genome.fa.s6.2.7.7.80.10.50.1000.11.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: Scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  1308201

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

This is table  11  of  11  ( 1316 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)
1190023--1190088	34	1.9	34	81	6	80	53	4	1	40	1.31
1191174--1191229	2	28.0	2	100	0	112	0	50	0	50	1.00
1196314--1196356	16	2.7	16	88	0	59	32	2	6	58	1.38
1196454--1196490	3	12.3	3	100	0	74	32	0	0	67	0.91
1198674--1198968	149	2.0	148	85	5	398	38	11	4	44	1.61
1199006--1199033	2	14.0	2	100	0	56	50	0	0	50	1.00
1201339--1201363	2	12.5	2	100	0	50	48	0	0	52	1.00
1202998--1203028	2	15.5	2	100	0	62	51	0	0	48	1.00
1203375--1203421	3	15.7	3	100	0	94	31	0	0	68	0.90
1204357--1204397	2	20.5	2	100	0	82	51	0	0	48	1.00
1204665--1204841	61	2.9	61	80	6	189	37	4	4	53	1.42
1208426--1208577	72	2.1	74	86	4	211	43	7	4	44	1.52
1208940--1209009	26	2.6	25	78	17	70	54	0	1	44	1.09
1209203--1209235	17	1.9	17	88	11	50	51	3	0	45	1.16
1210556--1210599	22	2.0	22	82	8	54	65	2	13	18	1.36
1213064--1213143	14	5.5	15	70	13	53	57	0	0	42	0.98
1213042--1213119	22	3.5	22	70	13	61	57	2	1	38	1.20
1213069--1213154	46	1.9	43	86	6	118	59	0	0	40	0.97
1213693--1213730	16	2.4	16	82	8	51	63	0	2	34	1.09
1214158--1214197	20	2.1	19	85	4	53	37	5	7	50	1.53
1214946--1214980	15	2.2	16	90	5	54	25	0	0	74	0.82
1215479--1215517	21	1.9	21	89	5	62	64	0	5	30	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217987--1218021	15	2.2	17	90	10	56	0	28	0	71	0.86
1218250--1218334	31	2.8	31	81	12	86	56	0	0	43	0.99
1218760--1218822	15	4.1	15	72	22	51	55	1	1	41	1.19
1221452--1221490	5	7.6	5	91	2	60	23	0	41	35	1.55
1233070--1233950	33	27.8	32	73	10	604	21	29	12	36	1.90
1233039--1233611	98	5.9	99	80	7	570	21	29	12	35	1.90
1233250--1233670	126	3.4	126	81	5	419	21	28	11	38	1.89
1233459--1233692	27	8.0	27	69	17	137	21	30	12	35	1.90
1233640--1233915	125	2.2	125	86	1	383	21	29	13	36	1.91
1233765--1233817	27	2.0	27	88	0	79	20	32	13	33	1.91
1233667--1233964	65	4.7	65	75	12	210	21	29	12	36	1.90
1234089--1234271	32	5.7	33	81	9	175	30	31	18	19	1.96
1234087--1234271	63	2.9	63	80	8	212	30	31	18	19	1.96
1234085--1234285	95	2.1	96	81	4	237	28	31	17	21	1.96
1234470--1234557	43	2.0	43	88	0	131	27	22	15	34	1.95
1234185--1234562	190	2.0	191	86	4	541	28	26	16	29	1.97
1234591--1235083	52	9.5	51	76	8	354	25	24	14	34	1.94
1234686--1235170	104	4.7	103	77	9	442	25	24	14	34	1.94
1234637--1235080	156	2.8	155	81	4	464	25	24	14	34	1.94
1235092--1235261	52	3.3	52	77	0	169	27	24	14	34	1.94
1245421--1245453	17	1.9	17	93	0	57	66	0	0	33	0.92
1247397--1247421	6	4.2	6	100	0	50	52	16	0	32	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247660--1247704	16	2.8	16	83	13	56	71	0	0	28	0.87
1247666--1247704	5	7.2	5	91	8	51	74	0	0	25	0.82
1248634--1248701	19	3.7	18	88	5	75	52	4	0	42	1.21
1248654--1248701	19	2.5	19	100	0	96	45	6	0	47	1.27
1248647--1248701	19	2.8	21	94	5	82	49	5	0	45	1.25
1248631--1248701	36	1.9	38	82	5	92	52	4	0	43	1.20
1249044--1249093	6	8.3	6	81	18	52	48	0	0	52	1.00
1249044--1249103	31	2.0	30	90	3	93	50	0	0	50	1.00
1249048--1249131	22	3.7	21	77	16	71	53	1	0	45	1.08
1249125--1249164	17	2.3	18	91	4	64	47	0	2	50	1.14
1249453--1249498	24	1.9	24	100	0	92	47	0	0	52	1.00
