genome.fa.s114.2.7.7.80.10.50.1000.5.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: Scaffold114
Parameters: 2 7 7 80 10 50 1000
Length:  3219552

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

This is table  5  of  13  ( 1458 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)
1089656--1089696	21	2.0	21	100	0	82	58	0	0	41	0.98
1091195--1091228	10	3.3	10	92	8	59	50	8	8	32	1.64
1091193--1091225	11	3.1	11	91	8	59	48	9	9	33	1.66
1095552--1095584	13	2.5	13	100	0	66	18	30	15	36	1.91
1111115--1111142	14	2.0	14	100	0	56	28	28	7	35	1.84
1122781--1122851	22	3.3	21	64	14	54	23	33	5	36	1.79
1122777--1122864	44	2.0	44	97	0	167	28	32	6	31	1.83
1126112--1126320	104	2.0	103	91	0	337	39	24	12	22	1.89
1126886--1126914	6	5.0	6	95	4	51	17	0	65	17	1.27
1135025--1135074	19	2.5	21	77	12	59	50	4	4	42	1.40
1139645--1139684	2	20.5	2	87	5	55	52	2	0	45	1.14
1139880--1139923	16	2.9	15	83	12	54	45	0	0	54	0.99
1139878--1139931	13	4.1	14	77	15	53	44	0	0	55	0.99
1139886--1139932	15	3.5	13	81	16	51	40	0	0	59	0.97
1139867--1139934	15	4.6	14	71	20	50	41	0	0	58	0.98
1143266--1143328	32	2.0	32	90	0	90	31	11	3	53	1.52
1150209--1150287	11	7.4	11	67	16	58	72	1	3	22	1.08
1152256--1152453	102	1.9	105	86	4	285	44	17	11	26	1.82
1158161--1158212	20	2.7	20	81	3	61	28	0	5	65	1.16
1158578--1158625	23	2.1	23	100	0	96	39	0	0	60	0.97
1158586--1158676	16	5.2	19	73	24	67	37	0	1	61	1.03
1158579--1158645	28	2.3	30	82	7	84	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158571--1158673	5	20.4	5	70	20	72	36	0	0	61	1.09
1158581--1158688	20	5.3	20	74	7	67	34	0	0	64	1.00
1166582--1166618	10	3.4	11	85	14	58	54	0	0	45	1.00
1166708--1166797	44	2.1	43	81	6	101	42	0	2	55	1.12
1166773--1166877	38	2.9	36	72	14	90	42	0	0	56	1.06
1170158--1170201	21	2.1	21	91	0	70	20	25	13	40	1.89
1171757--1171783	2	13.5	2	100	0	54	0	0	48	51	1.00
1175436--1175469	5	7.0	5	90	3	52	79	0	20	0	0.73
1175650--1175678	2	14.5	2	100	0	58	0	0	48	51	1.00
1177912--1177954	22	2.0	22	86	9	61	60	4	23	11	1.50
1178914--1178999	36	2.4	35	79	11	102	53	2	0	44	1.13
1180222--1180255	2	17.0	2	100	0	68	50	0	0	50	1.00
1188336--1188369	18	2.0	16	88	11	50	32	0	2	64	1.08
1188346--1188370	13	1.9	13	100	0	50	32	0	4	64	1.12
1189011--1189125	25	4.3	27	75	17	116	41	0	0	57	1.05
1189022--1189068	11	4.4	11	79	12	53	38	0	0	61	0.96
1191128--1191402	129	2.1	131	82	3	322	20	22	25	31	1.98
1195772--1195830	29	2.0	29	96	0	109	42	25	0	32	1.55
1198287--1198346	29	2.1	29	84	6	77	58	0	1	40	1.08
1199120--1199182	18	3.2	21	80	17	57	41	0	1	57	1.08
1199099--1199152	29	2.0	28	82	13	69	31	1	3	62	1.23
1211680--1211714	2	17.5	2	100	0	70	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211909--1211951	4	10.8	4	89	0	68	30	0	18	51	1.47
1219489--1219519	3	10.3	3	92	0	53	67	3	0	29	1.06
1228150--1228198	18	2.7	18	81	6	55	32	0	2	65	1.04
1234932--1234961	2	15.0	2	100	0	60	50	0	0	50	1.00
1236456--1236480	3	8.3	3	100	0	50	68	0	0	32	0.90
1236571--1236604	16	2.1	17	88	5	52	55	0	0	44	0.99
1238755--1238779	2	12.5	2	100	0	50	0	48	0	52	1.00
1247371--1247411	18	2.3	19	79	12	50	36	0	4	58	1.20
1250982--1251559	21	26.9	21	66	16	133	54	7	2	35	1.42
1251159--1251269	44	2.6	44	78	2	118	58	7	0	33	1.32
1251233--1251300	10	6.7	10	75	18	61	60	2	0	36	1.12
1251236--1251299	9	6.4	9	73	19	56	60	3	0	35	1.12
1251224--1251318	11	8.9	10	71	16	66	61	2	0	36	1.08
1251266--1251331	34	1.9	35	90	3	107	60	6	0	33	1.21
