genome.fa.s39.2.7.7.80.10.50.1000.3.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  3  of  27  ( 3195 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)
267927--267965	19	2.0	20	90	5	62	38	7	30	23	1.83
268152--268192	21	2.0	21	85	9	57	39	9	12	39	1.76
268547--268684	51	2.7	52	85	5	199	44	12	13	29	1.81
268719--268791	21	3.6	20	85	7	94	30	19	12	38	1.88
269407--269895	50	9.8	50	74	12	310	32	17	24	26	1.97
269963--270031	31	2.2	31	81	2	75	23	20	26	30	1.98
269976--270053	31	2.5	31	76	4	75	24	14	28	33	1.94
270739--270766	14	2.0	14	100	0	56	28	7	35	28	1.84
271755--271802	22	2.1	23	81	11	55	14	12	0	72	1.11
288679--288716	15	2.7	15	88	8	53	21	2	0	76	0.91
291668--291757	44	2.0	44	100	0	180	30	23	11	35	1.89
294227--294254	4	7.0	4	100	0	56	75	0	0	25	0.81
299598--299626	6	5.0	6	95	4	51	34	0	0	65	0.93
300039--300088	20	2.5	20	83	9	57	38	2	4	56	1.30
300357--300397	17	2.4	17	80	19	50	39	2	0	58	1.11
300843--300877	15	2.2	17	90	10	56	51	2	0	45	1.16
309661--309752	3	30.7	3	97	0	175	32	1	0	66	0.99
310192--310254	32	2.0	32	90	0	99	23	17	30	28	1.97
310239--310333	32	3.0	32	74	9	95	21	14	28	35	1.93
313024--313062	20	1.9	21	94	5	71	41	20	17	20	1.91
313101--313138	20	1.9	20	100	0	76	39	10	18	31	1.85
317797--317894	49	2.0	49	95	0	178	23	19	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
320735--320781	19	2.6	19	83	6	62	38	19	12	29	1.89
320814--320881	20	3.5	19	84	8	75	38	16	14	30	1.89
320991--321045	21	2.6	21	85	8	67	43	16	3	36	1.65
324810--324860	21	2.4	21	93	3	84	52	0	17	29	1.45
324882--324929	20	2.5	20	82	3	62	31	0	39	29	1.57
325573--325599	13	2.1	13	100	0	54	29	14	14	40	1.86
326118--326161	23	1.9	23	86	9	63	29	9	20	40	1.83
336690--336751	13	4.8	13	85	0	79	37	16	9	37	1.81
338923--339033	51	2.2	51	88	0	168	33	13	23	29	1.93
338966--339111	78	1.9	78	84	5	197	30	13	28	28	1.94
338737--339090	129	2.7	129	77	8	407	34	11	25	28	1.91
338737--339162	129	3.3	127	74	10	384	33	12	25	28	1.92
339047--339215	51	3.3	50	85	4	223	33	11	26	28	1.91
341515--341544	13	2.3	13	94	0	51	40	10	16	33	1.82
341577--341631	20	2.8	20	94	0	101	45	12	14	27	1.81
342326--342696	88	4.2	89	74	17	341	36	14	29	19	1.91
342304--342693	43	8.9	43	72	17	270	38	13	28	19	1.90
342372--342696	129	2.5	134	83	8	393	36	13	28	20	1.91
342677--342815	61	2.3	61	91	5	228	23	20	28	26	1.99
342637--342948	165	1.9	164	94	3	547	25	18	31	24	1.97
343082--344109	55	18.0	55	82	10	1149	24	21	27	26	1.99
342669--344119	347	4.2	339	84	8	1691	25	20	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342834--344109	402	3.1	398	87	6	1728	24	20	28	26	1.99
354942--355004	32	1.9	32	83	3	81	30	11	15	42	1.82
355084--355175	43	2.1	43	91	0	148	32	18	15	33	1.92
361698--361760	22	2.9	20	77	18	56	69	9	14	6	1.34
362988--363095	29	3.7	29	71	7	92	21	34	19	25	1.96
362978--363117	59	2.4	58	81	8	158	20	32	17	29	1.95
363196--363269	32	2.6	29	85	12	91	24	32	10	32	1.90
363258--363734	34	15.4	33	75	17	422	21	32	13	32	1.92
363351--363688	60	5.4	60	86	8	487	21	33	13	31	1.92
363351--363734	126	3.1	126	93	3	647	21	33	13	31	1.92
363150--363734	60	9.5	60	79	12	367	21	32	13	33	1.92
363607--363771	87	1.9	88	83	3	217	21	33	13	30	1.93
363917--364298	28	13.0	28	80	9	252	30	30	17	22	1.96
363912--364299	56	6.6	56	79	8	278	30	29	17	23	1.97
363912--364152	113	2.1	113	85	0	329	31	27	17	23	1.97
363913--364183	113	2.4	114	82	2	321	30	28	16	23	1.97
