genome.fa.s132.2.7.7.80.10.50.1000.7.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: Scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2458301

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

This is table  7  of  15  ( 1722 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)
1196747--1196797	25	2.1	24	82	13	61	37	0	0	62	0.95
1200824--1200891	34	2.0	34	91	5	111	47	0	7	45	1.31
1202414--1202529	42	2.8	42	86	0	169	29	14	19	36	1.92
1203025--1203109	43	2.0	41	93	4	143	45	18	12	22	1.83
1206913--1206952	21	1.9	21	85	10	55	25	2	0	72	0.97
1206928--1206952	12	2.1	12	100	0	50	24	0	0	76	0.80
1207704--1207749	13	3.3	14	81	9	58	63	0	0	36	0.95
1207761--1207843	19	4.3	20	75	14	68	56	0	1	42	1.07
1207808--1207848	18	2.3	18	87	8	57	60	0	2	36	1.10
1207811--1207848	13	2.9	13	88	7	51	60	0	2	36	1.11
1208358--1208387	10	3.0	10	95	0	51	20	3	0	76	0.92
1208868--1208931	28	2.3	29	82	17	82	50	6	3	40	1.43
1209258--1209299	22	1.9	22	90	9	68	45	4	2	47	1.36
1210132--1210178	22	2.0	24	84	8	62	63	0	0	36	0.94
1210964--1211045	43	1.9	43	90	5	130	45	18	7	29	1.76
1213639--1213684	3	15.3	3	100	0	92	32	0	0	67	0.91
1214222--1214260	20	2.0	20	95	5	71	43	0	0	56	0.99
1214497--1214536	20	2.1	19	90	4	62	32	0	0	67	0.91
1217118--1217324	108	1.9	108	96	0	387	42	14	18	24	1.88
1219831--1219861	2	15.5	2	100	0	62	51	0	0	48	1.00
1223501--1223562	19	3.3	19	74	14	58	56	0	0	43	0.99
1225073--1225098	3	8.7	3	100	0	52	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226244--1226346	52	2.0	53	86	1	145	33	14	24	28	1.94
1230597--1230630	6	5.7	6	89	0	50	29	2	0	67	1.05
1230718--1230760	15	2.9	15	79	6	52	44	0	0	55	0.99
1230717--1230762	13	3.1	15	75	15	51	41	0	0	58	0.98
1230882--1230932	25	2.1	24	82	17	61	50	0	1	47	1.12
1231297--1231351	26	2.2	25	90	3	83	47	0	5	47	1.25
1231309--1231355	12	3.6	13	77	8	51	53	0	4	42	1.20
1231428--1231454	14	1.9	14	100	0	54	51	0	0	48	1.00
1233617--1233663	2	23.5	2	100	0	94	48	0	0	51	1.00
1233663--1233687	2	12.5	2	100	0	50	0	0	48	52	1.00
1238901--1238962	15	3.9	16	77	10	56	46	0	3	50	1.17
1243579--1243612	3	11.3	3	100	0	68	67	0	0	32	0.91
1245428--1245460	17	2.0	17	94	5	59	39	0	12	48	1.40
1245429--1245468	17	2.4	17	82	0	53	45	0	7	47	1.31
1245554--1245874	176	1.8	174	86	4	466	37	13	5	44	1.66
1248154--1248204	19	2.8	19	80	11	63	49	1	0	49	1.12
1251126--1251168	16	2.8	15	80	13	52	53	0	0	46	1.00
1251134--1251184	20	2.8	18	82	11	61	50	0	0	49	1.00
1251994--1252099	32	3.4	33	75	8	87	59	0	0	40	0.97
1252025--1252080	24	2.4	23	81	3	67	51	0	0	48	1.00
1252049--1252105	18	3.4	18	77	15	52	56	0	0	43	0.99
1252049--1252114	33	2.0	32	88	8	98	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1253444--1253483	16	2.4	17	83	12	55	62	0	0	37	0.95
1253437--1253501	18	3.4	18	69	20	51	61	0	0	38	0.96
1253785--1253817	6	5.8	6	92	7	52	48	0	0	51	1.00
1257438--1257480	22	2.0	22	86	9	61	34	0	0	65	0.93
1259810--1259934	40	3.1	39	71	19	105	28	16	16	37	1.91
1260611--1260642	6	5.3	6	96	0	55	81	0	18	0	0.70
1261040--1261094	6	9.3	6	79	15	53	32	0	0	67	0.91
1261040--1261099	17	3.4	17	76	17	52	35	0	0	65	0.93
1261533--1261580	19	2.4	21	76	20	57	45	0	0	54	0.99
1261544--1261580	19	1.9	19	94	0	65	51	0	0	48	1.00
1262596--1262625	2	15.0	2	100	0	60	50	0	0	50	1.00
1266913--1267008	46	2.1	47	92	2	158	60	5	4	30	1.37
1267522--1267607	42	2.0	42	100	0	172	40	4	18	36	1.72
1267757--1267799	19	2.3	19	84	8	52	48	0	0	51	1.00
