genome.fa.s344.2.7.7.80.10.50.1000.6.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: Scaffold344
Parameters: 2 7 7 80 10 50 1000
Length:  1758742

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  6  of  11  ( 1257 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)
904437--906573	28	76.3	29	83	7	1896	25	16	29	27	1.97
914918--914993	20	3.8	20	79	6	91	39	13	13	34	1.83
914915--914993	40	2.0	39	87	2	113	39	13	12	34	1.83
918238--918288	21	2.4	21	78	12	52	54	3	3	37	1.37
920403--920477	20	3.8	20	76	0	78	37	13	9	40	1.77
920403--920480	40	2.0	39	84	2	102	37	12	10	39	1.78
928917--929435	27	19.0	27	91	2	815	23	35	14	26	1.93
928922--929433	82	6.3	82	92	2	800	24	35	14	26	1.93
928927--930858	64	33.2	58	88	4	1471	27	33	17	21	1.95
928955--930858	96	21.8	88	87	6	1457	27	33	17	21	1.95
928926--930858	28	66.4	28	89	4	1569	27	33	17	21	1.95
930804--930879	30	2.5	30	84	2	98	30	31	13	25	1.93
931487--931564	40	2.0	39	82	2	93	37	11	10	41	1.75
938287--938317	16	1.9	16	93	0	53	87	0	9	3	0.66
938930--938971	15	2.8	15	82	10	59	66	0	21	11	1.23
938970--939111	71	2.0	72	88	6	216	55	4	18	21	1.59
945198--945231	2	17.0	2	100	0	68	50	0	0	50	1.00
947431--947502	37	1.9	37	97	0	135	41	13	20	23	1.88
947817--947862	24	1.9	24	86	8	67	21	0	8	69	1.15
947824--947859	15	2.2	16	90	9	56	22	0	5	72	1.05
948339--948438	16	6.3	16	79	4	96	43	0	5	52	1.23
948889--948942	20	2.8	19	76	17	58	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948884--948934	14	3.6	14	83	2	66	64	0	0	35	0.94
949672--949763	38	2.4	39	80	12	109	45	1	0	53	1.07
950058--950096	13	2.9	13	85	7	51	43	2	2	51	1.29
953724--953750	2	13.5	2	100	0	54	51	0	0	48	1.00
954265--954296	3	10.3	3	93	6	55	34	0	0	65	0.93
959023--959065	6	6.8	6	79	10	50	25	0	0	74	0.82
959021--959063	19	2.2	20	87	8	61	27	0	0	72	0.85
959021--959070	19	2.6	19	81	9	57	30	0	0	70	0.88
960031--960117	40	2.2	39	85	6	111	47	0	3	49	1.18
960768--960871	35	2.9	36	75	12	99	51	0	0	48	1.00
968160--968206	2	24.0	2	80	4	51	53	6	0	40	1.27
968388--968415	2	14.0	2	100	0	56	0	50	0	50	1.00
972199--972230	13	2.3	15	89	10	50	0	15	3	81	0.82
975413--975446	2	17.0	2	87	0	50	47	2	2	47	1.32
981106--981160	19	2.8	20	83	5	69	36	14	18	30	1.91
981911--981944	3	11.3	3	93	0	59	32	0	2	64	1.08
982493--982577	13	6.2	13	72	23	52	60	0	2	37	1.10
982520--982578	20	2.9	20	76	16	59	57	0	3	38	1.15
982571--982609	15	2.5	17	84	16	57	53	2	0	43	1.14
985879--985938	29	2.1	30	87	6	88	53	0	0	46	1.00
985870--985938	29	2.3	30	80	12	79	50	1	0	47	1.09
986943--986988	24	1.9	24	95	0	83	45	6	6	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
986941--987000	24	2.8	22	81	16	72	45	5	5	45	1.47
992847--992880	17	2.0	17	88	0	50	50	2	0	47	1.16
992864--992890	14	1.9	14	100	0	54	55	0	0	44	0.99
992862--992892	14	2.3	13	89	10	53	48	0	0	51	1.00
994771--994839	29	2.4	29	80	4	77	57	2	0	39	1.13
994806--994845	15	2.7	15	84	7	55	57	0	0	42	0.98
994769--994839	15	4.9	15	68	14	60	57	2	0	39	1.13
994791--994852	30	2.1	30	81	6	72	58	1	0	40	1.08
995022--995053	12	2.6	13	90	9	50	43	0	6	50	1.27
995514--995712	101	2.0	101	97	0	380	38	6	8	47	1.58
996197--996298	47	2.2	47	90	0	159	48	5	4	41	1.49
996704--996747	3	14.7	3	100	0	88	65	0	0	34	0.93
997303--997349	19	2.6	17	86	10	58	44	0	0	55	0.99
997387--997420	18	1.9	17	88	5	50	47	2	5	44	1.42
999306--999339	15	2.3	15	89	0	50	32	0	17	50	1.47
999351--999384	17	2.0	17	88	0	50	20	11	17	50	1.77