363912--364362	85	5.0	84	78	9	289	30	30	16	22	1.96
364008--364716	33	23.1	32	76	10	499	29	32	16	21	1.95
364093--364689	96	6.4	94	82	6	584	29	33	16	20	1.95
364172--364574	156	2.6	157	89	1	592	30	33	16	19	1.94
364171--364716	63	8.7	63	85	4	574	30	33	16	20	1.94
364732--364956	43	5.0	43	75	11	191	25	25	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
364843--364954	45	2.6	43	84	2	143	27	26	15	30	1.96
371057--371241	97	1.9	97	94	0	325	29	31	7	32	1.84
371224--371319	29	3.3	29	89	0	147	25	34	14	26	1.94
371224--371343	58	2.1	58	84	6	154	26	34	13	25	1.93
371224--371462	29	7.9	29	73	14	135	25	32	13	28	1.94
371399--371489	33	2.8	33	89	1	139	24	29	14	31	1.94
371546--372406	32	27.2	32	76	8	710	30	30	18	20	1.96
371545--372406	63	13.6	64	76	8	727	30	30	18	20	1.96
371546--372393	95	8.9	94	78	8	724	30	30	18	20	1.96
375973--376068	33	3.1	31	82	7	122	28	32	17	21	1.96
376118--376544	52	8.1	52	73	8	297	22	21	15	39	1.91
376223--376544	102	3.1	104	79	4	353	22	21	16	40	1.91
376232--376529	154	1.9	155	81	0	364	22	21	17	38	1.93
376481--376619	61	2.3	60	82	6	172	20	22	12	43	1.86
377550--377606	20	2.8	20	83	5	69	26	17	14	42	1.87
378521--378560	19	2.1	19	90	0	62	25	22	12	40	1.89
389563--389672	29	3.6	29	74	13	103	23	35	13	27	1.93
389545--389680	29	4.5	29	76	10	101	26	33	12	27	1.92
389574--389720	64	2.3	62	84	4	188	26	30	13	29	1.94
389574--389769	33	6.1	33	75	10	158	26	28	12	32	1.93
389811--390822	32	31.9	30	75	11	649	31	31	16	20	1.95
389808--390827	63	16.1	62	76	8	813	31	31	16	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391008--391299	52	5.7	52	72	4	178	22	20	16	40	1.91
390991--391294	101	3.0	100	75	9	272	23	20	16	40	1.91
392108--392146	20	2.0	20	94	0	69	46	10	12	30	1.75
392112--392209	41	2.4	42	83	6	112	38	12	13	35	1.82
392132--392208	21	3.8	20	76	13	68	36	12	14	36	1.84
393732--393828	43	2.3	43	96	0	176	35	19	16	28	1.94
396654--396706	20	2.6	21	82	8	65	28	16	16	37	1.91
396694--396718	13	1.9	13	100	0	50	36	16	16	32	1.90
405373--405398	13	2.0	13	100	0	52	30	15	15	38	1.88
405447--405518	20	3.5	20	88	5	101	26	16	18	38	1.91
408003--408039	3	12.3	3	88	0	56	37	0	32	29	1.58
413925--413992	32	2.1	33	86	2	93	22	20	22	35	1.96
414902--414964	32	1.9	33	90	3	101	28	15	11	44	1.81
415035--415059	13	1.9	13	100	0	50	36	16	16	32	1.90
415015--415079	33	2.0	33	87	6	96	35	15	16	32	1.91
419783--419821	13	3.0	13	80	0	51	35	12	17	33	1.88
421667--421747	43	1.9	43	84	2	110	45	4	27	22	1.72
426880--426908	14	2.1	14	100	0	58	27	20	20	31	1.98
427541--427584	17	2.6	17	88	0	61	75	0	0	25	0.81
427540--427582	14	3.1	14	83	10	61	76	0	0	23	0.78
428307--428365	26	2.3	26	82	2	75	69	6	15	8	1.34
428323--428365	13	3.4	12	78	12	50	69	4	16	9	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428310--428372	26	2.3	26	78	5	72	68	7	15	7	1.38
428329--428382	28	2.0	28	82	7	67	70	9	12	7	1.33
428435--428844	42	9.8	42	81	4	389	18	27	16	38	1.92
428782--428906	62	2.0	62	84	6	164	18	22	16	43	1.88
428750--428948	104	1.9	104	82	4	249	17	23	16	42	1.88
428699--428987	146	2.0	142	80	6	323	17	24	15	41	1.89
428881--429035	81	1.9	82	86	4	224	15	23	16	45	1.85
428844--429057	42	5.2	42	76	4	193	15	22	16	44	1.85
429129--429677	42	13.1	41	81	4	483	16	27	16	39	1.90
431408--431469	22	2.9	22	85	2	81	64	16	11	8	1.48

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27