genome.fa.s416.2.7.7.80.10.50.1000.3.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: Scaffold416
Parameters: 2 7 7 80 10 50 1000
Length:  1156864

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 844 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)
302221--302267	23	2.0	23	95	0	85	48	12	6	31	1.66
304051--304089	13	3.0	13	96	0	69	35	15	17	30	1.91
304075--304153	20	3.7	20	75	18	70	45	15	12	26	1.82
304293--304324	8	4.0	8	100	0	64	62	25	0	12	1.30
306178--306208	15	2.1	15	93	0	53	12	22	16	48	1.80
310271--310296	13	2.0	13	100	0	52	30	15	15	38	1.88
310356--310428	20	3.6	20	81	3	101	31	19	13	35	1.91
310335--310428	41	2.3	41	96	0	170	30	18	12	38	1.88
310335--310410	21	3.7	21	78	3	91	30	17	11	40	1.85
311378--311457	20	4.2	19	76	12	67	40	1	7	51	1.38
311432--311490	29	2.1	28	87	3	82	38	0	6	54	1.27
311883--311921	20	2.0	21	85	10	55	53	2	7	35	1.43
311968--312013	23	2.0	23	95	0	83	30	19	10	39	1.86
315050--315133	38	2.2	38	79	10	91	53	2	0	44	1.13
316874--316911	20	1.9	20	88	0	58	42	2	18	36	1.64
316949--317061	52	2.2	52	77	3	120	33	10	9	46	1.71
319459--319571	56	2.0	57	96	1	210	30	16	9	42	1.81
321201--321245	20	2.3	20	77	14	58	28	2	0	68	1.01
321176--321247	35	2.1	35	84	5	92	33	4	0	62	1.14
321687--321715	11	2.6	11	100	0	58	41	0	0	58	0.98
321931--321970	17	2.4	17	87	8	55	57	0	0	42	0.98
321918--321970	10	5.6	10	77	20	51	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322244--322771	171	3.1	167	81	8	498	48	4	3	43	1.41
322710--322753	10	4.5	10	81	13	56	40	0	0	59	0.98
322760--322822	15	4.4	14	75	11	56	61	3	0	34	1.12
322745--322785	17	2.5	16	84	7	55	53	2	0	43	1.13
322745--322796	14	3.3	15	82	12	52	57	1	0	40	1.10
322907--322992	29	2.9	30	85	3	102	51	2	1	45	1.21
322917--323001	30	2.8	30	83	3	91	51	2	0	45	1.13
325736--325788	26	2.1	25	93	6	90	37	11	28	22	1.89
325907--325994	34	2.7	32	78	16	92	47	1	0	51	1.08
325919--326001	34	2.5	31	83	11	103	43	0	0	56	0.99
329379--329412	17	2.0	17	88	0	50	38	0	20	41	1.53
329830--329882	16	3.2	16	86	2	70	30	3	15	50	1.61
331280--331640	178	2.0	178	97	0	686	39	13	17	28	1.88
332588--332644	19	2.9	19	84	2	69	33	15	14	36	1.88
332674--332736	33	1.9	33	87	6	92	33	9	19	38	1.84
335543--335712	79	2.2	79	86	0	232	32	12	25	29	1.93
335667--335740	28	2.6	29	85	6	107	29	20	28	21	1.98
335695--335867	79	2.2	78	91	3	283	31	15	27	26	1.95
335845--336038	51	3.8	51	85	2	248	35	10	23	30	1.88
335845--336038	102	1.9	102	86	4	275	35	10	23	30	1.88
338334--338388	20	2.8	20	80	5	67	40	10	16	32	1.83
338405--338459	20	2.8	20	100	0	110	40	14	20	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
338446--338471	13	2.0	13	100	0	52	38	15	15	30	1.88
339344--339443	42	2.4	42	81	3	112	46	15	24	15	1.83
339469--339691	122	1.8	122	89	3	351	26	20	27	26	1.99
339461--339696	61	3.9	61	83	6	309	27	20	26	25	1.99
339586--340004	154	2.7	155	89	1	646	26	19	29	25	1.98
339892--340603	55	12.4	55	87	5	906	26	20	26	27	1.99
339892--340562	336	2.0	340	91	3	1082	26	20	26	27	1.99
340429--340515	27	3.2	28	61	16	65	28	20	24	26	1.99
341562--341632	1	71.0	1	74	0	61	1	4	7	87	0.72
341562--341632	11	6.5	11	86	3	81	1	4	7	87	0.72
341586--341633	21	2.4	19	93	6	78	0	0	12	87	0.54
348306--348350	1	45.0	1	93	0	63	93	0	2	4	0.41
348355--348411	21	2.7	21	97	0	105	33	10	19	36	1.86
348467--348534	19	3.9	19	78	21	85	35	11	14	38	1.83
