genome.fa.s129.2.7.7.80.10.50.1000.19.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: Scaffold129
Parameters: 2 7 7 80 10 50 1000
Length:  3652842

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  19  of  23  ( 2702 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)
2961652--2961690	13	3.0	13	96	0	69	30	17	15	35	1.91
2961802--2961847	21	2.2	20	81	11	58	32	19	4	43	1.71
2964605--2964810	28	7.3	28	93	1	358	21	16	33	28	1.95
2964612--2964810	85	2.4	84	97	0	371	20	17	33	29	1.95
2965981--2966032	1	52.0	1	84	0	68	0	1	5	92	0.45
2965981--2966033	16	3.5	15	85	10	81	0	1	7	90	0.52
2965973--2966032	19	3.2	18	88	9	84	1	3	5	90	0.61
2981864--2981916	19	2.7	20	76	2	54	41	20	9	28	1.83
2981823--2982104	135	2.1	135	95	0	501	35	15	17	31	1.91
2982003--2982049	19	2.4	20	85	3	60	38	17	12	31	1.87
2982192--2982244	22	2.5	22	81	9	56	43	9	7	39	1.65
2990655--2990720	32	2.0	33	85	8	91	40	12	16	30	1.85
2990744--2990847	32	3.2	32	87	2	163	37	16	12	33	1.86
2990804--2990828	13	1.9	13	100	0	50	32	16	16	36	1.90
2995826--2995966	52	2.7	52	91	0	228	30	17	18	34	1.94
2995955--2995979	13	1.9	13	100	0	50	36	16	16	32	1.90
2996044--2996068	13	1.9	13	100	0	50	32	16	16	36	1.90
2996022--2996088	33	2.0	33	88	0	98	40	13	11	34	1.81
2997001--2997069	22	3.2	22	63	19	54	30	17	26	26	1.97
2996935--2998735	49	36.7	49	86	4	2460	31	17	26	24	1.97
2996935--2998735	98	18.4	98	90	4	2748	31	17	26	24	1.97
2996920--2998735	198	9.3	198	92	3	2855	31	17	26	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2998735--2998807	33	2.2	33	92	2	130	20	16	35	27	1.94
2998789--2999507	34	21.4	35	80	12	696	32	12	34	21	1.90
2998810--2999507	133	5.2	132	80	12	634	32	12	34	20	1.90
2999116--2999509	98	4.1	95	88	5	533	31	13	34	20	1.91
2999348--2999466	61	1.9	63	89	5	188	29	14	36	20	1.92
2999310--2999571	131	2.0	135	82	7	322	33	14	30	20	1.93
3000861--3000924	24	2.5	26	90	7	96	0	0	9	90	0.45
3000861--3000924	29	2.2	29	89	8	96	0	0	9	90	0.45
3000860--3000924	28	2.3	28	89	5	96	0	0	9	90	0.44
3000862--3000936	39	1.9	39	86	5	107	2	2	8	86	0.75
3000860--3000924	1	65.0	1	81	0	76	0	0	9	90	0.44
3007812--3007952	52	2.7	52	91	0	228	30	17	18	34	1.94
3007941--3007965	13	1.9	13	100	0	50	36	16	16	32	1.90
3008030--3008054	13	1.9	13	100	0	50	32	16	16	36	1.90
3008008--3008074	33	2.0	33	88	0	98	40	13	11	34	1.81
3009974--3010027	20	2.7	19	86	11	65	35	16	14	33	1.90
3010056--3010111	19	2.9	19	89	2	76	35	14	16	33	1.88
3010096--3010132	13	2.8	13	100	0	74	37	8	16	37	1.78
3010509--3010562	20	2.7	19	85	5	72	53	20	7	18	1.68
3010509--3010585	33	2.3	33	77	4	84	51	18	9	20	1.72
3015242--3015294	21	2.5	22	76	14	58	33	1	0	64	1.05
3015242--3015289	11	4.5	11	78	5	53	33	2	0	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3016450--3016571	37	3.5	37	72	22	95	57	0	2	39	1.18
3016475--3016531	30	1.9	30	92	0	96	57	0	1	40	1.09
3016543--3016648	24	4.3	24	72	18	76	51	2	1	43	1.27
3017305--3017335	16	1.9	16	93	0	53	58	16	3	22	1.52
3017561--3017605	24	1.9	23	82	13	56	46	6	0	46	1.29
3018616--3018662	19	2.6	18	83	6	58	40	6	2	51	1.39
3019116--3019173	20	3.2	19	77	20	61	60	1	0	37	1.07
3019129--3019172	18	2.5	19	82	14	58	61	2	0	36	1.09
3019378--3019478	16	6.4	16	80	6	89	62	1	0	34	1.13
3019366--3019462	32	3.1	31	73	18	92	58	2	2	37	1.21
3023920--3024332	209	2.0	210	85	4	557	25	10	17	46	1.80
3024483--3024532	23	2.2	23	92	0	82	52	12	12	24	1.72
3027745--3027769	1	25.0	1	100	0	50	0	0	0	100	0.00
3034418--3034458	3	13.7	3	94	0	64	68	4	0	26	1.10
3034473--3034649	87	2.0	87	96	0	327	19	25	32	22	1.97
