genome.fa.s6.2.7.7.80.10.50.1000.4.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: Scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  1308201

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  4  of  11  ( 1316 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)
276411--276443	14	2.4	14	90	5	50	54	0	0	45	0.99
276415--276462	20	2.6	18	78	12	51	43	2	0	54	1.12
276860--276957	19	5.1	19	65	28	55	48	0	0	51	1.00
277274--277343	28	2.4	29	79	11	90	38	4	1	55	1.28
277367--277521	30	5.2	30	74	11	113	53	1	1	42	1.23
277373--277522	60	2.5	58	81	13	180	54	2	1	42	1.20
277592--277632	3	13.7	3	94	0	73	70	0	0	29	0.87
280699--280774	16	4.4	19	79	17	60	50	1	0	48	1.09
280716--280785	32	2.2	31	87	7	97	47	0	1	51	1.09
280716--280774	18	3.5	17	80	17	70	50	0	0	49	1.00
280715--280773	16	3.6	16	80	19	68	52	0	0	47	1.00
281433--281500	32	2.1	33	88	2	102	51	0	0	48	1.00
281442--281508	17	4.1	18	70	18	56	52	0	0	47	1.00
281447--281510	16	3.8	17	77	8	69	53	0	0	46	1.00
281443--281534	16	5.8	16	71	13	57	55	0	0	44	0.99
284111--284169	14	4.1	15	74	10	52	49	0	0	50	1.00
284111--284150	14	2.7	14	88	7	53	50	0	0	50	1.00
284145--284229	38	2.3	36	78	15	93	41	2	0	56	1.12
284249--284301	26	2.0	26	92	0	88	26	16	15	41	1.88
284471--284511	12	3.4	12	79	0	55	29	0	0	70	0.87
284466--284519	24	2.2	25	87	6	76	37	0	0	62	0.95
284476--284514	19	2.1	19	85	9	53	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
284500--284537	18	2.1	18	85	9	51	39	0	0	60	0.97
285445--285482	16	2.4	16	86	4	51	44	0	5	50	1.24
285429--285488	24	2.6	24	81	5	70	41	0	3	55	1.16
285452--285483	16	2.0	16	93	0	55	40	0	6	53	1.26
287164--287212	11	4.3	11	82	12	55	42	0	0	57	0.99
291923--291953	2	15.5	2	93	0	53	0	48	3	48	1.17
294497--294525	2	14.5	2	100	0	58	48	0	0	51	1.00
296291--296324	2	17.0	2	93	0	59	52	0	0	47	1.00
299661--299714	14	3.8	15	78	9	51	51	0	1	46	1.11
299692--299735	18	2.3	20	80	7	56	56	0	2	40	1.11
302621--302700	12	6.8	12	78	8	83	33	33	0	32	1.58
302626--302737	59	1.9	59	85	3	154	33	34	1	30	1.68
303120--303146	13	2.1	13	100	0	54	37	0	29	33	1.58
304786--304831	14	3.1	16	72	18	53	43	0	0	56	0.99
307242--307274	13	2.4	14	90	5	50	42	0	6	51	1.26
307342--307373	2	16.0	2	100	0	64	50	0	0	50	1.00
307628--307662	16	2.1	18	89	10	56	51	0	0	48	1.00
307916--307997	32	2.6	32	76	9	87	48	1	6	43	1.35
307958--308000	16	2.7	16	92	0	68	48	2	9	39	1.48
307958--308005	16	3.0	15	87	6	60	47	4	8	39	1.53
309359--309389	7	4.4	7	91	0	53	51	0	0	48	1.00
309434--309466	13	2.4	14	90	5	50	42	0	6	51	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309598--309624	13	2.1	13	100	0	54	55	14	0	29	1.40
309808--309838	13	2.4	13	94	0	53	61	0	0	38	0.96
311456--311513	20	2.9	19	71	19	55	32	0	1	65	1.03
311457--311503	18	2.7	18	80	3	51	31	0	2	65	1.04
311472--311525	27	1.9	27	88	7	81	31	0	1	66	1.02
311463--311528	18	3.7	18	75	15	57	30	0	1	68	0.99
311583--311635	18	3.0	17	75	8	52	52	0	1	45	1.11
311632--311680	16	3.1	15	82	8	62	48	0	0	51	1.00
311581--311676	17	5.5	18	73	23	73	48	0	1	50	1.07
312093--312135	17	2.6	18	82	14	56	37	0	0	62	0.95
312601--312671	27	2.6	28	88	2	99	23	4	23	47	1.69
315245--315290	21	2.1	22	88	4	67	32	19	28	19	1.96
317173--317243	27	2.6	27	88	6	99	22	7	23	46	1.76
317320--317368	20	2.5	20	82	0	62	10	48	4	36	1.56
