genome.fa.s782.2.7.7.80.10.50.1000.5.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: scaffold45
Parameters: 2 7 7 80 10 50 1000
Length:  1930935

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 749 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)
1224228--1224570	51	6.8	48	81	7	301	30	25	16	27	1.97
1224233--1224570	102	3.3	102	82	6	343	30	26	15	27	1.96
1227199--1227230	12	2.6	13	85	14	50	56	6	0	37	1.25
1250808--1250859	24	2.2	24	85	0	68	38	11	30	19	1.87
1254039--1254302	135	1.9	138	83	2	345	32	24	22	20	1.98
1255816--1255840	12	2.1	12	100	0	50	48	24	0	28	1.52
1256994--1257032	14	2.7	15	88	7	55	58	10	12	17	1.61
1260634--1260695	28	2.2	29	82	8	83	35	22	19	22	1.96
1260812--1260861	26	1.9	26	87	0	73	42	22	16	20	1.89
1268582--1268661	27	2.9	27	72	9	72	27	12	17	42	1.85
1277057--1277082	4	6.5	4	100	0	52	23	23	0	53	1.46
1278565--1278633	26	2.7	26	86	0	93	27	17	26	28	1.97
1283627--1283673	24	2.0	24	91	0	76	12	12	25	48	1.77
1283815--1284017	32	6.4	32	86	2	248	18	19	20	41	1.90
1283815--1284017	96	2.1	95	86	2	273	18	19	20	41	1.90
1293351--1293395	6	7.7	6	87	5	56	37	0	40	22	1.54
1293351--1293395	12	3.8	12	91	2	65	37	0	40	22	1.54
1293359--1293395	18	2.1	18	94	0	65	40	0	40	18	1.51
1300795--1300979	51	3.6	51	84	2	239	25	15	28	30	1.96
1301186--1301212	13	2.1	13	100	0	54	62	7	14	14	1.51
1321793--1321832	17	2.4	17	91	0	62	62	0	12	25	1.30
1321984--1322016	5	6.6	5	100	0	66	0	18	0	81	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332354--1332933	106	5.5	106	88	0	838	32	17	16	33	1.92
1352373--1352411	15	2.5	15	87	4	51	33	0	2	64	1.08
1352373--1352411	16	2.5	16	91	4	62	33	0	2	64	1.08
1354734--1354995	68	3.9	68	84	1	337	35	17	20	26	1.95
1356607--1356711	29	3.6	29	77	3	113	45	18	11	24	1.82
1360336--1360416	40	2.0	40	97	0	153	33	22	18	25	1.97
1369058--1369109	22	2.4	22	86	0	77	25	1	25	48	1.62
1381755--1381786	15	2.2	15	94	5	57	31	3	0	65	1.08
1384632--1384750	59	2.0	59	88	0	175	25	27	30	16	1.97
1385516--1385660	41	3.6	41	83	5	213	34	15	28	21	1.94
1400366--1400482	50	2.3	51	82	1	137	20	30	23	24	1.98
1400896--1400956	27	2.3	27	97	0	113	32	29	6	31	1.83
1406346--1406415	28	2.6	27	72	26	67	48	0	2	48	1.16
1409632--1409699	28	2.4	29	85	9	95	16	0	30	52	1.43
1409590--1409724	72	1.9	72	85	3	191	16	0	31	52	1.44
1409579--1409656	22	3.5	22	85	0	120	16	0	29	53	1.43
1409664--1409778	22	5.3	22	81	3	90	17	0	33	48	1.47
1409572--1409746	94	1.9	94	83	4	228	16	0	31	52	1.45
1409662--1409778	44	2.7	44	84	4	139	17	0	33	49	1.47
1410058--1410104	21	2.2	21	88	0	67	4	25	34	36	1.76
1410829--1410866	20	1.9	20	100	0	76	13	15	5	65	1.43
1411950--1411990	13	3.2	13	80	13	57	17	17	2	63	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412059--1412098	19	2.1	19	86	9	55	50	5	5	40	1.46
1414088--1414118	9	3.4	9	90	0	53	38	9	41	9	1.71
1414090--1414124	18	1.9	18	88	0	52	40	8	37	14	1.76
1416874--1416928	11	4.8	12	85	14	73	43	0	32	23	1.54
1425089--1425383	146	2.0	147	99	0	583	32	10	14	41	1.81
1427456--1427493	18	2.1	18	100	0	76	26	10	5	57	1.53
1432221--1432408	45	4.2	45	83	4	220	21	14	28	36	1.92
1440957--1441082	44	2.9	43	80	3	144	30	18	20	30	1.96
1441206--1441378	95	1.8	96	89	1	276	38	16	17	27	1.91
1441182--1441543	44	8.0	44	72	9	176	35	15	19	29	1.92
1441301--1441540	45	5.5	44	75	5	144	34	12	21	31	1.91
1443161--1443270	53	2.1	54	85	10	156	33	6	1	58	1.34
1443181--1443286	53	2.0	55	90	7	173	33	6	1	58	1.35
1451658--1451712	4	13.8	4	81	14	69	74	0	1	23	0.91
