genome.fa.s103.2.7.7.80.10.50.1000.3.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2458 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)
272125--272177	24	2.3	24	83	6	65	66	1	0	32	1.03
273380--273462	15	5.2	16	72	15	66	61	0	0	38	0.96
273398--273459	10	6.6	10	72	23	55	64	0	0	35	0.94
273421--273488	30	2.3	29	82	10	75	61	0	0	38	0.96
273380--273490	16	6.8	16	71	17	68	62	0	0	37	0.96
273402--273498	46	2.1	46	80	14	103	63	2	0	34	1.06
273505--273538	4	8.8	4	93	6	61	0	23	0	76	0.79
273633--273748	18	6.2	20	64	20	54	60	1	0	37	1.13
274773--274820	17	2.6	19	78	18	57	35	2	0	62	1.07
277402--277495	50	1.9	50	85	8	131	48	2	9	39	1.48
277937--277977	17	2.4	17	83	0	55	63	0	2	34	1.08
278625--278668	16	2.7	15	83	16	52	34	0	0	65	0.93
278626--278676	23	2.2	22	83	10	66	33	0	0	66	0.92
278704--278744	21	2.0	21	90	0	64	48	4	19	26	1.69
278702--278746	23	2.0	23	90	0	72	48	4	20	26	1.68
278701--278748	25	1.9	25	91	0	78	50	4	20	25	1.66
278736--278770	2	17.5	2	100	0	70	51	0	48	0	1.00
279268--279332	34	1.9	34	83	0	85	63	0	3	33	1.10
280746--280776	2	15.5	2	100	0	62	51	0	0	48	1.00
282497--282537	14	2.7	15	81	11	57	36	2	4	56	1.34
283763--283829	6	11.8	6	81	9	79	35	1	1	61	1.15
283750--283827	22	3.3	22	71	26	61	35	1	1	61	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
283758--283829	22	3.4	22	77	11	71	36	1	1	61	1.14
283767--283869	16	6.2	17	75	18	67	40	0	0	57	1.12
283815--283870	17	3.4	17	72	22	57	46	0	0	53	1.00
284081--284135	7	8.0	7	77	18	53	41	0	0	58	0.98
284116--284182	31	2.2	30	81	10	73	58	1	0	40	1.07
284313--284372	25	2.4	26	72	13	63	58	0	0	41	0.98
285420--285467	24	2.0	24	84	11	64	35	0	4	60	1.16
285403--285471	30	2.3	29	80	14	79	36	0	4	59	1.17
285538--285584	17	2.6	18	86	6	69	53	2	0	44	1.12
286111--286135	2	12.5	2	100	0	50	52	0	0	48	1.00
287585--287624	14	2.8	14	85	14	55	45	0	0	55	0.99
288648--288711	28	2.3	28	83	5	76	40	3	6	50	1.43
290632--290669	20	1.9	20	94	0	67	50	0	0	50	1.00
297440--297574	67	2.0	68	94	1	236	55	2	11	31	1.47
301252--301277	12	2.2	12	100	0	52	23	26	34	15	1.94
307483--307522	2	20.0	2	94	0	71	50	2	0	47	1.14
308356--308391	2	18.0	2	100	0	72	50	0	0	50	1.00
310259--310285	2	13.5	2	100	0	54	48	0	0	51	1.00
311524--311562	2	19.5	2	100	0	78	48	0	0	51	1.00
313273--313317	16	2.9	15	86	6	54	57	4	2	35	1.31
314205--314240	2	18.0	2	100	0	72	50	0	0	50	1.00
314666--314717	26	2.0	25	81	3	59	59	1	1	36	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319292--319341	17	2.9	17	80	14	57	46	4	2	48	1.32
320839--320865	14	1.9	14	100	0	54	40	0	0	59	0.98
324872--324928	27	2.1	27	84	15	75	52	0	1	45	1.11
324911--324948	11	3.4	11	88	3	58	71	0	0	28	0.87
325893--325926	14	2.5	13	86	9	50	55	0	5	38	1.24
326619--326683	28	2.4	26	78	9	67	50	4	3	41	1.38
326877--326926	22	2.4	21	80	6	57	50	14	6	30	1.66
334535--334563	13	2.2	13	100	0	58	13	13	24	48	1.79
336463--336516	3	18.3	3	80	3	65	62	1	5	29	1.28
336466--336510	23	2.0	23	86	0	63	64	2	4	28	1.25
337829--337880	21	2.4	21	81	9	61	32	0	1	65	1.04
338514--338543	2	15.0	2	92	0	51	46	0	3	50	1.18
338518--338566	16	3.1	16	87	0	62	34	4	14	46	1.63
339212--339354	32	4.6	31	73	23	108	60	0	0	39	1.02
339223--339349	10	13.2	10	65	21	58	59	0	0	40	0.98
339242--339310	17	3.9	19	75	17	69	53	0	0	46	1.00
