genome.fa.s106.2.7.7.80.10.50.1000.18.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  18  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)
2923240--2923311	30	2.4	30	84	6	94	51	0	0	48	1.00
2923263--2923310	14	3.4	13	76	18	51	54	0	0	45	0.99
2923609--2923678	34	2.1	34	83	5	88	45	4	0	50	1.21
2924422--2924479	15	3.9	14	77	16	62	37	0	1	60	1.07
2924474--2924525	20	2.5	22	75	12	63	38	0	3	57	1.17
2924630--2924678	22	2.3	21	86	6	64	63	8	4	24	1.40
2927139--2927191	17	3.1	17	81	13	56	60	0	1	37	1.08
2927126--2927185	26	2.4	24	81	13	59	58	0	1	40	1.08
2927126--2927189	8	7.6	8	73	20	51	59	0	1	39	1.07
2927371--2927409	19	2.0	21	90	10	64	61	0	0	38	0.96
2928023--2928048	3	8.7	3	100	0	52	69	0	30	0	0.89
2928644--2928679	2	18.0	2	100	0	72	50	0	0	50	1.00
2928846--2928920	35	2.1	35	83	9	91	48	0	0	52	1.00
2929936--2930018	41	2.0	43	86	13	120	43	0	3	53	1.18
2930051--2930099	13	3.6	13	78	8	53	28	0	0	71	0.86
2930141--2930227	25	3.5	24	69	10	61	48	0	4	47	1.22
2931149--2931193	24	1.9	23	86	4	63	46	0	0	53	1.00
2931689--2931736	17	3.0	16	82	14	55	45	4	0	50	1.21
2946605--2946642	17	2.2	17	86	9	51	47	2	2	47	1.30
2946613--2946654	17	2.4	18	80	11	52	50	2	0	47	1.14
2946647--2946684	12	3.1	12	82	17	51	39	0	0	60	0.97
2946695--2946782	24	4.0	24	73	20	93	42	1	0	56	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2946740--2946793	24	2.2	25	93	3	92	38	1	0	59	1.08
2946628--2946781	71	2.2	71	78	9	163	41	1	0	57	1.07
2946715--2946781	28	2.4	29	80	9	86	41	1	0	56	1.08
2947021--2947075	24	2.3	23	81	9	58	43	0	5	50	1.25
2947455--2947495	20	2.0	20	85	0	55	75	4	4	14	1.14
2950184--2950229	24	1.9	24	95	0	83	26	8	28	36	1.86
2951828--2952077	125	2.0	125	99	0	491	40	14	22	22	1.90
2954359--2954403	24	1.9	23	86	13	65	68	11	6	13	1.37
2955956--2955994	9	4.1	9	81	12	51	46	0	0	53	1.00
2955948--2956005	20	2.8	20	80	12	73	46	0	1	51	1.11
2955966--2956008	16	2.7	16	77	0	50	44	0	2	53	1.13
2959858--2959931	6	12.8	6	81	8	55	52	0	45	1	1.09
2959897--2959979	3	27.7	3	83	0	103	60	3	34	1	1.22
2964102--2964135	17	2.0	17	100	0	68	29	5	17	47	1.71
2968634--2968659	12	2.2	12	100	0	52	50	0	0	50	1.00
2971603--2971660	27	2.0	31	83	12	79	48	3	6	41	1.47
2973844--2973868	5	5.0	5	100	0	50	80	0	0	20	0.72
2975046--2975087	19	2.2	19	83	8	50	52	0	0	47	1.00
2975046--2975090	18	2.3	20	78	17	51	51	0	0	48	1.00
2976027--2976075	21	2.4	21	86	3	64	44	0	0	55	0.99
2976550--2976580	2	15.5	2	93	0	53	45	0	0	54	0.99
2980681--2980738	28	2.1	27	96	3	107	55	0	6	37	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2981682--2981718	13	2.8	13	91	4	56	56	0	0	43	0.99
2988422--2988462	17	2.5	17	84	4	57	56	2	0	41	1.13
2989038--2989074	19	1.9	19	94	0	65	43	8	0	48	1.32
2995927--2995952	13	2.0	13	100	0	52	15	0	0	84	0.62
3002146--3002212	15	4.5	14	75	15	55	38	1	58	1	1.17
3002638--3002690	24	2.2	25	82	3	63	52	0	1	45	1.11
3002624--3002741	55	2.1	55	83	9	143	55	1	0	41	1.15
3005806--3006538	370	2.0	369	99	0	1448	26	16	18	38	1.92
3007048--3007158	52	2.1	53	96	1	206	33	15	9	42	1.78
3008860--3008884	2	12.5	2	100	0	50	52	0	0	48	1.00
3009866--3009915	21	2.4	22	76	10	59	70	0	0	30	0.88
3010007--3010049	23	1.9	22	86	13	61	37	2	0	60	1.10
3011016--3011063	25	1.9	25	91	0	78	43	2	2	52	1.24
3012025--3012057	15	2.3	15	89	5	50	45	0	0	54	0.99
3014005--3014052	14	3.2	14	80	11	51	62	2	0	35	1.07
