genome.fa.s142.2.7.7.80.10.50.1000.7.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: Scaffold142
Parameters: 2 7 7 80 10 50 1000
Length:  1427168

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 953 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)
1150964--1151037	11	6.2	12	76	17	66	67	2	0	29	1.04
1150962--1151036	26	3.0	24	76	16	73	68	4	0	28	1.08
1151051--1151087	14	2.6	14	86	4	56	51	0	0	48	1.00
1151493--1151554	23	2.7	23	70	9	54	40	0	1	58	1.08
1151650--1151734	13	6.5	13	71	12	50	42	0	1	56	1.07
1151666--1151712	11	4.5	11	81	10	53	40	0	0	59	0.97
1151650--1151719	31	2.2	32	82	10	81	40	0	1	58	1.07
1151688--1151792	25	4.6	22	70	19	81	53	0	0	46	1.00
1151707--1151753	16	2.7	19	78	18	57	53	0	0	46	1.00
1151709--1151802	31	2.9	33	83	9	97	58	0	0	41	0.98
1151725--1151797	27	2.8	27	82	14	82	58	0	0	41	0.98
1151695--1151799	36	2.9	36	75	16	103	57	0	0	42	0.99
1153927--1153959	17	1.9	17	100	0	66	30	27	6	36	1.81
1154799--1154834	19	1.9	19	88	5	56	30	0	0	69	0.89
1155089--1155154	21	2.8	24	73	15	66	48	0	3	48	1.17
1156442--1156489	2	24.0	2	100	0	96	50	0	0	50	1.00
1156711--1156755	18	2.3	20	85	11	58	31	2	0	66	1.04
1156870--1156907	14	2.6	15	83	4	51	65	0	0	34	0.93
1163498--1163549	15	2.9	18	86	13	65	38	0	0	61	0.96
1163492--1163549	15	3.5	16	78	19	57	37	0	0	62	0.96
1166243--1166444	78	2.6	79	81	7	223	29	16	28	25	1.97
1166400--1166467	28	2.4	28	87	0	91	25	19	32	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166318--1166520	108	1.9	105	82	6	255	30	15	27	27	1.96
1166456--1166587	51	2.6	52	78	8	144	33	9	25	31	1.89
1168950--1168975	13	2.0	13	100	0	52	38	15	15	30	1.88
1168929--1168995	33	2.0	33	88	0	98	43	16	14	25	1.86
1169015--1169082	19	3.9	18	76	23	83	38	14	11	35	1.83
1169037--1169061	13	1.9	13	100	0	50	32	16	16	36	1.90
1169018--1169080	32	2.0	32	96	0	117	36	15	12	34	1.86
1170379--1170420	17	2.3	18	81	18	52	64	9	4	21	1.42
1170777--1170825	3	16.3	3	95	0	89	34	2	0	63	1.06
1170949--1170993	3	15.0	3	100	0	90	33	0	0	66	0.92
1171425--1171469	3	15.0	3	100	0	90	33	0	0	66	0.92
1171890--1171930	3	13.7	3	100	0	82	31	0	0	68	0.90
1170831--1171932	476	2.4	463	93	4	1869	34	12	8	44	1.72
1172082--1172151	23	3.2	23	76	7	67	67	0	0	32	0.91
1172935--1172971	18	2.0	19	89	5	58	40	0	2	56	1.13
1173842--1173897	13	4.0	14	82	15	71	57	0	0	42	0.99
1173846--1173902	29	2.0	29	92	0	96	54	0	0	45	0.99
1173851--1173912	29	2.1	29	84	0	79	58	1	3	37	1.24
1174035--1174080	17	2.8	16	87	9	65	41	0	0	58	0.98
1174035--1174080	20	2.5	20	89	10	71	41	0	0	58	0.98
1174240--1174299	13	4.6	13	75	6	59	40	0	5	55	1.22
1174240--1174300	25	2.3	27	83	8	81	40	0	4	54	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174445--1174491	17	2.8	17	87	12	78	40	0	0	59	0.97
1174445--1174494	16	3.0	16	91	8	82	44	0	0	56	0.99
1174906--1174952	13	3.4	13	81	16	58	36	0	0	63	0.94
1174895--1174970	29	2.6	29	82	2	98	44	1	1	52	1.17
1177230--1177262	2	16.5	2	93	0	57	51	0	0	48	1.00
1177837--1177864	2	14.0	2	100	0	56	50	0	0	50	1.00
1177930--1177973	2	22.0	2	100	0	88	50	0	0	50	1.00
1178265--1178289	10	2.5	10	100	0	50	52	0	0	48	1.00
1178751--1178783	17	1.9	17	93	0	57	39	27	9	24	1.85
1184103--1184143	18	2.2	19	95	4	75	53	0	0	46	1.00
1184103--1184154	18	2.7	18	85	11	59	55	0	0	44	0.99
