genome.fa.s6.2.7.7.80.10.50.1000.13.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  13  of  109  ( 13028 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)
4444930--4444990	32	1.9	32	89	0	95	24	14	9	50	1.73
4448090--4448156	21	3.2	21	71	0	62	32	1	1	64	1.12
4449975--4450007	13	2.5	13	95	0	57	42	12	9	36	1.74
4453967--4454016	18	2.6	21	81	15	63	48	2	2	48	1.24
4459533--4459577	23	2.0	23	86	8	65	46	11	6	35	1.66
4463645--4463677	17	2.0	17	88	5	50	30	9	12	48	1.71
4464383--4464554	43	4.0	43	100	0	344	37	13	9	39	1.78
4465685--4465738	26	2.1	25	83	10	65	25	7	1	64	1.30
4479570--4479697	50	2.5	51	85	6	172	28	17	23	29	1.97
4480383--4480414	6	5.2	6	96	3	55	81	0	3	15	0.82
4481600--4481656	26	2.3	24	82	14	64	54	7	5	33	1.50
4481692--4481732	21	2.0	21	85	0	55	56	4	7	31	1.48
4487664--4487691	6	4.7	6	100	0	56	0	14	0	85	0.59
4487674--4487715	22	1.9	22	90	9	68	7	16	0	76	1.00
4491647--4491707	19	3.1	19	88	4	77	32	14	9	42	1.79
4492737--4492784	8	5.9	8	82	4	60	16	4	0	79	0.89
4492739--4492782	17	2.5	17	88	3	61	15	4	0	79	0.89
4512717--4512781	12	5.7	12	72	27	52	61	0	3	35	1.12
4512709--4512796	34	2.7	32	87	5	122	63	0	2	34	1.07
4512709--4512796	32	2.6	31	86	12	113	63	0	2	34	1.07
4512714--4512747	14	2.4	14	95	0	59	64	0	2	32	1.08
4512728--4512769	20	2.1	20	100	0	84	64	0	4	30	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4513987--4514044	29	1.9	31	86	6	84	20	12	3	63	1.42
4514135--4514175	21	2.0	21	85	0	55	60	2	0	36	1.10
4514864--4514932	30	2.3	31	80	14	83	42	4	4	49	1.42
4515713--4515768	21	2.7	21	72	10	60	55	5	1	37	1.33
4518660--4518792	54	2.5	54	89	0	194	14	29	24	31	1.94
4520012--4520064	26	2.0	26	100	0	106	62	11	15	11	1.55
4520957--4521013	26	2.2	27	87	9	91	61	14	15	8	1.56
4520966--4521018	26	2.0	26	100	0	106	62	11	15	11	1.55
4519949--4521860	954	2.0	954	93	0	3304	28	23	14	33	1.94
4528625--4528670	24	1.9	24	81	0	56	34	0	4	60	1.16
4551863--4551920	19	3.0	19	80	7	55	53	5	1	39	1.33
4551867--4551921	27	2.1	26	80	16	60	52	5	1	40	1.35
4552071--4552103	3	11.0	3	100	0	66	33	0	0	66	0.92
4560710--4560748	18	2.1	19	85	4	53	43	15	12	28	1.83
4575518--4575600	32	2.6	32	86	0	112	28	2	18	50	1.59
4576927--4576966	14	2.7	15	84	7	55	52	0	0	47	1.00
4577245--4577271	6	4.5	6	100	0	54	0	37	14	48	1.45
4579128--4579158	16	1.9	16	93	0	53	48	9	6	35	1.62
4579316--4579400	18	4.8	17	72	12	55	34	0	9	56	1.32
4580377--4580405	2	14.5	2	100	0	58	0	48	0	51	1.00
4583718--4583766	24	2.0	24	100	0	98	38	12	8	40	1.72
4589782--4589807	3	8.7	3	100	0	52	34	65	0	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4606060--4606181	51	2.4	51	86	5	185	27	23	13	35	1.93
4606629--4606691	31	2.0	31	100	0	126	39	15	6	38	1.73
4615518--4615565	25	1.9	25	83	8	62	70	0	10	18	1.15
4618649--4618786	73	1.9	71	92	2	231	48	13	7	30	1.70
4633309--4633691	211	1.8	211	97	0	730	33	15	9	41	1.79
4640678--4640720	11	3.9	11	76	11	52	58	0	2	39	1.11
4640962--4641012	23	2.2	24	85	3	68	7	5	17	68	1.34
4640962--4641012	12	4.3	12	75	5	50	7	5	17	68	1.34
4640972--4641030	24	2.5	24	83	2	66	6	10	18	64	1.46
4643773--4643816	18	2.4	18	84	0	52	70	4	2	22	1.17
4643773--4643824	20	2.7	19	76	11	52	69	3	1	25	1.16
4644570--4644627	18	3.2	18	73	9	64	36	5	1	56	1.32
4644639--4644682	22	2.0	22	86	4	61	25	4	2	68	1.20
4644691--4644754	17	3.5	17	81	14	58	29	6	0	64	1.18
4644705--4644756	20	2.8	18	85	11	61	30	3	0	65	1.10
4644704--4644782	19	4.2	18	79	10	72	27	3	2	65	1.22
