genome.fa.s43.2.7.7.80.10.50.1000.10.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

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

This is table  10  of  19  ( 2200 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)
1145996--1146037	11	3.9	11	81	6	59	42	0	0	57	0.99
1145997--1146038	21	2.0	21	95	0	75	40	0	0	59	0.97
1145999--1146072	21	3.4	21	80	15	71	37	0	0	62	0.96
1146013--1146072	22	2.7	23	71	23	56	35	0	0	65	0.93
1145994--1146061	17	4.1	16	73	19	59	41	0	0	58	0.98
1149923--1149959	16	2.3	16	100	0	74	56	0	13	29	1.37
1150648--1150720	36	1.9	37	83	8	94	60	0	0	39	0.97
1150701--1150734	17	2.0	17	94	0	59	44	0	0	55	0.99
1151541--1151573	14	2.4	14	90	10	50	69	0	0	30	0.88
1157527--1157576	25	2.0	25	100	0	100	28	20	20	32	1.97
1162736--1162766	13	2.4	13	94	0	53	38	0	3	58	1.15
1162815--1162847	17	2.0	17	88	5	50	57	6	0	36	1.23
1163339--1163394	25	2.4	24	82	14	64	60	1	0	37	1.07
1163615--1163646	3	10.7	3	100	0	64	34	0	0	65	0.93
1163747--1163787	2	20.5	2	100	0	82	51	0	0	48	1.00
1170470--1170532	31	2.1	30	84	3	81	57	0	0	42	0.99
1170771--1170803	17	1.9	17	93	0	57	54	0	0	45	0.99
1172217--1172263	22	2.1	22	92	0	76	46	17	0	36	1.48
1172789--1172821	13	2.5	14	90	9	52	48	0	0	51	1.00
1173847--1173922	29	2.6	30	78	14	86	38	11	1	48	1.48
1173736--1173897	86	1.9	86	83	1	209	38	12	1	46	1.50
1174598--1174773	69	2.5	67	79	13	178	58	7	1	32	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174800--1175654	73	11.9	73	80	9	735	55	9	1	33	1.42
1174597--1175033	238	1.9	230	82	7	547	55	7	2	34	1.43
1174828--1175654	139	5.7	145	79	9	788	55	9	1	33	1.42
1175344--1175535	40	5.3	39	63	27	118	58	8	1	30	1.38
1175545--1175624	29	3.1	24	82	12	72	57	10	0	32	1.32
1176227--1176290	15	4.3	14	71	25	51	60	0	0	39	0.97
1177423--1177451	2	14.5	2	100	0	58	48	0	0	51	1.00
1179220--1179301	16	4.5	19	75	13	59	42	1	0	56	1.07
1179450--1179534	23	3.7	23	76	14	84	51	1	3	43	1.26
1179485--1179529	14	3.1	14	81	12	56	53	0	2	44	1.13
1179450--1179543	47	2.0	46	91	2	152	52	1	3	43	1.24
1179473--1179550	24	3.3	23	79	15	88	50	0	2	47	1.15
1180949--1180988	20	2.0	20	90	4	64	65	0	0	35	0.93
1180986--1181033	25	2.0	24	84	12	62	47	2	2	47	1.25
1182281--1182312	15	2.1	15	94	0	55	37	0	0	62	0.95
1182296--1182356	20	3.0	20	78	9	52	52	0	0	47	1.00
1182974--1183021	21	2.3	21	78	10	53	50	2	0	47	1.12
1183280--1183312	5	6.8	5	93	6	59	42	0	0	57	0.98
1183283--1183315	9	3.6	9	95	4	57	42	0	0	57	0.98
1183940--1184014	34	2.2	34	81	9	82	57	0	1	41	1.07
1184544--1184589	12	3.6	13	83	11	60	47	0	0	52	1.00
1185196--1185250	28	2.0	28	85	0	74	30	0	5	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185516--1185592	19	4.1	19	79	15	81	58	0	1	40	1.06
1185489--1185586	37	2.7	37	76	16	98	56	1	1	41	1.13
1186818--1186853	2	18.5	2	94	5	65	50	0	0	50	1.00
1187686--1187721	10	3.5	10	88	7	54	61	0	5	33	1.19
1189498--1189528	13	2.3	14	94	5	55	45	0	3	51	1.17
1190045--1190080	3	12.0	3	93	0	63	36	0	0	63	0.94
1190143--1190167	5	5.0	5	100	0	50	80	0	0	20	0.72
1190260--1190292	2	16.5	2	93	0	57	45	0	3	51	1.16
1190619--1190658	3	13.3	3	100	0	80	67	0	0	32	0.91
1190717--1190785	35	1.9	36	88	2	104	43	0	1	55	1.08
1190802--1190863	23	2.9	21	79	11	63	30	6	0	62	1.20
1191256--1191298	14	3.2	13	81	18	52	72	0	0	27	0.85
1192196--1192241	22	2.1	21	84	4	56	78	2	19	0	0.86
1194450--1194493	21	2.0	22	82	4	54	50	0	0	50	1.00
1195303--1195327	5	5.0	5	100	0	50	80	0	0	20	0.72
