	31	22	14	31	1.94
5735079--5735300	92	2.4	90	84	3	284	30	20	15	33	1.94
5734626--5735273	322	2.0	322	83	1	825	29	19	18	32	1.95
5737421--5737470	24	2.1	24	88	0	73	38	4	10	48	1.56
5740982--5741034	27	2.0	27	100	0	106	18	26	5	49	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5744913--5744964	24	2.2	24	89	0	77	36	3	9	50	1.54
5757888--5757939	25	2.1	25	100	0	104	36	19	17	26	1.94
5780248--5780279	15	2.0	17	88	11	50	81	0	18	0	0.70
5780444--5780474	7	4.6	7	96	4	55	41	16	16	25	1.88
5783452--5783595	52	2.7	53	85	9	195	52	1	21	24	1.55
5783675--5783786	44	2.5	44	84	2	145	49	2	22	25	1.63
5784156--5784279	44	2.8	43	82	3	149	25	19	3	52	1.61
5787333--5787506	96	1.8	95	86	6	253	35	11	10	42	1.76
5787432--5787670	110	2.2	111	88	3	349	25	15	13	46	1.82
5792974--5793061	25	3.5	25	82	0	122	19	17	28	35	1.94
5792974--5793105	50	2.6	50	90	2	194	19	15	27	37	1.93
5792997--5793084	25	3.5	25	76	14	101	20	15	27	36	1.93
5793076--5793135	25	2.4	25	80	0	75	25	15	28	31	1.95
5805865--5805897	15	2.1	16	88	5	50	30	15	30	24	1.95
5810106--5810138	13	2.5	13	95	0	57	57	6	21	15	1.59
5818603--5818627	10	2.5	10	100	0	50	32	8	0	60	1.26
5821719--5821755	2	18.5	2	88	0	56	51	5	0	43	1.24
5821719--5821755	12	3.1	12	96	0	65	51	5	0	43	1.24
5825023--5825061	20	1.9	21	94	5	71	35	25	0	38	1.56
5825305--5825354	21	2.5	19	84	9	64	36	8	2	54	1.42
5826897--5826944	25	2.0	25	87	4	71	35	16	12	35	1.87
5837907--5837976	34	2.0	35	86	2	97	35	2	11	50	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5842636--5842694	31	1.9	31	92	0	100	49	13	6	30	1.68
5844666--5844692	6	4.5	6	100	0	54	33	14	0	51	1.43
5844646--5844695	16	3.0	16	82	5	55	32	16	0	52	1.44
5844937--5844962	6	4.3	6	100	0	52	34	15	0	50	1.45
5848893--5848972	40	2.0	40	92	0	133	41	3	31	23	1.72
5855183--5855264	39	2.0	41	93	4	141	40	24	2	32	1.68
5859530--5859654	59	2.1	59	98	0	205	40	11	8	40	1.72
5866907--5866931	2	12.5	2	100	0	50	0	0	52	48	1.00
5875973--5876105	40	3.3	40	74	5	124	23	14	26	36	1.93
5876850--5876929	23	3.5	23	89	0	124	31	13	18	36	1.90
5883304--5883420	40	2.9	40	84	5	146	23	15	29	31	1.95
5883286--5883420	40	3.4	39	83	5	144	23	15	28	32	1.95
5884172--5884413	23	10.5	23	92	0	394	29	13	18	38	1.89
5885616--5885731	27	4.3	27	79	8	101	18	24	17	39	1.92
5904119--5904145	12	2.2	12	100	0	54	14	7	0	77	0.97
5904115--5904147	16	2.1	16	94	0	57	15	9	0	75	1.03
5904671--5904702	10	3.2	10	100	0	64	18	37	0	43	1.51
5904687--5904809	51	2.4	51	90	4	187	27	25	0	47	1.53
5905951--5905975	7	3.6	7	100	0	50	28	0	12	60	1.32
5906618--5906652	18	1.9	18	94	0	61	25	31	8	34	1.86
5907075--5907160	43	2.0	45	90	4	140	37	0	12	50	1.41
5907166--5907776	23	26.3	23	72	17	473	46	23	1	28	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5907169--5907493	50	6.6	50	72	17	197	47	25	0	26	1.57
5907208--5907707	44	10.8	47	74	18	307	46	23	1	28	1.60
5907304--5907538	73	3.2	73	78	12	302	47	25	0	26	1.56
5907166--5907686	94	5.5	92	75	15	369	47	23	1	27	1.59
5907221--5907575	145	2.5	143	90	6	548	47	24	0	27	1.58
5907515--5907773	66	3.9	66	100	0	518	45	20	2	30	1.65
5907237--5907802	44	12.4	45	74	16	257	45	23	1	28	1.62
5907724--5907810	23	4.0	22	71	21	67	44	25	1	28	1.61
5910854--5911231	126	3.0	125	88	2	528	32	21	15	30	1.94
5917684--5917710	13	2.1	13	100	0	54	29	0	7	62	1.22
5927208--5927233	9	2.9	9	100	0	52	46	11	11	30	1.76
5928603--5928698	41	2.3	41	98	0	183	28	23	23	23	2.00
5933651--5933683	17	1.9	17	93	0	57	12	18	12	57	1.64
5935775--5935848	29	2.6	29	86	0	103	21	12	20	45	1.83
5939348--5939387	16	2.5	16	83	0	53	27	2	17	52	1.57
5952402--5952475	27	2.6	28	83	8	80	32	4	1	62	1.22
5952672--5953139	79	5.5	86	81	7	374	32	14	14	39	1.86
5953095--5953321	83	2.7	83	80	5	269	36	10	8	44	1.70
5953359--5953497	51	2.7	51	94	0	233	25	14	10	49	1.74
5957217--5957283	27	2.4	27	85	7	82	37	1	1	59	1.16
5957239--5957291	12	3.9	13	76	14	54	33	0	1	64	1.05
5968412--5969594	302	3.9	302	97	0	2176	34	15	20	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5972220--5972277	18	3.0	20	65	10	57	34	37	6	20	1.80
5972202--5972277	38	2.0	38	100	0	152	36	36	7	18	1.80
5972202--5972261	18	3.2	18	68	9	57	36	35	10	18	1.84
5982071--5982101	16	1.9	16	93	0	53	9	32	19	38	1.84
5983744--5983812	22	3.1	22	81	8	86	18	14	14	52	1.75
5986464--5986561	46	2.2	46	94	1	171	43	19	3	33	1.66
5990795--5990892	46	2.2	46	94	1	171	43	19	3	33	1.66
5994977--5995011	3	11.3	3	87	6	52	31	2	2	62	1.24
6004176--6004238	25	2.6	25	84	2	83	20	26	25	26	1.99
6007630--6007684	17	3.3	17	92	2	85	58	5	30	5	1.44

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