genome.fa.s57.2.7.7.80.10.50.1000.25.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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  25  of  27  ( 3137 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)
3522917--3523022	2	55.0	2	68	14	53	41	1	0	56	1.10
3522920--3523050	11	11.9	11	66	23	55	38	1	0	60	1.06
3522945--3523025	25	3.4	23	77	16	67	43	1	0	55	1.07
3526923--3526969	2	23.5	2	100	0	94	51	0	0	48	1.00
3530569--3530597	2	14.5	2	100	0	58	51	0	0	48	1.00
3532146--3532213	35	1.9	36	82	14	88	38	1	2	57	1.23
3532221--3532255	17	2.0	18	88	5	54	48	0	2	48	1.16
3532189--3532297	52	2.2	52	80	8	118	49	0	0	48	1.13
3532261--3532302	20	2.2	19	91	4	66	47	0	0	52	1.00
3532229--3532290	32	2.0	32	84	12	85	51	0	0	48	1.00
3532327--3532352	6	4.3	6	100	0	52	53	0	0	46	1.00
3533807--3533833	14	1.9	14	100	0	54	40	7	14	37	1.74
3534298--3534353	22	2.7	20	84	15	69	37	0	0	62	0.95
3534300--3534369	23	3.1	22	80	17	65	40	0	0	60	0.97
3544271--3544304	2	17.0	2	93	0	59	52	0	0	47	1.00
3549548--3549596	7	6.6	7	84	11	53	22	0	0	77	0.77
3549553--3549613	21	2.8	22	80	9	81	26	0	0	73	0.83
3549552--3549613	11	5.8	11	73	17	51	25	0	0	74	0.82
3549560--3549613	28	1.9	28	85	7	74	25	0	0	74	0.83
3549622--3549671	15	3.4	14	77	22	57	42	0	0	58	0.98
3549576--3549671	30	3.2	28	77	20	95	38	0	0	61	0.96
3549630--3549677	15	3.3	14	78	18	53	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3550161--3550217	18	3.3	16	76	21	53	63	0	0	36	0.95
3550168--3550223	19	2.9	19	77	17	62	60	0	0	39	0.97
3550168--3550225	20	3.0	20	73	19	59	60	0	0	39	0.97
3558622--3558659	16	2.3	17	81	4	51	44	0	0	55	0.99
3562419--3562447	2	14.5	2	100	0	58	48	0	0	51	1.00
3564435--3564485	26	2.0	26	84	0	66	56	5	0	37	1.23
3565119--3565184	22	3.0	21	80	8	62	60	0	0	39	0.97
3565119--3565162	21	2.0	22	86	4	63	59	0	0	40	0.98
3565428--3565456	5	6.0	5	92	8	51	20	0	0	79	0.74
3574453--3574560	25	4.3	25	85	2	135	55	1	1	40	1.21
3575914--3575970	28	2.0	28	93	0	96	19	8	15	56	1.65
3577911--3577956	19	2.4	18	86	13	58	30	0	8	60	1.26
3578276--3578304	2	14.5	2	100	0	58	51	0	0	48	1.00
3581400--3581427	2	14.0	2	100	0	56	50	0	0	50	1.00
3581974--3582002	2	15.0	2	92	7	51	51	0	0	48	1.00
3582287--3582316	2	15.0	2	92	0	51	50	3	0	46	1.18
3582802--3582840	18	2.2	18	86	4	53	28	0	5	66	1.12
3583126--3583161	7	5.1	7	93	0	63	52	0	47	0	1.00
3585214--3585247	17	2.0	17	88	0	50	58	0	0	41	0.98
3586132--3586193	18	3.4	18	73	6	54	54	4	0	40	1.22
3586980--3587025	22	2.0	23	87	4	67	67	2	13	17	1.33
3597382--3597446	7	9.4	7	79	12	64	35	1	1	61	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3598600--3598661	6	10.3	6	82	0	70	16	67	3	12	1.35
3598600--3598661	18	3.4	18	86	0	79	16	67	3	12	1.35
3602102--3602134	3	11.3	3	93	6	59	30	0	0	69	0.88
3603224--3603250	2	13.5	2	100	0	54	51	0	0	48	1.00
3605391--3605436	18	2.6	17	89	6	65	56	0	0	43	0.99
3606007--3606039	14	2.4	14	90	10	50	51	0	0	48	1.00
3607521--3607569	15	3.3	15	78	10	57	38	0	0	61	0.96
3607576--3607619	15	3.0	15	80	3	54	56	0	0	43	0.99
3607566--3607627	31	2.1	30	88	8	92	61	0	0	38	0.96
3619653--3619698	2	23.0	2	100	0	92	0	50	0	50	1.00
3620119--3620144	2	13.0	2	100	0	52	50	0	0	50	1.00
3627108--3627148	3	13.7	3	94	0	73	2	0	31	65	1.05
3630746--3630783	2	18.5	2	89	5	58	44	2	0	52	1.14
3632130--3632167	6	6.7	6	93	6	62	47	0	0	52	1.00
3632113--3632170	5	11.6	5	85	7	50	48	1	0	50	1.11
