genome.fa.s496.2.7.7.80.10.50.1000.6.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: Scaffold496
Parameters: 2 7 7 80 10 50 1000
Length:  765014

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 825 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)
530794--530820	14	1.9	14	100	0	54	22	11	14	51	1.73
532285--532324	20	2.0	20	90	9	64	65	0	0	35	0.93
533540--533576	18	2.1	18	90	5	58	45	16	2	35	1.61
536895--536943	22	2.3	22	85	3	64	44	6	0	48	1.27
537144--537304	9	17.6	9	69	16	57	59	0	0	39	1.02
537123--537312	38	4.8	38	69	18	122	58	0	0	40	1.06
537147--537231	19	4.8	17	74	11	57	57	0	1	41	1.06
537166--537251	34	2.5	34	81	12	88	55	0	1	43	1.07
537256--537313	20	2.7	22	71	20	59	60	0	0	39	0.97
537204--537294	46	1.9	49	86	10	136	58	0	0	41	0.98
537266--537304	20	2.0	20	90	5	62	69	0	0	30	0.89
537200--537313	46	2.4	48	72	17	123	57	0	0	42	0.98
537609--537647	20	2.1	19	85	9	53	56	0	0	43	0.99
538388--538435	3	16.0	3	100	0	96	33	0	0	66	0.92
539314--539346	3	11.0	3	100	0	66	66	0	0	33	0.92
540150--540212	13	3.9	17	82	18	64	53	0	0	46	1.00
540992--541033	3	14.0	3	100	0	84	66	0	0	33	0.92
541292--541358	3	22.3	3	87	0	98	61	0	5	32	1.20
541506--541577	36	2.0	36	82	15	87	54	0	0	45	0.99
544762--544816	21	2.7	21	81	10	62	56	0	3	40	1.17
545635--545671	14	2.6	15	83	12	51	59	0	2	37	1.12
545659--545703	19	2.3	20	84	3	65	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545956--546003	13	3.8	13	86	2	53	18	2	2	77	0.97
550017--550069	22	2.4	22	84	6	63	43	9	5	41	1.61
553284--553325	20	2.1	20	86	0	57	42	0	0	57	0.99
555319--555351	15	2.2	15	94	0	57	48	0	0	51	1.00
556119--556160	22	2.0	22	90	4	68	57	0	0	42	0.99
556631--556663	16	2.1	16	94	0	57	60	0	6	33	1.21
556708--556784	36	2.2	33	80	11	84	48	1	0	50	1.09
557669--557704	15	2.2	17	90	9	58	36	0	0	63	0.94
557658--557709	24	2.1	25	85	3	70	36	0	1	61	1.07
557713--557746	18	1.9	18	88	5	52	67	0	0	32	0.91
557712--557762	25	2.0	24	85	14	68	64	0	0	35	0.94
557719--557754	18	2.0	18	88	0	54	66	0	0	33	0.92
558376--558401	2	13.0	2	100	0	52	0	50	0	50	1.00
558401--558429	2	14.5	2	100	0	58	48	0	0	51	1.00
558870--558947	30	2.6	29	82	11	86	38	2	2	56	1.27
558975--559057	29	2.8	30	78	14	82	56	6	6	31	1.48
559670--559723	29	1.9	27	82	14	65	35	11	0	53	1.36
560493--560544	26	2.0	27	84	3	70	50	3	3	42	1.39
563235--563287	19	2.6	21	80	11	58	58	0	0	41	0.98
564452--564477	4	6.5	4	100	0	52	50	0	0	50	1.00
564657--564687	16	2.0	16	93	6	55	38	0	16	45	1.47
565269--565321	15	3.8	15	74	25	62	39	1	0	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565267--565316	25	2.0	26	88	11	77	40	2	0	58	1.10
568236--568280	23	2.0	22	82	4	54	62	0	6	31	1.21
568501--568682	91	2.1	85	78	14	183	43	4	3	47	1.41
569568--569639	36	2.0	35	84	10	92	66	5	4	23	1.30
569758--569840	14	6.4	14	73	23	74	61	1	0	37	1.04
569762--569836	25	3.0	25	75	9	71	62	1	0	36	1.04
569812--569892	17	4.9	16	72	20	60	55	1	0	43	1.07
569768--569878	35	3.2	35	77	12	88	58	1	0	39	1.09
569797--569905	57	1.9	57	80	16	127	55	2	0	41	1.14
570583--570668	14	7.1	11	71	24	50	43	0	0	56	0.99
570594--570670	24	3.1	23	74	20	66	41	0	0	58	0.98
571683--571732	12	3.5	14	76	18	50	48	0	0	52	1.00
571663--571720	12	5.2	12	74	19	54	50	0	0	50	1.00
571675--571721	20	2.4	21	86	10	64	51	0	0	48	1.00
