genome.fa.s365.2.7.7.80.10.50.1000.7.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: Scaffold365
Parameters: 2 7 7 80 10 50 1000
Length:  1826335

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

This is table  7  of  11  ( 1288 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)
992846--992871	13	2.0	13	100	0	52	30	15	15	38	1.88
995441--995466	13	2.0	13	100	0	52	38	15	15	30	1.88
997541--997571	15	2.1	15	93	0	53	12	22	16	48	1.80
1005086--1005154	10	6.8	10	80	9	68	85	7	5	1	0.79
1005121--1005172	7	7.7	7	82	4	63	82	0	17	0	0.66
1005087--1005169	17	4.8	17	78	11	71	84	4	9	1	0.82
1005087--1005169	9	9.2	9	76	13	64	84	4	9	1	0.82
1005087--1005154	1	68.0	1	73	0	55	86	5	5	1	0.75
1008037--1008148	51	2.2	51	79	3	118	30	24	13	32	1.93
1007959--1008232	130	2.1	129	83	0	350	30	25	12	32	1.92
1008139--1008293	79	2.0	80	81	3	188	25	26	14	32	1.95
1013420--1013455	17	2.1	17	94	0	63	58	13	11	16	1.63
1016782--1016811	13	2.3	13	94	0	51	33	6	20	40	1.78
1016858--1016961	19	5.7	19	84	14	148	35	14	20	29	1.92
1016858--1016992	32	4.0	32	86	7	153	37	14	18	29	1.91
1016914--1016972	13	5.1	13	69	26	60	37	15	16	30	1.90
1017002--1017155	71	2.2	71	90	0	200	32	16	12	38	1.86
1018506--1018578	20	3.7	19	75	3	65	35	12	17	34	1.88
1018868--1018914	22	2.1	22	84	0	58	34	19	12	34	1.89
1019003--1019695	52	12.9	51	72	13	382	38	3	6	51	1.43
1019073--1019695	108	5.9	106	76	10	521	38	3	5	51	1.43
1019073--1019695	265	2.4	265	81	8	673	38	3	5	51	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019126--1019701	213	2.7	207	78	10	572	38	3	5	51	1.44
1021168--1021576	153	2.7	155	80	6	454	39	18	14	27	1.90
1024890--1024917	13	2.2	13	100	0	56	39	17	14	28	1.89
1024873--1024937	33	2.0	33	84	6	87	40	12	16	30	1.86
1031125--1031249	20	5.8	20	75	20	117	37	12	16	33	1.86
1031265--1031353	13	6.0	13	71	25	61	31	19	14	34	1.92
1031266--1031370	32	3.3	32	91	2	176	32	18	14	35	1.90
1031994--1032023	15	2.0	15	93	0	51	40	13	16	30	1.87
1036092--1036118	13	2.1	13	100	0	54	29	14	14	40	1.86
1036102--1036156	19	2.8	19	83	2	74	32	20	14	32	1.92
1036208--1036232	13	1.9	13	100	0	50	36	16	16	32	1.90
1042403--1042427	13	1.9	13	100	0	50	32	16	20	32	1.94
1044240--1044296	22	2.7	21	83	8	62	35	5	15	43	1.70
1044592--1044642	20	2.5	20	83	0	75	33	9	17	39	1.83
1045756--1045867	41	2.7	41	81	0	125	41	18	22	17	1.91
1045759--1045908	41	3.7	41	78	0	111	40	17	23	18	1.91
1045912--1045992	41	2.0	40	80	7	92	43	16	22	18	1.88
1049693--1049774	1	82.0	1	100	0	164	0	100	0	0	0.00
1052829--1052878	2	25.0	2	100	0	100	50	0	0	50	1.00
1058023--1058069	23	2.0	23	100	0	94	23	8	12	55	1.64
1063090--1063129	21	2.0	21	85	5	55	57	17	12	12	1.65
1066079--1066377	151	2.0	150	90	3	467	32	9	18	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070521--1070550	14	2.1	14	93	0	51	20	16	20	43	1.88
1071843--1071884	21	2.0	21	95	0	75	33	14	16	35	1.89
1075310--1075335	13	2.0	13	100	0	52	38	15	15	30	1.88
1079399--1079429	15	2.1	15	93	0	53	48	16	22	12	1.80
1080525--1080562	15	2.5	15	91	0	58	42	21	7	28	1.81
1080534--1080566	15	2.2	15	100	0	66	42	24	6	27	1.78
1082090--1082136	21	2.3	20	82	10	60	31	19	4	44	1.70
1084455--1084480	13	2.0	13	100	0	52	38	15	15	30	1.88
1086222--1086284	33	1.9	33	87	6	92	41	14	14	30	1.85
1086315--1086389	21	3.7	20	87	3	98	34	16	10	38	1.83
1089034--1089110	20	3.8	20	77	6	84	41	10	14	33	1.80
1090065--1090139	20	3.8	20	87	0	114	32	14	13	40	1.85
1096971--1097044	21	3.6	20	81	3	85	35	18	12	33	1.88
1097682--1097728	18	2.5	19	93	6	87	44	4	4	46	1.42