4648568--4648653	45	2.0	45	81	4	104	51	8	3	37	1.49
4663120--4663251	50	2.6	52	78	8	146	37	12	15	34	1.85
4668702--4668747	20	2.3	20	77	7	58	52	0	0	47	1.00
4669466--4669508	22	2.0	22	85	0	59	23	13	6	55	1.62
4681762--4681934	45	3.8	45	83	3	188	40	16	20	22	1.91
4681857--4681982	45	2.8	45	86	0	171	35	17	21	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4681906--4682021	45	2.6	45	78	0	106	39	17	19	23	1.92
4696525--4696564	20	2.0	21	85	5	55	25	7	7	60	1.50
4705732--4705789	28	2.1	28	96	0	107	44	20	17	17	1.86
4710391--4710435	7	6.6	7	87	5	65	55	4	0	40	1.20
4717955--4717991	11	3.2	12	85	7	51	51	0	0	48	1.00
4719350--4719405	28	2.0	28	93	3	96	71	8	5	14	1.29
4723354--4723455	48	2.1	48	88	0	150	33	7	10	48	1.67
4743063--4743093	15	2.1	15	100	0	62	32	16	19	32	1.94
4744505--4744545	15	2.5	17	80	11	50	41	0	0	58	0.98
4747694--4747722	13	2.1	14	93	6	51	58	0	6	34	1.25
4748021--4748220	98	2.0	97	96	1	346	37	4	7	51	1.48
4753323--4753406	42	2.0	42	97	0	159	36	13	21	28	1.91
4758617--4758664	6	7.7	6	78	17	53	2	20	0	77	0.88
4760497--4760690	105	1.9	101	86	4	271	32	15	23	27	1.95
4760526--4760722	105	1.9	105	83	2	261	34	16	23	25	1.96
4761483--4761640	72	2.2	72	90	0	244	21	29	22	26	1.99
4765936--4766034	51	1.9	51	89	0	153	35	24	8	32	1.85
4766217--4766279	33	1.9	33	86	0	90	22	49	3	25	1.65
4766890--4767100	117	1.8	117	89	0	332	44	24	9	21	1.82
4767287--4767331	16	2.8	16	82	3	54	35	0	22	42	1.54
4779051--4779109	22	2.6	22	76	10	57	28	0	5	66	1.13
4781022--4781194	45	3.9	45	80	3	172	26	13	24	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4781020--4781192	90	1.9	88	82	4	213	26	13	24	35	1.92
4786882--4786915	15	2.3	15	94	0	59	20	14	14	50	1.78
4787316--4787359	19	2.4	18	85	7	54	63	2	0	34	1.07
4787845--4787874	14	2.1	14	93	0	51	30	0	0	70	0.88
4787892--4787948	29	1.9	29	85	3	78	52	3	1	42	1.28
4796442--4796822	190	2.0	190	96	0	708	34	22	17	25	1.96
4798154--4798235	26	3.4	23	76	15	76	64	8	1	25	1.29
4798168--4798234	26	2.7	26	79	6	77	65	10	0	23	1.23
4799865--4799929	14	4.8	13	73	17	53	44	3	0	52	1.16
4803752--4803906	42	3.7	42	79	5	143	45	15	22	16	1.85
4803807--4803906	21	4.8	21	67	7	60	49	16	21	14	1.80
4803964--4804027	24	2.7	24	95	0	110	21	28	7	42	1.81
4805928--4805984	11	5.1	11	73	12	53	70	5	0	24	1.08
4805928--4805984	21	2.5	23	75	10	64	70	5	0	24	1.08
4808317--4808352	18	2.0	18	100	0	72	38	16	5	38	1.72
4809915--4809947	3	11.0	3	100	0	66	66	0	33	0	0.92
4814387--4814605	109	2.0	110	99	0	431	30	8	6	55	1.54
4821650--4821701	15	3.4	15	77	17	54	40	0	0	59	0.97
4822420--4822536	56	1.9	62	83	14	156	54	11	11	22	1.68
4823111--4823149	17	2.3	18	86	8	55	61	0	5	33	1.18
4823629--4823690	24	2.4	25	82	12	65	58	4	3	33	1.36
4829243--4829321	31	2.6	30	73	13	81	50	6	12	30	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4835277--4835947	335	2.0	336	99	0	1335	26	11	24	38	1.89
4836883--4837105	114	1.9	115	92	0	376	21	15	21	41	1.89
4841330--4841364	18	2.0	17	88	5	52	45	0	0	54	0.99
4841510--4841616	45	2.6	40	75	13	108	31	29	5	32	1.81
4841600--4841635	16	2.2	16	100	0	72	38	36	0	25	1.56
4844680--4844722	19	2.2	19	83	4	50	44	13	9	32	1.76
4850061--4850149	13	6.8	13	83	7	108	32	3	6	57	1.41
4850184--4850225	15	2.7	16	85	7	59	42	14	2	40	1.58
4852164--4852203	18	2.2	18	90	0	62	30	7	42	20	1.79
4852997--4853044	25	1.9	25	100	0	96	39	4	8	47	1.53

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   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109