genome.fa.s160.2.7.7.80.10.50.1000.18.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   29   30   

This is table  18  of  30  ( 3592 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)
2844957--2845068	59	1.9	58	85	5	154	29	31	18	20	1.97
2845204--2845354	34	4.9	29	80	10	81	22	32	14	30	1.94
2845071--2845305	34	6.8	35	84	6	293	20	31	11	36	1.88
2845071--2845305	104	2.3	103	88	6	343	20	31	11	36	1.88
2845273--2845359	27	3.1	27	86	4	102	25	34	16	24	1.95
2845327--2845410	28	2.9	30	78	20	90	34	30	15	19	1.93
2845477--2845541	21	3.0	21	64	27	55	27	27	16	27	1.97
2845429--2845696	91	2.9	93	79	8	237	27	26	17	27	1.98
2845564--2845641	39	2.0	39	89	0	120	30	25	21	21	1.98
2845603--2845837	52	4.7	49	76	7	170	25	23	17	33	1.96
2845603--2845794	52	3.8	51	80	6	203	25	25	17	31	1.97
2846562--2846650	13	5.9	13	72	27	70	34	13	17	33	1.89
2846575--2846669	19	5.7	18	71	27	84	33	12	16	36	1.87
2846561--2846682	32	3.8	32	96	0	217	33	13	16	36	1.88
2852133--2852163	3	10.3	3	92	0	53	35	0	29	35	1.58
2854447--2854616	89	1.9	89	85	2	234	38	11	22	27	1.89
2861897--2861921	12	2.1	12	100	0	50	24	0	36	40	1.55
2863683--2863713	3	10.3	3	92	0	53	35	0	29	35	1.58
2865997--2866166	89	1.9	89	85	2	234	38	11	22	27	1.89
2873448--2873472	12	2.1	12	100	0	50	24	0	36	40	1.55
2874792--2874883	20	4.6	20	84	0	85	35	10	11	41	1.77
2874946--2874991	20	2.2	21	88	3	67	34	15	6	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2875957--2876203	29	8.6	29	80	6	243	25	14	29	30	1.95
2875957--2876203	58	4.3	57	85	3	280	25	14	29	30	1.95
2875957--2876203	87	2.9	86	84	3	318	25	14	29	30	1.95
2876591--2876636	24	1.9	24	86	8	67	45	13	10	30	1.77
2882544--2882608	32	2.0	33	84	3	87	32	15	10	41	1.81
2882575--2882630	19	2.8	20	84	10	71	35	12	14	37	1.84
2884190--2884246	20	2.8	20	94	0	96	29	15	10	43	1.80
2890756--2890809	19	2.8	19	85	2	72	37	14	14	33	1.88
2891407--2891448	22	1.9	22	90	0	66	26	28	4	40	1.76
2893337--2893402	33	2.0	33	96	0	123	36	10	21	31	1.87
2893338--2893402	20	3.6	20	69	26	72	35	10	21	32	1.88
2895873--2896153	139	2.0	139	95	0	508	30	17	14	36	1.90
2899685--2899734	20	2.5	20	80	6	57	38	18	12	32	1.87
2899784--2899843	13	5.1	13	73	22	69	41	15	15	28	1.86
2899784--2899848	33	2.0	33	100	0	130	41	15	15	27	1.87
2905527--2905561	17	2.1	17	100	0	70	65	17	0	17	1.27
2914642--2914846	34	6.5	33	75	16	211	29	13	34	22	1.92
2914700--2914812	27	3.9	26	73	21	100	27	15	34	23	1.94
2914665--2914847	61	3.0	60	87	5	251	28	14	35	21	1.93
2914790--2914907	30	3.8	31	82	4	112	31	16	29	22	1.96
2914665--2914908	122	2.0	122	78	10	257	30	15	32	21	1.94
2916202--2916241	14	2.9	14	88	0	62	0	0	12	87	0.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2916202--2916241	9	4.3	9	84	6	53	0	0	12	87	0.54
2923134--2923254	52	2.3	52	97	0	224	28	18	18	34	1.94
2923134--2923274	52	2.7	51	90	4	212	30	17	18	33	1.94
2923263--2923287	13	1.9	13	100	0	50	36	16	16	32	1.90
2923327--2923396	33	2.1	33	89	0	104	40	14	11	34	1.82
2923352--2923376	13	1.9	13	100	0	50	32	16	16	36	1.90
2928797--2928875	39	2.0	39	97	0	149	26	17	17	37	1.92
2935113--2935176	32	2.0	33	87	3	94	29	15	15	39	1.89
2935225--2935262	13	2.9	13	88	0	58	31	13	18	36	1.89
2943262--2943311	16	3.0	16	75	11	55	62	0	34	4	1.14
2947973--2947997	13	1.9	13	100	0	50	12	8	8	72	1.29
2948646--2948683	19	2.1	19	90	5	60	31	26	2	39	1.70
2948930--2948984	20	2.9	19	74	20	62	36	5	3	54	1.41
2948930--2949001	36	2.0	35	86	7	101	37	6	2	52	1.43
