genome.fa.s12.2.7.7.80.10.50.1000.7.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: Scaffold12
Parameters: 2 7 7 80 10 50 1000
Length:  2382857

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

This is table  7  of  12  ( 1413 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)
1245861--1245916	22	2.5	22	91	0	94	33	12	25	28	1.92
1245733--1245927	95	2.1	95	90	0	300	36	10	24	28	1.88
1247644--1247724	42	1.9	43	84	2	110	34	27	12	25	1.92
1247682--1247885	54	3.8	53	74	9	178	34	25	14	25	1.94
1249627--1249702	12	6.9	11	75	15	52	39	2	48	9	1.49
1249626--1249711	24	3.8	24	72	17	85	41	2	45	10	1.51
1249617--1249735	42	2.8	42	92	0	193	42	2	46	8	1.47
1254760--1254876	54	2.1	54	87	1	162	26	23	18	31	1.97
1263013--1263118	42	2.5	42	93	0	185	9	47	2	40	1.51
1263046--1263116	12	6.5	11	76	15	51	9	47	2	39	1.51
1263028--1263098	18	3.6	18	69	20	52	9	43	2	43	1.52
1263875--1263908	15	2.3	15	89	0	50	5	14	5	73	1.21
1263882--1263910	15	1.9	15	100	0	58	6	6	6	79	1.06
1268267--1269446	60	19.4	60	86	3	1497	25	28	19	26	1.99
1268267--1269451	243	4.9	242	90	2	1768	25	28	19	26	1.99
1269427--1269688	43	5.8	44	72	15	198	19	27	12	40	1.88
1269427--1269683	89	2.9	89	87	5	335	19	28	13	39	1.89
1269716--1269839	41	3.0	40	74	10	106	20	23	14	41	1.89
1269767--1269855	41	2.2	40	82	11	108	17	28	12	41	1.86
1272701--1272913	79	2.7	79	80	2	214	26	25	13	34	1.93
1272837--1272948	51	2.2	50	84	4	143	26	28	13	31	1.94
1276063--1276144	28	2.9	29	82	7	98	59	7	19	13	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1276981--1277082	32	3.2	32	97	1	188	27	24	20	27	1.99
1279330--1279406	12	6.9	12	73	19	53	42	0	45	11	1.40
1279351--1279411	9	6.1	9	75	20	59	44	0	42	13	1.43
1279321--1279439	42	2.8	42	88	0	166	45	0	43	10	1.43
1283719--1284473	378	2.0	377	93	0	1294	31	12	26	29	1.93
1284926--1284969	22	1.9	24	90	9	74	75	4	15	4	1.14
1285718--1285803	24	3.8	24	72	17	85	43	2	44	10	1.51
1285742--1285812	18	3.6	18	71	20	61	45	2	42	9	1.52
1285718--1285827	42	2.6	42	94	0	193	42	2	45	9	1.50
1293095--1293170	12	6.9	11	75	15	52	39	2	48	9	1.49
1293094--1293179	24	3.8	24	72	17	85	41	2	45	10	1.51
1293085--1293203	42	2.8	42	92	0	193	42	2	46	8	1.47
1298611--1298718	21	5.3	18	66	30	58	10	48	1	39	1.48
1298614--1298732	42	2.8	42	93	0	202	9	46	1	42	1.46
1298647--1298722	12	6.9	11	75	15	52	9	48	2	39	1.49
1303374--1304017	323	2.0	320	94	2	1121	23	16	18	40	1.90
1306435--1306501	12	5.9	11	75	18	57	38	1	49	10	1.46
1306455--1306534	42	1.9	42	92	0	133	41	2	46	10	1.51
1306425--1306506	33	2.5	33	89	0	119	43	1	45	9	1.44
1314823--1314909	24	4.0	23	69	19	69	40	2	47	10	1.50
1314817--1314926	42	2.6	42	87	5	168	40	2	48	9	1.49
1314808--1314937	21	6.6	20	67	26	57	43	2	46	7	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320006--1320072	12	5.9	11	75	18	57	38	1	49	10	1.46
1320026--1320105	42	1.9	42	92	0	133	41	2	46	10	1.51
1319996--1320077	33	2.5	33	89	0	119	43	1	45	9	1.44
1335801--1335837	19	2.0	18	94	5	65	27	10	27	35	1.90
1336188--1336264	24	3.5	23	70	20	65	9	48	2	40	1.49
1336155--1336273	42	2.8	42	87	0	166	9	45	2	42	1.49
1339379--1339446	12	5.9	12	71	22	56	39	0	45	14	1.45
1339370--1339451	33	2.5	33	89	0	119	43	0	42	13	1.43
1339400--1339479	42	1.9	42	92	0	133	41	1	46	11	1.48
1339415--1339460	12	3.9	12	81	13	51	43	0	43	13	1.43
1351307--1351425	42	2.8	42	89	0	175	8	45	2	43	1.47
1373311--1373429	42	2.8	42	92	0	193	8	46	2	42	1.47
1373344--1373419	12	6.9	11	75	15	52	9	48	2	39	1.49
1373335--1373420	24	3.8	24	72	17	85	10	45	2	41	1.51
1373326--1373396	18	3.6	18	69	20	52	9	43	2	43	1.52
