genome.fa.s20.2.7.7.80.10.50.1000.21.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: Scaffold20
Parameters: 2 7 7 80 10 50 1000
Length:  3599867

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   

This is table  21  of  25  ( 2919 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)
3005398--3005470	32	2.2	33	92	4	121	31	12	17	38	1.87
3005398--3005461	19	3.7	18	74	25	66	32	12	17	37	1.87
3005514--3005540	13	2.1	13	100	0	54	29	14	14	40	1.86
3008787--3008837	3	17.0	3	100	0	102	33	0	0	66	0.92
3009021--3009052	3	10.7	3	100	0	64	65	0	0	34	0.93
3009051--3009121	3	23.7	3	100	0	142	33	32	0	33	1.58
3011459--3011536	20	3.9	20	76	6	77	30	15	14	39	1.87
3014883--3014957	20	3.8	20	76	0	69	40	9	13	37	1.77
3014880--3014957	40	2.0	39	84	2	102	39	10	12	37	1.78
3015587--3017487	28	65.4	28	86	6	1176	21	17	33	27	1.95
3016340--3016995	32	21.1	32	94	1	859	16	17	35	30	1.92
3015793--3016995	64	20.0	64	87	6	965	19	17	33	29	1.95
3015587--3017076	96	16.8	90	84	7	1369	20	18	33	28	1.96
3016978--3017496	27	19.0	27	92	2	824	26	14	35	23	1.93
3016950--3017496	82	6.6	82	91	2	832	26	14	34	24	1.94
3025936--3026010	20	3.8	20	76	0	69	40	9	13	37	1.77
3025933--3026010	40	2.0	39	84	2	102	39	10	12	37	1.78
3028666--3028695	13	2.3	13	94	0	51	40	13	0	46	1.43
3032841--3032877	18	2.1	18	94	0	65	43	8	24	24	1.81
3034815--3034855	2	20.5	2	100	0	82	0	51	0	48	1.00
3036845--3036965	53	2.4	48	76	14	125	36	7	11	44	1.69
3036858--3036964	53	2.0	54	87	1	153	34	7	10	47	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3038948--3039016	32	2.2	32	83	0	84	50	4	1	43	1.30
3039010--3039071	14	4.3	15	71	19	51	45	0	3	51	1.17
3039010--3039071	29	2.1	29	82	11	74	45	0	3	51	1.17
3039005--3039074	22	3.2	22	73	17	65	44	0	2	52	1.15
3043173--3043220	21	2.3	22	89	7	73	33	22	6	37	1.80
3043620--3043655	18	1.9	19	94	5	65	52	0	0	47	1.00
3044677--3044754	31	2.5	31	76	15	90	53	1	0	44	1.08
3044673--3044754	32	2.4	34	78	14	87	54	1	0	43	1.07
3044757--3044812	29	1.9	29	86	13	80	62	1	1	33	1.16
3045128--3045171	13	3.3	13	77	3	52	61	0	2	36	1.09
3045124--3045184	27	2.2	28	91	8	108	59	0	3	37	1.14
3045405--3045442	18	2.1	18	85	9	51	60	2	0	36	1.11
3045497--3045534	2	19.0	2	100	0	76	50	0	50	0	1.00
3045824--3045962	22	6.3	22	70	20	103	56	0	1	41	1.13
3045804--3045939	23	6.2	22	70	20	81	54	0	0	44	1.10
3045799--3045965	88	1.9	89	94	1	300	54	0	1	43	1.12
3046622--3046735	57	2.0	57	92	0	192	37	11	14	35	1.83
3046831--3046857	7	3.9	7	100	0	54	85	0	0	14	0.61
3047058--3047102	22	2.0	22	87	8	65	62	0	0	37	0.96
3047029--3047087	31	1.9	32	82	6	77	54	0	1	44	1.10
3048056--3048086	10	3.0	10	95	4	53	41	0	0	58	0.98
3050397--3050432	11	3.2	11	84	7	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3050963--3050999	14	2.5	15	86	13	58	48	0	0	51	1.00
3050970--3051000	14	2.2	14	100	0	62	51	0	0	48	1.00
3051105--3051144	5	8.0	5	100	0	80	60	0	0	40	0.97
3051264--3051316	2	26.5	2	92	0	88	54	0	0	45	0.99
3052033--3052633	170	3.6	171	81	7	737	38	7	11	42	1.69
3061487--3061554	19	3.9	19	78	21	85	35	11	14	38	1.83
3061508--3061532	13	1.9	13	100	0	50	36	16	16	32	1.90
3061489--3061551	32	2.0	32	96	0	117	34	12	15	36	1.86
3061594--3061619	13	2.0	13	100	0	52	30	15	15	38	1.88
3061574--3061640	33	2.0	33	88	0	98	25	14	16	43	1.86
3064104--3064173	27	2.5	28	86	2	88	24	34	21	20	1.97
3064159--3064331	52	3.4	51	80	5	204	30	25	12	32	1.92
3063984--3064328	51	6.6	52	69	10	193	30	26	11	31	1.92
3063995--3064402	211	1.9	211	86	3	579	29	27	12	30	1.93
