genome.fa.s59.2.7.7.80.10.50.1000.20.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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  20  of  25  ( 2913 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)
2959982--2960035	10	5.6	10	79	14	60	61	0	0	38	0.96
2960381--2960471	31	2.9	30	76	17	96	45	0	1	53	1.07
2960391--2960435	23	1.9	24	86	4	65	42	0	0	57	0.98
2961356--2961399	10	4.6	10	88	8	56	43	0	4	52	1.22
2961356--2961389	2	17.0	2	93	0	59	47	0	2	50	1.16
2962100--2962144	17	2.8	17	84	15	53	28	0	2	68	1.01
2962163--2962206	21	2.1	21	95	0	79	47	0	2	50	1.13
2962185--2962265	16	4.9	17	73	20	57	55	0	1	43	1.07
2962169--2962217	21	2.4	21	90	6	75	48	0	0	51	1.00
2962213--2962250	16	2.3	17	90	4	60	63	0	2	34	1.09
2962891--2962932	18	2.3	18	84	8	59	47	0	0	52	1.00
2962893--2962932	19	2.2	18	83	12	55	47	0	0	52	1.00
2962888--2962956	27	2.6	27	76	17	74	46	0	0	53	1.00
2962899--2962945	19	2.4	19	89	3	67	51	0	0	48	1.00
2962909--2962969	17	3.5	17	80	8	61	45	1	0	52	1.10
2962929--2962976	17	2.9	16	84	9	53	39	2	0	58	1.10
2962930--2962976	16	2.9	16	81	12	53	40	2	0	57	1.11
2963234--2963310	22	3.4	22	78	5	73	44	0	0	55	0.99
2963225--2963310	24	3.7	24	71	13	72	41	0	0	58	0.98
2965015--2965068	24	2.3	24	87	3	74	62	0	1	35	1.06
2965018--2965086	12	5.8	12	71	6	52	62	0	1	36	1.04
2965027--2965105	24	3.3	25	75	8	65	60	0	1	37	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2965084--2965139	8	6.5	8	84	10	58	57	0	0	42	0.99
2965069--2965139	16	4.2	16	79	13	63	57	0	0	42	0.98
2965080--2965147	20	3.5	20	78	17	63	54	0	0	45	0.99
2977392--2977436	23	1.9	24	81	4	56	46	6	2	44	1.42
2985152--2985241	20	4.6	19	72	18	69	51	2	1	45	1.21
2989164--2989204	16	2.5	16	88	4	55	24	2	2	70	1.11
2991081--2991119	2	19.5	2	83	0	51	51	7	0	41	1.31
2991123--2991196	20	3.8	18	75	18	60	50	5	4	40	1.44
2991147--2991213	20	3.3	20	87	4	91	52	2	1	43	1.25
2991204--2991282	21	3.8	21	77	1	70	46	10	7	35	1.66
2991891--2991937	19	2.3	20	85	10	60	31	0	4	63	1.13
2992197--2992261	32	2.1	29	88	8	94	47	6	0	46	1.27
2993733--2993808	16	4.8	16	71	14	50	60	3	0	35	1.15
2995918--2995953	2	18.0	2	100	0	72	50	0	0	50	1.00
2996889--2996937	11	4.4	11	80	10	55	53	0	2	44	1.12
2996878--2996937	22	2.7	23	81	5	77	55	1	1	41	1.20
3001132--3001170	2	19.5	2	100	0	78	48	0	0	51	1.00
3001528--3001581	26	2.0	27	85	3	74	55	1	0	42	1.10
3003595--3003623	2	14.5	2	100	0	58	51	0	0	48	1.00
3005362--3005432	28	2.6	27	75	18	65	29	2	4	63	1.27
3005372--3005432	28	2.1	28	81	3	68	29	3	3	63	1.26
3011292--3011352	26	2.3	26	80	0	68	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3011780--3011822	15	3.0	15	83	6	54	53	4	0	41	1.21
3012563--3012602	21	1.9	21	94	0	71	47	7	0	45	1.31
3014765--3014793	2	14.5	2	100	0	58	51	0	48	0	1.00
3014964--3014991	2	14.0	2	100	0	56	50	0	0	50	1.00
3016685--3016726	2	21.0	2	100	0	84	50	0	0	50	1.00
3019612--3019650	15	2.7	15	84	4	53	41	0	0	58	0.98
3019612--3019673	27	2.2	29	88	8	92	40	0	0	59	0.97
3019818--3019883	29	2.3	28	79	10	71	33	0	1	65	1.02
3020038--3020079	23	1.9	21	90	9	66	45	0	0	54	0.99
3020126--3020189	32	2.0	32	100	0	128	18	12	0	68	1.20
3020353--3020389	17	2.1	17	90	5	56	43	0	0	56	0.99
3020383--3020424	16	2.5	17	92	3	68	38	0	0	61	0.96
3020354--3020402	10	5.2	10	76	20	52	40	0	0	59	0.98
3020390--3020435	23	2.0	23	82	0	56	34	2	2	60	1.21
3022376--3022430	23	2.5	22	82	8	67	36	0	0	63	0.95
