genome.fa.s106.2.7.7.80.10.50.1000.20.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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  20  of  27  ( 3135 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)
3318724--3318790	27	2.4	29	83	14	97	44	0	2	52	1.16
3319887--3319931	2	22.5	2	100	0	90	0	48	0	51	1.00
3319931--3319977	2	23.5	2	100	0	94	48	0	0	51	1.00
3324404--3324442	2	20.0	2	94	5	71	48	0	0	51	1.00
3325551--3325609	10	6.3	10	79	15	56	40	1	0	57	1.09
3325556--3325620	26	2.5	26	83	14	80	44	1	0	53	1.09
3328025--3328065	18	2.2	20	86	8	59	51	2	0	46	1.14
3330191--3330227	14	2.6	14	91	0	56	0	10	2	86	0.67
3331280--3331337	27	2.3	27	85	8	77	37	1	0	60	1.07
3336293--3336345	2	26.5	2	84	0	70	47	5	1	45	1.37
3338650--3338706	29	2.2	26	81	15	64	59	1	8	29	1.38
3339543--3339585	19	2.3	19	84	8	52	51	4	4	39	1.44
3343535--3343568	17	2.0	18	88	11	54	50	0	0	50	1.00
3347111--3347144	17	2.0	17	88	0	50	64	0	0	35	0.94
3352594--3352628	18	1.9	18	88	0	52	51	0	0	48	1.00
3352625--3352667	24	1.9	21	86	13	59	60	2	2	34	1.22
3354345--3354411	12	5.8	12	68	18	52	65	1	0	32	1.02
3354448--3354484	18	2.1	18	89	0	56	67	0	0	32	0.91
3358906--3358932	14	1.9	14	100	0	54	51	0	11	37	1.37
3359166--3359242	38	2.0	40	82	17	99	48	0	0	51	1.00
3359199--3359268	22	3.2	22	82	13	65	57	0	0	42	0.99
3359211--3359270	23	2.8	22	85	14	74	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)
3360343--3360372	2	15.0	2	100	0	60	50	0	0	50	1.00
3363859--3363910	17	3.0	17	78	13	52	48	0	9	42	1.36
3372266--3372314	21	2.6	18	79	17	55	36	0	2	61	1.08
3372733--3372758	2	13.0	2	100	0	52	50	0	0	50	1.00
3373424--3373463	15	2.6	16	84	15	57	40	0	0	60	0.97
3373427--3373481	16	3.5	16	82	5	67	36	0	3	60	1.15
3373478--3373517	20	2.0	21	95	5	73	40	0	0	60	0.97
3374493--3374528	18	1.9	19	94	5	65	50	8	2	38	1.47
3374640--3374674	18	2.1	16	89	10	52	68	2	0	28	1.04
3375573--3375606	3	11.0	3	93	6	59	64	0	0	35	0.94
3379068--3379107	17	2.4	17	87	8	55	22	0	2	75	0.93
3380097--3380161	21	3.0	22	81	16	75	55	0	1	43	1.09
3380153--3380199	17	2.7	18	80	9	62	63	0	2	34	1.06
3382621--3382649	2	14.5	2	100	0	58	48	0	0	51	1.00
3383460--3383523	23	2.7	25	72	15	64	43	1	1	53	1.19
3384323--3384445	26	4.3	28	70	17	83	63	0	0	36	0.95
3384329--3384392	20	3.2	20	73	16	62	62	0	0	37	0.95
3384335--3384444	24	4.4	25	76	13	95	61	0	0	38	0.96
3384421--3384455	11	3.3	11	88	8	54	68	0	0	31	0.90
3384348--3384456	29	3.7	29	69	18	91	62	0	0	37	0.96
3384868--3384892	2	12.5	2	100	0	50	52	0	0	48	1.00
3388487--3388550	22	3.0	22	75	8	69	57	1	3	37	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3389014--3389051	20	1.9	20	89	10	60	36	0	0	63	0.95
3389018--3389098	29	2.7	27	81	12	81	37	0	1	61	1.04
3389085--3389150	17	4.0	16	83	12	80	51	0	0	48	1.00
3389286--3389343	28	2.1	28	81	6	66	29	3	6	60	1.39
3391238--3391354	51	2.2	52	85	8	150	25	18	29	26	1.98
3391662--3391718	29	2.0	29	85	0	78	28	19	40	12	1.87
3391320--3391742	81	5.2	81	89	0	612	29	16	31	22	1.96
3393558--3393601	22	2.0	22	82	4	54	36	2	0	61	1.09
3393629--3393668	10	4.1	10	87	3	55	27	2	0	70	1.01
3393690--3393734	18	2.4	18	88	7	63	31	0	2	66	1.04
3396707--3396732	11	2.4	11	100	0	52	61	0	0	38	0.96
3399166--3399220	25	2.2	26	83	6	69	67	1	0	30	1.01
3399847--3399886	20	2.0	20	85	0	53	40	0	2	57	1.12
3407236--3407306	13	5.2	13	71	18	54	60	0	0	39	0.97
3407611--3407635	13	1.9	13	100	0	50	64	0	0	36	0.94
