genome.fa.s31.2.7.7.80.10.50.1000.9.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: Scaffold31
Parameters: 2 7 7 80 10 50 1000
Length:  2401195

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  9  of  16  ( 1858 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)
1211097--1211164	29	2.4	27	86	11	93	0	1	13	85	0.67
1211092--1211163	28	2.5	28	84	8	92	0	2	11	86	0.68
1211091--1211163	10	7.7	9	78	14	67	0	2	10	86	0.68
1214707--1214966	79	3.3	79	89	3	407	32	15	26	26	1.95
1214844--1215219	108	3.5	107	87	4	488	34	16	23	25	1.95
1215028--1215102	28	2.6	30	77	8	77	32	20	26	21	1.97
1215138--1215208	28	2.6	26	77	20	65	32	18	26	22	1.97
1214847--1215256	215	1.9	215	81	5	490	35	15	23	25	1.95
1215192--1215363	51	3.3	52	80	7	172	34	10	25	29	1.89
1217505--1217684	82	2.2	82	98	1	351	33	16	16	33	1.91
1217782--1217811	13	2.3	13	94	0	51	40	10	16	33	1.82
1217733--1217861	62	2.1	63	84	7	165	41	13	17	28	1.86
1219416--1219461	20	2.2	21	84	3	58	17	6	2	73	1.14
1219943--1221098	85	13.6	85	80	4	1103	37	16	28	16	1.91
1219943--1221098	43	27.1	43	81	3	1163	37	16	28	16	1.91
1219950--1221098	128	9.0	128	82	3	1156	38	16	29	16	1.91
1227230--1227258	10	2.7	11	94	5	51	51	0	13	34	1.42
1228889--1228985	20	4.7	20	74	12	88	38	15	14	31	1.88
1229919--1230505	29	20.2	29	82	7	617	22	16	31	28	1.96
1234188--1234243	20	2.8	20	88	0	85	39	14	12	33	1.83
1235090--1235961	28	30.5	28	81	6	903	24	16	29	29	1.97
1235090--1235980	85	10.4	85	81	5	936	24	16	28	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236254--1236417	81	2.0	82	98	1	321	32	15	22	28	1.95
1244151--1244203	20	2.7	20	84	0	70	39	15	11	33	1.83
1245428--1245485	8	7.1	8	86	3	80	1	1	12	84	0.78
1245427--1245485	17	3.5	17	84	9	77	1	1	11	84	0.77
1246078--1246553	49	10.0	49	87	6	676	25	26	17	30	1.97
1246078--1246553	97	5.0	97	89	6	681	25	26	17	30	1.97
1247429--1247495	33	2.0	33	88	0	98	34	11	13	40	1.81
1247449--1247473	13	1.9	13	100	0	50	36	16	16	32	1.90
1247517--1247541	13	1.9	13	100	0	50	32	16	16	36	1.90
1247550--1247678	52	2.5	52	94	0	222	34	17	17	30	1.94
1356910--1356942	15	2.1	17	88	11	52	45	0	0	54	0.99
1356904--1356941	19	2.0	19	85	10	51	42	0	0	57	0.98
1359581--1359606	2	13.0	2	100	0	52	50	0	0	50	1.00
1370282--1370307	13	2.0	13	100	0	52	38	15	15	30	1.88
1370261--1370327	33	2.0	33	88	0	98	43	16	14	25	1.86
1370347--1370414	19	3.9	18	76	23	83	38	14	11	35	1.83
1370369--1370393	13	1.9	13	100	0	50	32	16	16	36	1.90
1370350--1370412	32	2.0	32	96	0	117	36	15	12	34	1.86
1370470--1370526	21	2.7	21	97	0	105	36	19	10	33	1.86
1370538--1370563	13	2.0	13	100	0	52	15	7	0	76	0.99
1375399--1375439	21	2.0	21	85	9	57	39	12	9	39	1.76
1375519--1375655	53	2.6	53	95	1	238	37	17	17	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375697--1375774	22	3.6	22	96	3	149	26	24	11	37	1.90
1375830--1375855	13	2.0	13	100	0	52	30	15	23	30	1.95
1379738--1379768	10	3.1	10	95	0	53	0	12	0	87	0.55
1379738--1379795	24	2.7	21	80	17	66	1	18	0	79	0.82
1383157--1383233	20	3.8	20	83	6	102	40	11	15	32	1.84
1383602--1383710	49	2.3	48	82	6	134	31	17	28	22	1.97
1383772--1384810	28	36.6	28	85	5	1306	22	17	30	29	1.96
1391025--1391054	13	2.3	13	100	0	60	40	13	16	30	1.87
1391735--1391916	42	4.2	42	72	14	138	43	11	25	19	1.84
1391753--1391916	87	1.9	86	81	10	201	42	12	25	19	1.86
1392076--1392553	55	8.3	58	82	6	466	24	20	27	27	1.99
1392130--1392553	55	7.5	55	83	7	528	25	20	27	27	1.99
1392076--1392553	172	2.8	170	85	5	619	24	20	27	27	1.99
1393643--1393682	8	4.8	8	93	6	62	0	2	10	87	0.63