1452972--1453157	44	4.2	44	85	3	203	30	20	15	33	1.94
1459883--1459928	4	11.8	4	77	13	51	71	2	2	23	1.08
1465139--1465172	17	2.0	17	100	0	68	35	0	5	58	1.22
1478818--1478869	26	2.0	26	88	0	77	30	30	17	21	1.96
1478968--1479037	26	2.7	26	75	0	68	27	28	15	28	1.96
1485101--1485147	22	2.1	23	84	11	62	44	4	12	38	1.62
1485101--1485149	23	2.1	23	82	14	57	44	4	12	38	1.61
1495691--1495732	22	1.9	22	85	0	57	38	4	16	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1500393--1500417	5	5.0	5	100	0	50	0	20	0	80	0.72
1500917--1501137	27	8.2	27	84	7	227	43	19	15	20	1.87
1501316--1501391	26	2.9	26	78	0	71	18	21	21	39	1.93
1508451--1508738	27	10.7	27	81	3	249	44	20	14	20	1.87
1510254--1510294	18	2.3	18	84	16	50	24	7	4	63	1.40
1511226--1511287	17	3.4	17	69	26	54	27	1	24	46	1.62
1511199--1511334	39	3.5	39	91	0	218	28	3	22	45	1.69
1516898--1517002	52	2.0	52	100	0	210	32	14	19	34	1.91
1517038--1517082	23	1.9	24	86	13	67	22	6	22	48	1.73
1517576--1517716	39	3.6	39	88	0	210	30	4	19	45	1.70
1520244--1520283	4	9.8	4	89	5	62	22	0	2	75	0.93
1520233--1520284	13	4.0	13	87	7	70	21	1	3	73	1.10
1520233--1520283	25	2.0	26	88	3	77	21	1	3	72	1.11
1521368--1521481	57	2.0	58	87	1	167	45	7	18	28	1.75
1522892--1522947	28	2.0	28	100	0	112	32	10	10	46	1.73
1525448--1525493	16	2.9	16	83	6	58	30	15	2	52	1.55
1526392--1526447	7	8.0	7	91	0	94	42	0	0	57	0.99
1526395--1526456	21	3.0	21	83	9	74	41	1	0	56	1.09
1529347--1529388	22	1.9	22	95	0	75	9	21	28	40	1.84
1529424--1529688	43	6.2	43	84	2	282	28	30	19	21	1.98
1531467--1531518	23	2.3	23	79	0	59	34	7	30	26	1.85
1536974--1537045	28	2.5	29	75	8	76	37	38	2	20	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537311--1537343	14	2.3	15	94	5	59	36	33	0	30	1.58
1537572--1537980	41	9.9	40	88	3	462	30	26	22	20	1.98
1538016--1538142	40	3.2	40	80	4	150	22	19	22	35	1.96
1538027--1538159	40	3.3	41	76	11	134	24	22	20	33	1.97
1538255--1538288	3	11.3	3	100	0	68	67	0	0	32	0.91
1539391--1539906	257	2.0	252	88	7	758	37	8	15	37	1.79
1550591--1550651	30	2.0	30	96	0	113	29	32	21	16	1.95
1552845--1552940	39	2.5	39	92	0	165	27	19	15	37	1.92
1552950--1553010	32	1.9	32	93	0	104	22	27	3	45	1.68
1557269--1557378	39	2.7	41	83	5	120	28	14	18	39	1.90
1557283--1557378	39	2.5	39	85	0	138	27	16	16	39	1.90
1557391--1557445	16	3.4	16	71	26	53	20	30	3	45	1.68
1557388--1557448	32	1.9	32	96	0	113	22	29	3	44	1.69
1558982--1559006	9	2.8	9	100	0	50	20	36	20	24	1.95
1559101--1559180	20	3.9	20	80	6	88	30	21	20	28	1.98
1565897--1565960	33	1.9	33	90	0	101	43	15	23	17	1.87
1573643--1573700	30	1.9	31	85	3	82	27	20	3	48	1.66
1573865--1573906	22	1.9	22	95	0	75	23	7	26	42	1.80
1575740--1575787	16	2.9	16	81	3	51	39	10	4	45	1.58
1583060--1583127	29	2.3	29	100	0	136	47	19	7	26	1.75
1586649--1586675	9	3.0	9	100	0	54	22	33	33	11	1.89
1590220--1590272	24	2.2	25	86	3	72	28	22	3	45	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590414--1590442	11	2.6	11	100	0	58	44	17	27	10	1.81
1593145--1593200	20	2.9	20	81	5	62	78	0	21	0	0.75
1593146--1593211	27	2.6	25	88	7	89	77	0	22	0	0.77
1596933--1597155	44	5.0	43	73	10	189	30	24	20	24	1.98
1596919--1597154	89	2.7	89	85	1	321	31	24	20	23	1.98
1596936--1597162	45	5.1	44	72	8	174	30	24	20	24	1.99
1597190--1597481	44	6.6	45	72	10	221	31	19	22	26	1.98
1597180--1597478	88	3.4	87	80	8	320	31	20	21	26	1.98
1597190--1597481	132	2.2	132	81	9	330	31	19	22	26	1.98
1597231--1597518	44	6.5	44	71	12	182	30	20	21	27	1.98

Tables:   1   2   3   4   5   6   7