3407612--3407700	12	7.3	12	70	20	69	60	4	0	34	1.17
3407613--3407702	11	7.5	11	70	16	63	60	4	0	35	1.17
3407688--3407758	27	2.6	27	79	14	74	66	1	1	30	1.09
3407697--3407755	28	2.1	28	81	12	68	67	1	1	28	1.10
3408209--3408254	24	2.0	23	86	4	65	63	2	2	32	1.19
3408390--3408455	33	2.1	31	83	11	80	62	0	0	37	0.96
3408385--3408441	26	2.2	26	83	0	69	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3410071--3410214	73	2.0	73	87	2	209	31	12	15	40	1.85
3418946--3419015	34	2.1	34	100	0	140	61	18	2	17	1.47
3422786--3422829	2	22.0	2	100	0	88	0	50	0	50	1.00
3423734--3423760	2	13.5	2	100	0	54	48	0	0	51	1.00
3430684--3430928	126	1.9	127	99	0	483	32	9	7	51	1.62
3433294--3433352	23	2.6	22	78	10	66	57	0	1	40	1.09
3433843--3433882	19	2.1	19	85	4	53	57	0	2	40	1.12
3435836--3435883	20	2.3	22	89	7	73	41	2	0	56	1.11
3437706--3437737	2	16.0	2	93	0	55	53	0	0	46	1.00
3441886--3441937	27	1.9	27	88	0	77	40	0	0	59	0.97
3441885--3441928	18	2.5	17	85	10	61	38	0	0	61	0.96
3448463--3448524	23	2.6	24	80	12	74	53	0	0	46	1.00
3448511--3448565	18	3.1	18	84	10	76	61	1	0	36	1.06
3449606--3449655	16	3.1	16	76	18	59	54	0	0	46	1.00
3449642--3449679	20	1.9	20	88	0	58	55	0	0	44	0.99
3449606--3449680	32	2.4	31	82	12	84	54	0	0	45	0.99
3452036--3452060	1	25.0	1	100	0	50	0	100	0	0	0.00
3453135--3453160	3	8.7	3	100	0	52	30	0	0	69	0.89
3454263--3454287	2	12.5	2	100	0	50	0	0	48	52	1.00
3455853--3455877	12	2.1	12	100	0	50	24	0	0	76	0.80
3457171--3457204	13	2.7	12	86	13	50	35	0	0	64	0.94
3461388--3461419	3	10.7	3	100	0	64	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3461883--3461934	15	3.3	15	81	10	59	57	0	0	42	0.98
3461890--3461959	24	3.0	24	81	10	74	60	0	0	40	0.97
3467699--3467725	5	5.4	5	100	0	54	81	0	18	0	0.69
3483104--3483157	20	2.8	19	81	13	58	46	0	1	51	1.11
3483133--3483196	25	2.6	25	75	9	69	39	0	3	57	1.14
3483325--3483422	32	3.0	32	77	18	103	41	1	1	56	1.13
3489746--3489771	2	13.0	2	100	0	52	50	0	0	50	1.00
3495332--3495380	19	2.4	21	80	10	57	44	0	0	55	0.99
3495302--3495359	28	2.1	28	81	12	66	43	0	0	56	0.99
3497529--3497600	2	36.5	2	83	2	65	50	8	1	40	1.41
3497529--3497597	31	2.3	30	87	5	102	50	8	1	39	1.42
3497886--3497965	42	2.0	40	82	5	97	38	10	10	41	1.72
3498230--3498297	32	2.1	32	91	0	109	41	11	1	45	1.50
3500521--3500554	15	2.3	15	95	5	61	26	11	5	55	1.58
3507521--3507564	19	2.3	20	84	7	56	54	0	0	45	0.99
3509562--3509673	44	2.5	44	89	0	170	43	16	16	23	1.87
3514447--3514484	20	1.9	20	94	0	67	36	0	0	63	0.95
3515548--3515603	19	3.1	18	80	12	62	57	0	0	42	0.99
3516099--3516145	17	2.7	18	77	9	53	57	0	0	42	0.98
3516087--3516144	23	2.7	23	81	7	68	58	0	0	41	0.98
3518438--3518509	29	2.5	28	77	14	76	48	1	1	48	1.18
3518492--3518613	40	3.0	40	76	13	119	46	0	4	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3523209--3523256	15	3.0	15	81	9	51	52	0	2	45	1.12
3523304--3523341	16	2.4	16	83	12	51	44	0	0	55	0.99
3523666--3523716	14	3.4	15	78	10	50	66	3	3	25	1.26
3526094--3526142	5	9.6	5	86	4	62	40	0	2	57	1.10
3527463--3527544	30	2.7	31	83	7	105	41	4	1	52	1.31
3527841--3527919	26	3.0	26	77	9	88	45	0	0	54	0.99
3527841--3527916	25	2.9	25	77	15	82	46	0	0	53	1.00
3527869--3527933	22	2.7	24	83	9	71	49	0	0	50	1.00
3535412--3535453	21	2.0	22	85	4	59	50	0	0	50	1.00
3535667--3535707	16	2.6	16	84	7	57	19	0	2	78	0.87

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