genome.fa.s158.2.7.7.80.10.50.1000.8.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: Scaffold158
Parameters: 2 7 7 80 10 50 1000
Length:  1811518

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  8  of  13  ( 1497 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)
1016755--1016821	21	3.1	21	75	16	57	65	1	0	32	1.02
1016720--1016823	21	5.1	20	68	18	54	65	0	0	33	0.99
1016825--1016897	29	2.4	31	90	6	123	0	16	0	83	0.64
1016825--1016895	4	18.8	4	84	8	87	0	16	0	83	0.66
1016825--1016898	30	2.5	29	93	4	121	0	17	0	82	0.67
1017038--1017077	15	2.5	16	88	8	55	57	0	0	42	0.98
1017038--1017080	16	2.6	17	85	10	63	55	0	0	44	0.99
1017090--1017143	19	3.1	19	76	12	62	50	0	0	50	1.00
1017037--1017136	32	2.8	35	72	21	91	54	0	0	46	1.00
1017091--1017149	18	3.2	19	80	9	68	49	0	0	50	1.00
1018412--1018483	12	6.1	12	82	9	67	2	15	0	81	0.79
1018415--1018486	11	6.6	10	83	12	72	1	15	0	83	0.72
1018414--1018486	8	9.8	8	75	19	68	1	15	0	83	0.71
1018414--1018486	36	2.1	35	85	12	96	1	15	0	83	0.71
1018418--1018484	28	2.4	27	80	11	82	1	16	0	82	0.75
1020777--1020805	14	2.1	14	100	0	58	65	6	6	20	1.40
1024682--1024896	64	3.5	64	77	14	179	38	15	14	31	1.88
1024736--1024955	64	3.5	63	75	10	189	38	14	16	31	1.88
1027306--1027344	20	2.0	20	89	0	60	30	25	12	30	1.93
1031550--1031599	17	3.1	17	72	21	61	52	6	0	42	1.26
1031548--1031598	15	3.4	14	72	27	50	50	5	0	43	1.26
1047527--1047579	12	4.4	12	74	9	54	43	1	3	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047489--1047599	36	3.1	36	88	2	170	44	0	3	51	1.25
1047598--1047649	15	3.3	15	75	19	61	44	5	0	50	1.26
1047754--1047802	21	2.3	21	82	6	55	48	2	0	48	1.12
1048300--1048333	17	1.9	17	88	5	50	35	5	17	41	1.74
1054129--1054165	5	7.4	5	100	0	74	18	0	0	81	0.70
1056908--1057246	59	5.8	58	76	5	252	32	10	10	46	1.73
1057054--1057150	29	3.2	30	66	13	83	28	10	11	49	1.71
1057322--1057431	49	2.3	49	88	3	161	37	13	10	39	1.78
1060243--1060300	21	2.7	21	79	10	55	0	20	3	75	0.94
1060244--1060300	22	2.6	21	83	8	69	0	19	3	77	0.92
1060244--1060300	12	5.2	11	80	18	57	0	19	3	77	0.92
1060640--1062289	842	2.0	827	86	3	2315	34	14	12	38	1.83
1062590--1062619	5	6.0	5	100	0	60	80	0	0	20	0.72
1067501--1067537	12	3.0	12	84	7	56	70	0	0	29	0.88
1069788--1069827	21	2.0	20	85	14	55	40	0	0	60	0.97
1075310--1075335	3	8.7	3	100	0	52	34	0	0	65	0.93
1076337--1076369	2	16.5	2	100	0	66	51	0	0	48	1.00
1078532--1078566	2	17.5	2	100	0	70	0	51	0	48	1.00
1086068--1086100	8	4.2	8	92	3	50	3	0	9	87	0.63
1089967--1089997	4	8.0	4	92	7	55	77	0	0	22	0.77
1090317--1090346	15	1.9	15	93	6	51	16	0	36	46	1.47
1094611--1094642	2	16.0	2	100	0	64	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099602--1099639	2	19.0	2	88	0	58	0	44	2	52	1.14
1102392--1102428	2	18.5	2	100	0	74	51	0	0	48	1.00
1102428--1102462	2	17.5	2	100	0	70	51	0	48	0	1.00
1116571--1116628	30	1.9	30	89	6	91	34	24	5	36	1.78
1120383--1120511	54	2.4	54	94	1	222	22	9	27	41	1.84
1124735--1124775	19	2.1	20	86	4	57	75	2	0	21	0.92
1126280--1126347	34	2.0	34	88	0	100	13	35	25	26	1.92
1131254--1131303	25	2.0	25	96	0	91	32	34	12	22	1.90
1131973--1131997	13	1.9	13	100	0	50	36	16	16	32	1.90
1131952--1132016	33	2.0	33	87	0	94	26	10	23	40	1.87
1132781--1132869	13	5.9	13	72	27	70	34	13	17	33	1.89
1132761--1132890	32	4.0	32	97	1	242	34	12	17	35	1.87
1132759--1132888	19	7.8	18	70	29	110	33	12	17	36	1.87
1132931--1132955	13	1.9	13	100	0	50	32	16	16	36	1.90
1132964--1133088	52	2.4	52	97	0	232	35	18	18	28	1.94
