genome.fa.s407.2.7.7.80.10.50.1000.21.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   28   

This is table  21  of  28  ( 3302 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)
3092891--3093011	32	4.0	32	78	4	92	28	18	25	28	1.98
3092912--3093016	32	3.5	30	81	3	122	25	18	27	28	1.98
3093032--3094011	145	6.8	143	83	6	1039	25	18	28	28	1.98
3093030--3094011	28	34.1	28	81	6	953	24	18	28	28	1.98
3093046--3094011	57	16.8	57	83	6	1006	24	18	28	28	1.98
3095251--3095309	1	59.0	1	79	0	64	6	0	3	89	0.57
3095253--3095307	8	6.9	8	95	0	92	7	0	3	89	0.60
3102844--3102898	20	2.6	21	88	5	76	32	16	10	40	1.83
3105297--3105661	79	4.6	78	80	6	355	29	25	11	33	1.91
3105297--3105664	158	2.3	158	84	5	478	29	25	11	34	1.90
3105596--3105709	51	2.2	51	89	6	169	27	26	12	34	1.92
3108070--3108099	15	2.0	15	100	0	60	26	20	33	20	1.97
3116130--3116204	20	3.8	20	80	0	87	34	12	12	41	1.79
3127102--3127147	11	4.3	11	77	5	58	86	8	4	0	0.68
3127100--3127182	29	3.0	27	82	12	89	80	13	3	2	0.94
3127102--3127182	20	4.0	20	80	13	78	82	11	3	2	0.89
3127102--3127147	10	4.4	10	80	20	58	86	8	4	0	0.68
3128374--3128746	28	13.1	28	84	3	476	29	30	17	22	1.96
3132176--3132788	185	3.3	181	76	10	568	26	25	17	30	1.97
3132176--3132870	61	11.3	61	78	5	605	26	25	16	30	1.97
3132179--3132867	120	5.6	119	80	9	649	26	25	16	30	1.97
3135609--3136171	79	7.2	79	80	3	553	29	24	11	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3135609--3136205	155	3.8	158	78	5	584	29	24	11	34	1.91
3136139--3136239	51	2.0	50	84	5	132	29	25	9	34	1.88
3136064--3136304	130	1.9	130	84	1	331	31	24	7	36	1.84
3136143--3136256	51	2.2	51	79	3	122	32	28	5	34	1.79
3138681--3138728	19	2.4	21	86	13	75	25	14	16	43	1.86
3141064--3141426	79	4.6	78	81	5	379	30	24	11	33	1.91
3141076--3141424	159	2.2	158	84	4	434	30	24	11	33	1.91
3143469--3144788	474	2.8	471	85	3	1738	35	13	18	32	1.89
3144693--3144879	91	2.1	91	96	0	347	40	14	17	27	1.88
3145031--3148529	159	22.1	158	66	12	724	36	13	18	32	1.89
3144784--3149884	475	10.7	475	81	5	5421	36	13	17	31	1.89
3148592--3148640	20	2.5	20	100	0	98	55	12	6	26	1.60
3151216--3151241	13	2.0	13	100	0	52	30	15	15	38	1.88
3151939--3151982	21	2.1	21	83	8	54	27	31	2	38	1.69
3153790--3153814	13	1.9	13	100	0	50	32	16	20	32	1.94
3153803--3153879	20	3.6	20	77	16	73	42	15	15	25	1.86
3155892--3155922	15	2.1	15	93	0	53	12	22	16	48	1.80
3157366--3157391	13	2.0	13	100	0	52	30	15	15	38	1.88
3157430--3157505	21	3.7	21	78	3	91	28	15	11	43	1.83
3157451--3157523	20	3.6	20	81	3	101	31	19	13	35	1.91
3157430--3157523	41	2.3	41	96	0	170	29	17	12	40	1.86
3158141--3158203	31	2.0	31	100	0	126	46	25	3	25	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3159830--3159876	21	2.3	21	76	23	55	38	4	23	34	1.74
3159997--3160035	13	3.0	13	96	0	69	35	15	17	30	1.91
3160021--3160099	20	3.7	20	70	20	70	45	16	12	25	1.82
3162114--3162144	15	2.1	15	93	0	53	12	22	16	48	1.80
3166207--3166232	13	2.0	13	100	0	52	30	15	15	38	1.88
3166271--3166346	21	3.7	21	80	3	100	28	17	11	42	1.84
3166292--3166364	20	3.6	20	81	3	101	31	19	13	35	1.91
3166271--3166364	41	2.3	41	98	0	179	29	18	12	39	1.88
3167769--3167813	21	2.1	21	84	8	56	22	20	4	53	1.63
3174000--3174052	20	2.7	20	81	0	70	41	15	13	30	1.85
3174908--3177960	475	6.4	475	81	3	3149	35	13	18	32	1.90
3181808--3181842	17	2.1	17	100	0	70	42	22	11	22	1.85
3179511--3182932	476	7.2	474	78	6	3397	35	13	18	32	1.89
3183228--3183270	19	2.3	19	84	8	52	30	16	11	41	1.83
3183821--3183892	36	2.0	36	91	2	119	36	12	26	25	1.91
3183824--3183949	31	3.9	31	83	6	128	32	11	25	30	1.92
