genome.fa.s3032.2.7.7.80.10.50.1000.11.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: scaffold198
Parameters: 2 7 7 80 10 50 1000
Length:  3915534

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  11  of  13  ( 1467 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)
3081656--3081918	43	6.3	43	83	7	306	25	17	29	27	1.97
3082469--3082547	34	2.3	34	93	4	131	46	11	12	29	1.77
3085415--3085452	12	3.2	12	100	0	76	26	15	23	34	1.95
3085438--3085469	16	2.0	16	100	0	64	31	12	18	37	1.88
3086404--3086575	50	3.4	50	90	0	290	26	23	29	19	1.98
3089875--3090865	495	2.0	495	100	0	1982	32	25	16	25	1.96
3095554--3095643	44	2.0	45	91	2	146	36	24	16	22	1.94
3095658--3095842	51	3.6	51	79	2	203	30	27	17	24	1.97
3095655--3095840	101	1.8	99	87	5	266	31	26	17	24	1.97
3100692--3100829	50	2.8	48	85	2	141	26	23	29	19	1.98
3101071--3101103	12	2.8	12	100	0	66	66	0	24	9	1.20
3107840--3107946	54	2.0	54	100	0	214	37	20	14	28	1.91
3118357--3118477	29	4.2	29	77	8	147	25	24	11	38	1.89
3121325--3121424	51	2.0	48	90	5	155	30	9	16	45	1.78
3124540--3124616	39	2.0	39	89	0	118	66	1	9	23	1.28
3124534--3124604	15	5.1	15	69	27	50	67	0	11	21	1.21
3124610--3124679	11	6.7	11	75	19	62	55	1	0	42	1.08
3124610--3124661	24	2.3	23	83	6	61	57	1	0	40	1.10
3125671--3125716	23	2.0	23	100	0	92	30	13	8	47	1.72
3126614--3126695	41	2.0	41	90	0	128	34	14	4	46	1.66
3127338--3127538	100	2.0	100	96	1	368	39	22	12	24	1.89
3132752--3132852	35	2.9	35	90	0	157	15	17	26	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3136472--3136540	33	2.1	34	86	2	95	30	26	23	20	1.98
3136512--3136635	28	4.5	28	86	2	178	29	22	24	24	1.99
3137459--3137657	40	5.0	40	85	1	249	15	31	16	37	1.90
3137459--3137657	20	10.1	20	68	9	122	15	31	16	37	1.90
3137597--3137654	18	3.1	18	73	14	55	13	31	18	36	1.90
3145403--3145440	11	3.5	11	88	0	58	26	42	2	28	1.69
3157639--3157691	27	2.0	27	84	0	70	35	16	26	20	1.94
3158940--3159036	43	2.4	42	84	8	121	27	17	4	50	1.64
3164486--3164539	21	2.6	21	81	0	72	35	9	33	22	1.86
3164826--3164859	17	2.1	15	89	10	50	64	0	35	0	0.94
3168399--3168436	10	3.6	10	86	13	58	36	0	2	60	1.11
3179875--3179927	13	4.1	13	87	0	79	26	7	28	37	1.83
3179875--3179927	26	2.0	26	96	0	97	26	7	28	37	1.83
3180078--3180106	15	2.0	15	93	6	51	51	0	0	48	1.00
3186695--3186933	29	8.2	29	86	0	307	24	24	13	37	1.91
3201572--3201604	17	2.0	17	94	5	59	42	15	0	42	1.46
3212256--3212305	25	2.0	24	88	3	73	22	14	0	64	1.29
3229311--3229578	137	1.9	138	81	5	319	32	27	19	20	1.97
3232004--3232229	75	3.0	75	100	0	452	23	25	11	39	1.88
3242370--3242408	16	2.6	15	88	8	53	20	10	5	64	1.44
3242748--3242915	23	7.3	23	80	9	191	30	26	20	22	1.98
3243763--3243836	23	3.2	23	82	3	78	31	0	31	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3248098--3248148	24	2.2	23	82	10	59	5	17	1	74	1.11
3248086--3248148	19	3.0	21	82	13	69	9	17	1	71	1.20
3249664--3249705	16	2.7	15	85	7	66	21	11	2	64	1.38
3250050--3250171	23	5.3	22	82	10	147	31	24	18	24	1.98
3250050--3250171	46	2.7	46	94	0	208	31	24	18	24	1.98
3251007--3251080	23	3.2	23	82	3	78	31	1	31	36	1.66
3254755--3254793	14	2.8	13	82	14	51	17	5	0	76	0.96
3256107--3256227	49	2.5	49	83	5	147	21	15	34	28	1.94
3261117--3261286	50	3.3	50	81	5	187	25	27	21	25	2.00
3274339--3274473	50	2.6	51	82	10	157	25	28	20	25	1.99
3277333--3277387	22	2.5	22	90	0	83	27	43	3	25	1.71
3277333--3277387	11	5.0	11	79	0	65	27	43	3	25	1.71
3304645--3304684	21	1.9	21	89	0	62	50	17	7	25	1.72
3306337--3306367	16	1.9	16	93	0	53	32	12	3	51	1.56
