genome.fa.s167.2.7.7.80.10.50.1000.9.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: Scaffold167
Parameters: 2 7 7 80 10 50 1000
Length:  4199719

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  9  of  22  ( 2633 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)
1129979--1130023	3	15.0	3	100	0	90	66	0	0	33	0.92
1132355--1132387	2	16.5	2	100	0	66	48	0	51	0	1.00
1132717--1132751	17	2.0	18	88	5	54	28	0	0	71	0.86
1133027--1133082	29	1.9	29	89	7	87	50	0	0	50	1.00
1141354--1141391	18	2.1	18	100	0	76	36	0	10	52	1.36
1141506--1141546	3	13.3	3	94	5	73	34	0	0	65	0.93
1143781--1143824	3	14.7	3	100	0	88	34	0	0	65	0.93
1144691--1145049	27	15.1	21	69	19	124	23	37	23	16	1.94
1144698--1145056	48	7.5	48	84	7	487	22	37	23	16	1.94
1144728--1144960	69	3.3	69	90	7	376	23	36	23	16	1.94
1144775--1145004	69	3.2	70	81	15	285	23	36	23	16	1.94
1144698--1145056	144	2.5	143	84	12	541	22	37	23	16	1.94
1144691--1145058	21	15.5	21	74	18	214	22	37	22	16	1.93
1148587--1148682	16	6.2	15	73	19	81	41	0	0	58	0.98
1148587--1148670	15	5.5	15	80	15	84	40	0	0	59	0.97
1148571--1148682	19	6.4	17	73	21	74	41	0	0	57	1.05
1148569--1148675	20	5.8	20	67	27	53	42	0	0	57	1.05
1151600--1151641	2	21.0	2	85	0	57	50	7	0	42	1.30
1157191--1157261	23	2.8	25	82	18	76	35	1	2	60	1.20
1157210--1157262	12	4.2	13	79	15	67	37	0	0	62	0.96
1157213--1157266	17	3.0	20	76	20	64	37	0	0	62	0.95
1157230--1157261	6	5.5	6	92	7	57	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157210--1157262	25	2.1	25	83	13	65	37	0	0	62	0.96
1157524--1157557	2	17.0	2	100	0	68	50	0	0	50	1.00
1157912--1158016	36	3.1	34	75	18	121	54	0	0	43	1.13
1157957--1157994	20	1.9	20	88	0	58	47	0	0	52	1.00
1158343--1158376	2	17.5	2	93	6	61	0	50	0	50	1.00
1163676--1164121	218	2.0	221	90	2	702	33	14	10	41	1.81
1165722--1165748	2	13.5	2	100	0	54	48	0	0	51	1.00
1166387--1166419	16	2.1	16	88	5	50	75	0	0	24	0.80
1167134--1167178	21	2.0	22	84	16	58	68	8	0	22	1.16
1167259--1167304	17	2.6	17	82	3	65	65	4	0	30	1.12
1167359--1167402	23	1.9	23	90	9	72	70	0	2	27	0.99
1167437--1167467	14	2.3	13	94	5	53	0	9	0	90	0.46
1168224--1168296	35	2.1	35	86	0	101	53	8	9	28	1.62
1168358--1168454	33	3.3	27	74	20	88	52	0	2	45	1.12
1168383--1168448	33	2.0	33	90	0	105	53	0	0	46	1.00
1169829--1169898	32	2.3	31	83	11	90	54	0	0	45	0.99
1169831--1169943	36	3.2	33	78	15	104	52	0	0	46	1.06
1170941--1170968	2	14.0	2	100	0	56	0	50	0	50	1.00
1181070--1181104	2	17.5	2	93	0	61	48	2	0	48	1.16
1182407--1182435	14	2.0	15	93	6	51	27	3	0	68	1.05
1183663--1183708	19	2.6	18	86	6	58	54	8	0	36	1.32
1184250--1184276	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185435--1185556	39	3.4	36	70	25	98	52	0	0	46	1.06
1185461--1185535	27	2.9	25	79	13	71	52	1	0	46	1.09
1185436--1185564	66	1.9	67	81	12	158	52	0	0	46	1.05
1185488--1185765	110	2.5	109	88	8	382	53	2	1	42	1.23
1185738--1185792	21	2.5	23	79	8	69	61	5	3	29	1.35
1185705--1185789	22	3.8	22	77	11	64	61	3	3	31	1.30
1186085--1186445	122	2.9	124	86	6	477	41	2	1	53	1.25
1186108--1186491	122	3.1	121	82	11	331	41	2	1	53	1.25
1187245--1187271	13	2.1	13	100	0	54	37	7	25	29	1.83
1187258--1188035	93	8.7	92	81	8	826	42	7	16	33	1.77
1187259--1188035	178	4.4	178	80	8	762	42	7	16	33	1.77
1187971--1188275	63	4.7	64	81	8	314	43	9	14	33	1.77
1187967--1188275	128	2.4	131	83	4	378	43	9	14	32	1.77
1188228--1188398	91	1.9	90	80	8	202	42	5	16	35	1.73
