genome.fa.s385.2.7.7.80.10.50.1000.3.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: 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  3  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)
240438--240518	21	3.9	19	70	24	56	38	0	1	60	1.05
244188--244232	20	2.4	18	81	7	54	64	2	0	33	1.06
244979--245017	21	1.9	21	89	5	62	33	0	2	64	1.08
245053--245125	25	3.0	24	75	18	71	41	1	1	56	1.16
245053--245121	34	2.0	36	83	11	90	42	1	1	55	1.18
255940--255980	16	2.6	16	88	11	66	41	0	0	58	0.98
255969--256003	12	2.8	13	86	8	54	48	0	0	51	1.00
256452--256494	22	2.0	22	86	13	63	48	0	0	51	1.00
256470--256536	35	2.0	34	82	8	84	55	0	0	44	0.99
256891--256977	40	2.2	40	79	6	97	49	2	2	45	1.27
256906--256990	19	4.4	19	67	17	59	51	0	2	45	1.13
258916--258965	18	2.9	17	78	18	59	66	0	0	34	0.92
258918--258988	34	2.1	34	84	5	90	60	0	0	39	0.97
258932--258973	14	3.0	14	83	13	59	64	0	0	35	0.94
258963--259000	19	2.0	19	85	10	51	44	0	0	55	0.99
264051--264078	2	14.0	2	100	0	56	50	0	0	50	1.00
264890--264919	15	2.0	15	93	0	51	63	0	6	30	1.20
265634--265665	15	2.1	15	94	0	55	59	0	9	31	1.29
267426--267470	5	9.0	5	82	0	54	40	0	4	55	1.20
268384--268427	21	2.2	20	83	4	52	40	0	2	56	1.11
269720--269797	2	40.5	2	72	12	56	46	1	1	51	1.17
269765--269811	9	5.3	9	81	18	55	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
270393--270432	18	2.2	19	86	4	55	35	0	2	62	1.09
270440--270493	16	3.3	16	73	26	51	38	0	3	57	1.17
270451--270505	16	3.4	16	76	20	60	40	0	1	58	1.09
270450--270511	32	1.9	33	90	3	99	41	0	1	56	1.09
270461--270514	16	3.4	16	75	10	56	46	0	1	51	1.11
271030--271094	28	2.3	29	79	12	73	47	0	0	52	1.00
273845--273933	22	4.1	22	71	20	62	47	2	0	50	1.13
273879--273916	20	1.9	20	94	0	67	52	2	0	44	1.14
274594--274637	20	2.2	20	84	8	54	25	0	2	72	0.96
275524--275616	11	8.5	11	66	15	50	54	0	1	44	1.07
275512--275585	23	3.4	22	71	17	64	55	0	1	43	1.08
275527--275594	23	3.3	20	77	16	68	58	0	1	39	1.07
275506--275604	43	2.3	43	76	11	103	54	0	1	44	1.06
275577--275622	23	2.0	23	83	8	58	50	0	0	50	1.00
275596--275641	20	2.6	19	80	19	55	47	0	0	52	1.00
275762--275786	3	8.3	3	100	0	50	64	0	0	36	0.94
276105--276137	14	2.3	15	89	5	50	36	0	0	63	0.95
276426--276459	17	2.0	17	88	11	52	82	0	0	17	0.67
276972--277018	15	3.3	15	80	16	55	70	2	0	27	0.99
281780--281809	12	2.5	12	100	0	60	33	6	16	43	1.74
282202--282226	2	12.5	2	100	0	50	48	0	0	52	1.00
283422--283477	20	2.7	20	81	18	62	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286290--286314	12	2.1	12	100	0	50	44	0	0	56	0.99
286287--286323	19	1.9	19	88	0	56	43	0	0	56	0.99
286887--286915	4	7.2	4	100	0	58	51	0	0	48	1.00
287505--287536	16	2.0	16	93	0	55	46	0	0	53	1.00
287660--287684	13	1.9	13	100	0	50	24	8	0	68	1.16
287595--287917	163	2.0	163	100	0	646	39	4	8	47	1.56
287823--287847	13	1.9	13	100	0	50	24	8	0	68	1.16
287978--288028	12	4.0	12	79	18	50	31	0	0	68	0.90
287971--288031	32	1.9	32	84	15	83	31	0	0	68	0.89
287972--288015	18	2.4	19	81	14	56	31	0	0	68	0.90
289611--289663	23	2.3	23	86	0	70	54	1	0	43	1.11
289753--289809	28	2.2	26	84	9	71	70	1	7	21	1.20
289751--289807	25	2.3	26	79	14	66	68	1	7	22	1.23
290023--290075	17	3.2	16	72	17	54	49	0	9	41	1.35
290076--290135	17	3.4	16	76	17	57	36	0	0	63	0.95