341004--341042	2	19.5	2	100	0	78	51	0	0	48	1.00
341711--341762	22	2.3	23	83	3	61	13	34	1	50	1.53
342917--342952	16	2.2	17	90	5	56	47	5	0	47	1.25
342941--342991	19	2.6	20	78	12	52	62	0	0	37	0.95
343131--343183	24	2.1	27	83	16	71	37	0	3	58	1.16
343378--343468	39	2.3	39	82	16	100	65	0	1	32	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
343395--343467	28	2.7	27	80	6	76	67	0	1	31	1.00
343377--343492	33	3.5	33	79	17	118	63	0	0	34	1.06
344235--344280	22	2.1	22	84	15	60	36	4	0	58	1.18
344287--344338	16	3.2	17	79	17	58	51	0	1	46	1.12
344284--344332	15	3.1	15	83	13	55	51	0	2	46	1.12
344469--344574	46	2.3	46	91	3	171	41	8	1	48	1.44
345922--345957	18	1.9	18	88	5	54	5	13	0	80	0.88
350721--350750	15	2.1	14	93	6	51	43	3	0	53	1.17
351085--351146	30	2.1	30	84	3	81	66	3	0	30	1.08
352151--352200	14	3.5	13	79	15	55	62	2	2	34	1.18
352138--352208	29	2.4	31	80	17	89	53	4	1	40	1.29
352267--352294	2	14.0	2	100	0	56	50	0	0	50	1.00
353567--353647	37	2.2	37	82	8	94	35	1	1	61	1.12
353586--353666	27	3.0	27	80	3	74	40	1	1	56	1.15
353625--353690	16	4.0	16	72	20	55	45	0	0	54	0.99
354026--354080	19	3.0	18	74	10	58	54	0	1	43	1.10
354399--354448	21	2.5	20	80	3	64	58	2	0	40	1.10
354907--354957	21	2.4	20	78	12	57	35	0	0	64	0.94
354905--354955	22	2.3	21	78	15	50	35	0	0	64	0.94
354971--355011	8	5.5	8	77	16	52	51	7	0	41	1.30
354971--355011	21	1.9	21	90	5	64	51	7	0	41	1.30
354971--355004	13	2.5	14	90	9	61	52	5	0	41	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355019--355080	17	3.6	17	72	10	54	54	0	1	43	1.09
354968--355093	65	2.0	64	81	7	148	56	2	1	39	1.22
355368--355409	22	1.9	22	85	0	57	66	2	0	30	1.04
355383--355419	18	2.1	18	90	5	58	70	0	2	27	1.01
355395--355447	15	3.6	14	73	12	52	67	0	1	30	1.01
355405--355456	15	3.2	17	71	23	58	61	0	1	36	1.07
355395--355457	30	2.1	30	94	5	110	63	0	1	34	1.04
355412--355457	15	3.1	15	80	0	65	58	0	0	41	0.98
356279--356332	26	2.1	26	86	6	74	55	5	1	37	1.34
356310--356351	16	2.4	17	80	15	50	57	4	0	38	1.20
356679--356777	33	3.0	34	75	18	100	54	0	0	45	0.99
356689--356790	32	3.3	31	84	14	122	54	0	0	45	0.99
356696--356759	17	3.8	17	69	26	55	56	0	0	43	0.99
357266--357303	15	2.6	15	87	4	51	55	0	0	44	0.99
357495--357570	15	5.0	15	75	10	66	56	1	1	40	1.16
357844--357903	19	3.2	19	75	15	52	65	0	1	33	1.03
357880--357945	11	6.2	11	75	19	59	56	0	0	43	0.99
357872--357944	20	4.0	20	68	26	63	56	0	0	43	0.99
357860--357928	33	2.0	35	88	5	106	57	0	0	42	0.98
357865--357942	22	3.6	22	73	14	65	60	0	0	39	0.97
358848--358886	20	1.9	21	89	5	62	53	2	5	38	1.37
359875--359952	15	5.1	15	69	17	52	44	1	1	52	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359876--359925	18	2.5	20	84	15	68	42	0	0	58	0.98
359891--360025	53	2.6	51	80	10	141	49	0	1	48	1.15
359941--360008	26	2.6	27	83	6	95	51	0	1	47	1.09
361048--361094	22	2.2	20	85	7	58	34	4	2	59	1.29
361075--361136	23	2.6	26	73	17	62	40	0	3	56	1.15
361332--361360	14	2.1	14	100	0	58	20	6	6	65	1.40
362593--362643	18	2.7	19	80	17	61	45	0	0	54	0.99
363721--363764	23	1.9	23	90	0	70	63	0	9	27	1.24
364765--364887	62	2.0	62	100	0	246	30	12	17	39	1.87
370130--370231	51	2.0	51	81	11	120	45	2	0	50	1.23

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21