1190477--1190505	14	2.0	15	93	6	51	13	3	0	82	0.79
1191433--1191464	13	2.3	15	89	10	50	28	0	0	71	0.86
1192469--1192828	123	2.9	122	85	8	448	53	1	2	42	1.24
1193117--1193197	23	3.5	22	75	13	65	34	3	1	60	1.22
1193147--1193425	110	2.4	115	86	8	383	43	2	1	53	1.23
1194122--1194181	25	2.3	26	94	2	104	28	25	18	28	1.98
1194917--1194958	19	2.3	18	87	4	57	57	2	7	33	1.39
1194983--1195155	91	1.9	91	92	2	294	47	5	6	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200546--1200630	18	4.8	18	73	13	70	56	0	0	43	0.99
1200552--1200645	8	10.9	8	70	18	64	56	1	1	41	1.13
1200568--1200612	20	2.4	19	88	7	65	55	0	0	44	0.99
1201316--1201381	26	2.6	26	83	7	91	63	0	0	36	0.95
1202750--1202792	20	2.2	20	86	0	59	37	0	0	62	0.95
1203223--1203286	17	3.5	19	70	27	57	59	0	0	40	0.97
1203746--1203780	17	2.1	16	89	5	52	57	0	0	42	0.99
1205319--1205347	4	7.2	4	100	0	58	48	0	0	51	1.00
1205368--1205407	21	1.9	21	84	0	53	37	5	15	42	1.68
1205577--1205619	22	2.0	22	81	9	52	39	2	2	55	1.25
1205729--1205753	2	12.5	2	100	0	50	0	48	0	52	1.00
1205753--1205780	2	14.0	2	100	0	56	50	0	0	50	1.00
1206460--1206514	13	4.5	13	71	19	55	38	0	1	60	1.08
1206505--1206553	23	2.1	23	85	14	66	46	0	2	51	1.12
1212774--1212803	2	15.0	2	100	0	60	50	0	0	50	1.00
1213950--1213997	21	2.3	21	78	7	53	25	8	8	58	1.55
1216202--1216231	14	2.1	15	93	6	53	33	0	0	66	0.92
1220054--1220106	9	6.2	8	83	12	54	0	32	1	66	1.03
1220069--1220099	3	10.7	3	93	6	55	0	32	0	67	0.91
1220132--1220165	12	2.8	12	81	0	50	0	20	0	79	0.73
1220203--1220253	12	4.1	12	80	14	59	0	27	3	68	1.07
1220396--1220575	93	2.0	87	86	6	243	6	33	2	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1220305--1220639	102	3.4	96	74	15	242	6	32	2	58	1.38
1220579--1220618	21	1.9	21	84	0	53	0	27	5	67	1.11
1220639--1220684	24	2.0	23	82	4	56	10	30	4	54	1.55
1222949--1222992	24	1.9	24	86	9	65	65	2	0	31	1.05
1222941--1223019	26	3.1	27	78	12	78	60	1	0	37	1.05
1223309--1223334	4	6.5	4	100	0	52	46	0	0	53	1.00
1223498--1223527	4	7.5	4	100	0	60	23	0	0	76	0.78
1223633--1223704	11	6.6	11	71	24	55	68	0	0	31	0.90
1223639--1223776	24	5.5	27	70	14	77	63	0	0	36	0.95
1223637--1223772	39	3.5	40	76	15	101	61	0	0	38	0.96
1223718--1223772	5	11.2	5	77	14	53	60	0	0	40	0.97
1223690--1223754	24	2.8	23	80	11	80	55	0	0	44	0.99
1223663--1223772	10	10.7	11	67	22	62	60	0	0	40	0.97
1223640--1223771	19	7.4	19	69	22	90	61	0	0	38	0.96
1223826--1223858	16	2.0	17	94	5	59	42	0	0	57	0.98
1224210--1224294	27	3.2	27	74	9	86	56	0	0	43	0.99
1224221--1224289	26	2.6	27	84	9	88	50	0	0	49	1.00
1224213--1224301	35	2.5	36	75	15	89	53	0	0	46	1.00
1224442--1224492	21	2.6	19	81	6	57	58	0	0	41	0.98
1224484--1224529	11	3.8	12	81	18	60	30	2	2	65	1.16
1224982--1225022	3	13.3	3	89	5	64	63	2	0	34	1.08
1225004--1225042	13	2.9	13	88	3	51	51	5	0	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229722--1229753	2	16.0	2	100	0	64	50	0	0	50	1.00
1229869--1229901	2	16.5	2	100	0	66	48	0	0	51	1.00
1230648--1230677	2	15.0	2	100	0	60	50	0	0	50	1.00
1236851--1236880	6	5.0	6	100	0	60	16	0	0	83	0.65
1237047--1237144	42	2.4	41	80	13	112	39	2	0	58	1.10
1237214--1237277	28	2.3	28	86	5	85	29	0	0	70	0.88
1237671--1237746	29	2.6	28	82	10	91	40	2	1	55	1.22
1237718--1237777	18	3.4	16	75	25	50	40	0	1	58	1.08
1237771--1237855	31	2.8	32	70	24	76	42	1	1	55	1.15
1240220--1240246	2	13.5	2	100	0	54	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22