genome.fa.s8.2.7.7.80.10.50.1000.3.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   

This is table  3  of  33  ( 3942 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)
286980--287065	20	4.0	20	71	25	61	47	0	0	52	1.00
286967--287098	8	16.2	8	68	21	62	40	0	0	59	1.03
286947--287097	19	8.4	18	73	22	88	39	1	0	58	1.11
287076--287126	26	2.0	26	88	7	77	25	3	1	68	1.17
287052--287130	21	3.6	21	72	18	63	27	2	1	68	1.10
287907--287968	31	2.0	31	96	0	115	29	22	8	40	1.82
288443--288480	6	6.2	6	87	6	58	34	0	13	52	1.40
288441--288479	19	2.0	20	95	5	71	35	0	12	51	1.40
289158--289199	20	2.1	20	90	0	66	40	0	0	59	0.97
289151--289199	11	4.5	11	80	15	57	42	0	0	57	0.99
289367--289392	13	2.0	13	100	0	52	84	0	15	0	0.62
289705--289753	11	4.5	11	78	17	57	63	0	0	36	0.95
289704--289760	22	2.5	24	82	11	82	61	0	0	38	0.96
289705--289806	33	3.2	34	81	12	101	56	0	0	43	0.99
289703--289806	30	3.3	30	79	11	109	55	0	0	44	0.99
289730--289814	38	2.2	36	78	15	100	56	0	0	43	0.99
290426--290481	21	2.8	19	79	12	67	51	1	0	46	1.11
290828--290862	10	3.4	10	88	7	52	60	0	2	37	1.12
291889--291937	11	4.5	11	77	12	57	38	0	0	61	0.96
291830--292420	295	2.0	297	93	1	1006	35	9	7	47	1.64
295937--296345	91	4.5	91	82	6	461	33	15	7	42	1.76
296840--296905	30	2.3	28	78	16	73	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)
297076--297159	34	2.5	33	75	7	91	50	1	0	48	1.08
297246--297337	12	7.2	12	72	19	71	36	2	3	57	1.27
297254--297335	28	3.2	26	79	14	91	37	1	3	57	1.24
297312--297438	2	67.0	2	71	18	85	49	3	1	44	1.30
297317--297438	37	3.3	36	75	13	115	50	4	1	44	1.31
297510--297544	18	1.9	18	94	0	61	14	0	0	85	0.59
297510--297554	18	2.3	20	85	11	58	15	0	2	82	0.77
297519--297565	17	3.1	16	88	11	64	12	0	4	82	0.80
297510--297565	17	3.0	18	76	20	53	16	0	3	80	0.85
298059--298176	2	66.0	2	69	21	75	41	1	1	55	1.20
298060--298139	42	1.9	42	87	10	119	40	2	0	57	1.12
298059--298174	9	12.9	9	74	20	84	41	1	1	55	1.20
298516--298554	21	1.9	19	90	10	60	53	5	0	41	1.23
299259--299300	17	2.5	17	88	0	57	30	7	11	50	1.66
303947--304010	32	2.0	32	100	0	128	25	18	18	37	1.94
305527--305556	2	15.0	2	100	0	60	50	0	0	50	1.00
308362--308406	2	22.5	2	95	0	81	46	0	2	51	1.13
308852--309284	215	2.0	213	99	0	848	34	14	13	37	1.85
310934--310978	16	2.9	15	80	9	54	55	0	0	44	0.99
310920--310995	32	2.3	33	78	12	86	55	1	1	42	1.16
311688--311722	13	2.7	13	91	8	54	34	0	2	62	1.10
314024--314058	16	2.1	17	89	5	54	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317347--317396	21	2.3	21	83	10	57	52	0	2	46	1.12
319428--319452	7	3.6	7	100	0	50	48	0	0	52	1.00
320161--320208	21	2.2	22	96	3	89	52	14	4	29	1.60
320283--320342	16	3.8	16	68	16	52	38	25	15	21	1.92
321187--321256	32	2.2	32	84	0	86	40	25	17	17	1.90
321189--321250	16	3.9	16	70	8	54	40	27	17	14	1.89
325220--325255	2	18.5	2	94	5	65	52	0	0	47	1.00
326441--326470	10	3.0	10	95	0	51	73	10	16	0	1.09
329337--329391	24	2.4	22	76	11	56	63	1	3	30	1.22
329467--329546	30	2.7	30	84	9	103	45	5	1	48	1.32
329467--329570	30	3.5	30	79	16	101	43	4	1	50	1.34
331406--331468	17	3.8	17	72	17	51	39	4	1	53	1.31
331865--331932	29	2.3	31	80	14	81	41	0	0	58	0.98
334549--334574	1	26.0	1	100	0	52	0	0	100	0	0.00
334989--335115	13	10.3	13	68	23	62	59	1	1	37	1.16