1249458--1249545	26	3.2	26	73	12	70	52	1	2	44	1.21
1249547--1249624	14	5.1	15	82	14	81	56	0	1	42	1.07
1249547--1249613	7	9.1	7	84	9	73	56	0	1	41	1.08
1249608--1249643	15	2.2	17	90	9	58	44	0	0	55	0.99
1249679--1249761	42	2.0	43	80	7	98	38	2	0	59	1.11
1249716--1249785	12	5.9	11	71	14	50	37	1	0	61	1.05
1249678--1249785	13	9.5	12	70	23	58	38	1	0	59	1.08
1250635--1250664	15	2.0	15	93	0	51	36	3	0	60	1.14
1250803--1250897	25	3.9	25	75	22	94	57	0	0	42	0.98
1251722--1251755	5	6.8	5	87	12	52	82	0	0	17	0.67
1253572--1253609	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256126--1256179	21	2.6	21	78	0	63	57	20	3	18	1.55
1264570--1264599	10	3.0	10	100	0	60	20	20	20	40	1.92
1264628--1264653	13	2.0	13	100	0	52	38	15	15	30	1.88
1264606--1264673	33	2.1	32	88	2	100	35	13	16	35	1.87
1264706--1264758	20	2.6	21	84	3	72	28	16	15	39	1.89
1269314--1269358	17	2.6	17	78	0	54	44	0	6	48	1.29
1269966--1270022	25	2.3	25	82	11	64	64	0	5	29	1.15
1270545--1270586	14	3.0	14	80	10	50	40	0	4	54	1.21
1270723--1270778	14	3.9	14	83	4	67	12	1	7	78	1.02
1270737--1270779	20	2.2	20	87	8	61	13	0	6	79	0.93
1270802--1270841	21	1.9	21	85	10	55	55	2	5	37	1.35
1271852--1271883	16	2.0	16	93	0	55	46	0	0	53	1.00
1271902--1271951	26	1.9	26	84	8	66	50	0	4	46	1.20
1272203--1272229	2	13.5	2	100	0	54	48	0	0	51	1.00
1272464--1272491	14	2.0	14	100	0	56	50	7	0	42	1.30
1272803--1272875	30	2.3	32	86	4	105	49	0	0	50	1.00
1272912--1272960	25	2.0	25	84	8	64	53	4	0	42	1.20
1272987--1273023	19	1.9	19	89	10	58	48	8	0	43	1.32
1273155--1273209	28	2.0	27	82	13	67	49	1	0	49	1.11
1273155--1273225	28	2.8	24	75	19	63	45	2	0	52	1.15
1274069--1274135	33	2.0	33	88	0	98	34	11	13	40	1.81
1274089--1274113	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1273362--1274167	404	2.0	406	96	0	1483	29	17	20	33	1.95
1274178--1274202	13	1.9	13	100	0	50	32	16	16	36	1.90
1281497--1281530	14	2.5	13	86	9	50	91	2	0	5	0.51
1282478--1282660	31	5.9	30	84	7	215	24	29	16	29	1.97
1282475--1282685	93	2.3	93	85	4	264	24	29	16	29	1.96
1282540--1283256	34	21.3	33	86	9	857	21	34	12	31	1.91
1282600--1283256	103	6.4	103	91	4	1005	21	35	12	31	1.90
1283247--1283311	34	1.9	34	100	0	130	27	36	18	16	1.93
1283311--1284230	49	18.7	49	84	3	1199	25	26	17	30	1.97
1285160--1285226	33	2.0	33	88	0	98	34	11	13	40	1.81
1285180--1285204	13	1.9	13	100	0	50	36	16	16	32	1.90
1285269--1285293	13	1.9	13	100	0	50	32	16	16	36	1.90
1285302--1285422	52	2.3	52	97	0	224	34	18	18	28	1.94
1288497--1288636	52	2.7	53	86	2	169	35	19	15	30	1.93
1288517--1288645	52	2.5	52	87	5	197	37	17	15	30	1.90
1289497--1289536	20	2.0	20	85	9	55	20	17	17	45	1.86
1292996--1293030	7	5.0	7	96	0	61	45	0	0	54	0.99
1294556--1294598	22	2.0	22	81	9	52	23	4	4	67	1.28
1297490--1297587	17	6.3	15	72	20	69	43	6	4	45	1.47
1297506--1297559	13	4.4	13	81	11	60	46	3	0	50	1.19
1297506--1297559	2	28.5	2	77	17	53	46	3	0	50	1.19
1298761--1298802	21	2.0	21	86	9	59	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304593--1304632	20	2.0	20	90	5	62	37	2	0	60	1.11
1304624--1304676	20	2.6	20	80	11	63	43	0	1	54	1.11
1307884--1307964	10	8.4	10	72	20	50	38	3	1	56	1.25
1307901--1307931	11	2.8	11	95	0	53	35	9	0	54	1.33
1308143--1308201	25	2.4	25	89	10	88	44	0	0	55	0.99
1308152--1308195	19	2.4	19	77	7	56	40	0	0	59	0.98

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

The End!