genome.fa.s407.2.7.7.80.10.50.1000.22.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   

This is table  22  of  28  ( 3302 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)
3252586--3253375	159	5.0	155	68	13	411	35	13	18	31	1.90
3252790--3256636	475	8.1	473	81	4	4049	35	13	18	32	1.90
3256362--3256968	317	1.9	315	82	3	752	36	14	18	30	1.90
3256614--3258359	470	3.7	471	82	4	1953	36	13	17	31	1.90
3258553--3258593	21	2.0	21	90	0	64	26	21	19	31	1.97
3258623--3258679	20	2.8	20	91	0	96	22	12	17	47	1.81
3258663--3258690	13	2.2	13	100	0	56	28	14	14	42	1.84
3258706--3258799	20	4.7	20	80	17	106	26	15	13	43	1.85
3258705--3258799	40	2.4	41	79	16	119	27	15	13	43	1.85
3259436--3259707	61	4.4	61	85	5	318	25	26	19	27	1.99
3259679--3259794	43	2.7	44	78	6	121	19	33	15	31	1.93
3259621--3259913	148	2.0	148	93	0	505	21	33	16	29	1.95
3259918--3260091	62	2.8	60	86	8	235	24	29	22	22	1.99
3259907--3260096	61	3.1	62	85	8	246	23	29	20	26	1.99
3260072--3260347	43	6.3	43	82	9	260	20	27	12	38	1.89
3262422--3262797	184	2.0	184	99	0	745	26	20	21	32	1.98
3263568--3263901	79	4.2	79	79	6	336	27	24	14	33	1.94
3263795--3263846	28	1.9	27	84	7	70	26	26	17	28	1.97
3263556--3263847	158	1.9	157	82	7	371	28	25	12	33	1.92
3263566--3263893	157	2.1	157	80	8	364	28	24	13	33	1.93
3265654--3265706	20	2.7	20	100	0	106	32	22	15	30	1.94
3265695--3265747	19	2.7	20	91	2	81	28	16	16	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3265798--3265822	13	1.9	13	100	0	50	32	20	16	32	1.94
3281194--3281245	20	2.6	20	93	0	86	30	25	9	34	1.88
3283684--3283733	13	4.2	13	76	23	65	32	12	18	38	1.87
3284465--3286257	475	3.8	475	80	4	1966	36	13	17	32	1.89
3285844--3286674	432	1.9	432	82	3	1021	37	14	16	31	1.89
3286260--3289212	938	3.1	933	82	5	3490	35	13	18	32	1.89
3288516--3289151	159	4.0	158	70	13	451	36	13	18	32	1.89
3289246--3290054	62	13.1	62	85	1	971	32	18	23	25	1.97
3289246--3290054	185	4.4	185	84	3	1027	32	18	23	25	1.97
3296314--3296421	51	2.1	51	85	0	153	33	12	25	29	1.92
3296176--3296499	130	2.5	127	82	7	366	34	11	24	29	1.91
3296358--3296637	79	3.6	78	81	2	312	33	12	24	28	1.92
3296358--3296653	157	1.9	156	83	6	384	32	13	25	29	1.94
3297746--3302661	159	31.2	156	64	14	489	36	13	17	32	1.89
3297501--3303019	476	11.7	472	82	4	6048	36	13	17	32	1.89
3303345--3303390	19	2.6	18	89	6	67	30	13	17	39	1.87
3303445--3303470	13	2.0	13	100	0	52	30	15	15	38	1.88
3303457--3303511	20	2.8	20	100	0	110	25	20	14	40	1.90
3305846--3305982	52	2.6	52	81	3	159	29	25	10	33	1.90
3305913--3306248	79	4.2	80	81	5	378	27	26	14	31	1.95
3305913--3306246	159	2.1	158	82	6	390	28	26	14	31	1.94
3307216--3312225	944	5.3	944	80	6	5145	36	13	18	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3307253--3310763	159	22.2	158	65	12	692	36	13	18	32	1.90
3312235--3323058	476	22.8	476	82	3	11585	31	18	13	36	1.89
3315531--3316176	158	4.1	157	68	13	410	34	18	11	36	1.86
3322661--3323472	418	1.9	419	84	2	1067	32	20	12	34	1.90
3323069--3327427	476	9.2	473	79	6	4311	31	18	13	36	1.90
3327660--3327684	13	1.9	13	100	0	50	36	16	16	32	1.90
3332985--3333028	21	2.0	22	91	4	72	34	18	9	38	1.82
3335413--3335545	52	2.6	51	86	5	171	28	24	13	33	1.93
3339318--3339373	20	2.6	22	75	18	64	71	14	8	5	1.29
3339332--3339364	9	3.3	10	87	12	50	81	18	0	0	0.68
3340590--3340800	34	6.6	33	81	12	221	23	29	16	29	1.96
3340590--3340810	61	3.5	62	80	11	225	22	29	15	31	1.95
3340590--3340810	30	7.0	32	81	11	233	22	29	15	31	1.95
3340717--3340875	34	4.8	33	75	14	130	20	30	13	34	1.92
3340588--3340873	98	3.0	101	82	9	287	22	30	15	32	1.94