1254759--1254790	13	2.4	14	90	10	50	53	0	0	46	1.00
1254743--1254814	32	2.2	32	85	7	92	47	0	0	52	1.00
1256185--1256250	20	3.0	22	76	14	66	54	0	0	45	0.99
1256217--1256280	24	2.5	26	80	9	62	50	1	0	48	1.10
1256233--1256288	24	2.2	25	75	6	60	53	1	0	44	1.11
1258227--1258259	15	2.1	17	88	11	52	63	3	6	27	1.32
1258415--1258448	2	17.0	2	100	0	68	50	0	0	50	1.00
1259667--1259696	3	10.0	3	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1260066--1260096	2	16.0	2	93	6	55	48	0	0	51	1.00
1260829--1260911	41	2.1	39	81	6	94	62	1	0	36	1.03
1263404--1263437	13	2.7	13	95	4	61	70	0	0	29	0.87
1264085--1264111	13	2.1	13	100	0	54	44	7	18	29	1.77
1268851--1268884	3	11.3	3	93	0	59	64	0	0	35	0.94
1276180--1276209	2	15.0	2	100	0	60	50	0	0	50	1.00
1278224--1278275	24	2.2	24	83	6	63	40	5	7	46	1.57
1278707--1278765	20	2.9	19	75	7	55	49	6	3	40	1.46
1278730--1278835	21	5.1	21	65	17	60	49	8	4	37	1.54
1278784--1278822	20	2.0	20	84	0	51	48	7	5	38	1.54
1280715--1280770	23	2.4	24	79	8	71	57	0	0	42	0.99
1280679--1280770	38	2.3	39	79	7	105	55	1	0	43	1.07
1281403--1281438	2	18.5	2	94	5	65	50	0	0	50	1.00
1282708--1282732	6	4.2	6	100	0	50	0	0	36	64	0.94
1283277--1283304	2	14.0	2	100	0	56	50	0	0	50	1.00
1286641--1286713	33	2.2	32	79	11	76	42	10	1	45	1.48
1288320--1288371	7	6.9	7	81	14	59	15	5	1	76	1.05
1293658--1293807	70	2.1	69	95	2	264	30	16	13	40	1.86
1294833--1294858	8	3.2	8	100	0	52	76	11	0	11	1.01
1296040--1296064	2	12.5	2	100	0	50	52	0	0	48	1.00
1296886--1296932	23	2.0	24	83	4	60	51	0	0	48	1.00
1296945--1297005	18	3.4	18	71	6	52	50	4	1	42	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1297352--1297385	3	11.3	3	100	0	68	67	0	0	32	0.91
1297384--1297409	3	8.7	3	100	0	52	34	0	0	65	0.93
1297776--1297816	20	2.0	20	90	0	64	39	2	0	58	1.11
1297835--1297892	16	3.6	16	85	0	80	62	0	0	37	0.96
1297835--1297914	32	2.3	36	77	18	96	58	0	0	41	0.98
1297867--1297915	22	2.2	22	85	7	64	55	0	0	44	0.99
1300372--1300455	42	2.0	42	90	0	132	17	34	22	25	1.96
1304992--1305038	19	2.4	19	85	3	58	65	0	0	34	0.93
1305527--1305580	18	3.3	18	65	34	50	42	0	0	57	0.98
1307627--1307653	2	13.5	2	100	0	54	51	0	48	0	1.00
1308765--1308817	20	2.7	20	77	14	56	45	0	0	54	0.99
1308736--1308833	16	6.2	16	68	19	55	46	0	2	51	1.12
1309269--1309308	13	2.9	14	88	3	55	50	0	0	50	1.00
1315223--1315303	9	9.2	9	74	17	55	61	0	0	38	0.96
1315223--1315303	5	17.4	5	69	21	52	61	0	0	38	0.96
1315214--1315290	27	3.0	27	71	16	74	61	0	0	38	0.96
1315262--1315303	20	2.1	20	90	0	66	61	0	0	38	0.96
1315667--1315949	75	3.8	74	79	5	284	26	16	25	31	1.97
1316333--1316705	78	4.8	78	79	2	345	25	16	32	26	1.96
1316456--1316595	26	5.4	26	66	13	63	26	17	30	25	1.97
1316350--1316705	156	2.3	156	79	0	390	25	16	31	26	1.96
1316664--1316751	46	1.9	46	85	0	122	22	18	29	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316736--1316794	26	2.3	26	87	0	82	25	20	32	22	1.98
1316591--1316829	124	1.9	124	81	1	291	25	16	30	27	1.97
1316715--1316867	78	2.0	78	86	0	216	24	17	33	24	1.96
1318365--1318419	27	2.0	27	100	0	110	38	10	18	32	1.85
1318519--1318573	22	2.5	23	79	5	60	50	0	0	49	1.00
1318569--1318598	12	2.4	13	94	5	53	63	0	0	36	0.95
1318574--1318687	28	4.6	26	67	15	73	53	1	0	44	1.10
1318555--1318659	18	5.8	18	70	14	72	53	1	0	44	1.11
1318574--1318686	9	13.7	9	66	22	61	53	1	0	44	1.10
1318625--1318706	21	3.6	22	70	22	71	50	1	0	48	1.08

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