genome.fa.s262.2.7.7.80.10.50.1000.5.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: Scaffold262
Parameters: 2 7 7 80 10 50 1000
Length:  1141274

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 957 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)
503839--503893	7	8.0	7	73	18	53	72	0	0	27	0.85
503833--503893	17	3.8	17	84	4	74	70	0	1	27	0.97
504231--504263	3	11.0	3	100	0	66	33	33	0	33	1.58
504262--504306	3	15.0	3	100	0	90	33	0	0	66	0.92
505112--505137	3	8.7	3	100	0	52	34	65	0	0	0.93
505338--505370	2	16.5	2	93	0	57	0	51	0	48	1.00
505605--505637	6	5.5	6	86	13	50	33	0	3	63	1.10
505677--505722	16	2.8	17	75	18	51	43	0	2	54	1.12
506177--506308	45	2.9	45	87	1	192	50	10	8	31	1.67
513146--513179	14	2.4	14	85	0	50	44	0	0	55	0.99
513215--513273	19	3.1	19	76	13	66	35	0	0	64	0.94
513219--513303	19	4.8	19	64	22	51	42	0	0	57	0.98
513855--513906	17	3.1	17	78	10	54	65	3	0	30	1.10
513860--513898	17	2.2	17	90	4	60	66	0	0	33	0.92
514093--514142	25	2.0	25	96	0	91	34	4	10	52	1.54
515172--515209	19	2.0	20	89	5	60	63	2	0	34	1.09
518829--518895	16	4.2	15	71	17	55	44	0	0	55	0.99
518839--518917	32	2.5	32	83	10	99	45	1	0	53	1.08
518905--518941	19	1.9	19	89	10	58	29	0	0	70	0.88
518905--518957	9	5.6	10	78	17	60	30	0	0	69	0.88
518899--518957	28	2.0	32	87	12	90	30	1	0	67	1.00
519100--519139	5	8.0	5	94	0	71	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519175--519229	29	1.9	29	92	3	94	52	0	0	47	1.00
519736--519840	15	6.9	15	69	16	56	40	1	0	56	1.17
519845--519896	11	5.0	10	81	13	61	38	3	0	57	1.17
519845--519896	16	3.3	15	81	13	61	38	3	0	57	1.17
521785--521826	17	2.5	17	84	0	57	38	0	0	61	0.96
523359--523383	2	12.5	2	100	0	50	52	48	0	0	1.00
524386--524436	15	3.5	15	75	15	54	35	0	0	64	0.94
525561--525596	2	18.0	2	94	0	63	47	2	0	50	1.15
527446--527487	14	3.0	14	85	0	57	61	0	0	38	0.96
527806--527850	14	3.2	14	87	0	63	62	0	0	37	0.96
527222--527918	359	1.9	359	93	2	1188	44	9	7	38	1.65
528395--528461	2	33.5	2	100	0	134	50	0	0	49	1.00
528490--528529	19	2.1	19	90	9	64	27	5	2	65	1.27
530894--530929	2	18.0	2	94	0	63	52	0	0	47	1.00
532729--532768	2	20.5	2	89	5	64	47	0	2	50	1.14
539659--539699	7	5.9	7	86	11	57	56	0	0	43	0.99
539780--539821	21	2.0	22	85	4	59	57	7	2	33	1.39
540856--540906	16	3.2	16	74	20	52	60	0	0	39	0.97
541081--541106	12	2.2	12	100	0	52	61	0	7	30	1.24
542728--542762	18	2.1	17	89	10	54	51	5	0	42	1.25
543718--543802	16	5.2	16	85	1	107	32	0	2	64	1.06
543725--543801	32	2.4	31	91	4	118	33	0	2	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543702--543807	16	6.9	15	78	13	99	34	0	2	62	1.10
543724--543822	32	3.1	33	84	7	114	35	0	4	60	1.16
543764--543913	69	2.2	70	83	7	182	41	2	5	50	1.39
543783--543969	52	3.5	51	71	16	148	39	2	6	51	1.42
543890--543936	15	3.3	15	88	8	71	42	0	6	51	1.27
543881--543967	37	2.6	36	75	13	87	41	1	5	51	1.33
545225--545284	29	2.1	28	82	14	70	45	5	0	50	1.23
551378--551405	2	14.0	2	100	0	56	50	0	0	50	1.00
557091--557164	16	4.9	16	70	24	54	39	4	0	56	1.18
557547--557580	2	17.0	2	100	0	68	50	0	50	0	1.00
563238--563277	17	2.4	17	82	0	53	57	0	0	42	0.98
564903--564945	19	2.3	19	80	15	54	44	6	0	48	1.29
565976--566015	21	1.9	21	85	10	55	50	2	0	47	1.14
566879--566980	44	2.2	45	81	13	120	39	0	1	58	1.09
