genome.fa.s279.2.7.7.80.10.50.1000.8.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: Scaffold279
Parameters: 2 7 7 80 10 50 1000
Length:  1516008

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

This is table  8  of  10  ( 1159 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)
1122704--1123002	51	5.8	52	78	11	314	53	4	2	39	1.36
1123183--1123235	22	2.4	22	75	12	72	35	7	7	49	1.60
1123278--1123620	191	1.8	190	82	5	451	41	11	9	37	1.74
1127938--1127992	27	2.0	27	100	0	110	30	14	21	32	1.93
1128037--1128083	2	23.5	2	91	0	76	44	4	0	51	1.21
1130950--1130987	20	1.9	20	94	0	67	34	13	15	36	1.87
1131638--1131670	2	16.5	2	100	0	66	51	0	48	0	1.00
1133974--1134030	31	2.0	27	83	16	71	56	0	0	43	0.99
1135315--1135380	29	2.3	30	81	7	82	48	1	0	50	1.10
1136006--1136100	38	2.5	37	83	5	127	48	1	5	45	1.32
1136006--1136096	39	2.4	40	83	9	118	48	1	5	45	1.33
1136074--1136124	14	3.7	14	81	5	68	58	1	0	39	1.09
1138494--1138550	21	2.8	21	79	12	64	40	5	7	47	1.53
1139433--1139486	21	2.6	21	96	0	99	33	9	14	42	1.78
1146920--1146960	20	2.0	21	90	9	66	41	24	17	17	1.89
1151004--1151046	20	2.2	20	95	0	77	32	20	16	30	1.95
1153221--1153256	13	2.8	13	95	0	63	33	19	13	33	1.91
1154893--1154928	16	2.2	16	90	0	54	13	16	11	58	1.63
1155134--1155185	21	2.5	21	87	0	77	46	0	28	25	1.53
1155115--1155182	21	3.2	21	81	4	75	44	1	26	27	1.63
1155795--1155819	13	1.9	13	100	0	50	32	20	16	32	1.94
1157011--1157182	78	2.2	78	81	4	195	31	12	17	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162883--1162907	13	1.9	13	100	0	50	36	16	16	32	1.90
1167472--1167541	34	2.2	31	78	14	86	35	10	24	30	1.88
1167481--1167549	34	2.0	34	97	0	129	33	11	26	28	1.91
1169758--1169828	16	4.4	16	71	7	63	19	26	14	39	1.90
1169757--1169851	48	2.0	48	82	0	118	25	25	11	37	1.89
1170050--1170172	48	2.6	48	75	10	133	28	26	13	32	1.93
1171794--1171844	20	2.5	20	93	0	84	35	15	15	33	1.90
1172402--1172528	34	3.7	34	83	5	141	37	9	23	29	1.86
1176531--1176576	22	2.1	22	95	0	83	32	21	4	41	1.73
1180898--1180950	25	2.0	26	85	7	72	73	0	11	15	1.09
1183100--1183402	56	5.4	56	75	3	234	36	12	24	26	1.90
1183096--1183362	111	2.4	112	81	3	297	38	12	23	25	1.90
1186110--1186190	27	3.0	27	87	5	101	27	19	30	22	1.98
1186174--1186406	51	4.6	51	80	6	249	33	11	24	29	1.91
1186173--1186406	102	2.3	102	83	5	285	33	11	25	29	1.91
1188760--1188785	13	2.0	13	100	0	52	38	15	15	30	1.88
1188838--1188889	21	2.6	21	90	6	81	32	15	13	38	1.86
1189500--1189596	29	3.4	28	76	16	99	24	8	15	51	1.70
1189497--1189622	59	2.1	59	89	5	193	24	7	15	52	1.68
1191685--1191752	30	2.2	31	84	2	84	16	23	13	47	1.81
1193669--1193792	15	9.1	14	74	20	95	50	5	4	38	1.47
1193665--1193976	28	11.5	28	72	11	197	46	6	8	38	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193823--1193909	30	3.1	28	75	8	77	43	6	10	39	1.66
1193715--1193906	106	1.8	105	83	8	255	44	6	9	39	1.62
1205227--1205355	52	2.5	52	92	0	222	26	19	19	34	1.95
1205441--1205492	19	2.7	19	93	0	95	40	17	11	30	1.85
1221753--1221802	20	2.4	21	90	3	75	32	18	12	38	1.87
1224112--1224162	20	2.5	20	96	0	93	31	13	11	43	1.80
1224151--1224175	13	1.9	13	100	0	50	36	16	16	32	1.90
1224131--1224194	33	2.0	32	90	3	101	31	15	14	39	1.87
1224676--1224719	23	1.9	23	81	9	54	29	9	22	38	1.85
1228986--1229016	16	1.9	16	93	0	53	54	0	9	35	1.33
1230416--1230480	13	5.5	13	67	23	54	36	13	12	36	1.83
1233055--1233079	13	1.9	13	100	0	50	36	16	16	32	1.90
1233037--1233098	32	1.9	33	87	9	92	30	16	14	38	1.88
1233765--1234149	192	2.0	192	96	0	707	30	20	13	35	1.91
