genome.fa.s228.2.7.7.80.10.50.1000.18.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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  ( 3133 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)
2643281--2643399	52	2.3	53	84	5	154	28	27	13	30	1.94
2642984--2643346	79	4.6	78	80	6	363	28	26	11	33	1.91
2643222--2643571	131	2.7	128	79	5	321	29	26	10	33	1.90
2646495--2646547	25	2.0	27	85	7	74	67	0	1	30	1.01
2646495--2646547	27	2.0	26	82	10	63	67	0	1	30	1.01
2646838--2646953	53	2.2	53	81	10	130	38	0	1	58	1.14
2647982--2648013	2	16.0	2	100	0	64	50	0	0	50	1.00
2648798--2648837	20	2.0	20	90	9	64	62	0	0	37	0.95
2648814--2648880	34	2.0	34	88	5	100	53	0	5	40	1.25
2649347--2649386	20	2.0	20	85	9	55	47	5	0	47	1.24
2649934--2650085	75	2.0	75	88	0	223	28	11	19	40	1.86
2651308--2651351	17	2.5	17	88	3	61	0	15	0	84	0.63
2651308--2651351	21	2.0	21	86	4	61	0	15	0	84	0.63
2651799--2651846	23	2.0	24	96	4	89	25	0	10	64	1.25
2653620--2653649	2	15.0	2	100	0	60	50	0	50	0	1.00
2653729--2653772	21	2.0	22	82	4	54	31	4	0	63	1.14
2653942--2654002	25	2.3	26	78	13	63	57	0	1	40	1.08
2654170--2654238	24	2.6	28	72	23	69	57	0	0	42	0.98
2654198--2654257	30	2.1	28	81	12	68	61	1	0	36	1.06
2654504--2654563	20	2.8	21	76	19	70	31	0	0	68	0.90
2654511--2654564	19	2.9	18	86	10	74	29	0	0	70	0.88
2654534--2654566	15	2.1	16	88	5	50	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2657080--2657118	2	19.0	2	94	5	69	48	2	0	48	1.15
2659935--2659960	13	2.0	13	100	0	52	23	0	0	76	0.78
2660392--2660427	4	9.0	4	93	0	54	5	19	0	75	1.00
2660426--2660460	3	11.7	3	100	0	70	31	0	0	68	0.90
2661214--2661250	15	2.5	15	91	4	58	45	2	10	40	1.53
2662071--2662111	2	20.5	2	94	0	64	43	0	4	51	1.23
2662420--2662475	10	5.3	11	77	12	55	39	0	3	57	1.16
2663595--2663659	33	2.0	33	87	0	94	38	0	4	56	1.20
2664403--2664452	22	2.3	22	82	6	57	34	14	22	30	1.93
2666974--2667022	21	2.4	21	86	3	64	59	2	6	32	1.34
2667945--2668012	17	4.1	16	74	12	57	51	0	0	48	1.00
2667973--2668011	17	2.2	19	90	9	64	48	0	0	51	1.00
2667963--2668026	17	3.2	20	73	26	55	45	0	0	54	0.99
2670033--2670071	10	4.2	10	84	15	57	58	0	0	41	0.98
2670035--2670080	18	2.7	16	83	12	56	56	2	0	41	1.11
2670518--2670625	20	5.3	20	73	20	73	37	0	1	60	1.08
2670531--2670624	10	10.0	9	70	19	59	40	0	1	58	1.05
2670553--2670632	16	4.4	16	70	23	61	38	0	0	61	0.96
2670513--2670633	10	12.7	10	68	22	50	36	0	1	61	1.06
2670507--2670633	47	2.7	45	77	13	116	36	0	1	62	1.05
2670979--2671015	13	2.8	14	84	12	51	59	0	0	40	0.97
2671662--2671713	20	2.5	20	87	6	68	34	0	3	61	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2677846--2678245	133	3.0	133	89	1	570	40	10	16	33	1.82
2679458--2679562	30	3.5	29	83	5	111	37	21	19	21	1.95
2679485--2679577	30	3.1	30	85	0	114	32	22	21	23	1.98
2683257--2683341	33	2.6	33	84	3	109	37	23	23	15	1.93
2683328--2683401	30	2.5	30	95	0	130	44	29	8	17	1.77
2684544--2684592	17	2.9	17	85	8	64	67	0	0	32	0.91
2685741--2685774	5	6.8	5	86	0	50	76	0	23	0	0.79
2687381--2687693	30	10.5	31	83	5	344	33	30	17	17	1.93
2687397--2687694	60	5.0	60	90	0	425	33	31	17	17	1.93
2687401--2687693	90	3.3	90	85	0	415	33	31	17	17	1.93
2695961--2696017	18	3.2	18	78	9	62	56	1	0	42	1.10
2696639--2696714	38	1.9	39	84	5	100	46	1	1	51	1.17
2698044--2698155	20	5.7	19	76	16	77	41	6	0	50	1.33
2698107--2698161	20	2.5	22	77	19	62	41	5	0	52	1.24
2703176--2703211	16	2.2	16	90	0	54	33	2	5	58	1.36
