genome.fa.s116.2.7.7.80.10.50.1000.3.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: Scaffold116
Parameters: 2 7 7 80 10 50 1000
Length:  1263769

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 557 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)
561167--561216	15	2.9	18	77	17	61	68	0	0	32	0.90
561205--561253	18	2.8	18	84	6	66	46	0	2	51	1.12
563607--563726	64	1.9	64	87	3	179	25	21	27	25	1.99
568368--568410	11	3.8	11	87	6	59	20	2	0	76	0.89
576851--576898	25	1.9	25	82	0	60	35	2	2	60	1.20
577809--577861	20	2.6	22	85	14	78	66	0	0	33	0.92
578254--578295	22	1.9	22	100	0	84	45	2	9	42	1.49
579566--579607	6	6.8	6	84	15	59	61	0	0	38	0.96
579570--579609	11	3.4	11	81	18	53	62	0	0	37	0.95
587389--587416	2	14.0	2	100	0	56	50	0	0	50	1.00
590761--590786	2	13.0	2	100	0	52	50	0	0	50	1.00
605209--605257	2	24.5	2	95	0	89	0	53	0	46	1.00
613010--613092	17	4.9	17	71	17	57	57	0	0	42	0.98
613066--613111	20	2.2	20	85	11	58	60	4	0	34	1.16
614148--614183	2	18.5	2	94	5	65	50	0	0	50	1.00
614358--614382	2	12.5	2	100	0	50	0	52	0	48	1.00
622718--622759	3	14.0	3	89	0	57	69	4	0	26	1.08
628375--628428	24	2.2	24	93	3	90	18	9	22	50	1.75
630889--630923	2	18.0	2	94	5	63	0	51	0	48	1.00
633748--633793	15	3.1	14	84	12	56	60	0	0	39	0.97
634495--634553	16	4.1	14	78	10	57	62	0	0	37	0.95
637279--637309	16	1.9	16	93	0	53	3	12	0	83	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638527--638571	21	2.1	21	84	8	56	31	13	28	26	1.94
647293--647363	28	2.5	28	86	0	88	22	18	36	22	1.95
647351--647516	52	3.2	50	79	5	179	31	10	27	30	1.90
647454--647631	79	2.2	79	82	7	209	32	15	24	26	1.96
647608--647660	27	2.0	27	92	0	88	24	16	32	26	1.97
647661--647759	51	1.9	51	88	11	150	37	10	21	31	1.86
648720--648907	94	2.0	94	98	0	367	33	20	15	30	1.93
650220--650245	13	2.0	13	100	0	52	38	15	15	30	1.88
650199--650265	34	2.0	33	91	2	107	44	13	16	25	1.84
650297--650369	19	3.7	19	83	5	92	38	16	12	32	1.86
656566--656631	16	4.1	16	80	0	60	33	3	9	54	1.47
662520--662551	3	11.0	3	93	6	57	65	0	0	34	0.93
662980--663029	19	2.5	20	84	15	59	36	0	4	60	1.16
663409--663457	14	3.4	14	80	5	62	44	2	0	53	1.12
663403--663460	29	2.0	29	93	0	98	46	1	0	51	1.11
664744--664776	2	16.5	2	100	0	66	51	0	0	48	1.00
665560--665584	5	5.0	5	100	0	50	20	20	20	40	1.92
668428--668485	29	2.0	29	100	0	116	34	6	48	10	1.64
672020--672058	2	19.5	2	94	0	69	48	0	0	51	1.00
672720--672749	15	2.1	15	93	6	53	46	0	3	50	1.18
695812--695841	13	2.4	12	94	5	51	33	0	3	63	1.11
696481--696505	3	8.3	3	100	0	50	32	0	36	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
697521--697605	35	2.4	35	77	15	84	55	0	0	44	0.99
697528--697615	29	3.0	29	75	15	83	52	0	2	45	1.13
704931--704978	18	2.7	18	79	20	57	47	0	0	52	1.00
704960--705034	38	2.0	37	82	7	89	40	4	0	56	1.18
708117--708141	5	5.0	5	100	0	50	60	40	0	0	0.97
708589--708710	61	1.9	63	83	6	158	41	4	2	51	1.34
708661--708702	20	2.1	20	82	8	50	35	7	2	54	1.41
708589--708714	9	14.0	9	66	14	55	42	3	2	51	1.33
709490--709550	29	2.2	28	88	5	88	42	0	3	54	1.17
714010--714046	12	3.2	12	85	14	60	43	0	0	56	0.99
718068--718115	17	2.8	18	81	9	55	66	0	2	31	1.03
718650--718706	26	2.2	26	87	0	78	56	0	0	43	0.99
718658--718705	13	3.6	14	78	13	57	52	0	0	47	1.00