3022385--3022429	23	2.0	23	90	0	72	37	0	0	62	0.96
3026366--3026417	16	3.1	17	74	23	56	48	0	0	51	1.00
3026419--3026460	19	2.2	19	91	8	68	30	0	0	69	0.89
3026467--3026507	14	2.9	15	82	10	50	51	2	0	46	1.14
3026847--3026891	19	2.4	18	82	13	56	55	4	2	37	1.32
3026936--3026984	17	2.7	18	78	12	55	55	4	2	38	1.31
3027088--3027155	16	4.5	16	74	18	74	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3027085--3027136	17	2.7	20	77	22	65	40	0	0	59	0.97
3027088--3027156	22	3.1	21	73	8	66	39	0	0	60	0.97
3027088--3027184	27	3.6	26	78	16	83	41	1	0	57	1.05
3027138--3027242	28	3.4	31	75	15	94	43	0	0	54	1.13
3027116--3027246	60	2.2	61	76	16	141	44	0	0	54	1.11
3027166--3027226	14	4.4	15	75	20	53	47	0	0	52	1.00
3027087--3027220	28	4.7	27	71	21	87	43	0	0	55	1.04
3027205--3027242	9	3.7	10	86	13	51	36	0	2	60	1.11
3027203--3027231	14	2.1	14	100	0	58	37	0	0	62	0.96
3027098--3027242	11	14.4	10	69	15	61	42	0	0	55	1.09
3028324--3028354	16	1.9	16	100	0	62	48	0	0	51	1.00
3032313--3032370	24	2.4	25	78	16	68	51	0	0	48	1.00
3035084--3035112	6	5.0	6	95	4	51	34	17	31	17	1.93
3036522--3036572	25	2.2	24	82	10	61	52	0	5	41	1.25
3037514--3037546	16	2.0	17	88	5	50	57	0	0	42	0.98
3038678--3038747	12	5.5	12	76	17	61	65	0	2	31	1.07
3039133--3039197	20	3.7	20	67	30	65	43	0	0	56	0.99
3039122--3039203	32	2.9	27	77	19	85	42	0	0	57	0.98
3039147--3039200	21	2.7	21	75	16	60	40	0	0	59	0.98
3039137--3039190	16	3.4	16	75	10	65	42	0	0	57	0.98
3039142--3039195	18	3.2	18	67	20	53	42	0	0	57	0.98
3040573--3040645	36	2.0	36	91	0	119	21	45	16	16	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3040583--3040660	36	2.2	36	88	0	111	23	44	14	17	1.85
3044836--3044867	2	16.0	2	100	0	64	50	0	0	50	1.00
3044905--3044950	23	1.9	25	86	8	69	52	2	0	45	1.13
3045620--3045647	2	14.0	2	100	0	56	50	0	0	50	1.00
3048199--3048229	2	15.5	2	93	0	53	48	0	3	48	1.17
3050322--3050371	16	2.8	18	82	11	59	54	0	0	46	1.00
3052678--3052730	18	3.1	17	79	12	56	54	0	0	45	0.99
3057705--3057962	130	2.0	130	94	1	455	50	10	3	36	1.52
3058131--3058171	2	21.0	2	95	5	75	48	0	51	0	1.00
3059760--3059799	21	1.9	21	90	10	64	37	0	0	62	0.95
3059782--3059823	13	3.1	14	76	10	52	54	0	0	45	0.99
3060930--3061040	31	3.7	30	80	15	140	46	1	0	51	1.11
3060958--3061040	30	2.9	26	81	16	94	48	1	0	50	1.08
3061128--3061204	25	3.2	25	64	14	72	46	5	5	42	1.48
3061122--3061225	45	2.3	44	91	6	156	43	3	3	49	1.39
3061131--3061225	46	2.1	45	96	2	172	45	4	4	46	1.42
3061534--3061568	16	2.2	16	89	0	52	48	0	0	51	1.00
3062429--3062458	15	2.1	15	93	6	53	60	0	0	40	0.97
3062387--3062470	24	3.4	24	71	17	64	59	0	1	39	1.05
3062453--3062505	20	2.7	20	85	11	65	50	0	0	49	1.00
3062466--3062507	21	2.0	21	86	9	59	54	0	0	45	0.99
3063073--3063123	27	1.9	26	84	11	68	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3063746--3063787	2	21.0	2	95	0	75	50	2	0	47	1.14
3067560--3067667	54	2.0	54	100	0	216	40	14	18	25	1.89
3072189--3072265	32	2.4	33	82	6	95	55	1	0	42	1.07
3072184--3072265	40	2.1	37	82	10	94	56	1	0	42	1.07
3072170--3072313	40	3.6	40	72	15	93	56	0	0	43	1.04
3072252--3072334	39	2.2	38	86	4	114	59	0	1	39	1.05
3073386--3073459	22	3.2	22	68	9	58	52	0	0	47	1.00
3074300--3074332	2	16.5	2	100	0	66	51	0	0	48	1.00
3074705--3074744	5	8.0	5	100	0	80	60	0	0	40	0.97
3074827--3074855	2	14.5	2	100	0	58	51	0	0	48	1.00

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