genome.fa.s385.2.7.7.80.10.50.1000.5.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: Scaffold385
Parameters: 2 7 7 80 10 50 1000
Length:  1395621

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

This is table  5  of  10  ( 1109 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)
453461--453485	13	1.9	13	100	0	50	52	0	0	48	1.00
454303--454336	2	17.0	2	100	0	68	50	0	0	50	1.00
454336--454368	2	16.5	2	100	0	66	51	0	48	0	1.00
455228--455254	2	13.5	2	100	0	54	51	0	0	48	1.00
455254--455292	2	19.5	2	100	0	78	51	0	48	0	1.00
462536--462565	13	2.3	13	94	0	51	43	3	0	53	1.17
462571--462700	68	1.9	67	87	1	188	49	3	10	36	1.53
462700--462736	11	3.5	11	92	3	58	48	0	10	40	1.38
462857--462900	12	3.7	12	96	0	79	36	11	31	20	1.88
462857--462900	6	7.3	6	89	0	70	36	11	31	20	1.88
473619--473675	12	4.8	12	77	0	69	84	5	8	1	0.84
474112--474174	18	3.3	19	78	8	56	46	0	0	53	1.00
474228--474287	19	3.2	19	76	23	65	45	3	0	51	1.17
474291--474382	15	6.8	12	69	25	51	48	0	1	50	1.08
474293--474364	14	4.9	15	79	6	94	51	0	0	48	1.00
474293--474364	29	2.5	29	100	0	144	51	0	0	48	1.00
474379--474428	2	25.0	2	91	0	73	46	2	4	48	1.32
474577--474612	2	18.5	2	94	5	65	50	0	0	50	1.00
474741--474782	20	2.1	21	86	8	61	50	0	2	47	1.14
474935--474987	26	2.0	27	82	10	65	37	9	1	50	1.46
475247--475277	4	7.8	4	100	0	62	51	0	0	48	1.00
476696--476744	23	2.0	26	84	11	68	51	2	4	42	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480991--481041	24	2.2	24	80	16	63	49	3	0	47	1.20
481543--481639	21	4.5	21	77	8	90	43	3	2	51	1.29
481573--481677	15	7.1	14	76	16	88	46	0	0	52	1.07
481579--481642	6	12.2	5	77	22	53	46	0	0	53	1.00
481573--481633	22	2.9	21	87	4	95	45	1	0	52	1.10
481574--481667	37	2.5	38	84	6	138	47	1	0	51	1.07
481743--481777	3	11.7	3	100	0	70	31	0	0	68	0.90
484669--484741	20	3.6	20	81	3	101	35	13	19	31	1.91
484669--484763	41	2.3	42	96	1	174	40	12	17	29	1.87
484802--484827	13	2.0	13	100	0	52	38	15	15	30	1.88
487043--487087	21	2.1	21	84	8	56	53	4	20	22	1.63
488891--488921	15	2.1	15	93	0	53	48	16	22	12	1.80
490935--491012	20	3.7	20	74	15	75	26	15	15	42	1.87
491001--491025	13	1.9	13	100	0	50	32	20	16	32	1.94
493471--493543	20	3.6	20	81	3	101	35	13	19	31	1.91
493471--493565	41	2.3	42	96	1	174	40	12	17	29	1.87
493604--493629	13	2.0	13	100	0	52	38	15	15	30	1.88
498182--498225	19	2.4	19	85	14	58	40	0	0	59	0.98
498887--498924	18	2.2	17	86	9	51	57	2	2	36	1.26
500044--500088	2	22.5	2	95	0	72	51	4	44	0	1.21
500036--500090	12	4.6	12	90	0	65	52	7	40	0	1.29
500036--500088	10	5.3	10	90	0	61	52	5	41	0	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504446--504524	29	2.7	29	79	12	81	67	3	0	29	1.08
505500--505606	8	12.8	8	69	26	62	37	0	0	61	1.02
505487--505626	5	27.8	5	69	21	80	37	1	1	59	1.15
505503--505626	37	3.4	35	77	20	121	37	0	0	60	1.08
505559--505604	14	3.2	14	79	14	58	36	0	0	63	0.95
505498--505626	18	7.1	20	68	23	81	37	0	0	60	1.08
505486--505626	53	2.7	50	75	12	131	38	1	1	58	1.15
506106--506208	36	2.9	36	69	13	95	48	0	0	50	1.07
507095--507155	32	1.9	32	93	0	104	16	21	11	50	1.76
509710--509743	2	17.5	2	93	6	61	50	50	0	0	1.00
513893--513928	18	1.9	19	88	5	56	25	16	19	38	1.92
514052--514118	13	5.3	13	70	12	50	58	0	0	41	0.98
514312--514363	18	2.7	20	85	8	72	36	0	1	61	1.07
