genome.fa.s174.2.7.7.80.10.50.1000.11.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

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

This is table  11  of  15  ( 1687 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)
1250555--1250606	23	2.4	22	78	9	61	38	7	1	51	1.42
1250556--1250605	21	2.3	23	83	12	63	38	8	2	52	1.43
1250652--1250684	3	11.0	3	100	0	66	33	0	0	66	0.92
1251452--1251524	29	2.6	29	77	14	80	46	0	1	52	1.09
1251979--1252031	25	2.1	25	82	3	61	49	3	0	47	1.19
1252266--1252299	17	1.9	18	88	5	52	70	0	0	29	0.87
1263456--1263536	13	6.6	13	65	27	52	62	0	1	35	1.03
1263461--1263516	16	3.6	16	80	7	53	64	0	0	35	0.94
1263456--1263497	21	2.0	21	86	9	59	69	0	0	30	0.89
1263486--1263552	22	3.1	22	76	16	68	61	0	1	37	1.05
1263465--1263552	44	2.0	42	82	10	106	62	0	1	36	1.03
1263434--1263555	60	2.0	61	90	1	192	60	1	1	36	1.16
1263458--1263536	38	2.1	39	83	7	99	63	0	1	35	1.03
1264800--1264872	27	3.0	24	72	14	69	57	0	0	42	0.98
1264804--1264872	17	4.1	17	67	12	52	55	0	0	44	0.99
1265126--1265173	24	2.0	24	91	4	78	45	0	0	54	0.99
1265208--1265243	17	2.2	16	90	5	54	38	2	0	58	1.13
1271276--1271321	18	2.4	20	75	17	53	41	0	2	56	1.11
1271283--1271358	32	2.3	32	86	2	98	43	2	1	52	1.23
1272246--1272276	2	15.5	2	100	0	62	51	0	48	0	1.00
1279911--1280004	39	2.3	41	77	14	104	53	1	0	45	1.07
1282087--1282124	19	2.0	20	89	5	60	26	0	21	52	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282425--1282452	2	14.0	2	100	0	56	50	0	0	50	1.00
1282108--1282742	327	1.9	326	89	3	968	35	10	11	43	1.74
1288211--1288263	2	27.5	2	90	7	83	50	0	1	47	1.12
1288427--1288467	20	2.2	18	86	8	55	48	0	2	48	1.14
1293494--1293561	27	2.8	24	77	16	61	52	0	1	45	1.09
1293492--1293555	26	2.5	24	76	16	67	53	0	1	45	1.10
1293553--1293603	17	3.1	17	80	5	59	52	3	3	39	1.38
1293553--1293606	16	3.3	16	80	12	56	53	3	3	38	1.36
1293665--1293780	37	3.1	36	78	12	110	47	6	2	43	1.41
1293750--1293794	22	2.1	21	84	8	56	55	6	2	35	1.38
1293806--1293834	10	2.7	11	89	10	51	48	0	0	51	1.00
1294353--1294392	19	2.2	18	86	13	55	60	0	0	40	0.97
1294259--1294390	48	2.8	49	74	15	132	59	0	0	40	1.03
1295308--1295336	10	2.7	11	94	5	51	68	0	0	31	0.89
1297458--1297559	21	4.9	21	74	20	81	50	0	0	49	1.00
1297458--1297553	6	16.2	6	70	23	62	50	0	0	50	1.00
1297456--1297526	22	3.3	22	81	15	85	50	0	0	49	1.00
1297456--1297551	28	3.4	27	76	18	81	50	0	0	50	1.00
1297490--1297545	19	3.4	16	76	18	53	53	0	0	46	1.00
1297458--1297555	43	2.4	39	81	13	108	51	0	0	48	1.00
1297504--1297555	20	2.6	21	78	9	72	53	0	0	46	1.00
1297460--1297547	35	2.5	36	82	10	101	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297459--1297559	15	7.2	14	69	18	68	51	0	0	48	1.00
1297472--1297558	35	2.5	35	74	17	92	52	0	0	47	1.00
1297517--1297564	25	1.9	25	83	8	62	50	0	0	50	1.00
1298214--1298264	19	2.7	18	77	11	57	54	0	1	43	1.11
1298431--1298464	13	2.5	13	85	4	50	58	0	0	41	0.98
1298499--1298541	21	2.0	22	90	4	70	55	0	0	44	0.99
1302336--1302365	2	15.0	2	100	0	60	50	0	0	50	1.00
1303211--1303248	19	2.0	19	90	10	60	26	5	0	68	1.11
1303210--1303423	111	1.9	112	91	2	353	33	8	4	53	1.50
1306564--1306923	183	2.0	182	99	0	711	36	18	9	34	1.84
1315589--1315643	25	2.2	25	83	0	65	49	0	0	50	1.00
1315951--1316007	29	2.0	29	85	0	78	35	3	0	61	1.13
1315942--1316002	17	3.6	17	82	6	72	37	1	0	60	1.07
1316257--1316287	14	2.2	14	94	0	53	77	0	0	22	0.77
