genome.fa.s39.2.7.7.80.10.50.1000.17.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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  17  of  27  ( 3195 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)
2908305--2908330	13	2.0	13	100	0	52	38	15	15	30	1.88
2908287--2908350	32	2.0	33	90	3	103	42	15	14	28	1.86
2910561--2910610	21	2.3	21	80	10	57	56	4	18	22	1.58
2920397--2920470	1	74.0	1	72	0	58	86	12	1	0	0.63
2920408--2920461	13	4.2	13	86	9	76	85	14	0	0	0.61
2920395--2920470	34	2.3	31	84	10	98	85	13	1	0	0.66
2920400--2920469	31	2.2	32	90	7	108	85	12	1	0	0.66
2920410--2920466	18	2.9	19	84	10	80	84	15	0	0	0.63
2920395--2920470	22	3.5	22	79	15	86	85	13	1	0	0.66
2921912--2922235	30	10.7	30	77	11	243	28	29	16	25	1.96
2921908--2922235	59	5.4	59	75	10	279	28	29	15	25	1.96
2922062--2922136	35	2.2	34	82	2	96	22	32	9	36	1.86
2922127--2922281	28	5.3	29	83	8	147	34	27	15	21	1.94
2922303--2922492	52	3.9	50	80	12	232	22	27	20	30	1.98
2922304--2922491	95	2.0	95	92	4	317	22	27	20	29	1.98
2923304--2923361	13	3.9	13	73	26	53	32	13	13	39	1.85
2923284--2923382	33	3.0	33	91	1	155	32	12	14	41	1.82
2923456--2923584	52	2.5	52	94	0	222	34	17	17	30	1.94
2926905--2926935	15	2.1	15	93	0	53	48	16	22	12	1.80
2928790--2928821	8	4.0	8	100	0	64	12	0	25	62	1.30
2929025--2929061	13	2.8	13	92	8	58	32	21	16	29	1.95
2929182--2929227	21	2.2	20	81	11	58	32	19	4	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2930681--2930724	23	2.0	21	82	8	52	15	9	15	59	1.61
2931615--2931640	13	2.0	13	100	0	52	38	15	15	30	1.88
2931597--2931660	32	2.0	33	90	3	103	42	15	14	28	1.86
2932971--2933015	22	2.1	22	83	4	56	46	4	0	48	1.22
2933478--2933511	17	2.0	17	88	0	50	73	8	2	14	1.19
2934349--2934381	17	2.0	17	88	5	50	51	6	0	42	1.26
2937572--2937624	13	4.5	13	71	26	55	35	16	13	33	1.88
2937572--2937640	33	2.1	33	89	5	104	36	18	13	31	1.89
2937669--2937724	19	2.9	19	86	2	67	37	16	14	32	1.88
2938279--2938323	19	2.2	20	88	7	65	31	28	0	40	1.57
2939662--2939699	13	3.1	13	81	11	53	39	15	13	31	1.86
2939825--2939876	19	2.7	20	79	8	63	51	19	1	26	1.57
2945866--2945918	13	4.5	13	71	26	55	35	16	13	33	1.88
2945866--2945934	33	2.1	33	89	5	104	36	18	13	31	1.89
2945963--2946021	18	3.1	19	87	7	84	37	18	13	30	1.90
2949497--2949569	34	2.1	34	83	14	89	28	13	26	31	1.94
2952312--2952344	2	16.5	2	100	0	66	51	0	0	48	1.00
2952924--2952972	22	2.3	22	83	13	66	53	0	0	46	1.00
2952926--2952978	22	2.4	22	81	9	63	50	0	0	49	1.00
2953451--2953495	20	2.2	20	88	7	65	33	0	4	62	1.15
2954538--2954582	20	2.2	20	88	7	65	28	0	6	64	1.19
2956797--2956842	22	2.0	24	91	8	78	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2957290--2957334	16	2.8	16	74	12	56	46	11	11	31	1.74
2957551--2957579	6	4.8	6	100	0	58	31	0	0	68	0.89
2957551--2957587	18	2.1	18	89	0	56	35	0	0	64	0.94
2957684--2957727	3	14.0	3	82	17	54	31	0	0	68	0.90
2960953--2961122	20	9.5	17	66	25	68	35	2	1	60	1.20
2960972--2961139	9	17.3	10	68	22	69	36	2	1	59	1.18
2960968--2961124	21	7.3	22	64	22	84	36	2	1	59	1.19
2960956--2961067	42	2.9	38	74	13	102	39	3	0	56	1.23
2961613--2961643	15	2.1	15	93	0	53	77	19	3	0	0.90
2961609--2961653	21	2.1	21	91	0	72	77	20	2	0	0.87
2962732--2962821	27	3.3	27	96	0	162	32	6	30	31	1.83
2963487--2963511	6	4.2	6	100	0	50	48	16	36	0	1.46
2964805--2964835	3	10.3	3	100	0	62	32	0	0	67	0.91
2970624--2970666	22	2.0	22	90	0	68	51	9	9	30	1.65
2970926--2970970	21	2.1	21	91	0	72	20	13	31	35	1.91
2971413--2972131	53	14.1	52	73	11	538	37	3	5	53	1.40
