genome.fa.s38.2.7.7.80.10.50.1000.3.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: Scaffold38
Parameters: 2 7 7 80 10 50 1000
Length:  2073527

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

This is table  3  of  15  ( 1750 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)
308500--308552	20	2.7	20	87	0	79	37	13	16	32	1.88
311992--312047	19	2.9	19	91	2	85	32	14	14	39	1.86
312444--312482	18	2.2	17	86	13	53	41	15	10	33	1.81
313440--313503	32	2.0	33	87	3	94	35	14	15	34	1.88
315551--315582	12	2.7	12	95	0	55	31	9	28	31	1.88
316577--316624	19	2.5	19	86	0	60	31	14	14	39	1.86
316674--316736	13	4.8	13	86	3	83	34	14	12	38	1.84
316674--316735	26	2.4	26	94	0	106	35	14	12	37	1.85
319689--319780	37	2.5	37	83	1	123	36	16	17	29	1.92
319821--319887	35	1.9	35	90	0	107	34	13	7	44	1.72
319923--320026	35	2.8	37	85	4	122	35	17	14	32	1.90
319968--320079	35	3.2	34	85	7	145	36	21	8	33	1.83
320448--320489	21	2.0	22	90	4	68	28	16	7	47	1.73
324796--324870	20	3.8	20	80	0	87	42	12	13	32	1.80
324793--324870	40	2.0	39	89	2	120	42	12	12	32	1.81
324853--324910	27	2.1	27	90	0	89	51	8	13	25	1.70
326000--326547	28	19.4	28	82	2	587	27	17	26	28	1.97
327855--327904	18	2.7	18	90	3	82	0	2	12	86	0.67
327853--327913	31	1.9	31	87	9	88	1	1	11	85	0.75
329867--330376	43	10.5	50	74	13	232	25	25	16	32	1.96
329969--330394	43	9.0	44	73	16	268	24	25	17	31	1.97
329938--330390	187	2.4	188	83	6	558	24	25	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330344--330465	61	2.0	61	91	0	199	20	25	14	39	1.91
331201--331255	20	2.8	20	83	5	67	34	10	12	41	1.78
345847--345877	16	1.9	16	100	0	62	32	12	19	35	1.90
348862--348898	18	2.1	18	89	0	56	18	35	0	45	1.50
350272--350349	18	4.6	16	68	16	50	58	5	11	24	1.52
350269--350374	51	2.1	51	98	0	203	58	4	13	23	1.54
354684--354741	23	2.5	24	94	5	109	41	5	15	37	1.70
357407--357783	189	2.0	190	97	1	713	32	22	17	27	1.96
359571--359628	23	2.5	24	91	5	100	43	5	13	37	1.67
363293--363320	2	14.0	2	100	0	56	0	50	0	50	1.00
365348--365406	22	2.7	22	81	7	66	38	0	0	61	0.96
365627--365654	13	2.2	13	100	0	56	32	17	28	21	1.96
366556--366581	13	2.0	13	100	0	52	30	15	15	38	1.88
367279--367322	21	2.1	21	83	8	54	25	31	4	38	1.76
369124--369151	13	2.2	13	100	0	56	35	14	17	32	1.90
371208--371238	15	2.1	15	93	0	53	12	22	16	48	1.80
373040--373084	21	2.1	21	84	8	56	22	20	4	53	1.63
375302--375327	13	2.0	13	100	0	52	30	15	15	38	1.88
375282--375345	32	2.0	33	87	3	94	28	14	17	40	1.88
382327--382377	20	2.5	21	76	20	54	76	1	13	7	1.09
384132--384726	132	4.5	131	81	3	678	20	22	16	41	1.90
384127--384704	44	13.2	43	70	8	308	20	21	16	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384857--385067	83	2.5	83	81	4	246	18	25	14	41	1.89
384857--385141	84	3.4	83	80	3	295	18	25	13	42	1.87
386187--386634	164	2.7	163	80	6	481	31	10	8	49	1.67
399452--399593	52	2.7	52	92	1	230	28	16	19	35	1.93
399612--399678	33	2.0	33	88	0	98	40	13	11	34	1.81
399634--399658	13	1.9	13	100	0	50	32	16	16	36	1.90
403510--403568	13	4.5	13	80	4	64	83	1	15	0	0.74
409792--409866	28	2.6	30	81	8	86	30	21	26	21	1.98
409854--409965	51	2.2	51	85	6	156	32	12	25	29	1.93
413022--413121	42	2.4	42	78	8	107	41	12	29	18	1.86
413012--413234	120	1.9	117	80	10	256	40	14	23	21	1.90
413259--413742	61	7.8	60	73	14	346	27	19	27	25	1.99
413570--413769	55	3.6	54	82	8	235	25	21	27	27	1.99
414288--414386	51	1.9	51	80	11	114	36	7	25	31	1.83