3632197--3632231	17	2.1	17	94	0	61	51	8	5	34	1.56
3632172--3632277	53	2.0	54	88	1	160	52	8	3	34	1.50
3632280--3632331	16	3.2	16	77	0	50	46	13	11	28	1.78
3632263--3632350	32	2.7	31	83	10	106	45	18	12	23	1.83
3633033--3633145	60	1.9	59	81	5	138	41	17	7	32	1.79
3633732--3633765	2	17.0	2	93	0	59	50	2	0	47	1.16
3640589--3640782	98	1.9	100	85	5	266	39	21	19	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3645551--3645617	29	2.4	28	80	7	82	50	4	0	44	1.22
3648668--3648704	2	18.5	2	94	0	65	45	0	2	51	1.15
3650066--3650094	13	2.1	14	93	6	51	79	0	0	20	0.74
3650549--3650612	30	2.1	30	82	5	76	48	0	3	48	1.17
3663381--3663446	27	2.4	28	73	12	66	48	0	0	51	1.00
3668949--3668974	13	2.0	13	100	0	52	69	0	0	30	0.89
3669408--3669454	21	2.2	22	81	11	62	61	0	0	38	0.96
3677216--3677252	3	12.3	3	100	0	74	67	0	0	32	0.91
3677248--3677284	18	2.1	18	89	0	56	54	2	2	40	1.29
3677315--3677354	18	2.2	19	90	4	64	62	2	0	35	1.09
3678539--3678564	13	2.0	13	100	0	52	69	0	0	30	0.89
3678700--3678775	23	3.3	23	77	7	73	63	3	2	30	1.26
3678571--3678773	108	1.9	109	81	7	252	54	2	2	40	1.27
3679073--3679439	120	3.1	121	83	13	440	43	2	2	51	1.28
3679088--3679444	121	2.9	121	80	15	414	42	2	2	52	1.27
3680208--3680249	19	2.3	18	87	4	57	38	2	0	59	1.10
3680222--3680276	29	1.9	29	85	3	76	47	1	0	50	1.11
3680510--3680558	11	4.5	11	79	2	55	38	0	0	61	0.96
3680510--3680558	22	2.3	21	89	3	71	38	0	0	61	0.96
3680094--3680737	289	2.2	294	84	3	831	37	9	7	45	1.63
3684156--3684399	85	2.8	89	82	8	302	35	15	7	41	1.76
3684333--3684537	70	3.0	69	88	2	313	31	15	9	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3684465--3684730	88	3.0	92	86	6	377	33	15	7	42	1.76
3684674--3684787	57	2.0	57	89	0	174	34	18	8	38	1.82
3684489--3684926	236	1.8	238	88	4	679	35	15	7	41	1.76
3684582--3684878	148	2.0	145	88	4	445	35	16	7	41	1.76
3684729--3684926	91	2.2	89	86	6	274	35	15	7	41	1.75
3685556--3685922	123	3.0	123	81	11	421	53	1	1	42	1.23
3686206--3686295	23	3.9	23	77	12	85	34	3	2	60	1.26
3686185--3686272	23	3.7	24	74	18	78	34	2	4	59	1.30
3686185--3686294	47	2.3	47	81	9	118	33	2	3	60	1.29
3686278--3686433	36	4.3	35	66	18	104	43	2	0	53	1.19
3686236--3686436	109	1.8	111	90	4	300	43	2	0	53	1.21
3686971--3686997	4	6.8	4	100	0	54	0	48	0	51	1.00
3692239--3692270	2	16.0	2	100	0	64	50	0	0	50	1.00
3692684--3692714	14	2.2	14	94	0	53	54	0	6	38	1.26
3692758--3692808	18	3.2	16	73	26	54	54	1	0	43	1.11
3692784--3692866	19	4.4	19	71	18	75	59	1	0	39	1.05
3692750--3692871	59	2.1	57	80	15	137	54	1	0	43	1.09
3692789--3692865	28	2.7	29	73	15	72	61	1	0	37	1.05
3700287--3700328	21	2.0	21	81	9	50	52	2	2	42	1.27
3704980--3705026	19	2.4	20	85	3	60	63	0	0	36	0.94
3704973--3705044	20	3.7	20	79	7	67	58	0	0	41	0.98
3709791--3709827	2	18.5	2	100	0	74	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3711389--3711430	3	14.0	3	94	0	75	33	2	0	64	1.07
3712429--3712516	8	11.4	8	69	19	62	50	0	0	50	1.00
3712431--3712516	33	2.5	35	81	12	115	50	0	0	50	1.00
3712404--3712504	40	2.5	40	82	7	116	55	0	0	44	0.99
3712434--3712508	20	4.1	20	66	26	58	49	0	0	50	1.00
3715842--3715964	63	1.9	66	95	5	225	34	19	13	31	1.91
3716540--3716564	6	4.2	6	100	0	50	16	52	16	16	1.76
3719425--3719470	3	15.3	3	95	0	83	30	0	2	67	1.03
3722725--3722763	2	19.5	2	100	0	78	48	0	0	51	1.00
3723211--3723243	10	3.4	10	87	4	50	90	0	3	6	0.52

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