genome.fa.s145.2.7.7.80.10.50.1000.3.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: Scaffold145
Parameters: 2 7 7 80 10 50 1000
Length:  2608604

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1729 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)
548850--548919	33	2.2	32	84	7	88	50	0	1	48	1.09
551242--551399	50	3.2	50	90	1	246	33	20	18	27	1.96
556017--556059	3	14.3	3	80	9	52	37	0	2	60	1.10
562724--562752	2	14.5	2	100	0	58	48	0	0	51	1.00
565064--565106	20	2.2	20	87	4	61	44	0	0	55	0.99
571242--571273	16	2.1	16	94	5	57	6	21	18	53	1.67
578040--578077	17	2.2	18	85	4	51	39	2	0	57	1.12
578017--578071	23	2.3	24	87	9	78	43	0	0	56	0.99
583285--583346	30	2.1	30	100	0	124	32	9	9	48	1.69
584232--584259	2	14.0	2	100	0	56	50	0	0	50	1.00
584793--584836	2	22.0	2	90	0	70	45	0	2	52	1.13
585910--585961	18	3.1	18	76	18	58	51	0	0	48	1.00
585892--585945	27	1.9	27	85	7	72	50	0	0	50	1.00
585890--585981	34	2.8	31	73	17	78	52	0	0	47	1.00
586223--586256	3	11.3	3	100	0	68	32	0	0	67	0.91
586808--586875	16	4.2	17	76	17	65	38	0	0	61	0.96
586794--586872	34	2.3	34	80	12	90	43	0	0	56	0.99
587140--587164	2	12.5	2	100	0	50	48	0	0	52	1.00
587446--587511	25	2.7	25	83	6	82	57	1	0	40	1.08
587455--587500	13	3.6	13	76	5	58	52	0	0	47	1.00
588379--588414	2	18.0	2	100	0	72	0	50	0	50	1.00
591384--591430	23	2.1	21	88	7	67	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)
591394--591432	14	2.8	14	85	11	53	43	0	0	56	0.99
591389--591432	15	2.9	15	86	6	54	43	0	0	56	0.99
591421--591461	18	2.3	18	91	8	66	46	0	0	53	1.00
591557--591607	15	3.2	17	76	18	56	35	0	0	64	0.94
591563--591620	20	2.9	18	85	14	71	32	0	0	67	0.91
591550--591600	25	2.0	27	84	7	70	33	0	0	66	0.92
591517--591633	27	4.4	27	73	13	75	36	0	1	61	1.06
597869--597929	11	5.4	11	78	9	61	59	0	1	39	1.08
597865--597928	22	2.9	23	82	15	73	60	0	1	37	1.06
597889--597931	19	2.2	20	87	4	61	60	0	0	39	0.97
598704--598804	6	16.8	6	80	8	66	50	0	41	7	1.31
598703--598791	18	4.9	18	83	5	101	50	0	40	8	1.34
598703--598804	18	5.7	17	80	9	73	50	0	41	7	1.31
598710--598806	12	8.1	12	85	4	90	51	0	41	7	1.29
602402--602426	12	2.1	12	100	0	50	52	0	0	48	1.00
602819--602853	2	17.5	2	100	0	70	48	0	0	51	1.00
603263--603355	43	2.1	44	92	2	152	59	1	1	38	1.12
603263--603396	49	2.9	48	81	12	131	58	1	0	39	1.13
614474--614567	46	2.0	46	89	0	143	26	22	24	26	2.00
614922--614959	3	12.7	3	94	0	67	65	0	0	34	0.93
619806--619860	28	2.0	28	92	0	92	47	1	14	36	1.55
621207--621240	2	17.0	2	93	0	59	47	2	0	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621493--621521	2	14.5	2	100	0	58	48	0	0	51	1.00
624519--624549	2	15.5	2	100	0	62	51	0	0	48	1.00
624895--624949	19	2.8	20	81	13	60	32	3	0	63	1.12
624909--625013	29	3.6	29	80	10	124	38	1	0	60	1.08
624963--625029	30	2.2	30	84	5	82	43	0	1	55	1.09
625265--625311	21	2.3	21	81	3	60	48	0	4	46	1.21
625282--625338	13	4.4	13	81	16	73	47	1	1	49	1.22
625825--625887	27	2.4	27	84	7	78	42	0	1	55	1.09
626207--626328	37	3.4	37	79	15	109	60	0	0	39	0.97
626259--626298	20	2.0	20	85	0	53	57	0	0	42	0.98
626280--626328	11	4.9	10	78	16	57	61	0	0	38	0.96
626282--626331	10	4.7	11	76	23	54	64	0	0	36	0.94
626271--626330	20	3.0	21	80	11	63	60	0	0	40	0.97
628236--628260	13	1.9	13	100	0	50	20	0	0	80	0.72