3340680--3340896	34	6.4	33	75	14	115	22	31	12	33	1.92
3340943--3342041	49	22.9	49	82	7	1183	24	25	18	32	1.97
3341012--3341080	21	3.2	21	64	18	52	26	28	17	27	1.97
3341423--3341490	21	3.2	21	64	25	52	23	29	17	29	1.97
3341445--3342138	101	6.9	101	88	1	991	24	25	17	33	1.96
3340943--3342138	202	6.2	197	84	6	1353	24	25	18	32	1.97
3342846--3342870	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3347020--3353615	476	13.9	476	84	2	7749	30	18	13	37	1.89
3347728--3353187	159	34.4	160	65	12	695	30	18	13	37	1.89
3353918--3353944	13	2.1	13	100	0	54	29	14	14	40	1.86
3353994--3354047	20	2.7	20	91	5	83	31	14	16	37	1.89
3356188--3356373	51	3.6	51	83	6	241	31	25	11	32	1.91
3356356--3356426	27	2.6	28	86	8	101	26	32	18	22	1.97
3356380--3357217	79	10.6	79	89	2	1101	27	25	14	31	1.95
3363163--3365692	476	5.3	472	84	3	3055	30	17	14	37	1.90
3363652--3365269	158	10.2	159	66	11	527	30	17	14	37	1.90
3365995--3366021	13	2.1	13	100	0	54	29	14	14	40	1.86
3366071--3366124	20	2.7	20	91	5	83	31	14	16	37	1.89
3368264--3368399	51	2.6	52	86	5	204	30	26	11	31	1.92
3368379--3368453	27	2.7	27	89	6	107	25	33	18	22	1.97
3368406--3369242	79	10.6	79	89	1	1140	27	26	14	31	1.94
3371356--3371384	4	7.2	4	100	0	58	24	0	0	75	0.80
3381670--3381752	1	83.0	1	74	0	67	86	7	2	3	0.75
3381670--3381752	14	5.6	14	77	17	80	86	7	2	3	0.75
3381670--3381752	39	2.2	37	80	8	94	86	7	2	3	0.75
3381670--3381769	8	11.2	9	76	10	57	84	6	7	3	0.88
3382724--3383322	55	10.5	55	85	7	729	27	26	20	25	1.99
3382806--3382891	27	3.1	27	61	3	64	27	23	20	27	1.99
3383342--3383966	55	11.0	54	83	10	705	26	27	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3383482--3383563	27	3.0	27	62	10	67	28	24	21	25	1.99
3383362--3383967	286	2.1	286	94	1	1063	26	27	20	25	1.99
3386614--3386800	51	3.6	51	82	6	243	30	27	11	31	1.91
3386807--3387408	79	7.6	79	90	0	821	27	26	14	31	1.95
3389335--3389384	13	3.5	13	75	19	55	34	12	18	36	1.87
3389429--3389453	13	1.9	13	100	0	50	32	16	16	36	1.90
3397084--3397137	20	2.7	20	91	5	83	31	12	18	37	1.89
3397875--3398929	475	2.2	476	85	1	1429	31	17	12	38	1.88
3398688--3399223	266	2.0	265	88	1	786	31	17	12	38	1.87
3398953--3401592	476	5.6	476	82	4	3071	31	17	13	37	1.88
3401904--3401928	13	1.9	13	100	0	50	32	16	16	36	1.90
3402611--3403129	123	4.2	123	85	3	661	24	25	20	30	1.98
3402611--3403126	62	8.3	61	85	3	615	24	25	19	30	1.98
3402611--3403128	185	2.8	184	84	6	670	24	24	20	30	1.98
3403110--3403232	41	3.0	41	90	0	183	19	28	13	38	1.90
3404268--3404318	20	2.6	20	90	3	77	33	13	17	35	1.89
3404348--3404397	20	2.5	20	90	6	75	36	12	18	34	1.87
3412430--3412471	22	1.9	22	90	0	66	35	4	35	23	1.76
3413039--3413093	20	2.6	21	85	5	76	30	12	14	41	1.83
3416356--3416428	28	2.6	28	82	8	94	27	24	17	30	1.97
3416294--3416533	107	2.2	107	88	2	358	27	25	15	32	1.95
3416462--3416560	28	3.6	28	90	2	164	23	24	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3416355--3416638	134	2.1	136	84	4	371	27	22	16	33	1.95
3416518--3416689	79	2.2	79	83	5	215	27	22	15	34	1.94
3416545--3416814	130	2.1	130	86	4	375	28	23	12	34	1.92
3416625--3416734	51	2.2	51	81	3	123	30	22	12	34	1.92
3416676--3416850	79	2.2	79	85	4	228	27	25	14	32	1.94
3422715--3424281	159	9.9	157	67	11	527	30	18	13	36	1.90
3422465--3424573	477	4.5	474	84	4	2634	31	19	13	36	1.90
3424374--3424732	158	2.3	159	87	2	517	32	17	13	36	1.89
3423896--3424756	462	1.9	461	79	7	1003	30	19	12	37	1.89
3423912--3425195	619	2.1	619	84	5	1679	30	18	13	37	1.89

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