genome.fa.s39.2.7.7.80.10.50.1000.19.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  19  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)
3242144--3242204	22	2.7	22	78	14	54	0	13	9	77	1.00
3242170--3242208	17	2.4	16	86	4	51	0	10	7	82	0.86
3242446--3242497	11	4.7	11	92	0	77	0	1	11	86	0.65
3242446--3242484	20	2.0	20	89	0	60	0	2	10	87	0.65
3242457--3242499	13	3.6	12	93	6	70	0	0	9	90	0.45
3242457--3242499	1	43.0	1	80	0	50	0	0	9	90	0.45
3245335--3245456	52	2.3	52	91	2	192	33	11	23	31	1.90
3247822--3247847	13	2.0	13	100	0	52	38	15	15	30	1.88
3247887--3247941	19	2.9	19	94	0	92	41	14	9	34	1.77
3247996--3248053	21	2.8	21	94	0	98	37	17	10	34	1.84
3248589--3248800	119	1.8	116	82	11	270	40	14	25	20	1.90
3248784--3249813	55	17.9	55	84	10	1012	25	20	27	26	1.99
3248784--3249846	61	18.3	60	86	7	1167	25	20	27	26	1.99
3249015--3249117	36	3.2	36	61	28	93	30	19	24	26	1.98
3248783--3249820	116	9.0	114	85	6	1102	25	20	27	26	1.99
3249088--3249229	28	5.1	28	60	19	73	25	19	26	28	1.99
3256165--3256285	52	2.3	51	83	4	161	33	10	24	31	1.90
3256183--3256282	52	1.9	52	91	2	164	36	10	23	31	1.87
3258627--3258681	20	2.8	20	77	0	65	43	16	14	25	1.86
3258701--3258755	19	2.9	19	97	0	101	40	14	10	34	1.81
3258791--3258867	21	3.7	21	89	3	111	35	16	12	35	1.88
3261194--3261779	289	2.0	289	96	0	1093	25	20	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3264402--3264551	52	2.9	52	87	0	210	34	15	15	35	1.89
3264518--3264574	21	2.8	21	89	2	80	36	10	15	36	1.82
3264591--3264657	33	2.0	33	85	0	89	41	16	8	32	1.79
3265199--3265231	15	2.1	16	88	5	50	54	3	9	33	1.47
3266338--3266391	20	2.7	20	88	5	74	33	12	16	37	1.87
3269459--3269501	20	2.1	20	86	4	59	9	30	44	16	1.79
3276141--3276166	13	2.0	13	100	0	52	30	15	15	38	1.88
3276121--3276185	33	2.0	33	84	6	87	29	13	15	41	1.86
3279850--3279874	13	1.9	13	100	0	50	32	16	16	36	1.90
3279883--3280008	52	2.4	52	97	0	234	36	19	18	26	1.94
3285892--3285938	21	2.3	20	85	3	58	34	21	2	42	1.65
3288251--3288307	19	2.9	19	84	2	78	33	15	15	35	1.90
3290899--3291138	60	4.1	59	82	7	267	26	19	28	25	1.99
3290970--3291374	209	1.9	210	85	3	562	24	20	29	25	1.99
3291178--3291679	61	8.3	61	82	5	599	26	20	28	24	1.99
3291178--3291679	123	4.2	122	83	3	631	26	20	28	24	1.99
3291178--3291890	184	4.1	176	77	10	689	26	19	28	25	1.99
3291687--3291869	62	3.1	60	79	10	223	28	18	27	25	1.98
3291755--3291895	55	2.6	55	89	1	212	24	19	29	26	1.99
3291466--3292105	210	3.0	209	87	6	849	27	18	28	24	1.98
3291909--3292159	55	4.5	55	87	6	303	23	21	27	26	1.99
3292005--3292086	27	3.0	27	63	16	69	20	23	29	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3291763--3292045	155	1.9	149	85	5	397	24	20	28	26	1.99
3292076--3292159	25	3.2	25	63	18	62	23	21	28	26	1.99
3291909--3292155	109	2.2	112	83	7	315	23	22	27	26	1.99
3292079--3292322	94	2.6	94	93	1	420	23	18	31	25	1.97
3292270--3292414	61	2.4	60	82	9	177	26	20	27	25	1.99
3297634--3297674	21	2.0	21	85	9	57	39	12	9	39	1.76
3297861--3297891	10	3.1	10	90	0	53	22	29	6	41	1.78
3297901--3297992	47	2.0	47	91	4	150	31	25	7	35	1.84
3297993--3298031	13	3.0	13	92	0	69	30	15	17	35	1.91
3299954--3300060	28	3.9	28	78	1	108	28	18	28	23	1.98
3300046--3300319	51	5.4	51	86	1	352	31	12	26	30	1.93
3301307--3301360	27	2.0	27	100	0	108	33	25	18	22	1.97
3302658--3302713	20	2.8	20	86	7	78	41	14	16	28	1.87
3302647--3302676	13	2.3	13	94	0	51	40	10	16	33	1.82
3302752--3302777	13	2.0	13	100	0	52	38	15	15	30	1.88
3304220--3305100	87	9.4	96	81	7	642	30	17	25	26	1.97
