genome.fa.s2.2.7.7.80.10.50.1000.31.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   

This is table  31  of  38  ( 4457 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)
4713640--4713684	21	2.1	21	84	8	56	22	20	4	53	1.63
4717557--4717597	3	13.7	3	94	0	73	36	0	34	29	1.58
4719248--4719321	20	3.7	20	74	3	60	36	14	10	37	1.82
4733314--4733376	10	6.5	10	81	3	67	87	7	3	1	0.71
4733314--4733376	11	5.4	11	83	16	74	87	7	3	1	0.71
4733314--4733366	1	53.0	1	80	0	61	90	7	1	0	0.52
4734592--4735683	29	37.9	29	85	5	1352	28	31	17	22	1.96
4734591--4735690	56	19.1	57	85	6	1287	28	31	16	22	1.96
4735629--4735696	32	2.1	33	86	8	95	33	25	17	23	1.96
4736212--4736287	20	3.8	20	75	3	80	35	13	11	39	1.81
4736212--4736290	41	2.0	39	85	5	104	35	12	12	39	1.81
4750643--4750685	1	43.0	1	80	0	50	90	6	2	0	0.52
4750645--4750689	10	4.3	11	83	11	58	88	8	2	0	0.58
4750634--4750678	12	3.7	12	82	14	56	88	11	0	0	0.50
4750634--4750686	14	3.5	15	82	14	65	86	11	1	0	0.64
4750634--4750689	15	3.8	14	88	6	76	87	10	1	0	0.62
4751950--4752954	28	35.6	28	75	14	711	26	34	16	22	1.95
4751950--4752954	57	17.8	56	75	14	740	26	34	16	22	1.95
4752894--4752954	27	2.3	26	84	15	81	22	40	19	16	1.90
4754351--4754391	21	2.0	21	85	9	57	14	9	7	68	1.39
4767918--4767980	9	6.5	10	80	7	60	87	7	3	1	0.71
4767918--4767970	11	4.7	11	90	9	81	90	7	1	0	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4767918--4767970	26	2.0	25	89	7	79	90	7	1	0	0.52
4767918--4767970	1	53.0	1	80	0	61	90	7	1	0	0.52
4769199--4770288	29	37.9	29	88	3	1480	28	31	16	22	1.96
4770814--4770888	20	3.8	20	78	0	87	34	13	12	40	1.81
4770814--4770891	40	2.0	39	87	2	111	34	12	12	39	1.82
4777668--4777790	50	2.4	50	84	1	165	26	19	13	40	1.89
4777809--4777928	50	2.4	51	82	2	134	28	24	12	35	1.92
4777681--4777979	129	2.3	129	89	4	460	27	22	13	37	1.91
4777859--4778034	79	2.2	78	82	5	210	28	27	12	30	1.93
4778019--4778185	79	2.1	79	85	2	219	25	24	16	33	1.96
4777911--4778140	107	2.1	108	82	4	286	26	27	15	30	1.96
4788764--4788792	11	2.6	11	100	0	58	20	44	0	34	1.52
4789620--4789676	28	2.0	28	96	0	105	31	17	8	42	1.80
4790489--4790523	14	2.6	13	82	8	52	88	8	0	2	0.61
4791610--4792005	62	6.6	61	84	4	430	26	26	18	29	1.98
4792032--4792157	61	2.1	61	86	8	177	24	30	19	25	1.98
4791878--4792215	154	2.2	154	88	1	498	26	28	18	26	1.98
4792820--4792874	20	2.8	20	88	0	74	32	12	9	45	1.74
4794894--4795025	50	2.6	50	82	5	167	26	22	12	37	1.90
4795036--4795149	50	2.3	51	84	4	142	28	23	13	34	1.92
4794907--4795231	129	2.5	130	91	3	514	27	24	13	34	1.93
4795084--4795253	79	2.2	79	79	2	189	25	25	16	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4795213--4795289	28	2.8	27	80	7	84	22	29	20	27	1.98
4795134--4795338	107	1.9	107	86	4	288	24	28	17	29	1.97
4795087--4795423	186	1.8	185	81	1	415	25	25	15	33	1.95
4797450--4797500	20	2.7	19	79	8	52	19	1	19	58	1.48
4797646--4797696	20	2.5	20	90	6	77	21	15	17	45	1.86
4799601--4799641	21	2.0	20	90	4	64	41	2	24	31	1.68
4800261--4800331	20	3.6	19	81	7	79	33	16	16	32	1.92
4800282--4800331	19	2.5	20	90	3	75	32	16	16	36	1.90
4800635--4800661	10	2.7	10	100	0	54	59	18	11	11	1.60
4802451--4802640	79	2.5	77	81	7	208	33	11	25	29	1.90
4802490--4802650	79	2.0	79	86	2	225	35	10	23	30	1.89
4802657--4803177	79	6.6	78	82	5	600	34	12	22	29	1.92
4802400--4803177	159	5.0	156	79	9	664	34	12	23	29	1.91
4803150--4803217	28	2.4	29	80	4	86	27	17	30	23	1.97
4803541--4803617	21	3.7	21	79	10	86	36	12	15	35	1.86