2948931--2948991	18	3.2	20	70	23	60	36	6	3	54	1.43
2949436--2949466	13	2.4	13	94	0	53	35	16	9	38	1.81
2955451--2955489	13	3.0	13	100	0	78	38	15	15	30	1.88
2957708--2957752	21	2.1	21	84	8	56	53	4	20	22	1.63
2959556--2959586	15	2.1	15	93	0	53	48	16	22	12	1.80
2961665--2961703	13	3.0	13	100	0	78	30	15	15	38	1.88
2964251--2964276	13	2.0	13	100	0	52	38	15	15	30	1.88
2965925--2965981	19	2.9	20	89	5	89	35	15	14	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2974188--2974213	13	2.0	13	100	0	52	30	15	15	38	1.88
2976760--2976798	13	3.0	13	88	0	60	35	12	20	30	1.90
2976784--2976862	20	3.7	20	78	15	77	44	15	15	25	1.85
2980712--2980756	21	2.1	21	84	8	56	22	20	4	53	1.63
2982978--2983003	13	2.0	13	100	0	52	30	15	15	38	1.88
2984580--2984607	13	2.2	13	100	0	56	42	14	14	28	1.84
2984561--2984626	33	2.0	33	88	5	98	40	13	13	31	1.84
2985987--2986037	20	2.5	20	87	6	68	33	11	17	37	1.86
2988131--2988191	21	2.9	22	79	20	76	52	3	24	19	1.61
2990172--2990231	31	1.9	31	100	0	120	28	10	10	51	1.67
2991081--2991136	20	2.8	20	97	0	103	26	16	14	42	1.86
2991231--2991294	13	5.4	13	78	21	86	32	14	15	37	1.87
2991215--2991295	33	2.5	33	93	4	137	30	13	18	37	1.90
2991352--2991386	13	2.7	13	95	0	61	25	14	22	37	1.92
2991372--2991491	52	2.3	53	92	1	197	35	16	13	35	1.88
2993641--2993685	21	2.1	21	84	8	56	66	4	2	26	1.22
2993697--2993789	43	2.2	42	83	9	109	62	4	1	32	1.22
3000081--3000131	17	3.0	17	80	11	59	50	0	0	49	1.00
3000058--3000112	24	2.3	24	75	6	58	47	0	0	52	1.00
3000138--3000179	10	4.4	9	80	19	50	33	0	0	66	0.92
3000141--3000187	17	2.9	15	77	22	51	34	0	0	65	0.93
3000143--3000180	18	2.1	18	90	9	60	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3000352--3000410	16	3.7	16	69	15	50	44	5	5	45	1.47
3000848--3000919	30	2.6	28	78	20	87	40	0	0	59	0.97
3000899--3000953	15	3.9	15	77	15	64	25	0	0	74	0.82
3000899--3000963	22	3.1	21	77	14	71	26	0	0	73	0.83
3000907--3000963	5	10.8	5	80	17	62	24	0	0	75	0.80
3000921--3000975	25	2.2	26	83	3	67	30	1	0	67	1.01
3002126--3002192	17	3.8	17	76	18	57	59	0	1	38	1.06
3002126--3002187	20	3.3	19	72	18	58	61	0	1	37	1.06
3003361--3003404	2	22.0	2	83	0	52	40	0	2	56	1.11
3004316--3004350	2	16.5	2	88	11	52	48	0	45	5	1.26
3004796--3004839	22	2.0	22	100	0	88	54	9	0	36	1.32
3005239--3005269	13	2.4	13	100	0	62	51	16	0	32	1.44
3006328--3006378	20	2.5	20	87	3	66	43	11	15	29	1.82
3006343--3006399	20	2.8	20	86	2	69	38	12	17	31	1.87
3006437--3006491	20	2.8	20	94	0	101	30	14	10	43	1.80
3010219--3010248	16	1.9	15	93	6	51	53	0	16	30	1.44
3013074--3013121	24	2.0	23	88	4	69	45	0	0	54	0.99
3013083--3013127	11	4.3	10	79	20	56	42	0	0	57	0.98
3013523--3013597	16	4.6	17	78	6	77	32	36	20	12	1.89
3013571--3013616	22	2.1	22	91	0	74	32	45	19	2	1.62
3016059--3016101	22	2.0	22	91	8	72	25	9	13	51	1.71
3017155--3017179	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3017134--3017196	33	1.9	32	90	3	99	31	14	15	38	1.88
3017246--3017272	13	2.1	13	100	0	54	33	14	14	37	1.88
3017154--3017357	95	2.1	95	87	1	284	32	17	16	33	1.92
3018927--3018968	21	2.0	21	100	0	84	42	23	19	14	1.87
3025716--3025742	13	2.1	13	100	0	54	29	14	14	40	1.86
3027069--3027105	11	3.5	11	88	3	58	83	0	16	0	0.64
3027066--3027105	20	2.0	20	90	5	62	80	0	20	0	0.72
3028486--3028519	16	2.1	17	88	5	52	76	0	0	23	0.79
3030878--3030920	2	21.5	2	100	0	86	48	0	0	51	1.00
3031726--3031778	20	2.6	21	87	3	72	30	16	13	39	1.87

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   29   30