genome.fa.s196.2.7.7.80.10.50.1000.38.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   

This is table  38  of  47  ( 5587 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)
6162198--6162676	79	6.1	77	79	8	463	32	11	25	30	1.91
6162428--6162568	72	2.0	71	87	5	203	28	12	26	33	1.92
6162197--6162620	158	2.8	153	82	8	511	32	12	25	30	1.92
6164451--6164603	71	2.2	71	95	0	270	24	2	36	35	1.70
6165270--6165323	20	2.6	21	82	2	65	31	14	12	40	1.84
6171025--6171153	52	2.5	52	89	0	195	31	15	16	36	1.90
6171025--6171173	52	2.9	52	82	4	158	32	15	17	34	1.91
6171162--6171186	13	1.9	13	100	0	50	36	16	16	32	1.90
6171251--6171275	13	1.9	13	100	0	50	32	16	16	36	1.90
6172182--6173036	49	17.8	49	83	6	1052	31	17	25	25	1.97
6172272--6173035	98	7.9	98	90	3	1205	31	17	26	25	1.97
6172182--6173035	288	3.0	288	93	1	1442	31	17	25	25	1.97
6173039--6173134	33	2.9	33	82	0	129	16	17	35	30	1.93
6173121--6173604	33	15.2	33	75	14	430	29	12	35	21	1.90
6173242--6173604	60	5.9	61	82	10	411	27	12	37	21	1.90
6173121--6173613	250	1.9	251	87	7	719	29	12	35	22	1.90
6182176--6182226	24	2.1	25	85	3	68	54	17	7	19	1.67
6184917--6184949	17	1.9	17	93	0	57	51	27	3	18	1.60
6185798--6185872	20	3.8	20	90	0	114	25	13	12	49	1.76
6188246--6188364	51	2.3	51	79	9	145	31	26	10	31	1.89
6188185--6188435	130	1.9	130	83	4	328	30	23	10	35	1.89
6189411--6189557	45	3.3	46	84	2	183	24	1	18	55	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6189440--6189585	45	3.2	45	82	3	125	27	2	15	54	1.52
6189424--6189596	90	1.9	91	81	5	208	26	2	16	55	1.53
6191380--6191423	18	2.4	18	84	0	52	29	9	9	52	1.64
6201494--6201533	20	2.1	18	90	9	62	37	0	0	62	0.95
6201872--6201913	22	1.9	23	90	9	70	45	0	0	54	0.99
6206201--6206252	23	2.3	22	80	3	59	28	3	1	65	1.21
6206157--6206252	31	3.2	29	81	15	108	29	2	3	65	1.19
6206236--6206277	20	2.1	20	86	8	59	28	0	0	71	0.86
6206230--6206282	27	2.0	26	81	7	61	28	1	1	67	1.11
6213739--6213772	15	2.3	14	90	10	50	85	0	8	5	0.75
6213739--6213809	14	4.6	15	71	15	56	78	5	7	8	1.07
6215771--6215887	60	2.0	60	83	6	148	18	17	18	45	1.86
6215907--6216256	126	2.8	124	75	6	305	22	20	13	43	1.87
6215949--6216281	63	5.3	63	76	5	244	21	21	13	42	1.87
6217329--6217687	184	2.0	184	98	0	700	35	13	23	27	1.93
6220321--6220502	46	4.0	45	77	4	184	41	14	12	31	1.83
6221621--6221663	22	2.0	22	100	0	86	39	0	4	55	1.20
6226357--6226848	126	4.0	126	94	3	812	40	9	29	20	1.83
6227281--6227315	16	2.2	16	89	0	52	42	2	2	51	1.31
6229314--6229346	12	2.8	12	100	0	66	0	18	0	81	0.68
6240514--6240557	4	11.5	4	85	9	65	75	0	25	0	0.81
6241121--6241704	109	5.4	108	77	9	523	34	15	17	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6241150--6241685	219	2.5	209	79	7	515	34	15	16	32	1.91
6243136--6243211	21	3.7	21	70	13	59	44	9	14	31	1.76
6243277--6243314	20	1.9	20	100	0	76	31	13	10	44	1.77
6244741--6245741	503	2.0	503	96	0	1867	32	16	17	33	1.93
6246220--6246373	52	3.0	52	85	5	197	37	10	22	29	1.87
6246325--6246512	79	2.3	80	79	8	186	38	9	22	29	1.86
6248836--6248974	51	2.7	52	84	1	172	43	12	15	29	1.83
6250358--6250404	21	2.2	22	88	3	69	34	6	19	40	1.77
6252931--6253062	19	7.9	19	72	27	129	34	12	15	37	1.84
6252952--6253040	13	5.9	13	72	27	70	34	13	15	35	1.87
6252933--6253059	32	4.0	32	98	0	245	34	12	15	37	1.86
6253102--6253127	13	2.0	13	100	0	52	30	15	15	38	1.88
6253082--6253148	33	2.0	33	88	0	98	25	14	16	43	1.86
6255593--6255664	28	2.6	28	84	0	90	22	36	18	23	1.95