1240938--1241157	116	1.9	113	84	8	293	45	10	6	36	1.66
1242129--1242159	11	2.8	11	95	0	53	45	19	12	22	1.84
1245089--1245121	11	3.1	11	95	4	59	33	0	0	66	0.92
1245114--1245147	17	1.9	18	88	5	52	58	0	2	38	1.13
1247366--1247392	2	13.5	2	100	0	54	0	48	0	51	1.00
1247392--1247426	2	17.5	2	100	0	70	48	0	0	51	1.00
1248375--1248435	13	5.2	13	72	22	62	29	11	14	44	1.81
1248371--1248435	33	2.0	33	93	0	112	29	10	15	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248420--1248475	19	2.9	19	81	2	67	32	16	12	39	1.85
1248506--1248570	33	2.0	33	90	6	105	36	12	15	35	1.85
1249753--1249777	5	5.0	5	100	0	50	20	0	0	80	0.72
1250935--1251023	33	2.7	33	77	11	92	40	1	1	57	1.13
1253288--1253478	97	2.0	97	91	0	310	37	7	22	31	1.83
1260661--1260714	27	2.0	28	82	10	67	44	9	7	38	1.65
1265075--1265123	22	2.2	23	85	10	75	14	26	16	42	1.86
1265082--1265128	22	2.2	21	96	3	85	14	36	12	36	1.85
1280371--1280480	31	3.5	31	67	18	100	34	15	17	32	1.91
1280420--1280447	13	2.2	13	100	0	56	39	17	14	28	1.89
1280370--1280498	64	2.0	64	92	3	215	36	14	17	31	1.90
1281333--1282489	48	24.9	49	71	14	648	31	17	24	26	1.97
1281333--1282489	87	12.4	98	77	11	553	31	17	24	26	1.97
1281772--1281916	39	3.5	39	73	15	128	27	20	23	28	1.99
1281476--1282301	325	2.5	325	89	2	1213	31	18	24	26	1.97
1281942--1282121	49	3.6	48	83	8	207	33	17	23	24	1.96
1282097--1282430	39	7.9	39	67	16	146	29	18	23	28	1.98
1282047--1282483	87	5.0	87	85	0	559	30	18	23	27	1.98
1282483--1283230	34	22.8	33	76	11	495	35	12	31	19	1.90
1282549--1282739	60	3.1	60	79	11	206	39	12	28	19	1.88
1282950--1283003	27	2.0	27	100	0	108	29	14	33	22	1.94
1283044--1283163	64	1.9	63	87	5	179	30	15	32	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282971--1283290	166	2.0	161	83	5	405	34	13	30	21	1.92
1284721--1284780	17	3.2	19	82	15	72	0	0	15	85	0.61
1284721--1284778	21	2.6	22	86	10	75	0	0	15	84	0.62
1284721--1284778	9	6.6	9	78	11	57	0	0	15	84	0.62
1299752--1299852	35	2.9	35	97	1	186	33	12	22	30	1.92
1303752--1303795	20	2.1	22	91	8	74	29	9	20	40	1.83
1303850--1303875	13	2.0	13	100	0	52	30	15	15	38	1.88
1303830--1303900	19	4.0	18	72	25	53	26	12	21	39	1.89
1306132--1306198	33	2.0	33	88	0	98	34	11	13	40	1.81
1306152--1306176	13	1.9	13	100	0	50	36	16	16	32	1.90
1306239--1306263	13	1.9	13	100	0	50	32	16	16	36	1.90
1306272--1306391	52	2.3	52	95	0	213	35	19	17	28	1.94
1309511--1309553	20	2.1	20	82	4	50	9	27	44	18	1.80
1309995--1310020	13	2.0	13	100	0	52	38	15	15	30	1.88
1312096--1312126	15	2.1	15	93	0	53	12	22	16	48	1.80
1316083--1316126	20	2.1	22	91	8	74	29	9	20	40	1.83
1316171--1316196	13	2.0	13	100	0	52	30	15	15	38	1.88
1316151--1316221	19	4.0	18	72	25	53	26	12	21	39	1.89
1317051--1317291	29	8.2	29	79	5	189	29	29	13	27	1.94
1317046--1317291	118	2.1	116	83	3	305	29	28	13	28	1.94
1317262--1317503	93	2.6	93	79	4	227	26	28	19	25	1.99
1317859--1317909	20	2.6	20	87	3	68	27	13	15	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317971--1318019	20	2.5	20	86	0	62	30	12	26	30	1.92
1318269--1318340	34	2.1	35	84	2	92	16	18	11	54	1.71
1328042--1328264	52	4.4	49	79	7	198	33	17	24	25	1.96
1328042--1328278	100	2.4	99	80	4	260	32	16	25	25	1.96
1328243--1328664	39	9.9	39	68	18	209	27	19	26	27	1.99
1328370--1328707	39	7.6	48	67	19	176	28	20	25	26	1.99
1328195--1328711	88	5.9	88	89	1	756	27	19	25	26	1.99
1328744--1328836	28	3.2	28	80	6	89	22	16	27	33	1.95
1328748--1329174	219	1.9	219	90	0	683	29	19	25	25	1.98
1329741--1330103	49	7.4	49	72	12	219	30	17	25	26	1.97

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