genome.fa.s4079.2.7.7.80.10.50.1000.3.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: scaffold84
Parameters: 2 7 7 80 10 50 1000
Length:  4163231

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

This is table  3  of  11  ( 1218 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)
1081600--1081664	20	3.3	20	95	2	114	26	20	29	24	1.99
1088103--1088392	50	5.8	50	87	0	391	26	20	31	21	1.98
1093925--1094017	46	2.0	46	87	0	132	35	20	19	24	1.96
1097873--1097954	39	2.1	40	90	6	132	20	30	17	31	1.95
1097896--1098012	59	2.0	59	86	3	164	22	28	17	32	1.96
1100796--1101030	102	2.3	102	91	2	375	29	14	27	28	1.95
1100796--1101090	51	5.8	49	76	10	231	30	14	26	28	1.95
1101281--1101353	37	1.9	38	86	2	103	42	4	20	32	1.71
1104548--1104586	20	2.0	20	89	0	60	53	2	5	38	1.37
1106331--1106584	40	6.4	39	78	4	249	23	27	14	34	1.94
1106331--1106544	79	2.7	80	81	4	254	24	28	14	33	1.94
1106331--1106558	119	1.9	119	85	0	312	23	27	14	35	1.93
1106331--1106573	79	3.1	79	81	2	220	23	27	14	34	1.94
1110100--1110237	41	3.3	41	80	9	145	22	17	27	32	1.96
1116757--1116999	40	6.1	40	90	0	351	18	30	18	32	1.95
1121761--1121912	51	3.0	51	74	4	173	28	15	26	28	1.96
1126698--1126884	100	1.9	100	93	0	320	28	21	9	40	1.85
1128677--1128722	21	2.1	22	84	4	58	67	2	23	6	1.25
1128756--1128822	33	1.9	33	82	8	80	47	8	31	11	1.71
1132679--1132725	24	2.0	24	83	8	60	0	53	4	42	1.20
1135465--1135500	16	2.3	16	90	4	56	5	22	22	50	1.70
1139630--1139678	11	4.6	11	85	7	57	26	38	2	32	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142135--1142164	16	1.9	16	93	6	53	30	0	20	50	1.49
1146882--1148231	449	3.0	448	94	0	2353	24	12	28	34	1.92
1147993--1148041	24	2.0	24	88	4	71	34	0	38	26	1.57
1148448--1148489	20	2.1	20	95	0	75	14	19	42	23	1.87
1148661--1148989	27	12.2	27	85	4	396	44	21	16	18	1.87
1148668--1149016	108	3.2	108	90	3	499	43	20	16	19	1.88
1149223--1149303	26	3.1	26	80	7	94	19	22	25	32	1.98
1149404--1149520	28	4.2	28	91	4	191	23	24	22	29	1.99
1162577--1162704	49	2.6	49	80	6	143	23	25	18	32	1.97
1163648--1163775	49	2.6	49	80	6	143	23	25	18	32	1.97
1171217--1171411	50	3.9	50	74	4	162	24	27	20	27	1.99
1177763--1177900	27	5.1	27	82	1	152	45	18	16	19	1.85
1178950--1179111	43	3.8	43	85	3	200	33	26	14	25	1.94
1184923--1185028	9	11.8	9	75	12	85	35	0	17	46	1.49
1190162--1190488	125	2.7	118	83	5	388	27	18	18	36	1.94
1190949--1191297	7	48.7	7	67	11	107	43	34	0	20	1.58
1190949--1191023	15	5.1	15	79	9	91	37	44	0	18	1.50
1190954--1191033	22	3.7	23	85	9	98	37	43	0	18	1.51
1190974--1191042	22	3.2	22	87	2	77	42	40	0	17	1.49
1190965--1191083	22	5.5	22	76	4	71	42	36	0	21	1.54
1212333--1212380	23	2.1	23	92	0	78	43	22	8	25	1.81
1227174--1227801	50	12.6	50	83	5	666	28	19	30	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227174--1227801	150	4.2	151	88	2	804	28	19	30	21	1.98
1237227--1237256	16	1.9	16	93	6	53	50	20	0	30	1.49
1244343--1244375	11	3.0	11	83	16	50	27	0	9	63	1.24
1260170--1260227	25	2.3	25	87	0	80	31	22	22	24	1.99
1262690--1262739	25	2.0	25	88	0	73	22	24	20	34	1.97
1271752--1271800	17	3.0	17	75	24	52	6	18	0	75	1.00
1272362--1272397	18	1.9	19	88	5	56	55	5	11	27	1.57
1285331--1285376	11	4.1	11	83	5	65	23	19	19	36	1.95
1287283--1287316	12	2.7	13	86	4	52	50	0	29	20	1.49
1297455--1297516	31	2.1	30	82	17	76	29	17	8	45	1.77
1297684--1297757	25	3.0	24	74	9	69	29	20	24	25	1.99
1299828--1299871	22	2.0	22	86	8	63	45	2	2	50	1.27
1302210--1302244	17	2.0	18	88	5	54	25	0	0	74	0.82
1311222--1311279	6	9.7	6	80	0	53	3	39	3	53	1.35