1316730--1316762	13	2.5	13	90	9	50	39	0	3	57	1.14
1318222--1318300	29	2.7	29	76	3	79	49	0	0	50	1.00
1319842--1319880	19	2.0	20	85	5	53	46	0	5	48	1.24
1320029--1320076	25	1.9	25	87	8	71	58	0	0	41	0.98
1323086--1323124	17	2.4	16	83	8	51	35	0	0	64	0.94
1323080--1323124	16	2.8	16	83	6	56	40	0	0	60	0.97
1330162--1330206	20	2.2	20	84	0	63	22	4	20	53	1.63
1336613--1336682	29	2.3	31	85	4	90	54	1	4	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1336656--1336701	23	2.0	24	86	4	67	63	0	2	34	1.07
1337013--1337058	20	2.2	21	84	3	67	39	0	0	60	0.97
1337023--1337065	20	2.2	20	87	8	61	39	0	0	60	0.97
1337374--1337434	18	3.3	19	84	8	72	57	0	1	40	1.08
1337390--1337427	20	1.9	19	94	5	67	60	0	0	39	0.97
1337380--1337431	25	2.0	27	88	7	81	59	0	1	38	1.08
1337571--1337628	30	1.9	30	92	0	98	25	13	22	37	1.91
1339516--1339548	14	2.4	14	90	5	50	63	0	0	36	0.95
1340650--1340734	5	17.4	5	72	18	72	37	0	0	62	0.96
1340648--1340733	35	2.3	39	82	11	110	37	0	0	62	0.95
1340670--1340733	28	2.4	25	79	18	76	35	0	0	64	0.94
1341205--1341234	2	15.0	2	100	0	60	50	0	0	50	1.00
1345317--1345358	22	2.0	20	82	17	50	52	4	0	42	1.22
1345643--1345678	18	2.0	18	94	0	63	19	27	2	50	1.62
1346377--1346422	3	15.3	3	100	0	92	65	0	0	34	0.93
1346421--1346452	3	10.7	3	100	0	64	34	0	31	34	1.58
1346451--1346479	3	9.7	3	100	0	58	34	31	0	34	1.58
1348092--1348145	15	3.2	17	75	19	60	48	0	3	48	1.19
1348549--1348590	4	9.8	4	85	14	57	76	2	0	21	0.90
1349435--1349484	20	2.5	22	78	18	63	58	0	0	42	0.98
1349425--1349479	14	3.2	18	78	19	55	56	0	0	43	0.99
1349436--1349488	18	2.8	20	83	11	58	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351229--1351267	2	19.5	2	100	0	78	48	0	0	51	1.00
1360685--1360730	9	5.1	9	78	0	56	43	28	13	15	1.83
1360684--1360730	18	2.6	18	96	0	85	42	27	14	14	1.86
1362481--1362513	3	11.0	3	100	0	66	66	0	33	0	0.92
1364585--1364643	24	2.5	24	83	10	68	44	0	0	55	0.99
1364589--1364631	18	2.5	17	84	3	50	46	0	0	53	1.00
1365191--1365243	13	4.0	13	80	7	54	52	0	0	47	1.00
1366368--1366422	17	3.2	18	73	21	55	45	0	5	49	1.25
1366566--1366653	37	2.4	37	82	5	97	54	0	0	45	0.99
1366893--1366948	21	2.6	21	80	8	60	55	0	0	44	0.99
1366929--1366987	30	1.9	31	82	6	75	49	1	1	47	1.21
1368341--1368385	14	3.3	14	84	6	56	48	4	0	46	1.22
1368346--1368385	21	1.9	21	85	10	55	45	5	0	50	1.23
1368747--1368846	53	1.9	50	80	13	114	45	2	1	52	1.19
1369305--1369361	25	2.1	28	84	9	75	52	1	5	40	1.34
1369412--1369513	32	3.0	33	80	13	100	57	0	0	42	0.98
1369436--1369492	18	3.1	18	76	23	57	59	0	0	40	0.97
1369348--1369514	18	8.7	18	67	18	54	58	0	1	38	1.13
1369839--1369882	20	2.2	20	88	8	63	36	0	4	59	1.18
1369873--1369937	33	2.1	32	82	8	80	41	0	3	55	1.15
1371333--1371366	16	2.1	16	89	10	52	73	2	0	23	0.97
1371651--1371767	51	2.4	47	78	9	117	58	0	1	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374961--1375027	33	1.9	35	82	14	86	47	1	0	50	1.10
1376539--1376573	19	1.9	18	88	11	54	54	14	0	31	1.40
1376964--1377018	16	3.4	16	77	5	56	30	1	5	61	1.29
1376940--1377016	17	4.5	17	71	9	59	29	1	3	64	1.19
1377061--1377102	22	1.9	22	85	0	57	47	0	4	47	1.23
1377077--1377116	16	2.5	16	88	8	55	45	0	0	55	0.99
1377601--1377661	31	2.0	31	84	9	81	49	0	4	45	1.23
1378827--1378858	3	10.7	3	100	0	64	68	0	0	31	0.90
1379819--1379855	14	2.5	15	83	16	51	27	0	0	72	0.84
1379814--1379933	15	8.4	14	65	19	52	38	0	1	60	1.07

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