genome.fa.s122.2.7.7.80.10.50.1000.3.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: Scaffold122
Parameters: 2 7 7 80 10 50 1000
Length:  766530

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 524 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)
417749--417816	1	68.0	1	79	0	64	0	2	8	88	0.62
417756--417816	17	3.6	17	85	12	74	0	1	9	88	0.58
417756--417818	18	3.9	17	80	15	71	0	1	12	85	0.66
427676--427789	19	6.6	19	77	22	135	33	12	21	32	1.91
427695--427719	13	1.9	13	100	0	50	36	16	16	32	1.90
427676--427738	32	2.0	32	100	0	126	33	12	22	31	1.91
427676--427789	51	2.2	51	98	0	219	33	12	21	32	1.91
427727--427797	32	2.2	32	97	0	133	32	12	21	33	1.91
427746--427770	13	1.9	13	100	0	50	36	16	16	32	1.90
427842--427869	13	2.2	13	100	0	56	28	14	17	39	1.89
434658--434721	33	2.0	32	90	3	101	39	20	9	31	1.84
438730--438951	79	2.8	78	76	5	187	33	17	13	35	1.89
438948--439167	59	3.7	58	72	7	156	43	14	13	29	1.82
439075--439237	49	3.1	49	70	20	123	48	13	9	28	1.74
439095--439188	29	3.2	28	69	19	66	45	14	8	30	1.75
438972--439188	59	3.7	58	76	6	195	44	13	11	29	1.80
439332--439375	22	2.0	23	82	13	56	68	2	0	29	1.02
441310--441353	23	1.9	23	81	9	54	29	6	20	43	1.78
445663--445688	13	2.0	13	100	0	52	30	15	15	38	1.88
448237--448262	13	2.0	13	100	0	52	38	15	15	30	1.88
451967--452011	21	2.1	21	84	8	56	22	20	4	53	1.63
457430--457649	79	2.8	79	77	9	227	32	13	25	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457586--457701	51	2.3	51	82	5	146	34	11	23	31	1.90
457795--457865	28	2.5	29	84	13	103	25	19	30	23	1.98
457852--457995	51	2.8	51	76	4	155	34	11	22	31	1.89
460269--460328	20	3.0	20	80	4	75	36	11	18	33	1.87
460269--460323	21	2.7	20	88	2	74	36	12	18	32	1.88
460310--460337	13	2.2	13	100	0	56	42	14	14	28	1.84
460918--460982	20	3.5	20	68	20	68	24	13	23	38	1.91
460912--460982	35	2.0	35	100	0	142	25	15	22	36	1.93
460974--461009	13	2.8	13	91	0	54	41	19	5	33	1.75
462374--462409	16	2.2	16	90	0	54	13	16	11	58	1.63
462605--462662	20	2.9	21	79	7	75	41	1	25	31	1.66
471169--471273	33	3.3	33	87	9	130	31	16	13	39	1.87
471230--471287	19	3.0	19	84	2	80	32	17	13	36	1.89
471316--471369	20	2.7	19	88	11	74	31	14	18	35	1.91
481282--481334	17	2.9	17	76	15	61	30	11	13	45	1.78
481282--481336	20	2.9	19	82	10	69	30	10	12	45	1.77
481328--481385	19	3.1	18	78	11	62	37	17	10	34	1.84
481414--481478	33	2.0	32	85	11	87	33	15	20	30	1.93
489999--490190	32	6.0	32	79	10	103	34	16	15	33	1.90
490082--490171	13	6.0	13	71	26	63	33	17	14	34	1.90
490096--490230	19	7.6	19	73	21	141	34	19	11	34	1.88
490083--490232	32	4.4	32	86	12	219	33	18	12	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490157--490252	19	4.8	20	75	12	90	33	18	10	37	1.85
490157--490252	40	2.4	40	96	3	176	33	18	10	37	1.85
490954--491377	101	4.3	98	78	6	408	31	18	26	23	1.97
490972--491373	150	2.7	150	87	4	544	32	18	26	22	1.97
490954--491377	49	8.5	49	77	8	408	31	18	26	23	1.97
491409--491811	28	14.2	28	82	8	437	21	16	30	32	1.95
491386--491811	84	5.0	85	83	4	509	21	16	29	31	1.96
493251--493297	12	3.8	12	80	11	51	0	0	19	80	0.70
493250--493308	26	2.3	24	80	13	66	0	3	16	79	0.86
498436--498461	13	2.0	13	100	0	52	30	15	15	38	1.88
501008--501032	13	1.9	13	100	0	50	36	16	16	32	1.90
503092--503122	15	2.1	15	93	0	53	12	22	16	48	1.80
504912--504956	21	2.1	21	84	8	56	22	20	4	53	1.63
507172--507197	13	2.0	13	100	0	52	30	15	15	38	1.88