3185565--3185613	21	2.3	22	86	10	66	59	2	24	14	1.46
3188260--3188284	13	1.9	13	100	0	50	36	24	24	16	1.94
3189448--3189485	20	1.9	20	88	0	58	36	7	13	42	1.73
3189921--3190052	34	3.9	33	78	14	121	35	12	21	30	1.91
3190325--3205255	475	31.4	474	81	4	16036	36	13	18	32	1.89
3204863--3205556	315	2.2	313	82	5	828	36	13	18	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3204877--3205633	315	2.4	315	80	6	750	36	13	18	31	1.90
3205202--3207300	476	4.4	470	80	5	2180	36	13	18	32	1.89
3204517--3206053	791	1.9	789	81	4	1835	37	13	18	31	1.89
3205202--3207300	949	2.2	948	82	4	2480	36	13	18	32	1.89
3208448--3209402	476	2.0	475	85	2	1292	36	12	18	32	1.89
3217481--3217521	21	2.0	21	95	0	73	36	21	14	26	1.93
3217843--3217933	42	2.2	42	97	0	173	31	1	23	43	1.61
3217989--3218030	21	2.0	21	90	0	66	42	0	21	35	1.53
3219533--3223128	475	7.6	473	83	3	4228	37	13	17	31	1.89
3219534--3223080	158	22.4	159	66	14	1000	37	13	17	31	1.89
3224257--3224330	28	2.7	26	81	8	67	24	18	32	24	1.97
3224311--3224482	51	3.4	49	76	11	157	32	11	27	29	1.91
3224337--3224484	51	2.9	51	81	2	170	31	11	28	28	1.92
3224416--3224595	80	2.3	80	84	4	222	29	16	29	25	1.96
3227037--3227086	21	2.4	21	90	3	75	46	10	18	26	1.80
3227117--3227168	13	3.5	13	73	26	50	36	17	13	32	1.89
3227125--3227189	19	3.7	19	75	23	79	38	16	12	32	1.86
3227117--3227187	32	2.2	32	97	0	133	36	18	12	32	1.88
3227244--3227301	21	2.8	21	94	0	107	37	18	10	32	1.85
3228947--3231279	473	4.9	473	82	4	2663	35	13	17	33	1.89
3232150--3234699	475	5.4	476	81	5	2656	37	13	18	30	1.89
3234450--3234938	245	2.0	244	85	2	658	39	14	17	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3233984--3235394	718	2.0	708	83	4	1802	37	14	17	30	1.90
3236616--3236701	20	4.7	20	80	19	123	38	11	15	34	1.83
3236617--3236681	33	2.0	33	100	0	130	38	12	15	33	1.85
3236637--3236661	13	1.9	13	100	0	50	36	16	16	32	1.90
3236616--3236734	53	2.2	53	93	0	202	36	11	14	37	1.83
3236670--3236736	33	2.0	33	88	0	98	34	11	13	40	1.81
3236690--3236714	13	1.9	13	100	0	50	36	16	16	32	1.90
3236778--3236802	13	1.9	13	100	0	50	32	16	16	36	1.90
3236811--3236931	52	2.3	52	94	0	215	35	18	17	28	1.93
3243573--3244164	34	18.9	31	73	16	239	21	34	14	29	1.93
3243574--3243693	63	1.9	62	88	5	179	23	30	17	28	1.97
3243673--3243989	68	4.8	66	85	8	366	21	35	13	30	1.92
3243705--3244230	34	16.6	33	74	16	279	21	34	14	29	1.93
3243673--3244203	61	8.4	63	78	15	339	21	35	13	29	1.92
3243966--3244169	27	7.1	27	78	13	203	22	36	15	26	1.93
3243930--3244250	62	5.2	61	75	15	295	22	35	14	27	1.93
3244031--3244198	89	1.9	89	85	4	232	21	36	15	26	1.93
3244137--3244220	35	2.5	33	82	3	105	21	33	11	33	1.90
3244137--3244230	33	2.8	33	80	6	100	20	31	15	31	1.94
3244216--3244336	33	3.7	33	93	4	210	27	34	19	19	1.95
3244216--3244343	65	2.0	63	93	6	222	28	35	18	17	1.94
3244336--3244943	49	12.7	49	85	6	777	25	25	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3244331--3244899	92	6.1	92	82	10	604	25	26	17	30	1.97
3244336--3244943	141	4.3	141	89	3	921	25	25	17	30	1.97
3244853--3245065	52	3.7	55	79	9	180	24	23	14	37	1.92
3244956--3245082	67	1.9	68	86	1	184	23	25	12	38	1.90
3247157--3248692	468	3.3	461	84	5	1798	36	13	17	31	1.89
3249210--3249515	152	2.0	151	81	6	359	36	13	17	32	1.89
3249362--3250663	473	2.7	473	85	3	1681	35	13	18	32	1.90
3249752--3252025	473	4.9	448	78	9	1991	35	13	18	32	1.90
3250666--3252855	474	4.7	469	79	7	2132	36	13	17	32	1.89
3252643--3252934	152	1.9	152	84	3	392	34	14	18	33	1.91

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   28