1393653--1393691	16	2.4	16	91	0	60	5	0	7	87	0.68
1396679--1396721	22	2.0	21	82	13	52	30	25	11	32	1.91
1405645--1405790	79	1.8	79	82	5	188	34	12	26	27	1.92
1405726--1405845	51	2.4	51	86	0	159	29	15	28	27	1.96
1405779--1405924	79	1.8	79	85	0	202	31	14	25	28	1.95
1405860--1405975	51	2.3	51	89	3	171	32	12	23	31	1.92
1405986--1406102	51	2.3	51	89	1	173	30	7	28	33	1.85
1405689--1406164	130	3.7	130	85	1	560	33	11	25	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1405813--1406201	129	3.0	128	82	6	331	33	10	25	30	1.90
1407830--1407901	20	3.6	20	86	3	92	29	15	13	41	1.85
1410183--1410456	79	3.5	78	81	6	317	28	24	13	33	1.93
1410415--1410528	50	2.3	51	82	1	140	33	23	9	33	1.87
1410357--1410820	131	3.6	127	78	5	457	29	23	11	34	1.91
1410543--1410661	51	2.3	51	78	2	141	28	24	13	33	1.93
1415579--1415604	13	2.0	13	100	0	52	30	15	15	38	1.88
1415559--1415620	32	1.9	33	90	3	99	27	12	16	43	1.84
1416251--1416331	39	2.0	40	83	6	103	33	24	6	35	1.81
1417694--1417736	20	2.1	20	82	4	50	9	27	44	18	1.80
1418168--1418218	13	3.9	13	94	0	93	31	15	17	35	1.92
1420298--1420328	15	2.1	15	93	0	53	12	22	16	48	1.80
1424394--1424419	13	2.0	13	100	0	52	30	15	15	38	1.88
1424374--1424437	32	2.0	33	90	3	103	28	14	15	42	1.86
1432981--1433036	25	2.3	24	85	8	78	89	8	0	1	0.56
1432981--1433039	15	3.7	16	84	11	77	88	10	0	1	0.60
1432981--1433036	1	56.0	1	78	0	58	89	8	0	1	0.56
1434138--1434548	55	7.4	54	86	6	552	28	26	20	24	1.99
1434138--1434545	110	3.7	110	90	2	611	28	25	20	24	1.99
1434138--1434820	165	4.1	163	78	13	695	27	26	20	25	1.99
1434562--1434816	61	4.4	58	83	9	292	27	27	20	25	1.99
1434587--1434821	116	2.0	115	84	7	283	25	28	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435519--1435573	20	2.8	20	91	0	92	30	14	12	41	1.83
1437815--1437932	48	2.4	50	87	4	159	26	27	13	33	1.94
1437865--1438173	79	3.9	79	84	1	386	27	25	13	33	1.93
1438102--1438221	51	2.4	51	83	8	163	29	29	12	29	1.93
1438074--1438407	158	2.1	158	80	6	390	26	27	14	31	1.95
1438201--1438275	28	2.7	28	85	0	105	22	30	20	26	1.98
1438261--1438378	51	2.3	51	85	0	155	28	27	13	29	1.94
1438024--1438542	288	1.8	288	82	5	672	27	25	13	33	1.93
1438389--1438506	51	2.3	50	81	8	132	27	25	11	34	1.91
1438229--1438535	130	2.4	129	81	6	350	27	25	14	33	1.94
1440535--1440591	20	2.8	20	94	0	105	45	14	14	26	1.82
1440524--1440553	13	2.3	13	100	0	60	40	13	16	30	1.87
1441087--1441116	13	2.3	13	100	0	60	30	16	13	40	1.87
1443327--1443467	51	2.8	51	82	0	183	33	25	8	32	1.86
1443405--1443633	81	2.9	79	75	5	262	28	25	13	32	1.94
1443564--1443683	50	2.4	50	84	1	159	30	27	10	31	1.91
1443615--1443882	79	3.4	78	83	3	333	27	26	12	32	1.93
1458997--1459076	10	8.6	9	87	8	99	83	15	1	0	0.70
1458997--1459076	19	4.2	19	84	9	92	83	15	1	0	0.70
1459000--1459069	5	14.6	5	85	14	103	82	17	0	0	0.66
1460119--1460217	39	2.5	39	98	1	189	22	33	15	29	1.94
1460203--1460613	55	7.4	55	82	7	488	28	26	19	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1460632--1460770	60	2.3	60	82	3	172	28	29	17	23	1.97
1460749--1460943	42	4.5	41	76	11	169	23	23	12	40	1.88
1460749--1460943	87	2.3	85	83	7	225	23	23	12	40	1.88
1461700--1461737	20	1.9	20	88	0	58	31	18	10	39	1.85
1461720--1461748	13	2.2	13	100	0	58	31	17	13	37	1.89
1461700--1461769	33	2.1	33	86	0	95	34	17	10	38	1.83
1464069--1464245	51	3.5	51	79	6	173	28	24	10	36	1.88
1464374--1464489	51	2.3	51	86	5	171	31	27	9	31	1.88
1464423--1464677	79	3.2	79	85	2	325	28	29	13	29	1.94
1464135--1464574	238	1.8	238	86	3	625	27	26	13	32	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16