521047--521090	17	2.7	16	79	6	52	59	0	0	40	0.98
521584--521616	12	2.6	13	90	9	59	36	0	0	63	0.95
521905--521950	15	3.0	15	77	3	56	47	0	0	52	1.00
522308--522369	18	3.2	18	70	22	54	61	0	0	38	0.96
522302--522378	41	1.9	40	86	7	111	61	0	0	38	0.96
522392--522470	39	2.0	39	82	4	97	55	3	1	39	1.26
523995--524033	19	2.0	20	95	5	71	41	0	0	58	0.98
524565--524595	2	15.5	2	100	0	62	51	0	0	48	1.00
525648--525672	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529756--530035	141	2.0	141	98	0	542	35	23	21	18	1.95
537946--537977	16	2.1	16	94	5	57	40	0	0	59	0.97
537988--538036	13	4.2	13	71	28	56	38	0	0	61	0.96
537995--538142	17	9.2	17	72	22	74	39	0	0	60	0.97
537970--538142	30	5.6	31	70	21	116	39	0	0	60	1.01
538076--538139	9	7.1	9	74	12	60	45	0	0	54	0.99
538033--538142	11	10.5	11	69	21	58	39	0	0	60	0.97
542397--542460	30	2.0	30	79	8	65	26	1	1	70	1.05
542498--542532	9	3.8	9	85	7	52	34	0	0	65	0.93
542496--542544	17	2.7	18	90	6	73	36	0	0	63	0.95
545429--545460	12	2.6	13	90	9	50	59	0	0	40	0.97
545439--545476	19	2.1	19	90	5	60	52	2	0	44	1.14
548441--548502	2	33.5	2	76	15	62	46	0	3	50	1.17
548441--548511	28	2.5	28	79	2	79	46	0	4	49	1.21
558028--558111	42	2.0	42	83	0	105	29	26	13	30	1.93
559132--559176	18	2.5	18	82	7	56	51	2	0	46	1.13
560080--560110	2	15.5	2	100	0	62	51	0	0	48	1.00
561216--561258	23	2.0	23	86	9	63	27	6	16	48	1.71
562370--562440	27	2.5	28	77	11	74	47	0	0	52	1.00
563958--564000	2	21.5	2	95	0	77	48	0	2	48	1.14
565208--565236	15	2.0	15	93	6	51	62	3	6	27	1.37
565557--565614	11	5.5	11	78	19	61	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565561--565619	19	3.2	18	83	11	66	66	0	0	33	0.92
565562--565620	18	3.5	18	69	23	56	64	0	0	35	0.94
565604--565666	32	1.9	33	90	3	101	50	3	1	44	1.27
565893--565937	11	4.1	11	79	0	54	62	2	2	33	1.20
565872--565918	17	2.8	17	76	0	58	61	0	0	38	0.96
567958--568028	19	4.0	18	72	25	62	47	0	0	52	1.00
567959--568049	32	2.8	32	82	14	107	47	0	0	52	1.00
567971--568052	16	5.2	16	69	20	50	46	0	0	53	1.00
567997--568061	30	2.2	28	82	12	78	40	0	0	60	0.97
568003--568060	21	2.8	21	76	7	57	41	0	0	58	0.98
570158--570199	22	1.9	22	85	9	59	64	0	0	35	0.94
570366--570429	26	2.6	25	82	9	78	50	3	1	45	1.27
570894--570939	9	5.6	8	78	21	51	50	0	0	50	1.00
570894--570940	24	2.0	23	95	4	85	51	0	0	48	1.00
570919--570994	30	2.4	32	79	20	88	36	0	0	63	0.95
570938--570990	16	3.4	15	80	15	63	32	0	0	67	0.91
571019--571077	23	2.6	22	77	20	59	49	3	0	47	1.18
572472--572575	37	2.8	36	76	15	88	52	0	0	47	1.00
572641--572699	23	2.5	23	76	13	59	67	1	1	28	1.10
573193--573248	21	2.8	20	72	25	55	64	1	0	33	1.04
573622--573666	21	2.1	21	87	0	63	44	13	0	42	1.43
579103--579142	16	2.5	16	88	8	55	65	2	2	30	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579356--579413	31	1.9	30	85	3	80	44	0	0	55	0.99
579570--579614	19	2.4	19	81	3	56	33	0	0	66	0.92
579575--579645	26	2.6	27	80	13	83	35	0	0	64	0.94
579592--579632	21	2.0	21	85	0	55	36	0	0	63	0.95
579792--579822	15	2.1	15	93	0	53	70	0	3	25	1.02
579933--579973	21	2.0	21	85	0	55	36	0	0	63	0.95
579441--580109	341	2.0	338	94	3	1184	46	1	4	47	1.30
581360--581495	66	2.1	66	91	2	220	22	10	13	54	1.68
587445--587509	25	2.6	25	82	2	67	52	3	0	44	1.16
587463--587510	13	3.5	13	82	5	60	52	0	0	47	1.00

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