genome.fa.s171.2.7.7.80.10.50.1000.8.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: Scaffold171
Parameters: 2 7 7 80 10 50 1000
Length:  2364178

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

This is table  8  of  13  ( 1521 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)
1260184--1260334	51	2.9	52	86	5	207	37	11	22	29	1.89
1262803--1262860	21	2.7	22	81	7	75	32	15	15	36	1.89
1263637--1263777	28	5.1	27	62	18	67	22	19	29	27	1.98
1263590--1264601	55	17.4	60	84	9	1153	25	19	28	26	1.99
1263590--1264567	116	8.4	116	88	4	1250	25	19	28	26	1.99
1269427--1269505	35	2.4	33	89	6	115	29	21	17	31	1.96
1269514--1269538	13	1.9	13	100	0	50	36	16	16	32	1.90
1269579--1269645	33	2.0	33	88	0	98	40	14	11	32	1.83
1269601--1269625	13	1.9	13	100	0	50	32	16	16	36	1.90
1270418--1270442	13	1.9	13	100	0	50	72	12	8	8	1.29
1270797--1270947	51	2.9	52	88	5	216	36	10	23	29	1.89
1273294--1273343	21	2.4	21	86	3	66	48	10	16	26	1.77
1273297--1273350	21	2.6	21	85	2	65	48	11	14	25	1.77
1278654--1278719	32	2.0	32	88	11	98	28	15	16	39	1.89
1278675--1278700	13	2.0	13	100	0	52	30	15	15	38	1.88
1278779--1278849	20	3.5	20	98	0	133	26	11	19	42	1.85
1278779--1278870	40	2.3	40	84	3	114	27	13	20	39	1.89
1281286--1281324	13	3.0	13	96	0	69	35	17	15	30	1.91
1295547--1296346	404	2.0	404	94	0	1422	22	18	24	34	1.96
1297425--1297511	43	2.0	43	93	0	147	39	9	24	27	1.85
1299689--1299761	20	3.6	20	79	3	92	36	13	17	31	1.89
1299707--1299782	21	3.7	21	76	3	91	43	11	15	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299689--1299782	41	2.3	41	96	0	170	40	12	17	29	1.86
1299821--1299846	13	2.0	13	100	0	52	38	15	15	30	1.88
1303909--1303939	15	2.1	15	93	0	53	48	16	22	12	1.80
1305953--1306031	20	3.7	21	75	15	72	26	13	15	44	1.84
1306018--1306056	13	3.0	13	96	0	69	30	17	15	35	1.91
1308496--1308568	20	3.6	20	79	3	92	36	13	17	31	1.89
1308514--1308589	21	3.7	21	76	3	91	43	11	15	28	1.83
1308496--1308589	41	2.3	41	96	0	170	40	12	17	29	1.86
1308628--1308653	13	2.0	13	100	0	52	38	15	15	30	1.88
1310933--1310969	18	2.1	18	100	0	74	29	10	27	32	1.90
1311755--1311855	43	2.3	43	96	0	184	25	23	9	40	1.85
1312820--1312846	2	13.5	2	100	0	54	0	0	48	51	1.00
1313300--1313337	16	2.4	16	86	8	51	65	13	0	21	1.26
1316296--1316718	163	2.6	163	85	5	566	31	11	8	47	1.70
1317528--1317553	13	2.0	13	100	0	52	38	15	15	30	1.88
1319821--1319860	19	2.0	21	85	9	57	62	7	17	12	1.52
1329606--1329645	13	3.1	13	92	0	62	32	17	10	40	1.83
1332265--1332323	13	5.0	13	76	23	76	30	15	16	37	1.90
1332244--1332343	33	3.0	33	94	2	166	30	15	19	36	1.92
1332277--1332343	20	3.7	20	74	25	85	29	14	17	37	1.91
1336136--1336220	20	4.6	19	76	19	92	37	16	15	30	1.90
1336136--1336199	33	1.9	33	90	6	103	37	17	15	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336996--1337035	11	3.6	11	87	12	64	80	0	17	2	0.83
1338638--1338668	13	2.4	13	94	0	53	35	12	16	35	1.87
1338620--1338684	33	2.0	33	88	11	98	32	18	13	35	1.90
1338713--1338769	19	2.9	19	89	5	78	35	17	15	31	1.92
1338754--1338780	13	2.1	13	100	0	54	40	14	14	29	1.86
1338735--1338799	32	2.0	32	90	3	103	41	16	13	27	1.87
1339333--1339388	22	2.5	22	82	5	69	26	35	1	35	1.67
1340587--1340883	150	2.0	150	99	0	585	27	11	32	28	1.92
1341367--1341406	13	3.1	13	96	0	71	40	17	12	30	1.86
1347875--1347907	3	11.3	3	87	6	50	39	0	30	30	1.57
1347875--1347907	17	1.9	17	93	0	57	39	0	30	30	1.57
1352317--1352354	20	1.9	20	94	0	67	36	10	7	44	1.68
1352393--1352417	13	1.9	13	100	0	50	32	16	12	40	1.84
1355302--1355326	11	2.3	11	100	0	50	56	28	8	8	1.57