3304264--3305097	49	17.9	49	74	13	609	30	17	25	26	1.98
3304465--3305092	87	6.9	87	83	7	727	29	17	25	27	1.97
3304605--3304848	39	5.8	39	70	17	148	28	18	25	28	1.98
3305102--3305208	29	3.6	30	80	12	123	16	18	31	32	1.94
3305188--3305608	27	13.7	31	76	13	301	32	13	32	21	1.92
3305269--3305772	34	15.8	33	79	11	284	33	13	31	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3305207--3305580	153	2.5	148	79	13	351	33	13	32	20	1.91
3305331--3305544	118	1.8	119	92	3	369	33	13	32	20	1.92
3305555--3305750	103	1.9	98	80	7	223	34	14	29	21	1.93
3305589--3305782	61	3.0	61	81	13	219	32	14	29	23	1.94
3307079--3307116	13	3.1	12	85	14	51	0	0	18	81	0.69
3314038--3314092	20	2.7	22	83	10	73	38	14	14	32	1.87
3314114--3314165	13	3.5	13	73	26	50	34	17	15	32	1.91
3314122--3314220	19	5.6	18	71	22	84	33	17	14	35	1.89
3314114--3314220	32	3.2	32	86	12	151	33	17	14	34	1.90
3314121--3314244	38	3.4	38	88	8	161	33	16	13	36	1.89
3320715--3321078	130	2.8	130	88	2	527	33	11	13	41	1.81
3321924--3322165	124	1.9	126	88	1	362	27	13	19	39	1.89
3321777--3322315	281	1.9	279	81	5	651	24	15	20	39	1.92
3327196--3327220	13	1.9	13	100	0	50	40	16	8	36	1.77
3327271--3327322	19	2.7	19	81	3	59	40	17	13	28	1.87
3327917--3327971	27	2.0	28	89	7	85	30	23	3	41	1.72
3336133--3336171	20	1.9	21	94	5	71	28	15	20	35	1.93
3336825--3337060	88	2.7	88	80	5	219	22	18	12	47	1.81
3337741--3337943	48	4.2	48	78	6	223	20	24	18	36	1.94
3338000--3338116	44	2.7	44	91	2	182	20	25	15	38	1.92
3338180--3338305	43	2.9	43	76	12	123	19	25	18	37	1.94
3339834--3340174	167	2.0	165	79	7	359	28	11	8	51	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3340747--3340794	21	2.3	20	82	6	60	70	0	20	8	1.12
3341708--3342019	149	2.1	149	82	7	362	34	10	12	41	1.78
3342238--3342521	150	1.9	149	80	10	337	34	13	12	39	1.82
3345621--3345699	20	3.8	20	77	6	77	40	10	13	35	1.79
3347660--3347691	9	3.6	9	95	0	55	34	3	12	50	1.56
3348588--3348651	30	2.1	30	100	0	128	31	0	17	51	1.45
3353919--3354390	164	2.9	163	83	6	553	27	12	8	50	1.70
3355027--3355072	23	1.9	24	86	8	67	80	4	15	0	0.86
3356019--3356053	18	1.9	18	94	0	61	17	17	17	48	1.81
3356914--3357661	156	4.8	155	81	4	889	22	18	22	37	1.94
3365562--3365647	38	2.3	37	94	6	154	41	2	23	32	1.67
3366294--3366365	19	3.7	19	94	1	117	29	15	18	37	1.91
3366414--3366438	13	1.9	13	100	0	50	36	16	16	32	1.90
3366394--3366458	33	2.0	33	85	11	89	35	15	16	32	1.91
3369811--3369851	6	6.8	6	79	20	50	82	0	17	0	0.66
3371494--3371701	90	2.3	90	84	6	253	27	25	16	29	1.97
3372370--3372776	43	9.5	43	76	1	262	16	27	19	36	1.93
3372364--3372692	128	2.6	128	80	1	354	17	27	18	36	1.94
3372718--3372819	43	2.4	43	83	4	118	12	23	22	41	1.88
3372882--3373276	126	3.1	127	73	7	345	23	29	12	34	1.92
3373275--3373434	43	3.8	42	77	9	128	19	28	18	33	1.96
3373312--3373519	43	4.9	44	73	8	153	20	28	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3373239--3373449	85	2.5	84	74	8	194	18	28	18	35	1.94
3373298--3373642	127	2.7	127	80	2	370	21	29	15	33	1.95
3373556--3374292	85	8.7	83	75	7	406	21	26	16	34	1.95
3373506--3374299	170	4.7	169	78	6	448	21	26	16	35	1.95
3373587--3373814	43	5.3	43	72	8	144	24	28	15	31	1.95
3373556--3374518	255	3.8	255	75	7	773	21	27	16	34	1.95
3373636--3373939	42	7.2	42	71	6	139	21	27	17	34	1.95
3373636--3374021	42	9.1	42	67	7	136	21	26	16	34	1.95
3374140--3374221	43	1.9	43	85	7	114	18	17	20	43	1.88
3374288--3374663	42	8.9	41	69	8	141	20	28	18	32	1.96

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