1003473--1003520	18	2.5	20	83	13	64	45	6	0	47	1.27
1003979--1004030	20	2.5	21	78	3	61	32	0	3	63	1.12
1003917--1004465	302	1.8	298	84	4	755	42	2	6	47	1.44
1006185--1006228	23	1.9	23	90	0	70	43	2	6	47	1.42
1006181--1006230	23	2.1	24	81	3	66	38	2	8	52	1.43
1010541--1010608	29	2.3	30	82	2	84	54	4	2	38	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1014509--1014579	23	3.2	23	68	22	69	39	15	12	32	1.85
1014525--1014600	21	3.5	21	68	19	66	34	18	13	34	1.89
1014502--1014601	44	2.3	44	96	0	182	36	16	14	34	1.88
1014661--1014705	21	2.2	20	84	11	56	40	15	15	28	1.88
1018902--1019017	51	2.3	52	80	4	130	33	12	24	29	1.92
1021441--1021494	20	2.7	20	85	0	81	42	12	14	29	1.83
1021393--1021544	70	2.2	70	86	1	216	40	16	15	27	1.88
1022241--1022290	22	2.3	21	80	12	57	32	14	6	48	1.67
1022253--1022311	21	2.7	22	86	5	84	30	11	6	50	1.65
1022349--1022377	13	2.2	13	100	0	58	34	6	6	51	1.55
1022664--1022723	21	2.8	20	80	9	57	33	6	20	40	1.78
1022672--1022736	21	3.1	21	82	4	69	33	7	16	41	1.77
1022902--1022941	21	2.0	20	85	5	53	30	2	17	50	1.59
1026838--1026893	21	2.7	21	97	0	103	33	14	19	32	1.92
1027356--1027620	77	3.4	77	75	12	205	39	12	27	21	1.88
1027490--1027659	41	4.0	44	80	8	165	42	10	25	21	1.85
1027483--1027687	42	5.0	41	78	10	179	40	12	27	20	1.87
1027490--1027659	85	2.0	86	87	3	245	42	10	25	21	1.85
1027512--1027686	41	4.2	41	78	11	146	40	12	27	20	1.87
1027665--1028560	62	14.5	62	84	3	1043	31	18	25	25	1.97
1027665--1028559	125	7.2	124	83	3	1034	31	18	25	25	1.97
1028563--1028624	30	2.1	30	84	6	81	30	8	30	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030313--1030436	51	2.5	50	85	5	162	34	12	25	27	1.91
1030376--1030593	80	2.8	78	86	4	278	31	11	27	29	1.92
1030531--1030630	51	2.0	51	84	7	132	31	10	29	30	1.89
1030450--1030758	129	2.4	129	83	6	358	33	11	25	29	1.91
1030286--1030725	209	2.1	209	83	7	547	33	12	25	28	1.93
1030581--1030727	79	1.9	79	84	4	199	31	12	25	29	1.93
1034338--1034455	52	2.3	52	96	0	218	29	17	17	34	1.94
1034338--1034475	52	2.7	52	89	4	199	31	17	17	33	1.93
1034461--1034488	13	2.2	13	100	0	56	39	17	14	28	1.89
1034527--1034583	20	3.0	19	85	7	71	45	14	10	29	1.78
1043223--1043328	51	2.1	51	89	0	158	37	11	21	29	1.88
1043272--1043556	79	3.6	78	81	9	319	35	13	23	27	1.93
1043185--1043418	130	1.8	130	85	1	335	36	14	21	27	1.92
1044488--1044945	43	9.6	50	76	13	357	31	17	26	24	1.97
1044595--1044951	43	7.9	43	81	9	399	29	17	27	24	1.98
1044595--1044947	92	3.9	87	86	8	395	30	18	27	24	1.98
1044732--1044798	21	3.1	21	62	26	50	26	17	29	25	1.98
1044542--1044960	228	1.8	229	91	2	689	31	17	26	24	1.97
1044958--1045422	33	14.2	33	88	5	678	19	17	34	28	1.94
1045422--1046641	34	36.8	34	76	13	878	34	13	32	19	1.90
1045422--1046641	68	18.4	68	81	10	1173	34	13	32	19	1.90
1046350--1046546	60	3.1	62	77	13	195	35	11	31	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045419--1046641	163	7.4	165	80	11	1105	34	13	32	19	1.90
1046513--1046634	60	2.0	62	87	3	176	32	13	31	22	1.92
1046772--1046809	16	2.3	17	86	4	51	26	5	23	44	1.74
1047624--1047691	1	68.0	1	76	0	64	0	2	8	88	0.62
1047624--1047690	10	6.5	10	85	11	82	0	2	8	88	0.62
1047624--1047692	17	4.0	16	85	12	84	0	2	10	86	0.66
1047624--1047691	27	2.5	26	86	9	100	0	2	8	88	0.62
1053866--1054202	52	6.4	52	67	16	185	32	11	25	30	1.92
1054018--1054093	27	2.8	28	82	9	86	23	19	31	25	1.98
1053801--1054204	212	1.9	212	86	5	584	32	12	25	28	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11