1364609--1364635	13	2.1	13	100	0	54	40	14	14	29	1.86
1364588--1364655	33	2.0	32	86	13	93	42	14	14	27	1.85
1365502--1365805	166	1.8	166	86	6	445	30	9	8	51	1.63
1368125--1368703	79	7.3	79	80	4	423	35	12	22	28	1.91
1368112--1368703	238	2.5	237	81	3	645	35	13	22	28	1.92
1368125--1368703	159	3.6	157	76	7	506	35	12	22	28	1.91
1371003--1371133	50	2.6	50	87	2	192	39	13	18	28	1.89
1373721--1373812	46	2.0	46	95	0	166	27	18	20	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374546--1374776	122	1.9	122	88	0	345	25	25	16	32	1.96
1376813--1376853	21	2.0	21	85	9	57	39	14	9	36	1.79
1376987--1377027	10	4.1	10	93	0	64	29	26	2	41	1.69
1379183--1379267	21	4.0	21	72	7	66	55	2	22	20	1.55
1388038--1388081	17	2.6	17	79	13	54	54	6	0	38	1.27
1391479--1391529	16	3.1	16	76	18	50	80	5	11	1	0.97
1392415--1392467	20	2.6	21	76	8	56	39	16	15	28	1.89
1392509--1392541	13	2.4	14	85	15	50	42	15	15	27	1.86
1392516--1392541	13	2.0	13	100	0	52	38	15	15	30	1.88
1392498--1392562	34	2.0	32	88	11	96	38	16	15	29	1.90
1398684--1398708	13	1.9	13	100	0	50	32	16	20	32	1.94
1399143--1399184	20	2.0	21	90	4	68	19	42	28	9	1.82
1400570--1400612	20	2.0	22	91	8	72	32	0	30	37	1.58
1401146--1401170	13	1.9	13	100	0	50	32	16	16	36	1.90
1403919--1403950	2	16.0	2	93	0	55	53	0	0	46	1.00
1404120--1404148	2	14.5	2	100	0	58	51	0	0	48	1.00
1404986--1405027	22	2.0	22	86	9	61	42	2	0	54	1.13
1405378--1405449	24	3.0	24	70	10	65	52	4	9	33	1.53
1409138--1409178	20	2.0	21	85	4	57	60	2	4	31	1.30
1410265--1410328	18	3.5	18	68	4	56	60	0	4	34	1.17
1410272--1410515	90	2.9	83	77	8	263	48	2	8	40	1.47
1412045--1412129	42	2.0	43	97	2	163	21	11	11	55	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413124--1413152	10	2.7	11	89	10	51	62	0	31	6	1.22
1418196--1418247	1	52.0	1	82	0	50	1	5	3	88	0.68
1418195--1418247	26	2.0	26	85	10	72	1	7	3	86	0.75
1418216--1418249	17	1.9	17	94	5	59	5	11	0	82	0.83
1422904--1422948	24	1.9	23	86	4	63	48	0	37	13	1.42
1423200--1423253	21	2.6	21	96	0	99	5	20	22	51	1.67
1426233--1426299	33	2.0	32	86	11	91	32	19	11	35	1.88
1426328--1426384	19	2.9	19	89	5	78	35	17	15	31	1.92
1426369--1426395	13	2.1	13	100	0	54	40	14	14	29	1.86
1426350--1426414	32	2.0	32	90	3	103	40	16	16	26	1.90
1426912--1426969	18	3.4	17	73	19	57	29	32	1	36	1.68
1426972--1427048	41	1.9	40	86	7	111	28	19	1	50	1.55
1435022--1435052	13	2.4	13	94	0	53	35	12	16	35	1.87
1438586--1438630	21	2.1	21	84	8	56	53	4	20	22	1.63
1440435--1440465	15	2.1	15	93	0	53	48	16	22	12	1.80
1442516--1442541	13	2.0	13	100	0	52	30	15	15	38	1.88
1442662--1442707	21	2.2	20	81	11	58	32	19	4	43	1.71
1445096--1445121	13	2.0	13	100	0	52	38	15	15	30	1.88
1447339--1447383	21	2.1	21	84	8	56	53	4	20	22	1.63
1449188--1449218	15	2.1	15	93	0	53	48	16	22	12	1.80
1451232--1451311	20	3.8	20	75	15	79	26	15	15	43	1.85
1451297--1451322	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1451443--1451488	21	2.2	20	81	11	58	32	19	4	43	1.71
1453877--1453902	13	2.0	13	100	0	52	38	15	15	30	1.88
1455597--1455640	21	2.1	21	83	8	54	25	31	4	38	1.76
1457445--1457470	13	2.0	13	100	0	52	38	15	15	30	1.88
1459549--1459579	15	2.1	15	93	0	53	12	22	16	48	1.80
1460953--1461025	20	3.6	20	81	3	101	35	13	19	31	1.91
1460971--1461046	21	3.7	21	80	3	100	42	11	17	28	1.84
1460953--1461046	41	2.3	41	98	0	179	39	12	18	29	1.88
1461085--1461110	13	2.0	13	100	0	52	38	15	15	30	1.88
1465172--1465210	15	2.6	15	91	0	60	51	15	20	12	1.76

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