genome.fa.s167.2.7.7.80.10.50.1000.18.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: Scaffold167
Parameters: 2 7 7 80 10 50 1000
Length:  4199719

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  18  of  22  ( 2633 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)
2960293--2960335	19	2.2	20	80	12	54	16	0	18	65	1.28
2961830--2961864	2	18.0	2	94	5	63	48	0	0	51	1.00
2966709--2966814	54	2.0	54	92	0	176	35	14	10	39	1.80
2966792--2966818	2	13.5	2	100	0	54	51	0	0	48	1.00
2971122--2971350	113	2.0	113	89	3	354	25	13	16	44	1.85
2974196--2974220	13	1.9	13	100	0	50	36	16	16	32	1.90
2974176--2974245	33	2.1	33	86	0	95	35	11	12	40	1.80
2974265--2974289	13	1.9	13	100	0	50	32	16	16	36	1.90
2978840--2978874	2	17.5	2	100	0	70	51	0	48	0	1.00
2979366--2979390	12	2.1	12	100	0	50	48	0	0	52	1.00
2980496--2980528	14	2.4	14	95	5	59	39	9	0	51	1.34
2980661--2980709	2	25.0	2	91	4	82	46	0	0	53	1.00
2985882--2985917	15	2.4	16	86	13	58	47	0	0	52	1.00
2989453--2989516	28	2.2	29	78	8	69	50	12	6	31	1.65
2992166--2992213	23	2.0	23	84	11	62	54	0	2	43	1.12
2997130--2997183	24	2.2	24	86	0	72	38	0	0	61	0.96
2997134--2997199	24	2.9	23	80	10	64	36	0	0	63	0.95
2997185--2997229	20	2.2	20	84	0	54	51	0	0	48	1.00
2997976--2998017	21	2.0	21	85	0	57	38	0	2	59	1.10
2997989--2998027	20	1.9	21	89	5	62	43	0	0	56	0.99
2997986--2998035	11	4.7	11	76	14	52	46	0	0	54	1.00
2998674--2998722	19	2.5	20	83	3	64	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2999448--2999513	20	3.2	20	69	16	53	54	0	3	42	1.15
2999432--2999487	29	1.9	29	85	7	78	55	0	1	42	1.10
3009755--3009807	20	2.7	20	80	13	65	66	0	1	32	1.03
3009755--3009836	22	3.9	21	76	10	69	60	0	2	36	1.10
3009820--3009859	12	3.2	13	80	19	50	65	0	0	35	0.93
3009820--3009853	17	2.0	17	88	0	50	64	0	0	35	0.94
3010007--3010042	19	1.9	18	88	5	54	75	0	0	25	0.81
3010039--3010082	19	2.3	19	88	0	61	50	0	2	47	1.13
3013103--3013146	23	1.9	23	85	0	61	22	13	13	50	1.77
3015095--3015149	27	2.0	27	96	0	101	23	21	7	47	1.76
3025706--3025740	12	3.0	12	87	4	54	71	0	28	0	0.86
3027344--3027392	14	3.4	14	85	2	62	53	6	2	38	1.38
3027731--3027760	12	2.4	13	94	5	53	56	0	3	40	1.16
3028532--3028593	16	3.8	16	72	12	54	54	1	0	43	1.09
3028571--3028627	13	4.4	13	80	6	62	52	1	0	45	1.11
3028569--3028624	25	2.3	26	79	11	66	51	1	0	46	1.11
3028704--3028762	20	2.9	21	76	19	61	49	1	0	49	1.11
3029060--3029094	6	5.7	6	93	6	61	0	14	0	85	0.59
3029913--3029944	2	16.0	2	100	0	64	0	50	0	50	1.00
3035128--3035205	31	2.6	30	80	10	86	60	1	0	38	1.05
3035185--3035264	18	4.5	18	66	25	53	50	0	2	47	1.14
3038648--3038672	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3039347--3039386	20	2.0	20	90	9	64	52	0	0	47	1.00
3040342--3040400	21	2.8	20	77	10	57	49	8	0	42	1.33
3040789--3040836	2	24.0	2	100	0	96	50	0	0	50	1.00
3040996--3041055	2	30.5	2	76	3	59	50	3	3	43	1.35
3040996--3041055	18	3.4	18	88	2	86	50	3	3	43	1.35
3041620--3041648	2	14.5	2	100	0	58	48	0	0	51	1.00
3042768--3042820	18	2.8	19	77	11	56	56	0	0	43	0.99
3052946--3052985	16	2.4	16	79	4	53	20	12	20	47	1.81
3057580--3057608	13	2.1	14	93	6	51	37	0	6	55	1.27
3059345--3059378	18	1.9	17	88	5	50	47	0	8	44	1.34
3061156--3061197	21	2.0	22	85	4	59	59	0	0	40	0.97
3061209--3061234	3	8.7	3	100	0	52	34	0	0	65	0.93
3061434--3061480	10	4.7	10	79	15	53	57	0	2	40	1.11
3061436--3061505	32	2.1	35	89	7	110	54	0	1	44	1.09
3061456--3061512	14	3.9	14	75	18	53	56	0	0	43	0.99
