genome.fa.s196.2.7.7.80.10.50.1000.2.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  2  of  47  ( 5587 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)
164368--164439	12	6.1	12	79	9	76	40	1	0	58	1.07
165094--165123	13	2.2	14	94	5	53	86	0	13	0	0.57
165094--165123	7	4.4	7	91	8	53	86	0	13	0	0.57
165956--166019	18	3.8	18	76	23	84	32	12	17	37	1.87
165977--166025	13	3.4	13	75	24	53	34	12	16	36	1.86
165958--166025	31	2.2	32	97	2	129	33	11	17	36	1.86
176398--176439	2	21.5	2	85	4	59	50	0	2	47	1.14
181333--181423	3	31.7	3	75	16	86	65	0	0	34	0.93
181422--181447	3	8.7	3	100	0	52	34	0	0	65	0.93
182765--182793	2	14.5	2	100	0	58	0	48	0	51	1.00
183157--183384	80	2.9	80	87	0	314	42	18	11	27	1.85
185637--185915	142	2.0	142	99	0	549	45	13	16	24	1.83
187582--187762	100	1.8	98	83	5	240	54	1	3	40	1.29
188661--188716	20	3.2	20	63	36	56	53	3	0	42	1.18
188661--188748	32	3.0	29	80	12	101	57	3	0	38	1.15
188733--188780	15	3.3	14	80	8	60	75	2	0	22	0.91
188713--188775	23	2.8	23	83	11	69	68	3	0	28	1.05
197380--197434	3	18.3	3	100	0	110	67	0	0	32	0.91
197533--197610	40	2.1	39	85	9	108	48	1	3	46	1.28
198200--198237	20	1.9	20	94	0	67	23	5	13	57	1.56
202427--202453	2	13.5	2	100	0	54	51	0	0	48	1.00
203366--203400	19	1.9	19	88	11	56	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
204846--204901	14	4.1	14	73	17	55	50	0	0	50	1.00
204872--204904	13	2.5	13	86	13	50	57	0	0	42	0.98
205366--205405	11	3.9	11	81	18	50	72	0	2	25	0.97
206203--206246	20	2.2	20	88	4	63	56	0	2	40	1.11
206245--206282	19	2.0	20	89	5	60	23	0	7	68	1.16
206359--206409	16	3.3	15	76	17	50	43	1	0	54	1.11
206361--206424	20	3.2	20	80	4	67	35	1	0	62	1.05
212859--212926	20	3.4	20	77	0	73	51	0	4	44	1.21
213538--213575	20	1.9	20	88	0	58	23	2	13	60	1.45
214032--214070	20	2.0	20	89	0	60	43	12	10	33	1.77
214338--214377	8	5.4	8	82	14	50	65	0	0	35	0.93
228908--228935	2	14.0	2	100	0	56	50	0	0	50	1.00
230973--231019	21	2.2	21	92	0	76	51	0	0	48	1.00
231329--231366	2	19.0	2	100	0	76	50	0	0	50	1.00
231444--231478	3	11.7	3	100	0	70	34	0	0	65	0.93
232180--232218	20	2.0	20	85	10	53	53	0	0	46	1.00
239813--239857	15	2.7	17	80	16	58	37	0	0	62	0.96
243158--243330	83	2.1	84	82	6	208	38	17	4	39	1.71
250391--250438	2	24.0	2	100	0	96	50	0	0	50	1.00
250677--250717	20	2.0	20	85	0	55	39	7	2	51	1.43
253305--253338	16	2.1	17	88	5	52	58	0	0	41	0.98
253309--253345	10	3.5	11	82	17	51	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
253749--253788	20	2.0	20	85	0	53	50	0	7	42	1.30
255904--255953	22	2.2	24	82	7	59	52	6	2	40	1.38
256668--256714	21	2.2	21	92	0	76	29	14	12	42	1.83
257610--257711	45	2.2	45	79	10	107	30	19	30	19	1.97
257736--258337	64	9.6	64	85	4	734	20	17	30	31	1.96
257820--258352	32	17.1	31	89	3	722	19	18	30	31	1.96
258340--259702	27	49.8	27	90	2	1997	28	14	33	23	1.94
258340--259702	83	16.6	81	89	2	1997	28	14	33	23	1.94
267071--267103	8	4.2	8	84	7	50	0	12	0	87	0.53
269272--269560	50	5.8	50	85	0	380	30	21	16	30	1.96
269272--269560	150	1.9	150	88	0	434	30	21	16	30	1.96
270006--270049	17	2.7	16	86	13	63	65	0	25	9	1.21
271505--271562	16	3.7	16	74	21	59	50	0	0	50	1.00
271505--271574	24	3.0	23	72	25	65	51	1	0	47	1.09
271731--271868	69	2.0	69	95	0	249	23	32	7	36	1.84