335009--335095	7	12.9	7	67	20	51	56	1	2	40	1.19
335007--335095	34	2.6	34	80	18	112	57	1	2	39	1.19
335087--335117	10	3.0	10	95	4	53	70	0	0	29	0.87
335563--335615	27	2.0	27	81	7	63	52	1	3	41	1.30
336247--336284	20	1.9	19	89	5	58	26	0	2	71	1.00
337273--337319	20	2.3	20	88	3	67	78	0	21	0	0.75
337270--337310	12	3.5	11	87	9	55	80	0	19	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
337336--337374	19	2.1	19	85	9	53	38	0	0	61	0.96
337336--337376	20	2.1	19	86	4	55	39	0	0	60	0.96
337733--337779	22	2.1	23	88	4	69	80	0	17	2	0.80
338584--338630	12	3.9	12	83	8	60	25	2	2	70	1.10
338584--338627	23	1.9	23	90	0	70	25	2	2	70	1.10
338583--338633	23	2.4	21	78	15	59	23	1	1	72	1.05
338945--339000	17	3.4	17	76	16	55	48	0	0	51	1.00
337645--338913	696	1.9	679	83	6	1641	43	5	7	44	1.54
339164--339201	4	9.8	4	83	16	53	76	2	21	0	0.91
339168--339202	16	2.2	16	94	0	61	77	2	20	0	0.90
339247--339274	11	2.5	11	100	0	56	28	0	0	71	0.86
339215--339321	33	3.1	35	77	18	86	34	0	2	62	1.10
339244--339300	9	6.0	10	71	19	50	31	0	0	68	0.90
342071--342150	23	3.5	23	100	0	160	63	8	10	17	1.49
343065--343135	20	3.6	19	75	7	70	43	11	11	33	1.76
343058--343135	40	2.0	39	89	2	120	43	11	11	33	1.77
343373--343434	19	3.3	19	78	17	67	33	1	0	64	1.03
348421--348452	2	16.0	2	100	0	64	50	0	0	50	1.00
354476--354515	19	2.1	19	86	9	55	82	0	7	10	0.84
355582--355616	18	1.9	18	88	0	52	71	2	2	22	1.13
355848--355905	16	3.6	16	77	9	64	39	1	1	56	1.19
355845--355905	32	1.9	31	83	3	77	40	1	1	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355870--355920	27	1.9	26	84	11	68	41	1	0	56	1.10
356679--356711	3	11.0	3	100	0	66	66	0	0	33	0.92
356736--356789	2	27.5	2	96	3	101	50	0	50	0	1.00
357015--357053	19	2.0	20	95	5	71	33	0	0	66	0.92
357015--357054	18	2.2	19	90	4	64	35	0	0	65	0.93
357046--357089	17	2.6	17	88	0	61	43	4	0	52	1.22
357097--357144	19	2.5	20	83	9	57	52	2	0	45	1.12
357079--357139	27	2.3	26	83	11	70	55	1	0	42	1.09
357133--357180	17	2.9	17	85	11	64	39	0	0	60	0.97
357301--357348	2	24.0	2	82	0	60	47	2	6	43	1.40
359552--359762	106	2.0	105	97	0	395	27	21	17	33	1.96
362643--362711	28	2.5	27	83	4	75	46	0	0	53	1.00
362877--362917	16	2.5	17	84	11	50	56	0	0	43	0.99
363631--363691	32	1.9	33	83	6	81	29	0	22	47	1.52
363667--363706	15	2.7	15	88	7	55	32	2	22	42	1.67
369083--369397	75	4.2	75	90	0	470	32	8	19	39	1.82
369138--369331	39	5.1	38	62	14	96	30	8	19	40	1.82
370272--370321	2	26.0	2	80	8	59	52	0	2	46	1.12
370760--370845	39	2.3	36	75	15	84	24	11	8	55	1.62
370893--370930	20	1.9	20	88	0	58	18	10	10	60	1.57
371008--371053	21	2.2	20	84	3	56	15	15	13	56	1.68
370984--371053	20	3.4	21	73	9	65	17	14	12	55	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373394--373423	2	15.0	2	92	0	51	46	0	3	50	1.18
375970--376020	2	26.0	2	86	4	68	43	1	1	52	1.23
379712--379739	2	14.0	2	100	0	56	0	50	0	50	1.00
381414--381457	23	2.0	23	86	4	63	81	6	0	11	0.86
382430--382454	8	3.1	8	100	0	50	12	64	24	0	1.27
384294--384371	27	2.9	27	84	3	102	34	5	10	50	1.59
384294--384371	28	2.8	28	86	1	95	34	5	10	50	1.59
385283--385308	2	13.0	2	100	0	52	50	0	0	50	1.00
387569--387685	57	2.1	57	96	0	216	22	17	11	47	1.80
388818--388851	17	2.0	17	88	0	50	58	5	0	35	1.22

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