571925--571953	15	1.9	15	100	0	58	41	0	0	58	0.98
574021--574060	8	5.1	8	81	6	55	85	0	15	0	0.61
574924--574961	2	19.0	2	100	0	76	0	50	0	50	1.00
579975--580017	7	6.0	7	81	5	50	2	18	0	79	0.85
579975--580017	21	2.0	22	90	4	70	2	18	0	79	0.85
583159--583197	17	2.2	18	90	4	62	5	25	12	56	1.57
583280--583421	40	3.4	40	66	17	108	7	20	14	57	1.61
583238--583374	43	3.1	43	67	14	118	8	22	12	56	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583172--583427	86	3.0	86	90	4	380	8	22	12	56	1.62
583283--583417	43	3.1	43	68	12	132	8	20	14	57	1.63
583849--583910	8	6.8	9	76	23	67	14	0	8	77	0.98
583849--583910	17	3.4	18	74	25	67	14	0	8	77	0.98
583860--583912	18	2.8	19	85	5	81	15	0	7	77	0.98
583835--583926	18	5.2	18	69	17	50	17	0	5	77	0.96
584404--585437	42	24.2	42	78	8	890	36	19	31	13	1.90
584404--585435	126	8.1	125	79	8	1040	36	19	30	13	1.90
584967--585244	139	2.0	139	85	4	373	36	20	31	11	1.89
585010--585370	97	4.0	96	77	11	295	37	19	30	12	1.89
584952--585435	169	2.7	181	79	8	498	36	19	30	13	1.90
585123--585433	127	2.5	126	81	7	371	37	18	29	13	1.90
599321--599472	38	3.7	38	74	17	142	9	22	13	53	1.69
599338--599536	87	2.3	88	91	0	310	10	21	12	56	1.65
599952--600020	7	9.3	7	76	14	59	23	0	0	76	0.78
599942--600023	38	2.2	36	82	14	105	23	0	0	76	0.78
599975--600023	16	3.1	16	77	17	57	24	0	0	75	0.80
601409--601494	45	1.9	45	100	0	172	54	10	6	27	1.60
602171--602236	23	2.9	22	77	4	60	33	1	1	63	1.13
602204--602250	19	2.5	19	85	0	67	29	2	0	68	1.02
602183--602250	14	4.9	14	73	10	59	32	1	0	66	1.01
602386--602427	2	21.5	2	95	4	77	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)
603189--603228	20	2.0	20	85	9	55	47	0	2	50	1.14
604230--604257	2	14.0	2	100	0	56	50	0	0	50	1.00
604874--604905	2	16.0	2	100	0	64	50	0	0	50	1.00
606163--606209	20	2.2	22	85	7	62	48	0	0	51	1.00
606170--606217	22	2.2	21	89	10	71	43	0	0	56	0.99
606170--606217	21	2.2	22	89	10	73	43	0	0	56	0.99
606243--606300	20	2.9	19	84	5	62	62	3	3	31	1.29
606260--606300	19	2.1	20	95	4	75	68	2	0	29	1.03
608571--608609	21	1.9	20	89	5	60	35	5	0	58	1.20
614692--614720	2	14.5	2	100	0	58	48	0	0	51	1.00
615931--615992	24	2.7	22	83	9	79	29	1	1	67	1.09
616065--616169	23	4.5	23	71	17	67	38	0	2	59	1.13
616136--616173	15	2.4	16	83	16	53	47	0	0	52	1.00
616401--616457	18	3.0	18	82	12	53	47	1	0	50	1.11
624195--624352	83	1.9	83	90	0	253	25	19	19	35	1.95
625555--625702	50	2.9	50	82	4	190	20	9	31	38	1.84
634945--634988	2	22.0	2	95	0	79	47	0	0	52	1.00
637454--637528	28	2.7	28	80	13	84	58	4	1	36	1.25
639281--639335	29	1.9	28	88	3	83	52	0	3	43	1.18
639565--639617	16	3.2	16	84	12	56	58	5	3	32	1.39
639675--639749	26	3.0	25	80	7	89	38	8	5	48	1.56
639899--639944	22	2.1	22	87	0	65	67	0	2	30	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639927--640086	37	4.4	37	74	17	136	49	6	5	39	1.50
640124--640176	29	1.9	29	81	11	67	43	0	7	49	1.31
640189--640234	19	2.5	19	89	3	67	39	6	0	54	1.26
640598--640665	32	2.1	32	86	5	93	38	10	13	38	1.78
648937--648980	2	22.0	2	95	0	79	47	0	0	52	1.00
651449--651523	28	2.7	28	80	13	84	58	4	1	36	1.25
653281--653335	29	1.9	28	88	3	83	52	0	3	43	1.18
653678--653746	26	2.8	25	82	6	86	39	8	5	46	1.59
653906--653949	22	2.0	23	90	4	72	63	0	2	34	1.07
653988--654081	39	2.7	33	72	23	84	46	8	5	39	1.57

Tables:   1   2   3   4   5   6   7