272247--272276	3	10.0	3	92	0	51	36	0	0	63	0.95
272887--272935	23	2.2	23	81	3	55	6	22	0	71	1.08
274121--274184	20	3.4	19	74	19	53	68	1	4	25	1.17
274195--274241	21	2.2	21	88	0	67	48	2	2	46	1.25
274640--274701	3	20.7	3	100	0	124	33	0	0	66	0.92
276026--276083	16	3.6	16	74	4	55	50	25	10	13	1.74
276232--276274	22	2.0	22	86	9	61	51	4	2	41	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277182--277219	20	1.9	19	89	5	58	52	0	2	44	1.14
277367--277443	16	4.8	16	75	3	66	40	22	20	16	1.91
277366--277443	32	2.4	32	75	6	86	39	21	20	17	1.92
277791--277819	3	9.7	3	100	0	58	31	0	0	68	0.89
283771--283861	38	2.4	38	84	1	119	41	9	4	43	1.58
285158--285242	32	3.0	27	71	18	73	51	3	3	41	1.36
285338--285366	2	14.5	2	100	0	58	48	0	0	51	1.00
285485--285552	23	3.0	22	70	23	59	39	1	0	58	1.07
293643--293715	27	2.7	27	93	0	119	23	6	24	45	1.77
293641--293732	27	3.6	25	80	11	105	23	7	22	45	1.78
293645--293751	51	2.0	54	82	5	130	23	7	21	47	1.76
294697--294864	51	3.3	49	84	5	201	29	26	11	33	1.91
294851--294919	28	2.5	28	85	4	95	26	28	15	28	1.96
294880--295080	79	2.5	78	82	1	231	26	24	15	33	1.95
299069--299126	11	5.4	11	78	15	50	10	17	0	72	1.11
299914--300100	62	3.0	62	96	0	338	37	18	17	26	1.93
301051--301094	19	2.4	18	82	14	54	34	0	6	59	1.24
301054--301094	18	2.2	20	86	8	59	31	0	7	60	1.24
301419--301488	37	1.9	36	88	2	104	67	0	2	30	1.05
301422--301474	15	3.4	15	77	15	54	67	0	3	28	1.07
304901--304940	8	5.4	8	82	14	50	65	0	0	35	0.93
308626--308682	23	2.4	24	81	18	75	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308626--308683	11	5.0	11	74	17	55	53	0	0	46	1.00
308626--308681	12	4.7	13	72	18	59	53	0	0	46	1.00
308620--308705	35	2.3	38	80	17	108	55	0	0	44	0.99
309328--309520	50	3.9	50	89	4	282	30	18	21	30	1.97
313921--314126	50	4.1	50	91	3	335	29	19	21	30	1.97
315187--315262	21	3.7	21	74	17	63	55	0	0	44	0.99
316332--316367	18	2.0	18	88	0	54	11	5	0	83	0.80
319012--319066	26	2.0	28	86	6	78	49	1	3	45	1.30
320310--320361	24	2.1	25	85	3	70	30	0	3	65	1.10
321453--321494	22	2.0	21	86	13	59	66	2	2	28	1.16
321462--321507	6	8.2	6	79	20	55	67	0	2	30	1.03
321463--321507	17	2.8	16	90	10	65	66	0	2	31	1.04
323321--323345	13	1.9	13	100	0	50	48	0	4	48	1.20
324211--324244	18	1.9	17	94	5	59	44	0	0	55	0.99
324453--324503	24	2.0	25	85	7	68	43	7	0	49	1.32
324981--325009	2	14.5	2	100	0	58	51	0	0	48	1.00
325663--325688	2	13.0	2	100	0	52	50	0	0	50	1.00
326413--326454	16	2.4	18	84	11	52	23	9	0	66	1.21
330920--330944	13	1.9	13	100	0	50	28	8	16	48	1.74
331629--331656	2	14.0	2	100	0	56	50	0	0	50	1.00
335256--335305	25	2.0	24	88	3	73	40	0	0	60	0.97
335584--335612	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
336370--336398	2	14.5	2	100	0	58	51	0	0	48	1.00
336687--336718	2	16.0	2	100	0	64	50	0	0	50	1.00
336874--336899	2	13.0	2	100	0	52	50	0	0	50	1.00
338007--338047	16	2.6	15	85	11	55	29	14	2	53	1.54
339178--339228	20	2.7	18	79	11	57	76	0	11	11	1.02
339201--339717	54	9.7	54	73	12	367	52	2	15	29	1.54
339205--339667	219	2.2	208	84	9	596	52	1	15	30	1.52
339201--339715	102	4.8	105	81	10	500	53	2	15	28	1.54
339790--339831	18	2.2	20	87	12	61	73	0	2	23	0.94
339881--339915	17	2.1	17	89	10	54	48	2	0	48	1.16

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47