genome.fa.s9.2.7.7.80.10.50.1000.21.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

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   

This is table  21  of  24  ( 2830 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)
3285927--3285990	32	2.0	33	90	3	103	42	15	14	28	1.86
3290088--3290118	13	2.4	13	94	0	53	35	12	16	35	1.87
3290068--3290131	33	1.9	33	87	6	94	34	17	12	35	1.87
3290163--3290217	19	2.9	19	83	5	67	36	14	16	32	1.89
3290183--3290247	32	2.0	32	84	3	85	41	13	18	26	1.88
3290475--3290516	19	2.2	19	95	0	75	21	14	7	57	1.61
3290797--3290941	77	1.9	76	84	7	195	19	20	17	42	1.89
3290917--3291072	42	3.5	42	73	13	141	16	27	11	44	1.82
3291181--3291450	62	4.3	62	68	10	177	28	28	24	18	1.98
3291202--3291530	68	5.0	67	68	13	195	29	27	23	19	1.98
3291360--3291517	31	4.9	31	72	9	118	32	29	22	15	1.95
3291510--3291615	52	2.0	52	87	7	153	28	18	23	29	1.98
3297446--3297471	13	2.0	13	100	0	52	30	15	15	38	1.88
3297531--3297604	20	3.6	20	78	7	94	31	17	13	37	1.89
3297510--3297604	42	2.3	42	96	1	174	29	16	12	41	1.86
3300050--3300088	13	3.0	13	96	0	69	35	15	17	30	1.91
3302167--3302197	15	2.1	15	93	0	53	12	22	16	48	1.80
3306261--3306286	13	2.0	13	100	0	52	30	15	15	38	1.88
3306325--3306403	22	3.7	21	76	6	88	27	15	11	45	1.80
3306347--3306420	20	3.6	20	78	7	94	31	17	13	37	1.89
3306325--3306420	42	2.3	42	96	0	174	29	16	12	41	1.85
3314295--3314322	14	2.0	14	100	0	56	78	14	7	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3315545--3316059	28	18.5	28	79	7	557	30	28	16	24	1.96
3315915--3315956	21	2.0	21	95	0	75	26	38	21	14	1.91
3315860--3316013	78	2.0	77	90	1	245	30	32	16	20	1.95
3315939--3316075	28	4.6	30	81	8	122	30	30	18	20	1.96
3318117--3318468	174	2.0	174	98	0	677	26	25	14	34	1.94
3319195--3319431	97	2.4	97	88	1	341	29	30	12	27	1.93
3322192--3322253	28	2.2	28	83	11	74	61	6	16	16	1.54
3326977--3327095	42	2.8	42	93	2	168	31	11	20	36	1.89
3326977--3327095	63	1.9	63	91	3	195	31	11	20	36	1.89
3326977--3327076	21	4.8	21	100	0	200	30	10	22	38	1.86
3327132--3327199	19	3.9	19	78	21	85	35	11	14	38	1.83
3327134--3327196	32	2.0	32	96	0	117	34	12	15	36	1.86
3327153--3327177	13	1.9	13	100	0	50	36	16	16	32	1.90
3327236--3327261	13	2.0	13	100	0	52	30	15	15	38	1.88
3329740--3329821	28	2.9	28	85	5	103	25	30	15	28	1.96
3335946--3336048	36	3.2	36	60	28	84	26	25	19	29	1.99
3335943--3337422	55	25.9	55	83	10	1682	27	29	19	23	1.98
3336198--3336280	27	3.0	27	60	16	62	28	30	19	21	1.98
3337033--3337118	27	3.1	27	62	15	68	29	23	18	29	1.98
3338163--3338220	21	2.8	21	81	5	73	36	15	15	32	1.89
3338257--3338324	19	3.9	19	78	21	85	35	11	14	38	1.83
3338259--3338321	32	2.0	32	96	0	117	34	12	15	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3338278--3338302	13	1.9	13	100	0	50	36	16	16	32	1.90
3338364--3338389	13	2.0	13	100	0	52	30	15	15	38	1.88
3340860--3340941	28	2.9	28	85	5	103	25	30	15	28	1.96
3341997--3342036	20	2.1	19	85	4	53	52	7	0	40	1.30
3342943--3342996	20	2.7	20	88	11	76	33	18	14	33	1.92
3343036--3343094	20	3.0	20	85	5	84	33	13	18	33	1.90
3343040--3343095	19	2.9	19	86	2	76	35	14	17	32	1.90
3343080--3343119	13	3.1	13	100	0	80	40	15	15	30	1.87
3346248--3346460	106	2.0	106	92	1	356	34	16	9	39	1.81
3346440--3346876	166	2.6	164	81	7	449	32	10	8	49	1.66
3348447--3348471	13	1.9	13	100	0	50	16	8	0	76	1.02
3349324--3349373	27	1.9	26	88	8	75	28	22	34	16	1.95
3350644--3350718	20	3.8	19	75	7	78	33	10	12	44	1.76
3355224--3355251	13	2.2	13	100	0	56	28	14	17	39	1.89
3355204--3355270	33	2.0	33	88	5	100	29	14	14	40	1.87