348488--348512	13	1.9	13	100	0	50	36	16	16	32	1.90
348469--348531	32	2.0	32	96	0	117	34	12	15	36	1.86
348574--348599	13	2.0	13	100	0	52	30	15	15	38	1.88
348554--348620	33	2.0	33	88	0	98	25	14	16	43	1.86
351083--351155	27	2.7	27	87	6	94	23	34	21	20	1.97
351138--351308	51	3.3	51	79	4	198	29	26	11	32	1.92
351291--351372	28	2.9	28	82	7	96	24	31	17	26	1.97
363773--363847	1	75.0	1	83	0	96	92	4	4	0	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
364813--365984	55	21.3	55	91	4	1743	28	31	20	19	1.97
364970--365056	26	3.2	26	65	23	70	28	35	18	17	1.93
365192--365280	26	3.3	26	62	17	65	29	31	17	21	1.96
365411--365495	26	3.2	26	65	15	66	28	36	18	16	1.93
365765--365912	29	5.3	29	59	18	71	28	31	18	21	1.97
366581--366624	1	44.0	1	93	0	61	93	0	2	4	0.42
366578--366624	18	2.8	18	90	9	73	87	0	4	8	0.67
366629--366685	21	2.7	21	97	0	105	33	10	19	36	1.86
366741--366808	19	3.9	19	78	21	85	35	11	14	38	1.83
366762--366786	13	1.9	13	100	0	50	36	16	16	32	1.90
366743--366805	32	2.0	32	96	0	117	34	12	15	36	1.86
366848--366873	13	2.0	13	100	0	52	30	15	15	38	1.88
366828--366894	33	2.0	33	88	0	98	25	14	16	43	1.86
369347--369419	27	2.7	27	87	6	94	23	34	21	20	1.97
369402--369572	51	3.3	51	79	4	198	29	26	11	32	1.92
369555--369636	28	2.9	28	82	7	96	24	31	17	26	1.97
374402--374438	4	9.2	4	93	0	65	72	2	0	24	0.97
376508--376677	79	2.2	79	86	2	234	34	13	23	28	1.93
376635--376705	28	2.5	29	84	6	92	29	18	28	23	1.98
376663--376834	79	2.2	78	92	3	290	30	15	27	26	1.96
376810--377003	102	1.9	102	88	2	291	35	11	23	29	1.90
376771--376969	51	3.9	52	82	5	237	34	10	24	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376769--377002	51	4.6	51	80	8	228	33	11	24	30	1.91
380364--380584	121	1.8	121	89	3	347	24	21	28	24	1.99
380364--380589	60	3.8	61	84	5	291	26	20	28	24	1.99
380619--380744	60	2.1	60	86	7	175	23	19	31	24	1.98
380478--381564	165	6.7	154	83	9	805	25	20	27	26	1.99
380783--381596	55	14.5	55	90	4	1175	25	20	26	27	1.99
380786--381596	336	2.4	335	89	3	1285	25	20	26	27	1.99
382550--382590	10	4.2	10	79	17	50	0	14	2	82	0.76
382567--382610	15	2.8	16	82	10	54	0	6	11	81	0.86
387461--387487	13	2.1	13	100	0	54	29	14	14	40	1.86
390057--390081	13	1.9	13	100	0	50	36	16	16	32	1.90
398502--398657	74	2.1	74	93	1	269	37	13	7	41	1.72
398804--398885	32	2.6	32	82	3	85	48	13	4	32	1.63
398820--398875	16	3.5	15	81	13	60	48	12	3	35	1.58
400148--400190	2	21.5	2	90	0	68	51	0	2	46	1.13
408449--408536	40	2.2	40	95	0	158	42	9	13	35	1.76
408449--408536	20	4.4	20	85	2	115	42	9	13	35	1.76
410257--410305	16	3.1	16	88	5	64	24	0	16	59	1.37
412676--412713	12	2.9	14	80	15	53	44	0	0	55	0.99
412935--412978	17	2.6	17	83	16	56	15	6	0	77	0.97
413640--413687	17	2.9	17	84	3	62	18	10	4	66	1.37
413787--413819	11	3.0	11	95	0	57	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414518--414550	2	16.5	2	100	0	66	51	0	0	48	1.00
419316--419431	51	2.3	50	80	11	114	47	0	0	51	1.06
419363--419431	25	2.7	25	78	10	86	46	0	0	53	1.00
419363--419428	26	2.6	27	78	9	84	46	0	0	53	1.00
419639--419694	24	2.2	26	78	15	64	57	5	5	32	1.44
419692--419732	20	2.0	20	85	0	55	53	2	2	41	1.27
420827--420891	12	5.2	12	72	20	53	43	1	0	55	1.09
422072--422104	3	11.0	3	100	0	66	66	0	0	33	0.92
425614--425652	14	2.9	14	84	3	53	74	5	2	17	1.12
425614--425652	13	2.9	13	81	7	51	74	5	2	17	1.12

Tables:   1   2   3   4   5   6   7   8