1196835--1196861	2	13.5	2	100	0	54	51	0	0	48	1.00
1197183--1197228	16	3.1	14	82	14	56	60	0	0	39	0.97
1197943--1197969	6	4.5	6	100	0	54	14	14	37	33	1.88
1199150--1199204	20	2.8	20	75	13	69	56	0	0	43	0.99
1199150--1199200	19	2.6	19	78	9	59	56	0	0	43	0.99
1200930--1200971	18	2.3	18	83	0	57	30	2	2	64	1.19
1201785--1201825	21	2.0	21	85	0	55	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1202766--1202807	2	21.0	2	100	0	84	50	0	0	50	1.00
1204982--1205021	19	2.0	20	85	4	55	55	0	0	45	0.99
1204996--1205047	23	2.3	23	83	9	63	57	0	0	42	0.98
1207346--1207390	20	2.2	20	80	0	54	37	0	0	62	0.96
1207378--1207402	10	2.5	10	100	0	50	28	0	0	72	0.86
1208606--1208656	2	26.0	2	96	4	95	49	0	50	0	1.00
1209385--1209445	23	2.7	23	82	5	72	67	3	0	29	1.07
1212004--1212062	31	1.9	31	89	6	93	44	6	3	45	1.47
1214080--1214139	29	2.1	29	87	0	84	50	0	1	48	1.11
1217795--1217838	22	2.2	20	84	12	54	68	0	2	29	1.02
1218233--1218266	16	2.1	16	89	10	52	38	0	0	61	0.96
1218225--1218279	21	2.5	22	85	14	69	40	0	0	60	0.97
1219033--1219070	18	2.1	19	85	5	51	36	0	2	60	1.11
1223620--1223654	16	2.1	16	89	10	52	45	0	0	54	0.99
1224097--1224137	19	2.1	20	90	4	66	24	17	0	58	1.38
1225184--1225242	21	2.9	21	68	12	52	55	0	0	44	0.99
1225247--1225308	6	10.7	6	87	5	76	54	0	0	45	0.99
1225236--1225300	21	3.2	21	74	26	68	58	1	0	40	1.07
1225268--1225301	5	6.4	5	93	6	50	52	0	0	47	1.00
1226165--1226356	97	2.0	97	93	0	330	26	18	29	25	1.98
1226265--1227100	278	3.0	277	95	0	1474	30	19	30	19	1.97
1228299--1228685	193	2.0	193	98	0	756	26	16	25	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1232322--1232369	24	2.0	23	84	4	60	39	0	2	58	1.10
1234331--1234378	10	5.1	10	75	14	57	31	2	0	66	1.03
1235140--1235168	1	29.0	1	100	0	58	0	0	100	0	0.00
1235306--1235407	16	6.1	15	71	23	55	59	0	0	39	1.04
1235310--1235359	21	2.4	21	86	6	66	64	2	0	34	1.05
1235313--1235374	16	3.8	16	78	20	58	61	1	0	37	1.06
1235310--1235388	37	2.1	35	82	13	97	63	1	0	35	1.03
1235895--1236115	34	6.5	33	81	9	248	41	26	7	24	1.81
1235897--1236115	68	3.2	67	83	3	278	41	26	7	25	1.81
1235895--1236111	102	2.1	101	87	1	326	41	26	7	24	1.81
1238451--1238485	3	11.7	3	93	0	61	65	0	2	31	1.07
1241763--1241790	2	14.0	2	100	0	56	50	0	0	50	1.00
1243484--1243527	14	2.9	16	77	16	58	54	0	0	45	0.99
1243492--1243536	23	2.0	23	86	8	65	51	0	0	48	1.00
1245609--1245683	16	5.0	16	69	27	58	62	0	1	36	1.04
1245638--1245688	14	3.2	17	76	21	56	64	0	0	35	0.94
1245613--1245690	26	3.0	25	83	16	88	62	0	1	35	1.03
1245637--1245697	16	3.9	16	78	10	56	60	0	0	39	0.97
1247263--1247290	2	14.0	2	100	0	56	50	0	0	50	1.00
1247365--1247404	19	2.2	18	86	4	53	62	2	5	30	1.29
1249873--1249927	23	2.4	22	85	14	76	52	0	1	45	1.11
1249987--1250024	16	2.6	14	81	18	51	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250386--1250422	17	2.1	18	90	5	58	24	0	2	72	0.97
1250501--1250536	12	3.0	12	88	12	56	30	0	0	69	0.89
1250830--1250886	13	4.2	13	78	10	60	42	0	0	57	0.98
1250873--1250917	16	2.9	15	80	9	54	42	0	0	57	0.98
1250859--1250986	18	6.9	18	67	25	72	43	0	1	54	1.09
1251595--1251777	34	5.4	34	86	0	233	25	6	26	41	1.78
1252082--1252144	19	3.3	19	90	0	90	28	17	19	34	1.94
1256210--1256394	34	5.5	34	87	0	255	25	7	26	40	1.81
1257023--1257064	15	2.9	15	82	10	52	40	0	0	59	0.97
1257731--1257797	29	2.3	30	87	7	95	43	0	1	55	1.09

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