genome.fa.s153.2.7.7.80.10.50.1000.9.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: Scaffold153
Parameters: 2 7 7 80 10 50 1000
Length:  3137677

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  9  of  24  ( 2803 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)
1216148--1216177	15	2.1	14	93	6	51	70	0	0	30	0.88
1216357--1216421	30	2.2	30	88	0	94	33	13	4	47	1.64
1216357--1216436	30	2.7	30	84	0	88	36	11	3	48	1.57
1216849--1216883	2	18.0	2	88	5	54	51	2	0	45	1.16
1218972--1219038	31	2.1	33	83	8	84	50	0	1	47	1.10
1220364--1220548	34	5.5	34	87	3	257	40	26	7	25	1.82
1224614--1224676	19	3.3	19	90	0	90	34	19	17	28	1.94
1224981--1225163	34	5.4	34	87	3	253	39	26	7	25	1.83
1227728--1227784	24	2.3	25	81	6	71	47	0	1	50	1.11
1227990--1228119	6	21.7	6	79	3	136	47	3	6	43	1.43
1227990--1228119	4	32.5	4	83	3	136	47	3	6	43	1.43
1229208--1229256	20	2.3	22	79	6	57	53	4	0	42	1.20
1229738--1229874	38	3.6	38	83	2	177	34	10	22	32	1.89
1229736--1229884	75	2.0	76	89	1	228	32	10	24	31	1.90
1229777--1229898	38	3.2	38	80	4	140	32	10	26	30	1.90
1238608--1238646	20	2.0	20	94	0	69	33	15	7	43	1.75
1238632--1238658	13	2.1	13	100	0	54	40	14	14	29	1.86
1239251--1239293	22	1.9	23	85	4	61	18	34	4	41	1.71
1241261--1241310	20	2.5	20	93	0	82	26	14	16	44	1.85
1243675--1243792	51	2.3	52	88	4	186	31	24	11	33	1.90
1243778--1243847	28	2.5	28	88	4	97	25	28	17	28	1.97
1243805--1244059	79	3.3	78	79	8	268	26	26	14	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243805--1244056	78	3.2	77	80	5	274	26	26	15	32	1.95
1245196--1245222	13	2.1	13	100	0	54	40	14	14	29	1.86
1251355--1251423	33	2.1	33	89	5	104	37	18	13	30	1.89
1251377--1251406	13	2.3	13	100	0	60	36	13	16	33	1.88
1251452--1251506	19	2.8	20	86	5	76	38	18	14	29	1.90
1251473--1251537	32	2.0	33	88	8	98	43	15	16	24	1.87
1254779--1254852	21	3.6	20	85	3	76	41	10	14	32	1.81
1257384--1257409	13	2.0	13	100	0	52	38	15	15	30	1.88
1259101--1259145	21	2.1	21	84	8	56	53	4	20	22	1.63
1260949--1260979	15	2.1	15	93	0	53	48	16	22	12	1.80
1263036--1263074	13	3.0	13	96	0	69	30	17	15	35	1.91
1263197--1263239	20	2.2	19	84	16	52	30	20	4	44	1.72
1264863--1264900	18	2.1	18	100	0	76	28	5	15	50	1.66
1265588--1265613	13	2.0	13	100	0	52	38	15	15	30	1.88
1266692--1266972	81	3.5	80	80	5	334	31	25	9	33	1.88
1271329--1271501	53	3.2	53	81	4	197	34	16	3	45	1.65
1271682--1271746	20	3.2	20	80	8	87	24	27	18	29	1.98
1274346--1274393	18	2.7	18	87	6	62	29	27	0	43	1.55
1276214--1276627	207	2.0	207	95	0	738	29	19	11	39	1.87
1280473--1280529	12	4.8	12	76	4	53	52	0	1	45	1.11
1281279--1281350	36	2.0	37	81	13	87	23	6	4	65	1.35
1283162--1283206	22	2.0	23	86	4	65	24	6	0	68	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283457--1283534	24	3.1	25	80	9	79	51	0	0	48	1.00
1287236--1287330	18	5.6	18	71	18	87	43	0	0	56	0.99
1287238--1287282	23	2.0	22	87	12	65	37	0	0	62	0.96
1287284--1287347	32	2.0	33	87	3	94	51	0	0	48	1.00
1287300--1287362	32	2.0	32	81	12	76	55	1	0	42	1.09
1287352--1287411	5	12.2	5	78	16	63	40	1	0	58	1.08
1287259--1287375	49	2.4	50	77	8	116	47	0	0	51	1.06
1287345--1287407	26	2.4	26	78	5	74	41	1	0	57	1.08
1287678--1287714	19	1.9	19	88	0	56	48	0	0	51	1.00
1288206--1288260	27	2.0	27	100	0	110	52	0	14	32	1.42
1291216--1291256	20	2.0	20	85	0	55	24	2	7	65	1.30
1291688--1291741	15	3.7	14	78	7	54	31	1	5	61	1.30
1292318--1292488	41	4.1	42	91	2	267	30	9	4	54	1.53
1292318--1292488	83	2.1	81	90	2	261	30	9	4	54	1.53