2704782--2704857	16	4.7	15	79	9	62	9	15	31	43	1.79
2705240--2705657	58	7.3	58	71	10	189	44	15	11	27	1.82
2705359--2705489	57	2.3	57	84	6	167	42	18	12	25	1.86
2706429--2706507	24	3.3	24	87	0	122	36	20	11	31	1.88
2707920--2707967	22	2.2	22	81	7	53	25	0	6	68	1.12
2709185--2709228	23	1.9	23	86	9	63	52	0	4	43	1.22
2709964--2710132	51	3.3	51	95	0	304	46	1	21	30	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2710472--2710530	30	1.9	31	89	3	93	64	6	6	22	1.42
2712176--2712293	33	3.6	33	94	2	193	37	22	23	16	1.93
2712280--2712353	30	2.5	30	95	0	130	44	29	8	17	1.77
2713468--2713500	16	2.0	17	94	5	59	60	0	0	39	0.97
2715899--2715934	16	2.2	16	90	0	54	88	0	11	0	0.50
2717397--2717561	36	4.6	36	95	1	287	33	26	19	20	1.96
2718535--2718584	4	12.8	4	78	4	57	70	0	28	2	0.99
2718527--2718605	27	2.9	27	75	11	79	75	0	22	1	0.87
2718545--2718607	23	2.8	23	78	4	67	76	0	22	1	0.88
2721598--2721704	16	6.6	17	79	12	102	37	31	16	14	1.89
2721614--2721709	32	3.0	32	82	7	115	39	28	17	14	1.89
2722756--2722867	32	3.5	32	70	9	102	43	31	13	11	1.80
2722774--2722862	16	5.6	16	76	0	88	43	32	12	11	1.78
2725657--2725695	13	3.0	13	85	10	53	38	10	0	51	1.36
2726688--2726720	2	16.5	2	100	0	66	51	0	0	48	1.00
2736064--2736149	14	6.0	14	67	17	52	53	1	1	44	1.15
2736110--2736143	13	2.5	14	90	4	52	58	0	0	41	0.98
2736103--2736160	30	2.0	29	83	10	73	55	0	0	44	0.99
2736114--2736175	24	2.5	24	82	10	72	58	1	0	40	1.08
2736521--2736586	20	3.3	20	73	18	66	42	0	1	56	1.08
2736528--2736601	18	3.9	17	72	19	58	41	0	1	56	1.07
2736557--2736632	19	3.9	19	74	15	59	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2737266--2737394	55	2.3	56	81	10	138	55	1	2	40	1.22
2737192--2737513	132	2.4	128	82	10	330	55	1	2	40	1.22
2737399--2737549	54	2.8	53	75	5	158	55	1	2	39	1.25
2737238--2737513	132	2.1	132	89	2	401	56	1	2	38	1.25
2741391--2741450	20	2.9	19	80	9	66	36	13	15	35	1.86
2742470--2742510	21	2.0	21	95	0	73	36	26	14	21	1.93
2744424--2744451	14	2.0	14	100	0	56	28	21	7	42	1.79
2746119--2746148	14	2.1	14	100	0	60	60	20	0	20	1.37
2748352--2748385	3	11.3	3	100	0	68	35	32	0	32	1.58
2750080--2750134	21	2.7	21	86	8	69	36	16	12	34	1.87
2751079--2751290	71	2.9	73	77	13	197	54	11	1	32	1.45
2754595--2754664	29	2.4	29	92	4	115	42	12	20	24	1.86
2754627--2754723	14	6.7	15	73	16	62	42	12	20	24	1.87
2754648--2754716	18	3.4	18	72	24	66	40	11	21	26	1.87
2754653--2754721	14	4.9	14	77	10	77	42	10	21	26	1.84
2754624--2754723	43	2.3	43	100	0	200	42	12	21	25	1.87
2754770--2754841	15	4.7	15	72	24	62	16	4	0	79	0.89
2754769--2754825	17	3.4	18	76	13	59	15	5	0	78	0.91
2755366--2756007	42	15.4	42	77	6	482	33	19	28	17	1.95
2755365--2755980	126	4.9	126	85	1	729	33	20	28	17	1.95
2773495--2773569	20	3.8	20	73	7	71	41	13	12	33	1.81
2773943--2774064	49	2.6	46	82	7	147	31	20	27	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2774133--2774503	28	13.0	28	88	2	483	20	18	32	27	1.97
2775730--2775781	1	52.0	1	76	0	50	5	0	5	88	0.63
2775730--2775778	16	2.9	17	87	6	73	6	0	6	87	0.66
2775730--2775783	15	3.6	15	80	7	65	5	0	7	87	0.68
2789745--2789821	20	3.8	20	83	6	102	40	11	15	32	1.84
2790465--2790496	16	2.0	16	100	0	64	12	31	12	43	1.80
2790713--2790767	16	3.6	16	79	18	71	43	16	20	20	1.88
2790730--2790785	14	3.9	14	74	21	53	42	16	21	19	1.89
2790679--2790778	29	3.4	29	86	5	139	43	14	20	23	1.87
2790855--2790883	3	9.7	3	100	0	58	31	0	0	68	0.89

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