1311219--1311286	30	2.3	30	78	0	73	5	38	7	48	1.55
1315721--1315868	50	3.0	50	91	0	242	20	29	22	27	1.98
1322373--1322521	28	5.3	28	79	3	165	42	17	23	16	1.89
1322373--1322521	56	2.7	56	84	4	192	42	17	23	16	1.89
1323991--1324079	45	2.0	45	100	0	178	34	8	17	38	1.82
1335189--1335250	27	2.3	27	82	0	70	30	14	20	33	1.93
1335867--1335925	27	2.2	27	96	0	109	33	22	16	27	1.95
1346236--1346321	43	2.0	42	84	6	111	23	24	4	47	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348862--1348887	12	2.2	12	100	0	52	42	15	19	23	1.89
1357910--1357951	21	2.0	20	86	13	59	21	50	9	19	1.75
1358060--1358113	25	2.1	26	86	10	76	31	3	1	62	1.23
1358997--1359065	3	23.0	3	90	0	111	68	0	31	0	0.90
1366748--1366829	41	2.0	41	95	0	146	23	23	30	23	1.99
1379425--1379463	20	2.0	20	90	10	62	56	5	23	15	1.59
1386543--1386649	50	2.1	50	80	10	121	25	20	30	23	1.98
1388388--1388436	24	2.0	24	92	0	80	28	12	24	34	1.91
1389582--1389624	11	4.0	11	81	6	52	27	4	2	65	1.25
1392238--1392377	50	2.8	50	86	3	192	25	23	30	20	1.98
1399181--1399364	50	3.7	49	83	2	206	25	22	29	22	1.99
1401620--1401704	41	2.1	41	86	4	118	42	4	22	30	1.74
1401676--1401849	40	4.3	40	84	4	217	42	5	20	32	1.74
1401703--1401875	80	2.2	79	82	8	199	42	4	19	33	1.72
1409891--1410080	40	4.8	40	88	0	245	35	18	26	18	1.94
1409891--1410020	20	6.5	19	66	8	62	36	17	26	18	1.93
1416707--1416799	35	2.6	36	91	3	154	25	16	19	38	1.92
1417400--1417429	15	2.0	15	93	0	51	23	0	20	56	1.42
1417576--1417626	21	2.4	21	80	6	59	39	23	3	33	1.73
1420071--1420159	25	3.6	25	82	0	106	24	20	24	30	1.99
1422935--1422992	22	2.6	22	81	5	64	32	15	22	29	1.95
1433304--1433438	62	2.2	58	80	11	146	27	7	2	62	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1434209--1434249	3	13.7	3	89	0	64	31	0	4	63	1.15
1434213--1434249	15	2.5	15	100	0	74	32	0	5	62	1.18
1441440--1441465	13	2.0	13	100	0	52	46	0	30	23	1.53
1442158--1442197	14	2.9	14	84	0	53	32	7	17	42	1.77
1442166--1442232	35	1.9	35	87	3	100	31	10	13	44	1.77
1442181--1442220	20	2.0	20	85	0	53	27	12	12	47	1.77
1455770--1455800	16	1.9	16	93	0	53	6	16	3	74	1.16
1459758--1459870	45	2.5	45	86	0	163	40	19	26	13	1.88
1461005--1461512	44	11.8	42	76	10	354	28	21	23	25	1.99
1461050--1461434	133	2.9	131	82	4	402	28	21	23	26	1.99
1461134--1461509	133	2.9	130	80	7	349	27	21	24	25	1.99
1462934--1462980	22	2.1	21	81	14	51	21	4	2	72	1.12
1467428--1467635	43	4.9	43	87	4	287	29	29	22	19	1.98
1468494--1468667	87	2.0	87	98	0	339	37	8	6	47	1.60
1469436--1469648	40	5.3	40	94	0	363	29	21	20	28	1.98
1470576--1470667	43	2.1	43	91	0	148	33	25	11	29	1.91
1476604--1476820	40	5.4	40	88	0	326	30	20	20	28	1.98
1479735--1479762	11	2.5	11	100	0	56	28	25	10	35	1.89
1481044--1481126	37	2.2	37	91	0	130	12	16	34	36	1.86
1484160--1484198	16	2.4	17	86	4	53	61	2	0	35	1.10
1489707--1489773	25	2.7	25	97	0	125	32	25	22	19	1.97
1492087--1492120	10	3.3	10	92	8	59	47	8	0	44	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1491068--1494437	591	5.7	593	82	5	3818	38	12	15	33	1.85
1493269--1493302	10	3.3	10	84	8	50	47	11	0	41	1.40
1502407--1502870	44	10.7	44	70	11	258	26	21	21	30	1.98
1502621--1502742	45	2.8	44	80	15	144	27	27	18	26	1.98
1502445--1502884	217	2.0	218	90	3	699	26	22	21	29	1.99
1502829--1503412	260	2.2	260	86	2	814	25	26	19	28	1.99
1504857--1504903	18	2.6	18	90	6	60	0	21	0	78	0.75
1504866--1504903	18	2.2	18	95	4	69	0	15	0	84	0.63
1504855--1504912	24	2.4	23	82	5	71	0	24	0	75	0.80
1504864--1504909	17	2.7	17	87	9	67	0	19	0	80	0.71

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