3061436--3061520	32	2.6	32	83	9	102	55	0	1	43	1.07
3061550--3061614	33	1.9	35	87	6	98	47	0	1	50	1.10
3061550--3061624	33	2.3	32	84	9	89	50	0	1	48	1.09
3061663--3061711	21	2.4	20	86	3	62	53	0	2	44	1.12
3067576--3067662	3	27.7	3	85	9	59	59	0	0	40	0.97
3067617--3067662	7	6.9	7	83	16	53	69	0	0	30	0.89
3068440--3068503	15	4.1	16	71	17	53	54	1	1	42	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3069570--3069632	12	5.1	12	76	18	58	68	1	0	30	0.99
3069570--3069632	23	2.5	24	82	12	74	68	1	0	30	0.99
3069577--3069632	13	4.5	13	80	8	55	66	1	0	32	1.03
3070639--3070668	2	15.5	2	93	6	53	50	0	0	50	1.00
3070999--3071055	26	2.2	26	84	3	71	42	3	0	54	1.17
3071727--3071760	17	1.9	18	88	5	52	64	0	0	35	0.94
3071709--3071759	22	2.3	24	75	25	58	60	1	0	37	1.08
3074372--3074425	23	2.4	22	79	14	56	62	1	1	33	1.16
3084055--3084239	93	2.0	92	96	1	343	45	15	11	27	1.80
3084783--3084812	2	15.0	2	100	0	60	50	0	0	50	1.00
3085673--3085697	2	12.5	2	100	0	50	48	0	52	0	1.00
3085889--3085945	22	2.6	21	77	8	60	47	0	0	52	1.00
3085920--3085982	21	3.0	21	76	17	67	42	0	0	57	0.99
3085933--3086023	46	1.9	47	82	10	114	47	0	0	52	1.00
3086010--3086060	27	1.9	26	84	4	66	49	3	0	47	1.20
3087088--3087142	28	2.0	28	96	0	101	43	23	10	21	1.84
3089349--3089408	25	2.4	24	81	13	68	46	1	0	51	1.10
3089364--3089424	25	2.5	24	79	10	63	50	1	0	47	1.10
3092177--3092361	34	5.5	34	88	3	266	40	27	7	25	1.82
3092177--3092361	102	1.8	101	94	1	325	40	27	7	25	1.82
3096427--3096489	19	3.3	19	90	0	90	34	19	17	28	1.94
3096791--3096973	34	5.4	34	88	3	262	39	27	7	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096791--3096973	102	1.8	101	93	1	321	39	27	7	25	1.82
3106778--3106806	2	14.5	2	100	0	58	0	51	0	48	1.00
3109570--3109651	38	2.1	39	82	15	98	47	1	0	51	1.08
3109772--3109801	11	2.6	12	94	5	53	26	0	0	73	0.84
3114549--3114580	16	2.0	16	93	0	55	34	6	6	53	1.51
3114832--3114862	15	2.1	15	93	0	53	25	19	22	32	1.97
3118497--3118535	3	13.7	3	86	10	55	66	0	30	2	1.05
3118492--3118535	16	2.9	15	87	12	63	65	0	31	2	1.05
3119133--3119157	2	12.5	2	100	0	50	48	0	0	52	1.00
3119282--3119321	21	1.9	21	90	10	64	60	0	0	40	0.97
3119651--3119696	14	3.2	14	84	9	58	45	0	0	54	0.99
3119658--3119739	39	2.1	41	82	11	100	51	0	0	48	1.00
3119639--3119735	13	6.9	15	71	25	52	49	0	0	50	1.00
3119711--3119760	15	3.1	15	82	8	55	64	2	0	34	1.05
3119742--3119783	17	2.7	15	80	16	50	61	4	0	33	1.17
3119747--3119783	17	2.2	17	95	0	65	62	5	0	32	1.18
3120492--3120520	2	14.5	2	100	0	58	0	48	0	51	1.00
3123102--3123135	11	3.1	11	86	0	50	64	0	0	35	0.94
3123049--3123145	17	5.8	17	68	15	60	58	0	0	41	0.98
3123045--3123143	31	3.2	30	73	13	78	58	0	0	41	0.98
3131354--3131391	20	1.9	20	94	0	67	44	10	18	26	1.82
3131528--3131559	2	16.0	2	100	0	64	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3138348--3138386	19	2.0	19	85	5	51	61	0	0	38	0.96
3138348--3138387	20	2.0	20	85	0	53	62	0	0	37	0.95
3140191--3140221	2	15.5	2	100	0	62	48	0	0	51	1.00
3143144--3143221	20	3.9	20	77	5	77	58	0	0	41	0.98
3143141--3143220	40	2.0	40	82	9	99	57	0	0	42	0.98
3150820--3151160	170	2.0	170	91	2	551	30	18	16	34	1.93
3154854--3154888	12	2.9	12	95	0	61	5	14	60	20	1.54
3156541--3156580	16	2.5	16	84	8	55	40	0	15	45	1.46
3160423--3160465	20	2.2	20	83	8	52	30	6	2	60	1.35
3163470--3163508	14	2.5	15	88	12	53	71	0	0	28	0.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22