1292853--1292989	7	20.3	7	71	23	66	43	0	0	55	1.05
1292852--1292932	27	2.9	29	80	14	89	44	0	1	54	1.08
1292849--1292989	42	3.3	39	75	21	124	43	0	0	55	1.04
1292878--1292928	13	3.8	13	80	12	59	45	0	0	54	0.99
1292852--1292989	24	5.7	26	70	22	70	43	0	0	55	1.04
1294695--1294736	22	1.9	22	90	0	66	54	4	2	38	1.34
1296706--1296743	20	2.0	20	89	5	60	52	5	2	39	1.38
1298743--1298784	3	14.0	3	100	0	84	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299120--1299148	7	4.1	7	100	0	58	13	0	0	86	0.58
1299644--1299685	22	1.9	22	90	9	68	35	0	0	64	0.94
1300115--1300160	16	2.9	16	84	9	60	60	8	0	30	1.26
1303042--1303100	16	3.7	15	82	13	73	57	1	1	38	1.19
1303132--1303180	15	3.1	16	76	8	55	51	0	2	46	1.12
1304086--1304119	17	2.1	17	94	5	61	32	0	0	67	0.91
1308101--1308155	22	2.5	22	76	5	58	25	5	0	69	1.10
1309753--1309991	118	2.0	118	100	0	478	42	16	11	29	1.83
1310942--1310999	19	3.0	19	84	2	80	34	17	17	31	1.93
1321800--1321860	1	61.0	1	80	0	59	88	4	6	0	0.63
1321794--1321845	16	3.2	16	78	10	70	84	3	11	0	0.74
1321794--1321861	32	2.2	31	97	2	127	85	4	10	0	0.73
1321800--1321860	27	2.4	25	86	10	88	88	4	6	0	0.63
1321801--1321860	16	3.8	16	80	10	79	88	5	6	0	0.63
1328159--1328195	3	12.3	3	88	0	56	29	32	0	37	1.58
1328970--1329001	15	2.1	16	94	5	57	12	21	12	53	1.71
1330054--1330103	22	2.3	22	79	6	57	44	8	10	38	1.68
1331946--1332000	25	2.3	25	87	9	80	45	0	5	49	1.25
1331982--1332140	21	7.3	21	78	12	135	52	4	0	42	1.26
1332041--1332139	46	2.1	47	83	9	123	51	6	0	42	1.26
1331982--1332170	21	8.8	22	74	17	130	52	5	1	41	1.31
1332898--1332933	16	2.2	16	90	5	54	69	11	0	19	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332905--1332950	15	3.0	15	84	12	58	58	13	0	28	1.35
1335313--1335625	151	2.1	151	98	0	608	30	13	14	41	1.84
1337854--1337929	34	2.2	34	100	0	152	27	7	18	46	1.77
1338387--1338463	23	3.2	24	80	14	88	51	0	2	45	1.14
1338401--1338465	24	2.7	23	85	7	85	50	0	3	46	1.17
1338907--1338941	9	3.8	9	92	3	52	74	2	0	22	0.95
1339280--1339317	19	2.0	20	84	5	51	68	2	0	28	1.03
1339766--1339801	2	18.0	2	94	0	63	50	2	0	47	1.15
1340073--1340115	3	14.3	3	90	0	68	32	4	0	62	1.15
1340731--1340859	6	21.7	6	72	16	74	36	0	0	62	1.01
1340731--1340870	11	12.5	11	67	20	60	36	0	0	62	1.06
1340825--1340862	17	2.2	18	90	4	60	28	0	0	71	0.87
1340731--1340870	5	29.2	5	69	23	54	36	0	0	62	1.06
1341202--1341236	17	2.1	17	100	0	70	5	37	5	51	1.50
1350531--1350643	55	2.1	55	87	0	163	36	8	20	34	1.84
1359247--1359342	20	4.8	20	80	5	113	32	13	13	40	1.84
1360246--1360286	21	1.9	22	90	5	66	21	9	9	58	1.59
1370422--1370511	43	2.1	43	95	0	162	25	24	18	31	1.98
1370465--1370564	52	1.9	52	89	0	155	25	23	16	36	1.94
1371446--1371470	13	1.9	13	100	0	50	36	16	16	32	1.90
1371426--1371492	33	2.0	33	85	0	89	34	11	13	40	1.81
1371533--1371557	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371546--1371694	52	2.9	51	91	4	244	32	19	17	30	1.95
1377739--1377786	6	8.0	6	81	9	62	85	14	0	0	0.60
1377739--1377789	19	2.8	18	88	8	77	86	13	0	0	0.58
1377739--1377799	25	2.5	25	87	10	83	83	14	1	0	0.72
1377743--1377800	10	5.9	9	79	20	55	84	13	1	0	0.70
1379030--1380087	28	37.1	28	80	9	1071	29	29	16	24	1.96
1379030--1380099	57	18.7	58	81	8	1198	29	29	15	24	1.96
1380661--1380738	20	3.9	20	83	6	104	32	14	12	41	1.83
1384143--1384215	35	2.1	35	89	0	110	31	12	1	54	1.46
1384730--1384780	26	1.9	27	84	11	70	47	0	0	52	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24