1382935--1383020	24	3.9	23	64	23	58	44	0	40	15	1.46
1382935--1383054	42	2.8	42	85	2	159	44	1	41	12	1.52
1382975--1383009	12	2.9	12	84	16	54	40	0	48	11	1.39
1391529--1391698	68	2.5	68	96	0	306	22	11	24	41	1.87
1396173--1396220	17	2.8	17	75	12	53	50	10	0	39	1.37
1399757--1399869	56	2.0	56	100	0	226	38	24	10	25	1.88
1403568--1403643	12	6.9	11	75	15	52	39	2	48	9	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403567--1403652	24	3.8	24	72	17	85	41	2	45	10	1.51
1403558--1403676	42	2.8	42	92	0	193	42	2	46	8	1.47
1408866--1408905	21	1.9	21	89	0	62	32	20	5	42	1.73
1409678--1409740	30	2.1	30	96	0	117	53	9	6	30	1.58
1417777--1418252	164	2.9	164	77	8	421	29	11	9	48	1.72
1417861--1418186	164	2.0	164	84	3	433	30	9	9	50	1.66
1417882--1418270	165	2.4	165	78	5	403	30	10	9	50	1.67
1419480--1419534	19	2.8	19	86	2	74	32	16	18	32	1.93
1419518--1419547	13	2.2	14	94	5	53	40	16	13	30	1.87
1419503--1419567	33	2.0	32	88	11	96	35	15	18	30	1.92
1424317--1425321	156	6.5	153	77	5	777	23	17	21	37	1.93
1424422--1425321	312	2.9	309	79	6	919	23	17	21	37	1.94
1429840--1430000	87	1.8	88	83	1	216	22	17	16	43	1.88
1430494--1430924	89	4.8	91	87	5	533	28	27	14	29	1.95
1430494--1430924	180	2.4	179	86	6	577	28	27	14	29	1.95
1430493--1430977	89	5.3	89	83	10	444	28	28	14	29	1.95
1431240--1431310	36	2.0	36	85	0	97	16	28	14	40	1.87
1431391--1431816	44	9.7	45	68	10	200	19	24	15	39	1.91
1431335--1431813	88	5.4	88	81	1	505	19	25	15	40	1.90
1431373--1431813	176	2.5	176	85	1	580	19	24	15	40	1.91
1431980--1432071	42	2.2	42	80	7	107	18	31	17	32	1.94
1432075--1432244	84	2.0	83	79	3	180	15	28	17	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1432277--1432473	42	4.7	42	77	5	155	17	32	17	31	1.94
1432231--1432473	84	2.9	83	73	4	218	18	31	17	32	1.94
1432148--1432477	42	7.9	42	73	6	141	18	31	16	34	1.93
1432625--1432829	41	4.9	41	70	4	124	19	19	14	46	1.84
1432670--1432842	42	4.1	41	66	11	100	18	20	15	46	1.84
1432688--1432853	83	2.0	83	81	6	194	19	21	13	44	1.86
1433915--1434503	169	3.6	167	81	3	622	31	10	7	50	1.64
1434632--1434664	16	2.0	17	88	5	50	15	0	3	81	0.80
1434799--1434828	14	2.1	15	93	6	53	33	3	0	63	1.11
1435342--1435389	22	2.2	21	92	3	78	39	18	31	10	1.85
1435526--1435592	31	2.2	31	86	0	89	52	22	19	5	1.67
1435533--1435596	31	2.1	31	90	0	101	53	23	18	4	1.64
1435670--1435738	23	3.0	23	78	0	75	53	21	18	5	1.65
1437451--1437965	154	3.3	154	75	7	409	23	17	22	36	1.95
1437451--1438445	155	6.5	154	73	9	622	23	16	21	37	1.93
1440788--1440844	10	5.4	11	78	14	57	1	17	1	78	0.91
1440788--1440844	22	2.7	21	84	12	73	1	17	1	78	0.91
1441300--1441350	19	2.6	20	78	12	52	64	5	11	17	1.45
1441174--1441783	154	3.9	153	76	10	441	51	7	11	30	1.64
1441312--1441778	154	3.1	146	78	11	494	52	7	10	29	1.64
1443504--1443530	13	2.1	13	100	0	54	29	14	14	40	1.86
1443514--1443570	19	2.9	19	89	2	87	31	17	17	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443600--1443665	20	3.7	20	73	26	83	33	15	18	33	1.92
1443615--1443701	13	7.5	13	69	25	70	34	13	18	33	1.90
1443599--1443701	33	3.1	33	94	4	172	33	13	19	33	1.91
1452341--1452393	16	3.5	16	71	23	60	26	16	13	43	1.85
1452331--1452401	29	2.4	29	100	0	142	28	16	14	40	1.87
1452408--1452508	43	2.3	43	94	0	184	27	17	18	35	1.94
1452510--1452542	13	2.5	13	95	0	57	33	15	15	36	1.88
1455058--1455103	21	2.1	22	84	4	58	78	2	6	13	1.04
1456548--1457123	156	3.7	156	84	1	624	25	18	19	36	1.94
1456730--1457174	153	2.9	153	81	3	347	24	18	19	37	1.94

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