genome.fa.s64.2.7.7.80.10.50.1000.30.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   

This is table  30  of  45  ( 5312 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)
5287477--5287512	2	18.0	2	94	0	63	47	0	2	50	1.15
5288042--5288109	14	4.8	13	77	16	64	35	0	0	64	0.94
5288030--5288113	29	2.9	29	94	3	143	38	0	1	60	1.04
5288056--5288109	7	7.4	8	75	24	57	33	0	0	66	0.92
5288794--5288823	15	1.9	16	93	6	53	30	3	0	66	1.07
5289817--5290420	53	11.7	53	75	13	482	53	4	2	39	1.34
5289827--5290416	157	3.8	153	78	12	545	54	4	2	38	1.34
5290117--5290201	45	2.0	42	81	11	100	54	4	3	37	1.39
5290057--5290243	100	1.9	101	85	4	261	52	4	3	39	1.39
5289818--5290418	52	11.6	54	76	14	282	54	4	2	39	1.34
5289840--5290420	104	5.7	96	75	16	331	53	4	2	39	1.35
5292999--5293254	50	5.1	49	85	3	323	29	17	19	32	1.96
5297640--5297942	50	6.1	50	89	1	414	28	18	20	32	1.96
5300381--5300450	18	3.7	19	78	3	63	45	2	1	50	1.25
5300399--5300450	18	2.8	18	82	2	68	48	1	1	48	1.24
5300360--5300441	38	2.2	37	84	8	103	42	2	3	51	1.32
5303361--5303387	2	13.5	2	100	0	54	48	0	0	51	1.00
5303654--5303691	2	19.0	2	88	0	58	47	2	2	47	1.30
5304901--5304954	24	2.2	24	83	6	65	46	1	3	48	1.30
5305099--5305172	37	2.0	38	84	7	98	45	1	1	51	1.18
5305114--5305184	38	1.9	36	83	11	90	46	1	1	50	1.18
5306366--5306412	19	2.5	19	79	6	60	40	0	2	57	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5310121--5310154	2	17.0	2	100	0	68	50	0	0	50	1.00
5315489--5315533	22	2.0	22	82	0	54	53	2	20	24	1.57
5315715--5315780	22	3.1	21	73	18	64	51	4	0	43	1.22
5317548--5317655	52	2.1	52	100	0	216	42	12	18	25	1.86
5317971--5318055	40	2.1	40	93	0	143	48	15	15	21	1.81
5321930--5321969	19	2.1	19	85	0	53	57	0	0	42	0.98
5322160--5322207	14	3.4	14	86	11	71	37	0	4	58	1.18
5322257--5322425	66	2.4	68	78	16	186	56	0	1	42	1.11
5322315--5322398	43	1.9	43	82	4	105	58	0	0	41	0.98
5322325--5322398	22	3.3	22	77	12	62	58	0	0	41	0.98
5322314--5322384	23	3.1	22	77	20	74	57	0	0	42	0.98
5322264--5322403	73	1.9	70	84	8	181	54	0	1	43	1.14
5322257--5322425	76	2.4	67	77	18	168	56	0	1	42	1.11
5322690--5322733	23	1.9	23	81	9	54	34	0	4	61	1.16
5322750--5322933	69	2.6	70	80	10	221	34	1	8	56	1.36
5328006--5328126	52	2.3	52	95	0	215	29	18	17	34	1.94
5328006--5328146	52	2.7	51	89	4	203	31	17	17	33	1.94
5328135--5328159	13	1.9	13	100	0	50	36	16	16	32	1.90
5328200--5328269	33	2.1	33	89	0	104	40	14	11	34	1.82
5328225--5328249	13	1.9	13	100	0	50	32	16	16	36	1.90
5331442--5331892	166	2.7	165	79	3	492	34	16	7	41	1.76
5331882--5332012	39	3.4	39	75	0	118	40	12	3	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5333510--5333588	24	3.3	24	75	10	99	49	7	2	40	1.45
5333581--5333717	36	3.7	38	71	22	105	51	4	2	41	1.37
5333485--5333616	47	2.8	47	93	3	212	50	7	2	40	1.43
5333581--5333677	37	2.6	37	82	11	101	52	2	2	43	1.24
5333627--5333678	26	2.0	27	84	3	70	53	0	1	44	1.11
5333556--5333691	37	3.8	33	72	22	73	51	4	3	40	1.40
5338182--5338227	15	3.0	15	79	14	58	58	0	2	39	1.10
5338286--5338328	21	2.0	21	82	8	52	60	0	11	27	1.31
5339663--5339702	19	2.2	18	86	8	55	72	0	0	27	0.85
5340448--5340492	17	2.6	18	82	13	58	37	0	2	60	1.09
5341495--5341528	17	2.0	17	88	11	52	61	0	0	38	0.96
5344547--5344580	18	1.9	18	88	5	52	0	0	14	85	0.60
5345615--5345639	2	12.5	2	100	0	50	0	48	0	52	1.00
5348647--5348689	2	21.5	2	95	0	77	2	0	46	51	1.13
5353937--5353970	3	11.3	3	93	0	50	73	0	0	26	0.83
5353942--5353974	15	2.1	16	94	5	59	78	0	0	21	0.75