1098291--1098424	9	13.3	10	66	26	70	56	10	12	20	1.65
1100882--1100935	21	2.6	21	84	0	63	46	12	11	29	1.77
1100994--1101113	52	2.4	50	82	2	132	27	13	13	45	1.80
1101182--1101297	57	2.0	57	98	0	223	31	19	15	32	1.93
1106065--1106100	4	9.2	4	93	6	65	0	22	0	77	0.76
1111560--1111614	20	2.7	21	86	8	78	38	10	16	34	1.84
1119453--1119573	52	2.3	52	95	0	215	28	17	18	35	1.93
1119453--1119593	52	2.7	51	89	4	203	30	17	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119582--1119606	13	1.9	13	100	0	50	36	16	16	32	1.90
1119593--1119651	21	2.8	21	100	0	118	33	10	16	38	1.83
1119672--1119732	19	3.6	18	68	25	51	40	18	8	32	1.80
1119672--1119765	32	2.9	32	95	1	161	38	18	9	34	1.83
1129261--1129310	16	3.1	15	91	8	73	84	12	0	4	0.76
1129251--1129309	17	3.4	17	90	6	84	83	10	1	5	0.88
1130485--1131459	28	33.9	28	82	5	1047	28	29	17	23	1.97
1130485--1131463	58	17.0	57	84	5	1117	28	29	17	23	1.97
1130485--1131459	86	11.3	85	86	4	1158	28	29	17	23	1.97
1132359--1132413	20	2.8	20	85	0	74	32	9	12	45	1.74
1139167--1140256	166	6.6	164	84	3	1241	28	11	8	52	1.66
1140046--1140081	18	1.9	19	88	5	56	36	13	2	47	1.58
1139167--1140256	165	6.6	163	84	5	1225	28	11	8	52	1.66
1140699--1140736	14	2.9	13	84	7	51	76	0	23	0	0.79
1140711--1140758	21	2.3	21	82	7	53	75	0	18	6	1.01
1140699--1140749	12	4.3	12	76	14	52	76	0	21	1	0.88
1141824--1142313	161	3.1	160	89	2	761	33	11	13	40	1.81
1142563--1142937	155	2.4	154	80	4	387	24	16	20	39	1.92
1144598--1144622	13	1.9	13	100	0	50	36	16	16	32	1.90
1144578--1144644	33	2.0	33	88	0	98	32	11	14	40	1.83
1144685--1144709	13	1.9	13	100	0	50	32	16	16	36	1.90
1144718--1144846	52	2.5	52	96	0	231	34	17	17	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145040--1146354	48	27.5	48	87	4	1804	25	26	18	30	1.98
1145040--1146362	289	4.6	288	88	4	1811	25	26	18	30	1.98
1146272--1146372	52	1.9	52	85	0	139	24	23	14	36	1.93
1146272--1146714	177	2.5	177	88	3	646	24	24	13	36	1.92
1146619--1146813	53	3.7	52	78	4	158	24	25	14	34	1.94
1147431--1147455	13	1.9	13	100	0	50	36	16	16	32	1.90
1147413--1147477	33	2.0	33	87	0	94	33	12	13	40	1.82
1147518--1147542	13	1.9	13	100	0	50	32	16	16	36	1.90
1147551--1147679	52	2.5	52	90	0	195	36	15	16	31	1.90
1153822--1153854	5	6.6	5	89	10	50	84	0	15	0	0.61
1153821--1153855	14	2.4	14	95	4	61	82	0	17	0	0.66
1155858--1156700	47	18.0	47	74	6	550	23	20	17	38	1.93
1155887--1156704	140	5.8	141	80	4	622	23	20	17	38	1.93
1155911--1156700	93	8.5	92	76	7	366	23	20	17	38	1.93
1157934--1157997	32	2.0	33	90	3	103	26	12	14	46	1.79
1158971--1160157	164	7.2	163	81	8	1236	29	11	7	51	1.65
1158998--1160158	501	2.3	494	82	6	1409	29	11	7	51	1.64
1160730--1160775	20	2.3	19	82	10	56	76	0	13	10	1.03
1164375--1164447	20	3.7	19	81	3	74	38	15	17	28	1.90
1164375--1164428	19	2.8	20	82	2	74	37	14	18	29	1.91
1165141--1165198	26	2.2	26	87	0	80	29	25	5	39	1.77
1167083--1167136	20	2.7	20	94	0	90	38	18	7	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169649--1169704	19	2.9	19	89	2	85	37	12	19	30	1.89
1170063--1170524	161	2.9	161	87	3	662	33	11	14	41	1.81
1170063--1170525	160	2.9	159	88	3	650	33	11	14	41	1.81
1170801--1171175	154	2.4	153	83	4	450	21	14	22	41	1.89
1173488--1173544	23	2.5	23	94	2	98	52	8	21	17	1.71
1174406--1174580	90	1.9	91	84	3	237	41	10	16	31	1.82
1175008--1175082	20	3.8	20	91	3	116	28	16	13	42	1.85
1177383--1177606	51	4.4	51	75	5	220	27	25	13	34	1.93
1177384--1177606	102	2.2	102	84	3	279	27	25	13	34	1.93
1177627--1177734	51	2.1	50	81	5	126	33	27	7	31	1.84

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