416787--416835	20	2.5	20	80	6	55	40	10	16	32	1.82
416834--416885	20	2.6	20	90	6	79	40	15	17	26	1.89
416781--416886	53	2.0	53	81	7	126	39	13	16	31	1.86
416901--416930	13	2.3	13	94	0	51	40	10	16	33	1.82
419177--419236	30	2.0	30	86	0	84	21	10	16	51	1.73
419688--419718	14	2.2	14	94	0	53	67	0	9	22	1.19
421586--421624	20	2.0	20	89	0	60	43	7	15	33	1.75
424876--424959	42	2.0	42	95	0	150	44	14	9	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426005--426459	169	2.8	158	77	12	468	41	9	9	38	1.71
427186--427210	13	1.9	13	100	0	50	36	16	16	32	1.90
427166--427235	33	2.1	33	89	0	104	34	11	14	40	1.82
427276--427300	13	1.9	13	100	0	50	32	16	16	36	1.90
427309--427429	52	2.3	52	97	0	224	34	18	18	28	1.94
431285--431700	166	2.5	164	76	8	430	47	9	13	29	1.74
438092--438134	12	3.6	12	84	9	61	83	0	16	0	0.64
438091--438141	23	2.3	22	89	3	75	84	0	13	1	0.71
438089--438141	21	2.5	20	85	8	70	84	0	13	1	0.69
450800--450858	13	4.7	11	77	22	55	83	1	15	0	0.74
450800--450849	21	2.5	21	87	9	70	82	2	16	0	0.77
450803--450856	7	7.9	7	76	12	58	81	1	16	0	0.78
450800--450858	12	4.7	12	81	8	64	83	1	15	0	0.74
450800--450858	14	4.4	13	82	6	64	83	1	15	0	0.74
450878--450906	12	2.4	12	100	0	58	13	10	13	62	1.55
457057--457131	28	2.7	28	82	0	87	29	21	28	21	1.98
457120--457230	51	2.2	51	83	6	145	33	12	24	29	1.92
459538--459588	20	2.5	21	78	9	61	41	7	15	35	1.76
459585--459636	20	2.6	20	90	6	79	40	15	17	26	1.89
459532--459637	53	2.0	53	81	7	126	39	12	16	32	1.85
459652--459681	13	2.3	13	94	0	51	43	10	16	30	1.81
461930--461989	30	2.0	30	86	0	84	21	10	16	51	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462441--462471	14	2.2	14	94	0	53	67	0	9	22	1.19
464339--464377	20	2.0	20	89	0	60	43	7	15	33	1.75
466226--466733	251	2.0	251	99	0	998	31	18	13	36	1.90
467870--467953	42	2.0	42	95	0	150	42	16	9	30	1.80
468888--469153	141	1.9	142	80	9	319	43	12	11	32	1.78
470040--470065	13	2.0	13	100	0	52	30	15	15	38	1.88
470104--470159	21	2.7	21	100	0	112	26	17	10	44	1.82
478682--478753	21	3.6	19	83	7	72	36	15	11	37	1.83
479453--480200	52	14.4	52	74	9	521	35	15	23	25	1.94
479445--480200	104	7.3	104	83	2	770	35	15	23	25	1.94
479448--480200	156	4.8	156	79	3	759	35	15	23	25	1.94
480306--480361	29	1.9	29	85	0	76	41	17	17	23	1.90
480365--481239	29	30.2	29	74	8	546	28	14	29	27	1.95
480314--481234	87	10.6	87	75	6	614	28	14	28	27	1.96
484063--484102	20	2.0	20	90	0	62	40	10	20	30	1.85
484158--484281	51	2.4	51	85	7	155	31	14	10	43	1.79
487466--487510	23	2.0	23	90	0	72	42	4	26	26	1.74
490585--490629	21	2.1	21	84	8	56	53	4	20	22	1.63
492433--492463	15	2.1	15	93	0	53	48	16	22	12	1.80
494469--494548	20	3.8	20	75	15	79	26	15	15	43	1.85
494534--494572	13	3.0	13	96	0	69	30	17	15	35	1.91
494693--494738	21	2.2	20	81	11	58	32	19	4	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498200--498250	19	2.6	19	81	3	57	33	15	9	41	1.80
500934--501031	51	1.9	50	89	6	153	32	30	4	32	1.77
501013--501083	27	2.6	28	81	4	99	28	30	15	25	1.96
501039--501210	78	2.2	80	81	5	199	27	27	12	31	1.93
501120--501548	108	4.0	106	84	5	515	29	28	9	32	1.88
501121--501536	216	1.9	216	87	3	606	29	28	9	32	1.88
501407--501484	28	2.8	28	80	3	86	29	32	11	26	1.91
501437--501619	81	2.2	81	83	2	215	30	27	9	32	1.88
505767--505799	17	2.0	17	94	5	59	24	0	0	75	0.80
505797--505832	16	2.2	17	95	5	65	38	0	2	58	1.13

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