3034683--3034744	31	2.1	29	90	6	97	27	9	3	59	1.44
3035985--3036033	8	6.1	8	100	0	98	51	0	24	24	1.49
3038079--3038103	13	1.9	13	100	0	50	36	16	16	32	1.90
3038088--3038146	20	3.0	20	82	7	77	37	16	15	30	1.90
3038190--3038219	13	2.3	13	100	0	60	33	16	13	36	1.88
3040614--3040683	31	2.2	32	87	7	99	28	17	18	35	1.93
3042085--3042123	9	4.2	9	96	3	69	87	0	12	0	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3042088--3042125	13	3.0	13	88	3	51	89	0	10	0	0.49
3046675--3046714	19	2.1	19	85	0	53	15	10	7	67	1.41
3056424--3056497	1	74.0	1	75	0	58	86	9	2	1	0.73
3056424--3056494	18	3.8	18	88	7	90	85	9	2	1	0.75
3056426--3056496	31	2.3	31	85	4	90	85	9	2	1	0.75
3056424--3056496	28	2.5	27	84	8	83	86	9	2	1	0.73
3056423--3056497	13	5.9	12	77	11	78	85	10	2	1	0.76
3057713--3058266	28	18.9	28	83	6	500	29	29	18	22	1.97
3065137--3065211	20	3.8	20	78	0	78	34	12	12	41	1.79
3066110--3066166	24	2.5	22	89	10	96	17	10	8	63	1.51
3066116--3066166	24	2.1	24	100	0	102	15	7	7	68	1.37
3073729--3073859	52	2.5	52	94	0	235	29	16	20	34	1.94
3073847--3073896	17	2.7	19	84	9	68	40	14	18	28	1.89
3073880--3073920	21	2.0	21	95	0	73	34	7	17	41	1.77
3073934--3074002	32	2.1	33	97	2	131	34	18	11	34	1.87
3073958--3073982	13	1.9	13	100	0	50	32	16	16	36	1.90
3074726--3074848	49	2.5	49	95	0	219	33	15	27	23	1.95
3074863--3075429	43	11.9	52	77	13	204	32	17	24	25	1.97
3074926--3075429	92	5.4	92	86	6	557	31	17	25	25	1.97
3075063--3075429	135	2.7	135	88	3	545	30	18	25	25	1.98
3075155--3075222	21	3.2	21	63	19	50	32	19	25	23	1.97
3074970--3075416	227	2.0	227	94	0	788	31	18	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3075424--3075626	33	6.2	33	89	5	306	20	17	33	28	1.95
3075628--3076027	34	12.4	34	74	14	348	32	14	34	19	1.91
3075641--3075817	61	2.8	63	89	5	261	31	12	35	20	1.91
3075757--3076044	65	4.4	65	83	8	338	32	13	34	20	1.91
3075651--3075981	163	2.0	161	92	2	556	32	13	34	19	1.91
3075791--3076037	127	2.0	126	89	5	383	30	14	34	20	1.92
3084289--3084417	52	2.5	52	94	0	231	28	17	18	34	1.94
3084493--3084555	19	3.7	18	76	24	73	38	17	11	33	1.85
3084488--3084588	32	3.1	32	91	1	157	37	16	9	35	1.82
3085836--3085908	20	3.6	20	81	3	101	35	13	19	31	1.91
3085854--3085929	21	3.7	21	80	3	100	42	11	17	28	1.84
3085836--3085929	41	2.3	41	98	0	179	39	12	18	29	1.88
3085968--3085993	13	2.0	13	100	0	52	38	15	15	30	1.88
3090055--3090085	15	2.1	15	93	0	53	48	16	22	12	1.80
3092099--3092177	20	3.7	21	75	15	72	26	13	15	44	1.84
3092164--3092202	13	3.0	13	96	0	69	30	17	15	35	1.91
3094644--3094716	20	3.6	20	81	3	101	35	13	19	31	1.91
3094662--3094737	21	3.7	21	80	3	100	42	11	17	28	1.84
3094644--3094737	41	2.3	41	98	0	179	39	12	18	29	1.88
3094776--3094801	13	2.0	13	100	0	52	38	15	15	30	1.88
3096355--3096511	62	2.6	60	84	6	178	24	27	14	33	1.94
3096369--3096622	32	8.4	29	72	11	154	25	28	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096369--3096564	89	2.2	91	86	1	270	25	27	12	34	1.92
3096372--3096571	29	6.7	29	73	12	109	25	27	13	34	1.93
3096573--3096831	33	8.0	32	83	5	290	29	31	17	22	1.96
3096916--3097347	206	2.1	207	83	4	550	23	24	15	35	1.94
3096903--3097361	52	8.9	52	77	8	341	23	24	15	36	1.94
3096978--3097362	156	2.5	154	78	6	386	24	24	15	35	1.94
3097986--3098023	20	1.9	20	94	0	67	28	18	7	44	1.78
3097934--3098064	51	2.5	52	86	1	183	32	16	9	42	1.79
3102908--3102957	20	2.4	21	86	3	66	42	12	16	30	1.84
3103045--3103099	20	2.8	20	91	0	83	30	12	10	45	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23