5353939--5353975	18	2.1	18	100	0	74	78	0	0	21	0.75
5353937--5353975	21	1.9	20	94	5	69	76	0	0	23	0.78
5355396--5355427	16	2.0	16	93	0	55	71	0	0	28	0.86
5359971--5360005	2	17.5	2	100	0	70	0	48	0	51	1.00
5364557--5364658	51	2.0	51	92	3	170	27	9	24	38	1.87
5364644--5364739	40	2.3	40	85	7	122	37	6	15	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5368044--5368103	19	3.1	19	75	15	59	43	13	11	31	1.80
5368072--5368134	19	3.7	18	68	24	55	34	11	17	36	1.85
5368164--5368218	20	2.8	20	88	5	76	32	18	12	36	1.88
5373414--5373477	32	2.0	33	93	3	112	34	10	18	35	1.86
5373413--5373496	19	4.7	19	77	18	99	33	10	17	38	1.85
5373584--5373710	52	2.4	52	87	5	193	37	18	15	27	1.92
5374393--5374417	13	1.9	13	100	0	50	36	16	16	32	1.90
5374480--5374504	13	1.9	13	100	0	50	32	16	16	36	1.90
5374513--5374693	52	3.5	52	96	0	335	34	18	17	28	1.94
5382755--5382944	41	4.6	41	81	7	190	29	16	17	36	1.92
5382767--5382922	82	1.9	83	85	4	217	30	16	17	36	1.91
5382767--5382942	82	2.1	82	83	3	210	30	15	17	36	1.91
5387007--5387058	19	2.7	20	84	6	79	44	13	11	30	1.79
5388957--5389014	22	2.6	22	97	0	107	50	1	8	39	1.43
5392452--5392750	79	3.8	78	78	7	309	32	16	25	25	1.96
5392686--5392862	51	3.5	49	79	7	169	35	11	24	28	1.91
5395220--5395247	13	2.2	13	100	0	56	39	17	14	28	1.89
5395389--5395445	21	2.7	21	97	0	105	35	12	14	38	1.83
5404965--5404989	2	12.5	2	100	0	50	52	0	0	48	1.00
5408836--5408885	2	25.0	2	91	0	82	50	4	0	46	1.20
5416098--5416122	12	2.1	12	100	0	50	24	8	8	60	1.52
5427466--5427532	31	2.2	31	81	7	75	61	10	5	22	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5429503--5429531	14	2.0	15	93	6	51	41	0	0	58	0.98
5429624--5429670	16	2.9	16	84	6	51	55	17	0	27	1.42
5429645--5429677	16	2.1	16	94	0	57	60	6	0	33	1.21
5429733--5429799	33	2.0	33	85	5	91	56	7	1	34	1.36
5429718--5429799	16	5.0	16	82	7	85	58	8	1	31	1.36
5431111--5431157	22	2.1	22	81	14	53	53	4	4	38	1.40
5433149--5433181	2	16.5	2	100	0	66	48	0	0	51	1.00
5437449--5437477	4	7.2	4	100	0	58	51	24	0	24	1.48
5443232--5443350	51	2.3	51	94	0	202	31	15	26	26	1.96
5443334--5443406	28	2.6	28	84	0	92	27	16	30	26	1.97
5443228--5443532	158	1.9	157	83	2	387	32	12	26	28	1.93
5443398--5443507	51	2.2	50	82	8	134	32	11	24	30	1.91
5445825--5445901	20	3.8	20	78	13	86	44	12	14	28	1.82
5445918--5445972	20	2.8	20	97	0	101	41	14	18	25	1.88
5446879--5446971	45	2.2	45	86	7	131	45	10	22	21	1.83
5446954--5447309	61	5.9	59	80	7	340	28	19	26	25	1.99
5446946--5447310	121	3.0	120	82	5	405	28	19	27	25	1.99
5447351--5447739	60	6.4	61	82	5	450	28	20	26	24	1.99
5447125--5447523	215	1.9	214	88	3	615	27	19	28	24	1.98
5447351--5447731	121	3.1	120	84	4	453	28	20	26	24	1.99
5455559--5455630	20	3.6	19	83	7	90	43	12	15	29	1.83
5462009--5462078	14	4.7	15	75	15	65	35	2	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5462001--5462079	31	2.7	29	88	7	108	35	3	0	60	1.15
5462455--5462488	17	2.1	17	88	5	52	58	0	0	41	0.98
5464993--5465040	16	3.0	16	78	0	60	31	4	12	52	1.58
5467892--5467937	20	2.2	21	84	3	58	34	2	0	63	1.07
5468929--5468953	13	1.9	13	100	0	50	60	0	0	40	0.97
5471197--5471567	187	2.0	189	81	4	444	34	17	10	38	1.84
5474769--5474820	24	2.2	24	82	6	61	44	3	1	50	1.31
5474777--5474839	22	2.8	22	84	13	76	44	0	1	53	1.10
5474803--5474844	21	2.0	21	86	9	59	40	0	2	57	1.12
5477391--5477454	30	2.2	29	83	8	78	42	12	4	40	1.64

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