721115--721192	39	2.0	39	92	0	129	29	23	8	38	1.85
721383--721420	2	19.0	2	94	0	67	47	0	0	52	1.00
729753--729780	2	14.0	2	100	0	56	50	0	0	50	1.00
731271--731304	2	17.5	2	93	6	61	50	0	0	50	1.00
731667--731712	2	23.5	2	86	4	58	41	0	6	52	1.27
731687--731712	13	2.0	13	100	0	52	46	0	0	53	1.00
732060--732104	18	2.6	17	86	6	63	55	0	2	42	1.12
733393--733424	3	10.7	3	100	0	64	68	0	0	31	0.90
736124--736174	19	2.6	19	82	11	59	43	0	1	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
736998--737039	4	10.5	4	100	0	84	50	0	23	26	1.50
740004--740052	23	2.1	23	82	14	57	46	0	2	51	1.12
750517--750542	3	8.7	3	100	0	52	69	0	0	30	0.89
753825--753858	2	17.0	2	100	0	68	50	0	0	50	1.00
754065--754161	39	2.5	39	91	0	158	55	7	4	32	1.46
754065--754172	39	2.7	39	86	1	117	54	8	4	32	1.51
754357--754394	2	19.0	2	100	0	76	50	0	0	50	1.00
755757--755839	6	14.7	6	69	20	54	48	0	0	51	1.00
755751--755817	22	3.0	23	89	4	93	46	0	0	53	1.00
755757--755835	22	3.5	22	84	5	88	48	0	0	51	1.00
767440--767478	2	20.0	2	94	5	71	51	0	0	48	1.00
771658--771693	2	18.0	2	100	0	72	50	0	0	50	1.00
778597--778635	20	2.0	19	85	5	51	28	5	51	15	1.64
778678--778747	24	2.8	25	77	14	72	47	22	8	21	1.78
778680--778776	27	3.7	27	78	8	94	46	23	8	21	1.78
778764--778821	24	2.3	25	88	5	82	27	13	24	34	1.93
780685--780730	21	2.1	22	88	4	67	19	28	19	32	1.96
783194--783232	20	2.0	19	85	5	51	28	5	51	15	1.64
783275--783320	24	1.9	24	86	8	67	45	23	8	21	1.80
783306--783373	27	2.5	28	78	7	86	47	20	7	25	1.76
783361--783418	26	2.3	25	88	5	82	25	13	25	34	1.93
785752--785783	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
792901--792925	2	12.5	2	100	0	50	48	0	0	52	1.00
794522--794657	67	2.0	67	100	0	272	33	11	22	32	1.90
798159--798213	18	3.1	18	81	0	65	41	30	7	20	1.79
798181--798213	6	5.5	6	96	0	57	45	33	3	18	1.65
805475--805517	3	14.3	3	100	0	86	67	0	0	32	0.91
807338--807362	2	12.5	2	100	0	50	48	0	0	52	1.00
808945--809019	23	3.2	25	81	14	72	48	0	2	49	1.15
808959--809019	23	2.7	23	85	12	74	50	0	3	45	1.17
812383--812419	10	3.5	11	82	10	51	83	0	16	0	0.64
813146--813237	40	2.3	39	83	12	107	43	1	1	54	1.14
813182--813240	31	1.9	31	82	6	75	45	1	0	52	1.10
822732--822761	5	6.0	5	92	0	51	0	36	0	63	0.95
822827--822877	25	2.0	25	85	7	68	43	0	0	56	0.99
832299--832329	2	15.5	2	100	0	62	51	0	0	48	1.00
834029--834053	3	8.3	3	100	0	50	36	0	32	32	1.58
835290--835326	2	18.5	2	100	0	74	51	0	48	0	1.00
841232--841288	27	2.1	28	83	9	73	50	0	0	49	1.00
841231--841296	32	2.1	31	86	8	89	50	0	0	50	1.00
841240--841299	28	2.2	27	85	5	77	51	0	0	48	1.00
844182--844213	8	4.0	8	91	0	55	84	0	15	0	0.63
844178--844213	16	2.3	16	90	4	56	83	0	16	0	0.65
844218--844270	24	2.3	24	87	6	74	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
844812--844858	23	2.0	23	84	8	60	23	4	6	65	1.33
845096--845159	18	3.8	17	73	21	55	46	0	0	53	1.00
845952--846017	17	3.8	17	75	13	62	33	1	1	63	1.13
845955--846020	12	5.5	12	76	15	57	31	1	1	65	1.11
846223--846287	12	5.4	12	72	18	55	76	1	20	1	0.94
846223--846287	19	3.3	19	72	14	51	76	1	20	1	0.94
846287--846372	12	7.3	12	68	25	51	38	1	1	59	1.13
846299--846362	23	2.8	24	82	15	66	39	1	0	59	1.07
846293--846351	21	2.9	21	76	16	61	38	0	0	61	0.96
846849--846898	12	4.2	12	76	7	57	24	2	4	70	1.15

Tables:   1   2   3   4   5