317924--318005	34	2.5	33	78	11	87	51	2	1	45	1.22
317957--317990	16	2.1	16	89	10	52	50	2	0	47	1.16
317936--317973	21	1.9	21	89	10	62	52	0	0	47	1.00
318432--318495	16	4.1	16	78	8	69	48	0	0	51	1.00
318705--318800	8	12.5	8	65	20	53	57	0	0	42	0.98
318664--318798	40	3.5	37	71	22	93	58	0	0	40	1.03
318695--318791	24	3.8	26	74	20	89	57	0	0	42	0.98
318689--318800	9	10.7	11	69	24	66	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319634--319682	11	4.2	12	73	21	50	53	0	0	46	1.00
320756--320794	20	2.0	20	90	10	62	43	2	0	53	1.14
321015--321043	2	14.5	2	100	0	58	48	0	0	51	1.00
321060--321098	15	2.6	14	84	11	51	69	0	0	30	0.89
322067--322097	15	2.0	16	93	6	55	48	0	0	51	1.00
322145--322178	17	2.0	17	88	11	52	44	0	0	55	0.99
322700--322797	50	1.9	50	83	6	124	51	4	2	42	1.32
323479--323515	19	1.9	19	89	10	58	40	0	5	54	1.24
323483--323536	14	3.9	14	76	9	65	38	0	7	53	1.29
324701--324764	29	2.2	29	86	5	85	50	1	14	34	1.52
331008--331036	2	14.5	2	100	0	58	0	48	0	51	1.00
331652--331693	16	2.5	17	81	11	52	50	0	2	47	1.14
331657--331693	16	2.3	15	86	13	56	51	0	0	48	1.00
332238--332276	20	2.0	20	89	0	60	35	2	0	61	1.10
332349--332390	18	2.5	17	85	11	59	45	0	0	54	0.99
332349--332393	17	2.6	18	77	19	51	46	0	0	53	1.00
332747--332777	2	16.0	2	93	6	55	48	0	0	51	1.00
335356--335389	3	11.3	3	100	0	68	32	0	0	67	0.91
335888--335944	15	3.8	15	79	9	55	42	0	0	57	0.98
336687--336760	36	2.0	38	86	5	107	51	1	0	47	1.09
336742--336776	11	3.0	12	83	8	54	48	0	0	51	1.00
336740--336775	12	3.1	12	84	8	56	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
336740--336782	23	1.9	23	90	4	70	51	0	0	48	1.00
336769--336807	17	2.2	18	86	13	55	69	0	0	30	0.89
336989--337037	20	2.3	22	86	6	66	69	0	0	30	0.89
337254--337283	13	2.4	13	94	5	53	6	6	0	86	0.70
339782--339817	3	12.0	3	100	0	72	33	0	0	66	0.92
340773--340807	16	2.1	17	89	5	54	31	2	2	62	1.24
341338--341392	23	2.6	20	75	25	51	49	0	0	50	1.00
341731--341756	13	2.0	13	100	0	52	30	0	0	69	0.89
342244--342302	29	2.0	30	80	9	68	38	6	3	50	1.45
343158--343201	21	2.0	22	86	13	63	29	0	2	68	1.02
344634--344762	69	1.9	69	88	0	195	46	9	5	38	1.59
345178--345460	151	1.9	150	86	2	406	45	7	4	43	1.50
345661--345688	2	14.0	2	100	0	56	50	0	0	50	1.00
351852--351899	19	2.7	17	78	15	53	77	0	8	14	0.99
352782--352935	13	11.9	13	67	21	60	43	1	0	54	1.13
352773--352835	22	3.0	21	80	11	67	38	0	3	58	1.14
352813--352922	28	3.9	27	70	21	82	43	1	0	53	1.17
352821--352875	16	3.4	17	75	25	64	43	0	0	56	0.99
352782--352938	62	2.5	64	76	18	159	43	1	0	54	1.13
352824--352929	32	3.4	31	75	20	107	44	1	0	53	1.11
352831--352882	14	3.4	14	73	19	50	50	0	0	50	1.00
358869--358895	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358972--359022	26	2.0	26	81	14	61	23	3	5	66	1.30
358989--359023	4	8.2	4	87	12	52	22	0	5	71	1.07
359628--359672	17	2.5	17	85	7	54	57	2	0	40	1.11
360341--360385	15	2.9	15	76	3	54	55	4	0	40	1.20
360422--360477	16	3.9	15	75	22	57	57	0	0	42	0.99
360433--360473	19	2.2	19	86	4	57	63	0	0	36	0.95
361388--361431	23	1.9	23	85	0	61	45	2	0	52	1.13
361679--361741	24	2.8	23	74	25	71	52	0	1	46	1.10
361679--361782	45	2.3	44	85	6	129	52	0	0	45	1.13
361756--361808	25	2.3	24	81	15	67	62	3	3	30	1.30

Tables:   1   2   3   4   5   6   7   8   9   10   11