3316147--3316258	47	2.4	47	80	3	136	47	17	11	23	1.80
3316912--3316936	13	1.9	13	100	0	50	0	20	0	80	0.72
3317136--3317167	17	1.9	17	93	6	57	15	0	9	75	1.05
3317791--3317859	24	2.9	24	85	10	97	31	4	11	52	1.57
3321446--3321885	44	10.0	44	90	0	619	32	17	23	26	1.97
3321987--3322939	88	10.8	88	90	0	1483	28	20	25	26	1.99
3322023--3322937	44	20.8	44	63	5	272	27	20	24	26	1.99
3322949--3323239	44	6.8	43	72	10	211	29	21	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3322935--3323294	128	2.8	129	89	0	535	30	21	21	26	1.99
3324092--3324116	13	1.9	13	100	0	50	0	20	0	80	0.72
3324977--3325045	24	2.9	24	82	6	86	33	4	10	52	1.55
3331447--3332565	374	3.0	371	88	3	1633	33	23	9	34	1.86
3335001--3335035	15	2.2	16	90	5	54	65	0	25	8	1.21
3335000--3335036	16	2.3	17	81	13	51	67	0	24	8	1.17
3335489--3335534	16	2.9	16	78	18	51	52	0	17	30	1.45
3336611--3336635	6	4.2	6	100	0	50	68	0	32	0	0.90
3337356--3337403	20	2.4	20	86	6	62	54	2	22	20	1.55
3337367--3337412	20	2.3	20	92	0	74	47	0	28	23	1.52
3343738--3343913	94	1.9	94	85	5	248	35	14	14	35	1.87
3344454--3344496	18	2.5	17	84	3	59	2	11	2	83	0.83
3348499--3348601	44	2.3	44	81	3	109	31	22	14	32	1.94
3348455--3349019	218	2.6	217	89	0	860	26	24	19	30	1.98
3350378--3350415	20	1.9	19	94	5	67	31	15	28	23	1.96
3368084--3368123	20	2.0	20	90	9	64	15	22	7	55	1.65
3368407--3368519	50	2.3	50	84	0	145	21	30	23	24	1.99
3373264--3373307	23	1.9	23	95	0	79	27	4	25	43	1.74
3378165--3378203	14	2.6	15	88	8	53	38	35	0	25	1.56
3380217--3380261	20	2.3	19	84	7	54	31	11	33	24	1.90
3385257--3385306	25	2.0	25	88	0	73	38	0	36	26	1.57
3385971--3386382	27	15.3	27	84	3	386	34	20	21	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3386043--3386382	80	4.2	81	84	2	407	33	20	22	23	1.97
3386043--3386401	27	13.4	27	84	3	406	32	20	23	23	1.98
3386422--3386506	24	3.6	23	78	7	73	21	7	23	48	1.74
3386573--3386632	27	2.2	27	82	11	70	21	23	23	31	1.98
3386620--3386685	26	2.5	26	85	0	78	19	18	25	36	1.94
3386679--3386954	32	8.6	32	77	7	231	22	19	21	36	1.95
3386679--3386947	64	4.2	64	80	5	278	21	18	22	37	1.95
3387180--3387235	27	2.1	27	86	0	76	19	23	25	32	1.98
3389139--3389180	20	2.0	21	86	4	59	35	16	26	21	1.94
3395456--3395602	41	3.6	41	83	1	161	31	25	23	18	1.97
3395532--3395563	16	2.0	16	93	0	55	28	25	28	18	1.98
3404223--3404265	22	2.0	22	90	0	68	27	20	6	44	1.77
3405411--3405905	27	18.3	27	82	1	553	22	20	17	39	1.92
3409894--3410005	37	3.0	37	92	0	179	49	14	5	31	1.66
3409940--3410000	17	3.4	17	65	12	50	50	13	4	31	1.62
3413610--3413654	3	15.0	3	100	0	90	0	33	0	66	0.92
3414278--3414308	7	4.4	7	91	0	53	25	0	29	45	1.54
3418951--3419023	38	1.9	38	91	0	119	28	17	19	34	1.95
3419543--3419598	26	2.2	26	93	0	94	39	21	23	16	1.92
3419706--3419760	25	2.2	26	83	3	67	47	18	7	27	1.74
3419756--3420223	27	17.3	26	81	4	432	22	20	18	38	1.94
3419756--3420223	54	8.7	54	85	2	530	22	20	18	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3419756--3420223	81	5.8	81	82	4	498	22	20	18	38	1.94
3460387--3460452	23	2.9	23	79	0	78	37	24	6	31	1.80
3467864--3467919	25	2.2	25	87	6	78	25	21	23	30	1.99
3467873--3467926	25	2.2	25	93	0	90	24	20	22	33	1.97
3477237--3477317	26	3.0	26	74	5	72	18	14	25	40	1.89
3479462--3479547	41	2.1	41	82	4	102	25	13	27	32	1.94
3482453--3482607	50	3.1	50	82	1	179	26	21	30	21	1.98
3486592--3486741	39	3.8	39	75	3	140	43	21	4	31	1.71
3486595--3486741	78	1.9	78	88	0	222	42	21	4	31	1.71
3486783--3486827	17	2.7	17	83	13	58	46	20	2	31	1.62

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13