1268847--1268893	3	15.7	3	100	0	94	68	0	0	31	0.90
1272576--1272613	19	2.1	19	90	5	60	47	0	0	52	1.00
1272512--1272689	97	1.8	97	85	2	250	45	3	6	44	1.45
1273903--1273955	19	2.9	18	83	10	63	52	1	0	45	1.11
1273910--1273956	19	2.6	18	90	6	69	48	0	0	51	1.00
1274263--1274299	2	18.5	2	94	0	65	48	2	48	0	1.15
1274762--1274824	23	2.6	24	78	14	67	28	0	1	69	0.97
1274760--1274823	18	3.6	18	79	12	62	28	0	1	70	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1274732--1274824	29	3.0	30	75	16	82	34	1	1	63	1.09
1275351--1275475	6	18.1	7	72	18	61	54	0	0	44	1.05
1275340--1275437	33	3.0	33	81	10	105	60	0	0	39	0.97
1275361--1275471	8	13.8	8	75	15	59	54	0	0	44	1.06
1275423--1275475	2	27.0	2	88	3	81	50	0	1	47	1.12
1275771--1275856	21	4.0	21	71	18	70	41	1	0	56	1.06
1275770--1275826	26	2.3	24	88	8	80	40	0	0	59	0.97
1275787--1275871	17	4.8	17	70	18	57	41	1	1	56	1.14
1275768--1275869	31	3.3	30	74	19	84	43	0	0	54	1.13
1283379--1283452	14	6.2	12	67	24	50	35	1	2	60	1.19
1283378--1283453	25	3.2	25	82	12	90	36	1	2	59	1.20
1283415--1283471	19	2.9	20	86	5	89	35	0	0	64	0.93
1283602--1283655	28	2.0	27	89	10	83	33	3	9	53	1.50
1283675--1283751	27	2.7	29	80	12	95	59	1	0	38	1.06
1283675--1283746	28	2.6	27	82	6	81	58	1	0	40	1.07
1284336--1284410	32	2.3	32	81	2	87	52	6	1	40	1.36
1284620--1284656	11	3.4	11	84	0	56	37	0	0	62	0.96
1284699--1284745	16	3.1	16	79	17	55	40	0	0	59	0.97
1285410--1285474	5	12.2	5	73	15	51	41	0	1	56	1.08
1285391--1285472	32	2.5	31	77	11	85	42	0	1	56	1.07
1289627--1289671	21	2.1	21	95	0	81	42	22	8	26	1.83
1292193--1292217	5	5.0	5	100	0	50	20	40	0	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292469--1292513	23	2.0	23	95	0	81	33	13	4	48	1.62
1293601--1293638	17	2.2	17	90	0	58	21	13	23	42	1.88
1294467--1294549	31	3.1	26	78	15	82	42	0	0	57	0.98
1294469--1294548	25	3.2	25	79	10	74	42	0	0	57	0.98
1300273--1300314	13	3.1	13	80	19	50	45	2	0	52	1.13
1300943--1301018	15	5.3	15	70	22	56	43	0	0	56	0.99
1300977--1301023	7	6.1	8	80	14	55	38	0	0	61	0.96
1301665--1301717	6	8.7	6	76	12	54	67	1	0	30	1.01
1301666--1301716	19	2.7	19	85	8	61	68	1	0	29	1.00
1305864--1305925	32	1.9	33	87	9	92	48	0	0	51	1.00
1307327--1307355	3	9.7	3	100	0	58	31	0	0	68	0.89
1311310--1311355	22	2.0	21	84	12	56	52	2	2	43	1.25
1311310--1311364	24	2.3	23	79	14	58	54	1	1	41	1.21
1314986--1315039	14	3.7	14	76	9	54	44	0	0	55	0.99
1315011--1315057	20	2.3	20	85	7	60	42	0	0	57	0.98
1315917--1315967	14	3.6	14	79	12	59	54	1	0	43	1.11
1315925--1315966	15	2.9	15	79	17	52	52	2	0	45	1.13
1317130--1317187	18	3.2	18	78	11	64	39	3	3	53	1.35
1330023--1330052	12	2.5	12	94	0	51	86	0	13	0	0.57
1334192--1334239	19	2.6	18	77	9	51	43	2	2	52	1.24
1335517--1335576	22	2.7	21	75	12	57	35	0	0	65	0.93
1335583--1335609	2	13.5	2	100	0	54	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)
1335859--1335917	8	7.8	8	82	17	65	49	0	6	44	1.29
1335867--1335924	17	3.2	17	84	13	80	50	0	5	44	1.24
1335855--1335917	20	3.2	20	82	17	87	49	0	6	44	1.28
1335848--1335902	25	2.2	25	81	12	78	50	0	5	43	1.25
1337171--1337205	2	17.5	2	93	0	61	48	0	0	51	1.00
1337719--1337766	24	2.0	25	87	4	71	47	6	8	37	1.59
1337764--1337822	19	3.2	19	76	9	59	67	3	0	28	1.06
1339233--1339274	2	21.0	2	100	0	84	50	0	0	50	1.00
1340400--1340443	22	2.0	21	87	12	63	38	0	0	61	0.96
1341063--1341110	18	2.5	20	83	10	55	50	0	0	50	1.00

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