519007--519051	21	2.1	21	84	8	56	53	4	20	22	1.63
522703--522781	20	3.8	20	74	12	77	27	15	13	43	1.85
522767--522805	13	3.0	13	100	0	78	30	15	15	38	1.88
522926--522971	21	2.2	20	81	11	58	32	19	4	43	1.71
525361--525386	13	2.0	13	100	0	52	38	15	15	30	1.88
526833--526895	19	3.6	19	74	24	66	34	15	12	36	1.86
526820--526897	32	2.4	32	93	0	129	33	15	14	37	1.87
527618--527905	49	5.8	49	76	10	255	31	19	26	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527586--527905	98	3.2	98	76	9	297	32	18	26	22	1.97
527922--528382	28	16.4	28	81	9	487	20	17	29	32	1.95
530505--530559	24	2.3	24	96	0	101	18	40	21	20	1.92
532572--532628	13	4.9	13	68	27	56	38	14	14	33	1.85
532551--532647	32	3.0	32	92	1	158	36	14	13	36	1.85
532585--532648	19	3.7	19	74	23	77	37	14	12	35	1.83
532613--532671	20	3.0	20	79	13	70	40	16	11	30	1.85
532716--532745	13	2.3	13	94	0	51	33	13	13	40	1.83
532699--532768	33	2.1	33	89	5	106	31	11	20	37	1.88
536011--536154	78	1.8	78	86	5	211	34	13	25	27	1.94
535872--536245	134	2.8	131	80	10	379	38	12	22	25	1.90
535990--536284	130	2.3	128	83	6	355	35	12	24	27	1.92
536086--536205	51	2.4	51	83	5	154	34	11	25	29	1.91
536139--536313	79	2.2	78	81	5	199	34	14	24	27	1.94
536269--536340	28	2.6	28	86	0	99	30	19	23	26	1.98
536189--536424	107	2.2	107	84	5	298	32	13	25	28	1.94
538792--538936	51	2.8	51	86	4	195	42	11	16	28	1.83
540453--540479	13	2.1	13	100	0	54	29	14	14	40	1.86
540463--540515	19	2.7	19	88	2	79	33	15	15	35	1.88
549787--549915	52	2.5	52	96	0	231	28	17	19	34	1.94
549924--549948	13	1.9	13	100	0	50	36	16	16	32	1.90
549991--550088	19	5.8	18	68	28	72	37	15	11	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550010--550066	13	3.9	13	74	24	51	35	17	12	35	1.87
549989--550086	32	3.0	32	92	1	151	36	15	11	36	1.83
550825--550963	43	3.1	43	84	11	188	32	18	24	24	1.97
550781--550969	49	3.9	49	83	11	248	33	17	23	24	1.96
550984--551220	43	4.7	52	78	11	203	34	16	24	25	1.95
550654--551215	266	2.1	267	90	2	898	35	16	24	24	1.95
551038--551231	95	2.1	94	88	4	284	32	15	25	25	1.96
551226--551688	33	14.2	33	88	5	696	18	18	36	27	1.94
551226--551688	65	7.1	65	91	4	690	18	18	36	27	1.94
551219--551688	98	4.8	97	90	5	720	18	18	36	27	1.94
551688--551781	27	3.2	27	76	16	98	30	13	34	21	1.92
551689--552001	131	2.4	127	79	8	362	30	14	35	19	1.91
551716--551970	34	7.6	34	76	9	188	32	13	35	18	1.90
551689--552001	34	9.8	32	76	14	187	30	14	35	19	1.91
551982--552226	32	7.9	30	81	10	269	31	17	27	24	1.97
551982--552221	126	1.9	123	88	4	356	30	17	27	24	1.97
551982--552221	62	3.9	62	90	2	340	30	17	27	24	1.97
553170--553203	15	2.4	14	95	5	59	0	0	8	91	0.43
553245--553285	22	1.9	22	90	5	66	0	12	7	80	0.90
553534--553570	12	3.1	12	85	14	58	0	0	13	86	0.57
553536--553570	10	3.2	11	88	12	54	0	0	11	88	0.51
553534--553570	13	3.0	13	88	11	60	0	0	13	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553534--553582	24	2.0	24	84	0	62	4	4	10	81	0.95
560452--560580	52	2.5	52	98	0	249	27	18	18	34	1.95
560656--560753	19	5.8	18	68	28	72	36	15	11	36	1.83
560675--560731	13	3.9	13	72	24	51	33	17	12	36	1.87
560654--560751	32	3.0	32	90	1	151	35	15	11	37	1.83
560789--560830	21	2.0	21	90	0	66	35	14	14	35	1.86
563633--563659	13	2.1	13	100	0	54	29	14	14	40	1.86
563640--563718	20	4.0	19	86	3	104	34	13	16	35	1.88
563640--563718	40	2.0	40	87	9	117	34	13	16	35	1.88
563764--563793	13	2.3	13	94	0	51	36	16	13	33	1.88

Tables:   1   2   3   4   5