2971469--2972131	104	6.5	103	75	10	535	38	2	5	53	1.38
2971563--2972122	309	1.8	307	83	7	740	38	2	5	53	1.38
2973694--2973750	20	2.8	20	83	5	69	26	15	14	43	1.85
2975375--2975399	9	2.8	9	100	0	50	68	20	0	12	1.21
2979614--2979671	28	2.1	27	84	12	75	34	17	12	36	1.87
2979690--2979890	52	4.0	50	77	7	185	36	1	5	56	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2979684--2979896	99	2.1	104	83	7	269	38	1	5	55	1.31
2981610--2981730	39	3.1	39	79	5	136	33	9	17	39	1.83
2981665--2981754	38	2.3	39	83	7	112	40	10	15	34	1.81
2982627--2982733	20	4.8	20	69	24	81	28	16	12	42	1.85
2982596--2982730	70	1.9	70	95	0	243	28	18	11	40	1.86
2982647--2982781	51	2.7	50	90	3	200	28	17	12	42	1.85
2987915--2987965	26	1.9	26	84	11	68	68	1	3	25	1.17
2989413--2989443	12	2.6	12	100	0	62	35	0	0	64	0.94
2992113--2992160	18	2.5	19	86	6	62	20	18	8	52	1.71
2996179--2996399	53	4.3	51	77	10	202	38	1	5	54	1.32
2996186--2996399	99	2.1	105	82	8	264	38	1	5	55	1.31
2996193--2996409	48	4.3	47	74	15	159	37	1	5	54	1.33
2998115--2998235	39	3.1	39	79	5	136	33	9	17	39	1.83
2998170--2998259	38	2.3	39	83	7	112	40	10	15	34	1.81
3011073--3011142	28	2.5	28	80	0	68	41	11	17	30	1.84
3011163--3011227	28	2.3	28	86	5	87	43	9	15	32	1.78
3011126--3011335	84	2.5	84	80	1	224	40	10	15	33	1.81
3011840--3011907	25	2.7	24	77	11	64	47	2	2	47	1.32
3011903--3011983	21	3.8	22	76	14	71	54	2	2	40	1.27
3011866--3011961	10	9.1	10	76	17	72	47	2	4	45	1.33
3012917--3013011	50	1.9	50	91	0	154	29	16	13	40	1.87
3012927--3013033	20	4.8	20	70	20	79	29	16	13	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3012927--3013058	70	1.9	71	91	1	221	28	15	13	41	1.86
3017044--3017172	52	2.5	52	97	0	240	28	18	17	34	1.94
3017181--3017205	13	1.9	13	100	0	50	36	16	16	32	1.90
3017243--3017311	32	2.1	33	94	2	122	36	17	11	34	1.86
3017267--3017291	13	1.9	13	100	0	50	32	16	16	36	1.90
3018062--3018188	67	1.9	68	85	1	175	38	13	24	23	1.91
3018138--3018458	43	6.6	52	76	14	224	33	16	24	24	1.96
3018201--3018477	92	3.0	92	93	3	448	31	16	25	25	1.97
3018201--3018458	43	5.5	48	79	13	304	31	17	25	25	1.97
3018475--3018881	32	12.6	33	86	5	557	17	18	35	28	1.93
3018474--3018881	97	4.2	97	87	6	571	17	18	35	28	1.94
3018465--3018881	65	6.5	63	89	5	572	17	18	35	28	1.93
3018982--3019160	35	5.7	34	73	20	183	29	13	37	18	1.90
3018861--3019164	61	5.0	61	95	2	522	28	14	36	20	1.91
3018861--3019164	123	2.5	122	94	3	522	28	14	36	20	1.91
3019140--3019320	64	2.9	63	88	4	253	29	17	30	22	1.97
3019112--3019320	32	6.6	30	82	7	211	29	17	31	22	1.96
3021141--3021380	98	2.4	98	89	0	363	26	27	13	32	1.93
3028043--3028074	13	2.6	13	90	9	50	50	3	21	25	1.64
3033901--3033976	32	2.4	32	97	0	143	36	11	21	30	1.89
3038630--3038762	50	2.6	51	85	2	189	42	12	15	29	1.84
3039648--3039755	52	2.1	50	81	8	137	33	18	24	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3039821--3040198	32	11.9	31	82	7	420	18	16	34	30	1.94
3039821--3040198	95	4.0	95	87	3	537	18	16	34	30	1.94
3040372--3040443	28	2.6	28	82	6	85	27	20	26	25	1.99
3041769--3041812	20	2.2	20	84	8	54	6	0	15	77	0.97
3041782--3041838	9	6.8	9	73	20	52	0	1	17	80	0.79
3041781--3041837	10	5.6	10	84	12	71	0	1	15	82	0.75
3045050--3045679	313	2.0	313	97	0	1190	21	23	22	32	1.98
3050389--3050470	41	2.0	41	100	0	164	21	21	17	39	1.93
3055631--3055757	51	2.5	51	93	0	209	42	14	18	24	1.88
3064899--3064980	28	3.0	26	77	10	83	30	28	19	21	1.98

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