genome.fa.s35.2.7.7.80.10.50.1000.21.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   

This is table  21  of  30  ( 3549 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)
3329400--3329466	28	2.4	28	82	2	82	26	25	19	28	1.99
3329635--3329747	32	3.5	32	87	2	156	35	29	14	21	1.92
3329824--3329910	43	2.0	43	88	0	129	25	22	19	32	1.98
3329938--3330493	52	10.5	51	72	12	304	24	26	16	33	1.95
3329924--3330283	156	2.3	156	91	0	569	24	24	16	34	1.95
3329986--3330560	217	2.7	216	86	3	790	24	26	15	34	1.95
3329976--3330493	104	4.9	103	71	10	366	23	26	16	33	1.95
3332985--3333009	13	1.9	13	100	0	50	32	16	16	36	1.90
3333081--3333105	13	1.9	13	100	0	50	32	16	16	36	1.90
3333655--3333722	20	3.3	20	66	8	55	41	14	8	35	1.77
3333640--3333741	42	2.5	41	88	3	161	33	21	7	37	1.82
3335437--3335479	21	2.0	21	86	0	59	48	0	16	34	1.46
3335573--3335612	13	3.1	13	77	0	53	37	12	12	37	1.81
3340141--3340177	3	12.3	3	94	0	65	29	35	0	35	1.58
3341791--3341815	13	1.9	13	100	0	50	32	16	16	36	1.90
3341771--3341835	33	2.0	32	85	11	87	32	16	15	35	1.91
3341869--3341920	19	2.7	19	90	3	77	40	15	13	30	1.86
3346529--3346813	156	1.8	156	82	4	369	42	17	15	23	1.88
3346529--3346912	156	2.5	155	79	5	362	43	17	14	24	1.86
3346551--3346993	157	2.8	157	77	6	357	41	17	16	24	1.89
3346966--3347413	156	2.9	153	76	10	437	42	19	13	24	1.87
3346793--3347453	311	2.1	309	77	8	689	42	18	14	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3348826--3348922	51	1.9	50	95	2	176	28	19	9	42	1.82
3353240--3353703	80	5.9	79	80	6	465	27	25	13	33	1.93
3353277--3353788	80	6.5	79	79	7	463	27	25	13	33	1.93
3353280--3353715	159	2.8	158	82	3	520	27	25	13	33	1.93
3353337--3353815	236	2.0	239	79	8	523	28	24	12	34	1.92
3353671--3353841	80	2.1	81	85	3	229	27	22	12	37	1.90
3356351--3356786	153	2.7	158	84	5	488	40	13	10	35	1.79
3357698--3357747	3	16.7	3	95	0	91	64	0	2	34	1.05
3361308--3361340	2	16.5	2	100	0	66	51	0	0	48	1.00
3362295--3362333	19	2.1	19	85	0	51	33	5	5	56	1.43
3363692--3363738	22	2.2	21	88	3	67	36	2	2	59	1.21
3365588--3365652	33	2.0	33	87	6	96	36	18	10	33	1.86
3366428--3366483	28	2.0	28	100	0	112	46	17	3	32	1.66
3366459--3366664	74	2.7	75	80	7	211	36	17	13	33	1.88
3366617--3366784	84	2.0	84	98	0	327	33	19	15	31	1.93
3366885--3367031	58	2.5	58	81	3	170	45	14	11	28	1.79
3368601--3368679	30	2.5	32	82	15	94	39	22	17	20	1.92
3368715--3368760	23	2.0	24	86	4	67	30	8	6	54	1.56
3370606--3370658	19	2.7	21	88	8	76	24	16	16	41	1.89
3370625--3370674	19	2.6	19	87	3	64	28	16	18	38	1.91
3370707--3370760	20	2.7	20	91	5	83	31	12	18	37	1.89
3372348--3372381	9	3.8	9	88	11	52	44	0	26	29	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3379489--3379513	13	1.9	13	100	0	50	36	16	16	32	1.90
3379468--3379532	33	2.0	32	88	8	96	30	15	15	38	1.88
3379498--3379554	19	3.0	20	84	7	82	33	15	17	33	1.92
3379583--3379636	20	2.7	20	85	5	74	29	12	20	37	1.90
3385992--3386103	51	2.2	51	85	6	147	38	10	20	30	1.87
3386170--3386244	28	2.7	28	91	0	114	25	20	33	21	1.97
3386227--3386343	51	2.3	50	79	4	144	33	11	23	31	1.90
3385955--3386384	237	1.8	237	80	6	530	34	13	24	27	1.92
3386354--3386485	51	2.6	51	86	1	185	34	13	26	25	1.93
3386199--3386437	130	1.8	130	85	1	336	33	12	25	28	1.92
3388676--3388731	10	5.7	10	78	14	55	1	19	0	78	0.84
3388684--3388731	15	3.4	14	83	13	55	0	20	0	79	0.74
3388676--3388743	25	2.8	24	80	12	84	2	20	0	76	0.92
3388692--3388733	15	2.9	15	89	10	61	0	23	0	76	0.79
3388676--3388739	13	5.1	13	74	12	53	3	18	0	78	0.89