3019250--3019300	4	12.8	4	89	0	66	45	1	27	25	1.64
3030595--3030648	5	10.2	5	76	11	54	61	0	0	38	0.96
3030611--3030669	22	2.9	22	76	21	74	66	0	0	33	0.92
3030602--3030662	17	3.6	18	77	18	60	63	0	0	36	0.94
3030604--3030671	11	6.6	11	75	21	67	64	0	0	35	0.94
3030599--3030671	28	2.7	27	79	14	87	63	0	0	36	0.95
3035458--3035496	19	2.1	19	85	9	53	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3035600--3035671	35	2.2	32	80	14	83	51	0	0	48	1.00
3037719--3037762	14	3.2	14	87	3	63	77	2	0	20	0.88
3038414--3038453	3	13.3	3	100	0	80	0	32	0	67	0.91
3038458--3038505	3	16.0	3	95	0	87	64	0	2	33	1.05
3043954--3044009	19	2.9	18	80	15	60	60	0	5	33	1.19
3043976--3044018	16	2.5	19	85	14	58	65	0	2	32	1.06
3044461--3044500	21	1.9	21	84	0	53	55	0	2	42	1.13
3044808--3045143	126	2.7	127	81	14	352	53	1	2	42	1.22
3045236--3045268	12	2.8	12	90	4	50	42	21	0	36	1.53
3046978--3047049	33	2.2	34	87	9	105	52	1	0	45	1.09
3051570--3051617	20	2.3	21	86	10	64	72	0	4	22	1.01
3051548--3051643	28	3.4	26	75	14	68	66	0	4	29	1.10
3051589--3051643	9	5.5	11	78	22	52	65	0	5	29	1.15
3051602--3051638	17	2.1	19	90	10	60	59	0	8	32	1.27
3051643--3051712	23	2.8	24	79	16	72	51	0	0	48	1.00
3051645--3051712	25	2.7	25	80	15	70	51	0	0	48	1.00
3052026--3052062	12	3.2	12	92	3	58	51	0	0	48	1.00
3052334--3052376	19	2.4	17	81	14	50	67	2	0	30	1.03
3054100--3054148	3	16.3	3	100	0	98	67	0	0	32	0.91
3054147--3054181	3	11.7	3	100	0	70	68	0	31	0	0.90
3055661--3055687	2	13.5	2	100	0	54	51	0	0	48	1.00
3058814--3058871	28	2.1	27	80	3	62	58	1	1	37	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3058941--3058973	11	3.1	11	91	4	50	66	0	0	33	0.92
3060012--3060062	26	2.0	25	84	3	66	45	3	0	50	1.20
3061063--3061093	15	2.1	15	94	5	55	35	0	0	64	0.94
3064882--3064939	14	4.2	14	75	16	50	44	0	0	55	0.99
3069827--3069865	15	2.7	15	84	7	55	43	0	5	51	1.24
3070318--3070353	18	1.9	19	94	5	65	58	0	5	36	1.22
3071883--3071957	19	3.9	19	73	18	59	40	0	0	60	0.97
3071907--3071966	27	2.2	26	81	18	70	38	0	0	61	0.96
3072395--3072450	17	2.9	19	76	15	62	50	0	0	50	1.00
3072700--3072732	11	3.1	11	91	4	50	90	0	9	0	0.44
3072702--3072735	16	2.1	16	88	0	50	88	0	11	0	0.52
3076826--3076856	2	15.5	2	100	0	62	51	0	48	0	1.00
3078980--3079085	53	2.0	53	96	0	194	45	15	13	26	1.82
3083926--3083960	2	17.5	2	93	0	61	51	0	0	48	1.00
3087523--3087552	15	1.9	16	93	6	53	26	20	20	33	1.97
3090509--3090554	15	2.9	15	84	9	65	50	0	0	50	1.00
3090496--3090579	16	4.8	17	70	18	57	55	1	0	42	1.07
3090544--3090597	13	4.2	13	73	26	53	61	1	0	37	1.07
3091304--3091330	10	2.7	10	100	0	54	29	11	18	40	1.85
3091511--3091552	7	5.9	7	83	13	50	83	0	11	4	0.79
3091523--3091555	13	2.6	13	90	4	50	87	0	9	3	0.63
3091572--3091623	22	2.4	22	80	20	65	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3091570--3091653	23	3.8	23	75	18	72	35	0	1	63	1.03
3091628--3091658	16	1.9	16	93	0	53	38	3	3	54	1.32
3091656--3091736	19	4.0	19	77	14	56	28	2	2	66	1.17
3091665--3091736	3	23.3	3	77	20	62	29	2	0	68	1.04
3091671--3091740	16	4.8	14	79	20	65	28	4	0	67	1.10
3091665--3091754	46	2.0	46	90	0	144	28	7	0	63	1.22
3092199--3092231	2	16.5	2	100	0	66	48	0	0	51	1.00
3092882--3092910	12	2.3	13	94	5	51	20	0	0	79	0.74
3092993--3093105	39	2.9	37	80	7	102	28	3	4	63	1.30
3093986--3094025	7	5.9	7	85	5	55	20	0	0	80	0.72

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