genome.fa.s15.2.7.7.80.10.50.1000.18.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: Scaffold15
Parameters: 2 7 7 80 10 50 1000
Length:  4011073

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  18  of  25  ( 2909 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)
2820932--2822540	812	2.0	811	88	2	2390	37	17	10	35	1.83
2822647--2822711	3	21.7	3	100	0	130	33	0	32	33	1.58
2831281--2831320	19	2.1	19	90	0	62	30	10	7	52	1.62
2833694--2834114	79	5.3	79	79	7	410	28	21	10	38	1.87
2833693--2834184	158	3.1	158	79	8	468	27	21	11	38	1.89
2836988--2837012	13	1.9	13	100	0	50	36	16	16	32	1.90
2837038--2837080	20	2.2	20	91	0	68	37	13	11	37	1.82
2841877--2841905	2	14.5	2	100	0	58	48	0	0	51	1.00
2856882--2856933	3	17.3	3	100	0	104	67	32	0	0	0.91
2856932--2856972	3	13.7	3	100	0	82	68	0	0	31	0.90
2857066--2857090	13	1.9	13	100	0	50	60	0	8	32	1.26
2857155--2857192	20	1.9	20	88	0	58	65	2	7	23	1.32
2857144--2857205	27	2.2	30	83	11	78	67	3	6	22	1.28
2857504--2857613	37	2.9	38	84	6	136	48	11	1	38	1.51
2857568--2857873	153	2.0	154	84	6	399	55	5	1	37	1.35
2857568--2857880	52	6.1	52	81	10	365	55	5	1	37	1.34
2858076--2858117	22	1.9	22	90	0	66	38	7	7	47	1.58
2858229--2858300	22	3.3	22	78	7	83	31	6	15	45	1.72
2858431--2858483	22	2.4	21	82	14	63	35	11	11	41	1.77
2858820--2858845	13	2.0	13	100	0	52	30	15	15	38	1.88
2861313--2861387	27	2.7	27	87	6	98	26	29	20	24	1.99
2861372--2861594	52	4.3	50	76	12	207	30	24	11	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2861613--2861681	28	2.5	28	83	4	86	23	31	18	26	1.97
2865650--2865682	17	1.9	17	100	0	66	33	6	18	42	1.75
2866365--2866420	21	2.8	21	78	5	71	39	12	14	33	1.83
2872261--2872652	168	2.4	167	81	8	453	31	10	6	50	1.63
2872261--2872684	165	2.6	166	80	7	454	31	10	6	51	1.60
2874608--2874915	156	1.9	157	82	7	374	24	16	20	38	1.93
2874612--2874946	159	2.1	156	80	6	363	24	16	19	40	1.91
2876759--2876839	28	2.7	30	72	14	69	59	3	2	34	1.29
2877958--2878007	25	2.1	25	85	7	68	32	8	4	56	1.47
2877938--2877998	31	2.0	31	83	6	79	34	8	6	50	1.58
2878752--2878864	57	2.0	57	94	0	199	31	18	7	41	1.79
2879416--2879470	17	3.5	17	85	9	64	25	0	5	69	1.10
2879419--2879469	14	3.4	14	80	15	57	23	0	5	70	1.09
2879714--2879779	27	2.4	28	80	10	73	39	1	3	56	1.24
2880567--2880635	23	3.2	23	67	23	67	39	8	10	42	1.70
2880556--2880639	42	2.0	42	95	0	150	41	7	9	41	1.65
2882844--2883270	211	2.0	211	99	0	836	30	13	20	34	1.92
2887739--2887765	2	13.5	2	100	0	54	51	0	0	48	1.00
2887820--2887855	19	2.0	17	89	10	54	27	8	8	55	1.58
2890171--2890218	15	3.1	16	84	6	62	2	25	2	70	1.09
2890695--2890744	11	4.4	11	75	25	50	68	0	2	30	1.01
2892265--2892789	181	3.0	180	86	5	689	48	7	9	34	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2897291--2897327	3	12.3	3	100	0	74	67	0	0	32	0.91
2899647--2899703	17	3.3	17	71	9	53	40	0	0	59	0.97
2899649--2899710	32	2.0	32	87	3	90	37	0	0	62	0.95
2899628--2899713	35	2.4	36	83	14	101	33	1	0	65	1.01
2899639--2899713	31	2.4	30	82	6	87	36	1	0	62	1.04
2900567--2900626	29	2.1	29	83	0	75	55	5	5	35	1.44
2903593--2903629	12	3.0	12	92	4	56	43	0	0	56	0.99
2904281--2904308	10	2.8	10	100	0	56	39	0	0	60	0.97
2908527--2909129	299	2.0	299	91	1	978	24	13	13	47	1.79
2910557--2910588	2	16.0	2	93	0	55	46	0	0	53	1.00
2911825--2911913	40	2.2	40	87	0	124	30	12	16	40	1.86
2915259--2915293	3	11.7	3	100	0	70	34	0	0	65	0.93
2916598--2916653	3	18.7	3	100	0	112	32	0	0	67	0.91
2917657--2917689	12	2.8	12	95	0	57	30	6	21	42	1.77