3069711--3069794	24	3.5	24	78	12	91	69	17	8	4	1.32
3071065--3071217	31	4.9	31	80	7	150	24	28	15	31	1.96
3071150--3071365	35	6.5	34	76	14	168	22	32	11	33	1.90
3071286--3071339	27	2.0	27	92	0	90	22	33	14	29	1.94
3071188--3071319	70	1.9	68	86	7	185	21	32	11	34	1.89
3071413--3072035	49	12.8	49	79	9	654	24	26	18	30	1.98
3071562--3071834	43	6.1	43	79	9	303	24	25	19	30	1.98
3071413--3071974	92	5.9	92	85	7	676	24	26	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3071461--3072035	236	2.4	230	82	9	618	24	26	18	30	1.98
3071789--3072054	100	2.6	103	85	5	358	24	27	16	32	1.96
3071413--3072093	144	4.7	145	79	11	635	24	26	17	31	1.97
3071984--3072131	55	2.8	52	81	5	170	24	25	14	35	1.94
3072781--3072843	19	3.7	18	76	24	73	33	12	17	36	1.88
3072800--3072824	13	1.9	13	100	0	50	36	16	16	32	1.90
3072781--3072851	32	2.2	32	97	0	133	32	12	18	36	1.88
3072895--3072921	13	2.1	13	100	0	54	29	14	14	40	1.86
3078610--3078683	20	3.7	20	83	0	103	32	13	13	40	1.84
3078610--3078687	40	2.0	40	94	0	138	32	12	14	41	1.83
3079594--3079640	22	2.1	23	84	11	62	27	21	12	38	1.90
3092282--3092330	6	7.8	6	80	8	53	83	14	0	2	0.73
3092281--3092331	13	3.9	13	78	14	52	84	13	0	1	0.71
3093518--3093901	28	13.5	28	79	7	364	28	29	17	24	1.98
3093539--3093867	85	3.9	85	81	7	355	28	29	18	23	1.98
3093517--3093901	113	3.4	113	82	6	413	28	29	17	24	1.98
3094839--3094979	51	2.8	51	90	0	201	29	20	10	39	1.86
3098278--3098319	23	1.9	23	85	9	61	35	23	9	30	1.87
3098471--3098536	15	4.3	15	71	21	57	72	0	3	24	0.98
3098592--3098650	14	4.1	14	79	10	66	23	22	10	44	1.83
3098765--3098880	39	2.9	40	77	14	123	46	13	20	18	1.83
3099409--3099458	19	2.6	19	87	9	66	50	36	10	4	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3112075--3112118	13	3.5	12	79	11	52	81	0	9	9	0.87
3113442--3113704	42	6.3	42	76	8	203	18	30	17	32	1.95
3113521--3113726	42	4.9	42	73	10	170	18	30	17	33	1.94
3113465--3113726	84	3.1	84	85	0	328	17	30	18	33	1.95
3114226--3114289	15	4.4	14	76	21	60	71	0	3	25	1.00
3114344--3114449	13	7.5	14	74	13	101	22	21	13	42	1.87
3114345--3114443	43	2.3	43	92	0	162	23	22	13	41	1.88
3114403--3114472	29	2.4	29	88	4	97	22	18	14	44	1.86
3114591--3114709	39	3.0	39	75	14	127	42	15	24	16	1.88
3115116--3115343	119	1.9	119	93	0	393	46	27	17	7	1.75
3122450--3122494	19	2.4	19	92	3	74	64	2	0	33	1.06
3122741--3122766	2	13.0	2	100	0	52	50	0	0	50	1.00
3122984--3123036	19	2.7	20	77	19	65	43	0	1	54	1.11
3123706--3123735	2	15.0	2	100	0	60	50	0	0	50	1.00
3124523--3124579	18	3.2	18	75	9	62	42	0	0	57	0.98
3124543--3124589	11	4.3	11	76	10	51	36	0	0	63	0.94
3124835--3124904	27	2.7	25	73	6	68	50	0	0	50	1.00
3129650--3129680	2	15.5	2	100	0	62	48	0	51	0	1.00
3129680--3129718	6	6.8	6	82	11	55	17	0	82	0	0.68
3129672--3129724	22	2.4	22	87	0	88	26	0	73	0	0.83
3134434--3134531	50	2.0	50	97	0	187	34	10	13	41	1.78
3139126--3139193	29	2.4	27	82	9	73	55	0	1	42	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3139573--3139629	21	2.6	22	79	17	66	31	1	0	66	1.02
3139979--3140009	2	15.5	2	100	0	62	51	0	0	48	1.00
3142883--3142908	2	13.0	2	100	0	52	50	0	0	50	1.00
3144502--3144570	17	3.8	20	75	13	53	52	0	0	47	1.00
3144489--3144577	16	5.1	17	69	14	56	49	0	0	50	1.00
3144492--3144605	36	3.2	34	76	10	106	49	0	0	50	1.06
3144521--3144568	17	2.8	17	84	6	62	60	0	0	39	0.97
3144573--3144623	16	3.3	15	74	15	50	45	1	0	52	1.12
3144559--3144657	31	3.4	28	75	19	87	49	2	1	47	1.19
3144933--3145025	19	5.2	18	72	13	75	48	0	1	50	1.07

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