6267308--6267364	21	2.7	21	97	0	105	33	10	19	36	1.86
6267527--6267552	13	2.0	13	100	0	52	30	15	15	38	1.88
6267507--6267573	33	2.0	33	88	0	98	25	14	16	43	1.86
6270013--6270089	28	2.8	28	87	0	100	23	33	19	23	1.97
6270043--6270246	78	2.6	78	81	2	221	24	29	17	28	1.97
6272080--6272128	16	3.1	16	71	26	50	38	0	2	59	1.09
6272180--6272227	21	2.3	21	82	10	55	31	0	4	64	1.12
6272688--6272713	12	2.2	12	100	0	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6273318--6273349	15	2.0	17	88	11	50	25	0	0	75	0.81
6273546--6273589	20	2.1	21	87	8	63	27	0	0	72	0.85
6273671--6273716	22	2.1	22	84	4	58	36	0	2	60	1.09
6274963--6275005	21	2.0	22	90	4	70	37	0	9	53	1.33
6279660--6279692	2	16.5	2	100	0	66	0	48	0	51	1.00
6279883--6280023	29	4.8	29	74	17	105	58	0	1	39	1.12
6279886--6279983	25	3.7	26	78	16	101	57	1	2	39	1.17
6279945--6279997	7	6.9	7	78	19	52	62	1	0	35	1.06
6279947--6279999	17	3.0	17	81	10	54	58	1	0	39	1.09
6279945--6279997	15	3.4	15	78	14	54	62	1	0	35	1.06
6279912--6279993	25	3.3	24	83	10	94	59	1	1	37	1.13
6281567--6281619	10	5.0	10	77	8	52	54	1	1	41	1.22
6282132--6282165	7	5.1	7	89	10	54	26	0	0	73	0.83
6282118--6282163	14	2.9	17	71	18	53	30	0	0	69	0.89
6283102--6283157	20	2.6	21	86	8	69	53	3	1	41	1.29
6284421--6284460	21	1.9	21	85	10	55	70	5	2	22	1.19
6285053--6285078	2	13.0	2	100	0	52	50	0	0	50	1.00
6285419--6285456	3	12.7	3	100	0	76	68	0	0	31	0.90
6290249--6290293	17	2.6	17	89	10	65	42	0	0	57	0.98
6291018--6291065	12	3.8	13	84	15	57	31	0	2	66	1.03
6291025--6291065	12	3.4	12	93	0	64	31	0	0	68	0.90
6291028--6291088	28	2.1	29	82	14	72	34	0	3	62	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6294778--6294811	13	2.4	15	90	9	54	44	0	0	55	0.99
6296650--6296689	14	3.0	14	86	13	50	47	0	0	52	1.00
6299244--6299276	16	2.1	16	88	5	50	51	0	15	33	1.43
6299648--6299715	19	3.4	20	82	15	72	60	1	0	38	1.06
6299611--6299729	10	11.5	10	67	22	59	63	2	0	33	1.08
6299765--6299830	25	2.6	25	81	13	80	6	25	0	68	1.13
6300871--6300918	24	2.0	25	88	12	73	45	0	0	54	0.99
6300872--6300927	24	2.2	24	78	15	60	50	0	0	50	1.00
6301554--6301594	2	20.5	2	100	0	82	51	0	0	48	1.00
6301682--6301720	20	2.0	20	89	0	60	43	0	2	53	1.14
6302170--6302218	2	24.5	2	89	0	71	48	2	2	46	1.25
6303561--6303615	18	2.9	20	76	17	64	32	0	3	63	1.12
6303561--6303616	19	3.1	17	75	14	58	33	0	3	62	1.12
6304104--6304155	12	4.2	12	81	13	70	61	0	0	38	0.96
6304112--6304169	25	2.4	25	91	5	93	53	0	0	46	1.00
6304115--6304207	23	4.0	22	79	9	71	48	0	0	51	1.00
6304471--6304526	18	2.9	18	78	17	60	48	0	0	51	1.00
6304464--6304526	10	6.2	10	77	17	51	46	0	0	53	1.00
6304736--6304783	15	3.4	14	80	11	53	37	2	2	58	1.22
6304887--6304926	16	2.4	16	83	4	53	35	0	0	65	0.93
6304895--6304935	16	2.4	18	84	15	61	31	0	0	68	0.90
6304914--6304949	13	3.0	12	88	11	56	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6304895--6304980	16	5.3	17	74	17	60	38	1	0	60	1.04
6304920--6304950	13	2.4	13	100	0	62	25	0	0	74	0.82
6305284--6305330	22	2.2	21	84	3	58	38	2	0	59	1.09
6305319--6305371	19	2.6	21	82	8	65	56	1	0	41	1.10
6305585--6305633	23	2.0	25	88	7	75	38	0	0	61	0.96
6305603--6305663	20	3.1	20	75	20	65	34	1	0	63	1.04
6305603--6305676	38	1.9	39	83	8	98	32	4	0	63	1.13
6305809--6305839	2	15.5	2	100	0	62	51	0	0	48	1.00
6306066--6306112	19	2.4	19	78	3	58	46	0	6	46	1.28
6306845--6306894	26	1.9	26	88	8	75	38	0	2	60	1.09

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