3389301--3389918	167	3.7	164	76	9	483	49	7	10	32	1.66
3389339--3389918	165	3.5	159	77	9	495	49	8	9	32	1.65
3390978--3391208	84	2.8	84	79	7	231	43	12	24	19	1.85
3391530--3391614	42	2.0	42	84	4	109	34	22	27	16	1.95
3391589--3391714	42	3.0	42	81	6	148	36	21	27	14	1.92
3391646--3391844	42	4.7	42	73	6	116	38	19	25	16	1.92
3391600--3392244	84	7.8	83	73	10	259	36	17	26	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3391696--3392244	42	13.3	41	71	10	226	37	16	26	19	1.93
3391997--3392144	77	1.9	76	88	1	224	35	17	25	21	1.95
3392321--3392642	44	7.3	43	70	9	202	37	15	25	21	1.92
3392323--3392642	88	3.6	88	85	2	419	37	15	25	20	1.92
3393015--3393070	27	2.1	27	96	0	103	19	14	16	50	1.79
3392965--3393113	78	1.9	78	87	5	221	24	16	14	43	1.86
3395046--3395411	79	4.6	80	77	7	327	29	23	11	35	1.90
3395346--3395469	51	2.4	51	86	4	160	29	25	9	35	1.88
3395268--3395515	130	1.9	130	85	5	342	30	23	10	35	1.88
3395205--3395584	208	1.8	209	81	6	484	30	25	11	33	1.90
3395396--3395584	78	2.4	77	79	6	200	28	25	13	32	1.93
3403710--3403798	13	5.9	13	71	27	61	33	15	17	32	1.92
3403689--3403798	32	3.4	32	96	0	193	35	14	17	32	1.90
3403691--3403785	19	5.6	19	70	27	88	34	14	17	32	1.91
3408603--3408669	33	2.0	32	88	11	100	37	17	11	32	1.87
3408631--3408668	20	1.9	20	94	0	67	39	18	10	31	1.85
3408623--3408648	13	2.0	13	100	0	52	38	15	15	30	1.88
3409356--3409454	44	2.2	44	94	0	180	27	23	4	45	1.70
3417356--3417413	20	2.9	20	89	5	82	36	13	13	36	1.85
3417392--3417422	13	2.4	13	94	0	53	35	16	12	35	1.87
3417470--3417530	20	3.1	19	90	6	95	32	18	13	36	1.89
3420851--3420916	31	2.1	31	91	5	107	36	19	27	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3422470--3422512	16	2.9	15	83	12	54	79	2	0	18	0.85
3422467--3422500	11	3.0	11	91	4	50	76	2	0	20	0.92
3432986--3433031	21	2.2	21	88	7	67	32	17	19	30	1.95
3435438--3435537	51	2.0	51	82	7	123	28	30	11	31	1.91
3435488--3435856	79	4.7	78	77	7	314	28	25	11	33	1.91
3435473--3435856	158	2.4	159	81	5	456	28	26	11	32	1.92
3443036--3443691	79	8.3	79	79	3	432	34	10	25	28	1.90
3443036--3443690	158	4.2	157	78	7	571	34	10	25	28	1.90
3443204--3443690	237	2.1	236	82	5	583	34	11	25	28	1.91
3446062--3446179	51	2.3	51	85	2	148	42	16	11	29	1.83
3448375--3448425	20	2.6	20	90	3	86	27	13	13	45	1.82
3448526--3448563	20	1.9	20	88	0	58	39	7	13	39	1.73
3448991--3449083	36	2.8	33	81	15	118	32	12	25	29	1.93
3450678--3450729	21	2.4	22	81	15	72	53	1	26	17	1.54
3451977--3452017	13	3.2	13	89	0	64	36	14	9	39	1.79
3452903--3452958	29	1.9	29	92	0	94	35	3	23	37	1.72
3453693--3453741	24	2.0	25	88	4	73	32	16	10	40	1.82
3453718--3453760	19	2.3	19	95	0	77	27	16	11	44	1.82
3453828--3453897	32	2.2	32	84	0	95	32	22	17	27	1.96
3454305--3454397	36	2.8	34	85	9	129	31	12	25	30	1.93
3455526--3455575	20	2.4	21	86	3	66	40	16	16	28	1.89
3455613--3455731	50	2.3	50	81	5	141	30	16	10	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3455613--3455743	52	2.6	50	80	2	154	29	17	10	41	1.83
3460109--3460177	30	2.4	31	81	16	85	46	0	4	49	1.21
3460211--3460269	30	2.0	30	83	6	75	44	11	0	44	1.41
3464386--3464414	2	14.5	2	100	0	58	48	0	0	51	1.00
3466152--3466177	13	2.0	13	100	0	52	30	15	15	38	1.88
3468712--3468750	13	3.0	13	100	0	78	38	15	15	30	1.88
3470829--3470859	15	2.1	15	93	0	53	12	22	16	48	1.80
3472658--3472708	21	2.6	21	81	12	63	23	21	3	50	1.65
3474931--3474956	13	2.0	13	100	0	52	30	15	15	38	1.88
3476651--3476697	21	2.3	20	82	13	60	51	4	0	44	1.21

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