2917890--2917932	20	2.2	20	100	0	86	44	4	9	41	1.57
2928100--2928157	1	58.0	1	78	0	53	87	6	5	0	0.65
2928100--2928157	13	4.2	13	81	12	71	87	6	5	0	0.65
2928098--2928155	29	2.0	29	93	0	98	84	6	8	0	0.78
2928108--2928146	21	1.9	20	94	5	69	87	7	5	0	0.68
2928106--2928157	14	3.6	14	82	14	70	88	7	3	0	0.62
2928100--2928155	21	2.6	21	80	2	67	87	7	5	0	0.67
2931643--2931734	46	2.0	46	93	0	157	42	18	6	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2939153--2939190	18	2.1	18	100	0	76	23	21	0	55	1.44
2942892--2942957	34	1.9	34	96	0	123	40	13	4	40	1.65
2947343--2947408	26	2.4	28	75	14	75	37	1	3	57	1.23
2950631--2950670	19	2.1	19	85	0	53	60	5	20	15	1.53
2951788--2951836	23	2.2	23	88	3	73	53	28	0	18	1.45
2954987--2955033	2	23.5	2	100	0	94	48	0	0	51	1.00
2957045--2957072	14	2.0	14	100	0	56	35	21	7	35	1.81
2958537--2958578	2	21.0	2	100	0	84	50	0	0	50	1.00
2960937--2960973	2	18.5	2	100	0	74	51	0	0	48	1.00
2965951--2966017	36	1.9	35	85	11	93	31	25	10	32	1.89
2966488--2966513	13	2.0	13	100	0	52	30	15	15	38	1.88
2966574--2966598	13	1.9	13	100	0	50	32	20	16	32	1.94
2966663--2966717	22	2.5	22	96	0	101	40	10	21	27	1.87
2966764--2966789	13	2.0	13	100	0	52	38	15	15	30	1.88
2973412--2973480	33	2.1	32	89	10	104	37	18	11	31	1.87
2973442--2973479	20	1.9	20	94	0	67	39	18	10	31	1.85
2973412--2973459	13	4.2	13	70	29	54	37	18	12	31	1.88
2973509--2973564	19	2.9	19	91	2	85	35	17	16	30	1.92
2973549--2973575	13	2.1	13	100	0	54	40	14	14	29	1.86
2980233--2980283	22	2.3	22	83	6	59	49	9	5	35	1.60
2983400--2983937	32	16.8	32	93	0	853	31	33	18	17	1.94
2985163--2985216	14	3.7	15	79	20	53	75	0	22	1	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2985159--2985218	20	2.8	20	81	18	68	78	0	20	1	0.84
2985161--2985220	24	2.5	24	81	10	70	78	0	20	1	0.84
2992855--2993491	27	23.0	27	88	4	887	23	33	14	29	1.94
2992855--2993506	165	3.9	166	88	4	922	23	33	13	28	1.94
2992855--2993491	220	2.9	220	93	3	1041	23	33	14	29	1.94
2993474--2994011	32	16.8	32	93	0	864	31	33	18	16	1.93
2995237--2995290	14	3.7	15	79	20	53	75	0	22	1	0.89
2995233--2995292	20	2.8	20	81	18	68	78	0	20	1	0.84
2995235--2995294	24	2.5	24	81	10	70	78	0	20	1	0.84
3001548--3001577	11	2.9	10	95	5	51	63	0	0	36	0.95
3020322--3020383	32	1.9	32	93	0	106	33	4	17	43	1.71
3021061--3021095	18	1.9	18	88	11	54	85	8	2	2	0.79
3021285--3021322	20	1.9	20	88	0	58	60	7	10	21	1.54
3023151--3023208	27	2.1	27	96	0	107	20	12	17	50	1.78
3023151--3023217	27	2.5	27	87	4	73	20	11	14	52	1.74
3023303--3023406	55	1.9	55	90	4	165	33	22	4	39	1.75
3029390--3029443	27	2.0	28	85	10	76	59	5	5	29	1.43
3030372--3030472	53	1.9	52	89	2	157	38	10	16	33	1.84
3030461--3030486	2	13.0	2	100	0	52	50	0	0	50	1.00
3031154--3031193	20	2.0	20	85	0	53	55	0	5	40	1.22
3031299--3031344	20	2.2	22	88	7	69	45	2	0	52	1.13
3033097--3033343	127	1.9	127	97	0	467	32	10	17	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3039983--3040052	28	2.4	29	95	4	133	42	0	2	54	1.15
3043805--3043854	18	2.8	18	79	14	50	30	4	4	62	1.32
3043984--3044042	16	3.8	16	76	13	68	16	10	27	45	1.80
3044413--3044455	11	4.2	10	83	16	61	60	0	0	39	0.97
3044414--3044465	23	2.4	22	84	15	65	53	1	0	44	1.11
3045717--3045789	28	2.5	30	82	10	89	53	0	0	46	1.00
3045771--3045818	10	4.7	10	80	12	53	77	0	0	22	0.78
3045771--3045818	21	2.3	20	82	3	60	77	0	0	22	0.78
3045898--3045950	20	2.8	18	74	20	54	41	0	0	58	0.98
3045850--3045939	18	4.4	20	67	24	62	45	0	0	54	0.99

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