566981--567016	18	1.9	19	94	5	65	27	0	0	72	0.85
567157--567189	2	16.5	2	100	0	66	51	0	48	0	1.00
573839--573864	3	8.7	3	100	0	52	69	0	0	30	0.89
581770--581804	11	3.0	11	84	15	52	11	25	11	51	1.71
587624--587650	13	2.1	13	100	0	54	29	29	7	33	1.85
591234--591331	44	2.2	44	96	1	178	25	19	14	40	1.89
594456--594497	11	3.8	11	78	12	50	38	0	0	61	0.96
594976--595028	28	1.9	27	96	3	97	45	3	0	50	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596499--596567	17	4.2	16	74	13	52	52	4	0	43	1.21
597500--597538	20	2.0	19	95	5	69	23	0	0	76	0.78
597568--597611	22	2.0	21	87	12	63	40	0	0	59	0.98
599405--599456	20	2.7	20	82	11	63	59	0	0	40	0.97
599500--599547	16	2.9	16	90	9	71	58	0	0	41	0.98
599496--599547	6	10.0	5	80	19	54	59	0	0	40	0.97
600646--600712	35	1.9	35	100	0	134	22	13	5	58	1.57
603344--603654	128	2.5	127	80	9	327	36	14	16	32	1.89
605684--605753	32	2.2	32	84	0	86	45	5	1	47	1.35
605741--605798	23	2.8	20	76	19	64	32	3	0	63	1.11
606535--606574	2	20.0	2	100	0	80	50	0	0	50	1.00
608177--608203	3	9.0	3	100	0	54	33	0	0	66	0.92
611431--611465	2	17.5	2	100	0	70	0	0	48	51	1.00
615823--615862	20	2.0	21	85	5	55	57	0	0	42	0.98
615851--615886	15	2.4	15	90	0	54	58	2	0	38	1.13
616147--616222	33	2.3	33	88	8	111	57	0	1	40	1.07
616154--616231	18	4.6	18	74	16	69	56	0	1	42	1.07
616134--616221	33	2.4	38	71	24	91	56	1	2	39	1.19
616339--616397	17	3.2	19	80	15	61	30	0	0	69	0.89
616357--616397	20	2.0	21	90	4	66	31	0	0	68	0.90
618277--618439	45	3.6	45	90	0	245	22	20	31	24	1.98
619026--619088	32	2.0	32	84	6	83	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619336--619428	18	5.1	19	73	21	74	39	1	0	59	1.05
619374--619415	21	2.0	22	86	13	61	45	0	0	54	0.99
620924--620955	16	2.0	16	100	0	64	62	0	31	6	1.20
622072--622100	3	9.7	3	100	0	58	65	0	34	0	0.93
623209--623351	71	2.0	70	85	5	164	46	4	0	48	1.26
623233--623343	37	3.1	36	69	12	102	49	5	0	44	1.31
625453--625477	2	12.5	2	100	0	50	0	48	0	52	1.00
630122--630153	2	16.0	2	100	0	64	50	0	0	50	1.00
630339--630384	3	15.7	3	95	4	85	69	0	0	30	0.89
635593--635745	51	3.0	51	99	0	299	28	21	26	23	1.99
636443--636487	20	2.2	21	84	7	58	60	2	2	35	1.22
637477--637583	19	5.3	19	75	16	76	53	2	0	43	1.15
637487--637583	11	9.4	11	70	26	54	52	2	0	45	1.12
637523--637584	24	2.7	22	83	13	81	50	1	0	48	1.10
638069--638110	22	1.9	22	90	0	66	40	0	0	59	0.97
641008--641048	21	2.0	21	90	9	66	36	0	0	63	0.95
641165--641208	15	2.8	16	79	6	54	40	0	2	56	1.11
641313--641350	12	3.2	12	81	3	51	57	0	0	42	0.98
641280--641340	28	2.1	29	82	8	72	52	0	0	47	1.00
642731--642761	16	1.9	16	93	0	53	38	0	3	58	1.15
643194--643239	3	15.3	3	100	0	92	32	0	0	67	0.91
643803--643873	23	2.9	25	81	14	85	45	1	0	53	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643813--643873	9	7.3	9	71	23	53	42	0	0	57	0.98
643813--643873	23	2.5	24	89	7	88	42	0	0	57	0.98
643837--643911	16	4.8	16	79	9	82	41	0	0	58	0.98
643886--643917	15	2.1	16	88	11	50	34	0	0	65	0.93
644206--644306	28	3.4	30	73	15	86	39	0	0	59	1.04
644258--644300	19	2.3	19	96	4	79	34	0	0	65	0.93
644409--644439	16	1.9	16	93	0	53	29	0	3	67	1.06
644887--644950	18	3.6	18	68	19	53	60	0	3	35	1.12
647043--647093	24	2.1	24	96	0	93	45	0	0	54	0.99
647023--647090	13	5.5	13	72	8	61	44	0	0	55	0.99

Tables:   1   2   3   4   5   6   7   8