290087--290130	19	2.4	18	88	7	63	38	0	0	61	0.96
290104--290151	25	1.9	25	83	8	62	41	2	0	56	1.11
290221--290245	8	3.1	8	100	0	50	24	36	0	40	1.55
292604--292654	16	3.2	16	86	2	59	23	5	1	68	1.22
292612--292659	16	3.1	16	90	3	71	20	4	2	72	1.11
293661--293693	13	2.5	13	90	0	57	60	0	0	39	0.97
293841--293880	17	2.3	18	83	12	57	47	2	0	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
293901--293981	38	2.1	38	82	13	105	61	0	0	38	0.96
293922--293985	20	3.4	20	71	16	57	59	0	0	40	0.97
294385--294430	16	2.8	16	83	3	56	60	0	0	39	0.97
295358--295415	17	3.5	17	68	20	50	46	0	1	51	1.11
295404--295456	19	2.8	18	86	11	63	60	0	0	39	0.97
295374--295459	28	3.2	26	75	15	68	54	0	1	44	1.07
295370--295474	45	2.4	44	81	9	108	52	1	0	44	1.18
295588--295617	2	14.5	2	93	6	51	46	3	0	50	1.18
299897--299945	17	2.8	18	81	9	57	36	0	0	63	0.95
301406--301439	17	1.9	18	94	5	61	32	0	0	67	0.91
301406--301457	17	3.2	17	82	15	58	34	0	0	65	0.93
301559--301609	17	3.2	17	81	15	56	33	0	0	66	0.92
301407--301712	152	2.0	152	99	0	603	40	6	7	46	1.56
302303--302383	34	2.4	33	82	14	94	53	0	2	44	1.14
302303--302405	33	3.3	30	76	21	97	52	0	1	45	1.12
303008--303074	33	2.1	33	85	2	91	43	2	5	47	1.43
303722--303770	10	4.7	11	73	14	50	61	2	4	32	1.26
303734--303797	19	3.3	18	74	10	56	59	1	1	37	1.16
309515--309572	2	29.0	2	100	0	116	50	0	0	50	1.00
311065--311114	20	2.3	23	83	13	70	34	4	2	60	1.27
311202--311226	7	3.6	7	100	0	50	72	0	0	28	0.86
315759--315784	13	2.0	13	100	0	52	30	30	23	15	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315916--315996	29	2.5	34	71	22	84	50	0	0	49	1.00
316164--316214	19	2.6	20	81	3	68	45	0	0	54	0.99
316191--316290	34	2.8	34	69	16	78	52	0	0	48	1.00
316700--316729	15	1.9	15	93	6	51	33	6	0	60	1.23
316700--316730	16	1.9	16	93	0	53	35	6	0	58	1.24
316950--316990	15	2.7	15	82	14	57	43	0	0	56	0.99
316962--317023	15	3.9	16	75	24	53	41	0	0	58	0.98
316980--317015	18	2.0	18	89	10	56	44	0	0	55	0.99
319896--319945	22	2.3	22	79	6	57	52	0	2	46	1.12
321816--321865	21	2.3	23	80	13	61	44	0	0	56	0.99
321863--321901	20	1.9	21	89	5	62	51	2	0	46	1.14
325698--325739	2	21.0	2	100	0	84	50	0	0	50	1.00
328121--328159	2	20.0	2	89	5	62	51	0	0	48	1.00
329124--329173	20	2.6	19	75	6	55	48	0	0	52	1.00
329382--329428	11	4.2	11	79	12	51	46	0	0	53	1.00
329381--329465	24	3.5	24	75	12	68	45	1	0	52	1.08
329413--329454	22	1.9	22	85	9	59	47	2	0	50	1.14
329820--329853	17	1.9	18	88	5	52	35	0	2	61	1.11
330034--330067	2	17.0	2	100	0	68	50	0	0	50	1.00
330982--331015	9	3.8	9	84	0	50	41	0	0	58	0.98
333571--333610	2	20.0	2	100	0	80	50	0	0	50	1.00
334851--334901	25	2.0	25	100	0	102	15	29	3	50	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335347--335418	36	2.0	36	100	0	144	38	8	22	30	1.83
338828--338879	15	3.7	13	76	23	52	55	7	5	30	1.52
339251--339282	2	16.0	2	100	0	64	50	0	0	50	1.00
339964--340010	13	3.8	12	80	13	51	68	0	0	31	0.90
340307--340332	2	13.0	2	100	0	52	0	50	0	50	1.00
345136--345168	2	16.5	2	93	0	57	0	45	3	51	1.16
348754--348798	2	22.5	2	95	0	81	48	0	0	51	1.00
348873--348971	7	13.7	7	72	14	76	32	0	5	62	1.17
348910--348966	30	1.9	30	85	7	80	35	0	1	63	1.05
349045--349097	16	3.2	17	77	17	67	60	0	0	39	0.97

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