629608--629655	22	2.2	21	92	3	78	60	0	0	39	0.97
632066--632120	24	2.3	24	75	3	58	41	0	3	54	1.18
632108--632140	14	2.5	13	95	5	57	42	0	0	57	0.98
632855--632965	18	5.7	18	66	19	62	55	0	0	43	1.05
633111--633159	19	2.5	20	76	6	55	34	0	6	59	1.22
634151--634179	2	14.5	2	100	0	58	0	48	0	51	1.00
637353--637377	12	2.1	12	100	0	50	16	32	36	16	1.90
637807--637841	6	5.8	6	93	0	61	0	14	48	37	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638153--638197	19	2.5	19	82	7	58	40	0	0	60	0.97
638161--638219	19	3.0	19	78	14	66	38	0	0	61	0.96
639501--639590	35	2.6	38	74	15	95	46	0	2	51	1.13
640642--640677	17	2.2	16	90	5	54	50	0	0	50	1.00
648804--648881	28	2.7	29	79	16	90	57	0	0	42	0.98
649778--649817	20	2.1	19	86	13	55	70	0	0	30	0.88
650176--650206	3	10.3	3	100	0	62	32	0	0	67	0.91
650773--650818	3	15.3	3	95	0	83	30	0	2	67	1.03
651034--651081	25	1.9	25	95	0	87	54	2	6	37	1.38
651039--651082	13	3.5	13	75	6	54	59	2	2	36	1.23
651336--651386	10	5.2	10	76	21	54	41	0	0	58	0.98
651337--651383	14	3.2	15	73	14	53	38	0	0	61	0.96
651649--651702	17	3.1	17	73	5	54	44	0	0	55	0.99
651667--651723	24	2.5	23	80	11	64	43	0	0	56	0.99
652338--652441	52	2.0	52	92	0	172	37	12	18	31	1.88
655952--655982	2	15.5	2	100	0	62	51	0	0	48	1.00
656725--656781	29	1.9	30	89	3	89	43	0	0	56	0.99
656733--656827	29	3.3	30	79	5	88	41	0	1	57	1.05
657537--657571	16	2.2	16	89	0	52	60	0	0	40	0.97
657656--657684	2	15.0	2	92	7	51	51	0	0	48	1.00
660821--660862	21	2.0	21	86	9	59	21	30	14	33	1.93
663485--663692	109	1.9	109	91	4	319	23	8	20	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665390--665415	8	3.2	8	100	0	52	65	23	11	0	1.25
665553--665850	149	2.0	149	98	0	578	36	17	14	31	1.89
674328--674372	12	3.6	12	83	16	56	46	0	0	53	1.00
674322--674372	26	2.0	26	85	11	70	47	0	0	52	1.00
675439--675473	18	1.9	18	88	11	54	31	0	8	60	1.27
675516--675568	22	2.3	23	83	6	63	45	0	3	50	1.19
675603--675659	18	3.2	18	73	9	62	47	7	3	42	1.47
675668--675738	34	2.1	35	89	7	110	54	0	2	42	1.14
675730--675913	90	2.0	95	80	9	211	45	3	4	46	1.40
676316--676356	22	2.0	20	85	9	55	43	0	7	48	1.30
676348--676416	23	3.1	23	79	10	81	43	0	0	56	0.99
676772--676812	16	2.5	17	80	11	50	29	2	2	65	1.18
676832--676863	15	2.3	15	89	10	50	50	0	0	50	1.00
680894--680932	14	2.8	14	88	0	51	5	38	0	56	1.22
688066--688106	2	20.5	2	94	0	73	46	0	2	51	1.14
688341--688416	13	5.4	14	73	16	68	56	0	0	43	0.99
688475--688510	16	2.2	16	90	9	56	58	0	8	33	1.28
688530--688598	32	2.2	32	81	5	77	49	1	4	44	1.31
689420--689477	27	2.1	28	84	9	75	56	3	1	37	1.26
689526--689556	15	2.1	15	93	0	53	0	45	0	54	0.99
690158--690202	16	2.6	17	79	6	56	0	13	0	86	0.57
693419--693443	3	8.3	3	100	0	50	0	0	36	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
695306--695378	29	2.6	27	74	21	69	52	0	0	47	1.00
698003--698046	17	2.5	18	81	3	54	36	2	0	61	1.09
699793--699830	3	13.3	3	83	10	53	65	0	2	31	1.06
703846--703889	20	2.2	20	91	4	70	47	2	0	50	1.13
705318--705350	17	1.9	17	93	0	57	45	3	9	42	1.51
705408--705450	17	2.5	18	81	7	54	60	2	0	37	1.10
705405--705438	11	3.1	11	88	12	52	52	0	0	47	1.00
707660--707689	3	10.0	3	100	0	60	33	0	0	66	0.92
708170--708224	18	3.0	18	78	7	58	41	0	1	56	1.10
712706--712734	13	2.1	14	93	6	51	37	0	0	62	0.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15