1138342--1138379	20	1.9	20	88	0	58	34	7	13	44	1.72
1141376--1141416	20	2.0	20	100	0	82	36	19	9	34	1.85
1141431--1141539	52	2.1	52	91	0	173	35	18	16	29	1.93
1145632--1145658	10	2.7	10	100	0	54	0	0	22	77	0.76
1155347--1155459	1	113.0	1	76	0	73	84	9	3	1	0.80
1155347--1155459	14	7.8	14	77	14	113	84	9	3	1	0.80
1155347--1155459	51	2.2	51	84	6	140	84	9	3	1	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155345--1155459	35	3.2	34	77	12	99	83	11	3	1	0.84
1156899--1157484	30	20.1	29	78	9	518	30	29	17	23	1.97
1157111--1157477	115	3.2	115	92	1	581	31	29	18	20	1.96
1157473--1157681	52	4.2	52	76	12	204	24	24	16	33	1.95
1157488--1157577	43	2.1	43	93	0	153	26	24	17	31	1.97
1158546--1158603	20	3.0	20	84	2	73	29	10	13	46	1.77
1158642--1158666	13	1.9	13	100	0	50	32	16	16	36	1.90
1158675--1159011	52	6.5	52	95	0	584	35	18	17	28	1.94
1158655--1159011	156	2.3	156	95	0	644	34	18	17	29	1.94
1165304--1165353	20	2.6	19	87	6	66	42	16	16	26	1.88
1170812--1170839	13	2.2	13	100	0	56	39	17	14	28	1.89
1170883--1170921	19	2.1	19	90	4	62	38	17	10	33	1.84
1170891--1170975	19	4.7	19	71	20	74	34	16	11	37	1.85
1170814--1170955	32	4.5	32	75	11	130	33	15	14	35	1.88
1171011--1171066	21	2.7	21	100	0	112	35	14	14	35	1.86
1171819--1172010	52	3.8	52	85	4	273	30	18	27	23	1.98
1171979--1172396	39	9.8	39	68	17	235	27	18	26	27	1.98
1172102--1172501	48	8.8	48	69	16	296	28	17	26	27	1.98
1171925--1172401	87	5.4	87	92	1	749	27	18	26	27	1.98
1172501--1172651	61	2.5	60	87	4	216	33	11	31	23	1.91
1172501--1173082	27	18.8	32	75	14	276	32	13	31	21	1.93
1172539--1172744	93	2.2	94	88	4	301	35	12	30	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172620--1172799	60	3.0	60	84	0	216	33	14	31	21	1.93
1172781--1173081	32	9.6	32	79	12	304	31	14	31	22	1.94
1172781--1173085	93	3.2	93	88	2	423	32	14	31	21	1.93
1174264--1174324	22	2.8	20	78	12	50	4	8	14	72	1.26
1181241--1181268	13	2.2	13	100	0	56	39	17	14	28	1.89
1181223--1181288	33	2.0	33	88	5	98	40	13	15	30	1.85
1181320--1181382	19	3.6	19	72	24	66	36	19	9	34	1.84
1181307--1181384	32	2.4	32	93	0	129	34	17	11	35	1.86
1184188--1184367	99	1.8	99	95	0	324	34	9	11	44	1.73
1192544--1192630	31	2.8	31	80	0	102	20	26	26	26	1.99
1192332--1192922	149	4.0	149	84	1	693	21	23	23	30	1.99
1192689--1192776	31	2.8	31	84	0	122	13	26	30	29	1.94
1192842--1192922	31	2.6	31	75	11	85	17	24	25	32	1.97
1193055--1193263	42	4.9	41	78	8	177	41	13	24	20	1.89
1193373--1193752	32	12.1	32	70	13	206	40	10	26	22	1.87
1193462--1193632	94	1.8	93	86	3	245	39	10	25	23	1.87
1193574--1193784	91	2.4	89	77	10	223	38	10	25	25	1.88
1194962--1195003	7	6.1	7	83	5	50	14	4	0	80	0.86
1194932--1195003	35	2.1	35	84	10	94	12	8	4	75	1.18
1199855--1199891	2	18.5	2	100	0	74	48	0	0	51	1.00
1202769--1203200	79	5.5	80	74	11	266	37	10	21	30	1.87
1202734--1203191	159	2.9	158	79	6	469	37	10	22	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1205611--1205665	20	2.7	21	80	5	67	32	18	12	36	1.88
1206387--1206439	20	2.6	21	91	5	83	30	16	13	39	1.87
1209717--1209741	13	1.9	13	100	0	50	36	16	16	32	1.90
1209763--1209860	19	5.8	18	71	28	90	36	17	12	33	1.87
1209758--1209858	32	3.1	32	97	1	184	35	17	11	34	1.87
1209782--1209838	13	3.9	13	76	24	60	33	17	14	35	1.90
1210486--1210906	52	7.8	52	72	14	180	36	14	23	25	1.93
1210630--1210756	67	1.9	68	88	1	193	39	12	24	23	1.89
1210746--1210905	43	3.2	52	77	16	167	35	16	23	25	1.94
1210428--1211575	227	5.1	224	81	8	1390	36	14	24	24	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13