3362489--3362514	13	2.0	13	100	0	52	30	15	15	38	1.88
3362469--3362532	32	2.0	33	90	3	103	28	14	18	39	1.90
3362469--3362539	19	4.0	18	72	25	62	26	12	21	39	1.89
3365045--3365083	13	3.0	13	100	0	78	38	15	15	30	1.88
3368995--3369039	21	2.1	21	84	8	56	22	20	4	53	1.63
3371243--3371268	13	2.0	13	100	0	52	30	15	15	38	1.88
3371223--3371286	32	2.0	33	90	3	103	28	14	18	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371223--3371293	19	4.0	18	72	25	62	26	12	21	39	1.89
3372286--3372892	154	3.7	159	78	11	547	29	12	7	50	1.68
3373216--3373245	14	2.1	15	93	6	53	33	3	0	63	1.11
3375028--3375704	156	4.3	155	77	5	580	24	17	20	38	1.93
3375028--3375704	311	2.2	313	82	4	789	24	17	20	38	1.93
3377778--3377928	77	1.9	78	86	1	214	26	18	13	41	1.87
3378387--3379163	91	8.5	91	82	3	816	29	25	14	30	1.95
3378386--3379097	273	2.6	272	85	3	939	29	25	14	30	1.95
3379340--3379705	48	7.6	48	79	5	366	18	20	20	41	1.91
3379335--3379705	96	3.9	95	83	2	406	18	20	19	40	1.91
3379335--3379705	144	2.6	143	82	7	439	18	20	19	40	1.91
3379689--3379722	17	2.0	17	88	11	52	17	17	35	29	1.93
3379738--3379974	48	5.0	48	75	4	212	19	22	15	43	1.88
3379738--3379979	97	2.6	94	79	7	249	19	22	14	43	1.87
3380038--3380204	84	2.0	84	79	6	178	19	27	15	37	1.92
3390814--3390860	21	2.3	20	82	7	58	40	17	19	23	1.91
3391796--3391820	13	1.9	13	100	0	50	36	16	16	32	1.90
3391842--3391939	19	5.8	18	69	28	81	36	18	12	32	1.88
3391861--3391917	13	3.9	13	74	24	51	33	19	14	33	1.91
3391840--3391937	32	3.0	32	95	1	169	35	18	12	33	1.88
3392731--3392857	67	1.9	68	83	1	166	38	11	26	22	1.89
3392912--3393475	49	12.0	48	83	7	610	31	18	25	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3392916--3393477	92	6.0	91	85	6	668	31	18	25	24	1.98
3393468--3393672	32	6.4	32	85	5	281	19	18	33	28	1.95
3393468--3393672	65	3.2	65	86	7	294	19	18	33	28	1.95
3393468--3393671	97	2.1	96	89	1	311	19	18	33	28	1.95
3393679--3394077	96	4.2	94	75	14	234	34	12	32	20	1.91
3393806--3394083	29	9.0	29	74	17	215	33	12	32	21	1.90
3393833--3394083	35	7.8	35	75	17	249	33	12	32	21	1.91
3393779--3394083	64	4.9	63	85	4	424	32	12	33	21	1.90
3393779--3394082	125	2.4	125	95	1	540	32	12	33	21	1.90
3395020--3395057	13	2.9	13	88	0	58	0	5	5	89	0.59
3400235--3400588	176	2.0	176	98	0	690	34	21	22	21	1.97
3401594--3401641	21	2.3	20	82	6	60	39	18	18	22	1.92
3402492--3402616	52	2.4	52	97	0	232	28	18	17	36	1.94
3402679--3402772	19	5.6	18	68	28	73	35	15	12	36	1.86
3402698--3402754	13	3.9	13	72	24	51	33	15	14	36	1.88
3402677--3402772	32	3.0	32	93	1	165	35	15	12	36	1.85
3408392--3408416	13	1.9	13	100	0	50	32	16	16	36	1.90
3408372--3408436	33	2.0	32	85	11	87	32	16	15	35	1.91
3409478--3409547	33	2.1	33	94	0	122	35	21	20	22	1.96
3411958--3412072	49	2.3	50	89	1	169	26	16	14	41	1.87
3414448--3414562	51	2.3	51	87	0	167	32	26	10	31	1.90
3414545--3414619	28	2.7	28	85	0	96	21	26	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414499--3414698	107	1.9	107	86	0	283	25	25	14	34	1.94
3414573--3414901	79	4.2	79	82	4	371	26	24	16	33	1.95
3414573--3414909	156	2.1	158	84	5	425	25	24	16	33	1.96
3427282--3427344	11	5.5	12	79	9	60	85	11	3	0	0.70
3427294--3427333	13	3.2	13	89	10	66	87	12	0	0	0.54
3427282--3427333	25	2.1	25	83	13	72	86	13	0	0	0.57
3427285--3427329	7	6.6	7	78	21	51	86	13	0	0	0.57
3427283--3427344	24	2.6	25	87	5	83	85	11	3	0	0.71
3427307--3427361	12	5.1	11	81	16	53	83	5	10	0	0.79
3427293--3427361	24	2.9	23	81	10	68	84	7	8	0	0.79

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