4803653--4803720	19	3.9	19	78	21	85	35	11	14	38	1.83
4803674--4803698	13	1.9	13	100	0	50	36	16	16	32	1.90
4803655--4803717	32	2.0	32	96	0	117	34	12	15	36	1.86
4806258--4806333	27	2.8	27	86	6	100	23	31	21	23	1.98
4806150--4806538	51	7.4	52	71	12	231	30	25	12	31	1.92
4806526--4806597	28	2.6	28	84	4	83	22	31	20	25	1.98
4809916--4809985	20	3.5	20	78	3	79	44	14	12	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4810766--4811323	59	9.3	60	87	4	688	26	18	28	26	1.98
4812261--4812295	7	5.1	7	89	3	54	0	14	0	85	0.59
4812273--4812346	27	2.8	25	78	15	76	0	4	12	83	0.77
4812286--4812345	31	1.9	31	89	0	93	0	1	15	83	0.73
4820358--4820427	20	3.5	20	80	0	86	32	15	11	40	1.83
4833088--4833125	20	1.9	20	94	0	67	31	21	7	39	1.82
4835313--4835362	27	2.0	27	84	11	70	30	22	14	34	1.93
4836289--4836314	13	2.0	13	100	0	52	30	15	15	38	1.88
4838841--4838866	13	2.0	13	100	0	52	38	15	15	30	1.88
4840940--4840970	15	2.1	15	93	0	53	12	22	16	48	1.80
4842774--4842818	21	2.1	21	84	8	56	22	20	4	53	1.63
4845044--4845069	13	2.0	13	100	0	52	30	15	15	38	1.88
4845865--4845913	26	2.0	25	84	8	64	44	20	12	22	1.84
4846949--4847007	25	2.4	25	88	2	84	35	18	13	32	1.90
4849224--4849254	11	2.7	11	95	5	53	87	0	0	12	0.55
4849395--4849436	21	2.0	21	95	0	75	42	7	19	30	1.78
4849423--4849448	13	2.0	13	100	0	52	30	15	15	38	1.88
4851811--4852196	52	7.4	53	69	9	193	30	25	11	32	1.90
4852212--4852408	79	2.5	79	94	0	349	24	28	17	28	1.98
4855521--4856107	79	7.4	79	83	3	671	33	12	25	28	1.92
4855840--4855898	28	2.0	30	83	9	77	28	16	28	25	1.97
4855520--4856107	237	2.5	238	85	3	772	33	12	25	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4856042--4856159	51	2.3	51	88	0	173	32	11	25	31	1.90
4855882--4856299	210	2.0	209	85	3	563	33	12	23	30	1.91
4856095--4856299	79	2.6	77	80	5	239	34	11	22	31	1.90
4855964--4856233	130	2.1	131	86	3	375	32	11	25	31	1.90
4858613--4858677	33	2.0	33	90	0	103	44	9	13	32	1.76
4858640--4858696	20	2.8	20	89	0	87	47	12	12	28	1.77
4861419--4861460	20	2.1	20	86	8	59	42	14	4	38	1.66
4866484--4866536	22	2.6	21	88	8	74	26	13	20	39	1.89
4866578--4866630	20	2.6	21	84	3	72	28	16	15	39	1.89
4866618--4866642	13	1.9	13	100	0	50	36	16	16	32	1.90
4867815--4867936	52	2.3	52	90	0	199	36	16	18	28	1.93
4874836--4874874	18	2.2	18	85	0	51	74	12	5	7	1.20
4876161--4876257	34	3.0	32	82	14	126	19	30	14	35	1.92
4876159--4876258	31	3.0	34	84	11	127	19	31	14	36	1.91
4876159--4876533	29	12.2	29	71	18	188	20	33	13	32	1.92
4876224--4876465	27	8.2	29	74	13	165	21	34	14	30	1.92
4876231--4876563	60	5.4	60	82	9	341	21	33	13	31	1.92
4876432--4876599	34	4.9	34	80	7	189	19	30	12	36	1.89
4876437--4876620	70	2.7	71	81	8	184	21	31	11	35	1.89
4876601--4876731	33	4.0	33	84	5	167	29	29	17	23	1.97
4876608--4876731	65	1.9	65	93	0	212	29	29	18	21	1.97
4876738--4877338	49	12.9	48	77	11	615	25	25	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4876738--4877348	92	6.6	92	90	2	900	25	26	17	31	1.97
4876738--4877338	185	3.2	184	90	2	907	25	25	17	31	1.97
4877367--4877599	49	4.9	49	78	9	282	25	26	17	30	1.97
4877346--4877599	92	2.7	93	85	5	323	25	26	17	29	1.98
4877085--4877811	261	2.8	261	92	1	1161	25	26	17	31	1.97
4877580--4877631	27	1.9	27	88	0	77	25	23	15	36	1.93
4877607--4877764	43	3.5	43	81	9	199	25	24	17	31	1.97
4877628--4877803	43	3.6	48	78	12	191	24	23	17	34	1.96
4878699--4878824	52	2.4	52	88	2	182	36	17	18	27	1.93
4889721--4889747	13	2.1	13	100	0	54	40	14	14	29	1.86

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