1184513--1184831	163	2.0	163	87	1	469	45	5	8	40	1.56
1185016--1185061	22	2.1	21	84	11	58	39	0	0	60	0.97
1185714--1185739	7	3.7	7	100	0	52	69	0	0	30	0.89
1194008--1194040	2	17.0	2	87	6	50	51	3	0	45	1.16
1195388--1195414	2	13.5	2	100	0	54	51	0	0	48	1.00
1195475--1195524	21	2.6	18	78	9	55	54	0	0	46	1.00
1196809--1196889	37	2.3	35	83	12	94	38	0	1	60	1.05
1196842--1196912	11	6.0	11	72	25	56	35	1	1	61	1.13
1196835--1196911	24	3.2	25	75	15	65	37	1	1	59	1.14
1202687--1202711	11	2.3	11	100	0	50	32	0	0	68	0.90
1206598--1206628	15	2.1	15	93	0	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206614--1206692	29	2.7	30	81	12	87	37	2	0	59	1.11
1206616--1206707	5	17.8	5	70	20	57	38	3	0	58	1.14
1210966--1211015	22	2.4	20	80	6	64	48	0	0	52	1.00
1211053--1211086	10	3.4	10	84	15	52	50	0	0	50	1.00
1211023--1211106	41	2.0	42	84	6	109	52	0	0	47	1.00
1211223--1211258	2	18.0	2	100	0	72	50	0	0	50	1.00
1211386--1211419	17	2.0	17	88	0	50	52	0	0	47	1.00
1214676--1214716	13	3.1	13	85	3	55	48	0	4	46	1.23
1216245--1216286	18	2.3	18	84	11	59	45	2	0	52	1.13
1216833--1216857	12	2.1	12	100	0	50	60	0	0	40	0.97
1217034--1217071	18	2.1	18	85	9	51	28	0	2	68	1.03
1217070--1217137	35	2.0	33	85	5	91	58	0	1	39	1.07
1217386--1217427	22	1.9	22	90	9	68	38	0	0	61	0.96
1217408--1217470	31	2.0	31	84	0	81	52	1	1	44	1.20
1220538--1220607	25	2.7	26	74	10	72	17	17	18	47	1.83
1227764--1227821	25	2.3	25	80	17	66	55	0	1	43	1.10
1229758--1229810	2	26.5	2	88	0	79	47	0	3	49	1.19
1232065--1232104	19	2.2	19	86	4	55	52	0	0	47	1.00
1232112--1232192	9	8.9	10	72	22	54	34	0	0	65	0.93
1232111--1232192	10	9.1	9	73	22	50	34	0	0	65	0.93
1232798--1232864	34	2.0	33	82	11	82	43	4	1	50	1.31
1232857--1232955	16	6.2	16	79	5	103	41	8	0	50	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1235025--1235107	37	2.2	37	89	0	130	49	16	12	21	1.78
1237568--1237677	48	2.2	49	79	9	118	45	0	0	53	1.06
1237931--1237993	28	2.2	28	86	11	83	50	0	0	49	1.00
1238823--1238875	21	2.7	20	82	8	63	41	3	0	54	1.18
1238828--1238874	21	2.3	21	88	3	69	38	4	0	57	1.18
1239740--1239765	12	2.2	12	100	0	52	80	0	0	19	0.71
1239835--1239859	6	4.2	6	100	0	50	16	0	0	84	0.63
1240565--1240609	20	2.5	19	86	13	60	55	2	2	40	1.24
1240556--1240598	8	5.4	8	84	15	54	60	2	0	37	1.10
1240787--1240866	28	3.0	25	78	20	83	33	1	0	65	1.01
1240796--1240871	8	8.4	9	69	20	52	32	1	0	65	1.01
1243829--1243879	2	25.5	2	95	0	93	47	1	0	50	1.12
1244197--1244258	15	4.1	15	79	8	63	43	0	0	56	0.99
1244197--1244262	16	4.4	16	78	12	61	40	0	0	59	0.98
1249086--1249123	20	1.9	20	89	10	60	50	0	0	50	1.00
1249913--1250008	8	12.8	8	68	20	55	60	1	0	38	1.04
1249900--1249996	29	3.4	28	76	12	90	63	1	0	35	1.01
1249911--1249997	10	8.0	12	78	14	68	62	1	0	36	1.03
1249909--1250062	21	7.7	21	72	15	103	59	0	0	39	1.02
1250059--1250112	25	2.2	25	96	0	99	42	9	0	48	1.35
1250260--1250318	16	3.8	16	72	4	57	11	15	23	49	1.77
1250194--1250297	48	2.1	49	80	5	113	19	12	17	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250498--1250537	18	2.2	18	90	0	62	50	0	2	47	1.14
1251728--1251790	16	3.9	16	77	10	65	30	4	7	57	1.48
1251760--1251820	16	3.9	16	85	6	81	44	3	0	52	1.17
1258289--1258328	20	2.0	20	85	9	55	47	0	0	52	1.00
1258432--1258472	10	4.1	10	82	17	50	70	0	0	29	0.87
1258808--1258869	14	4.4	14	75	0	52	38	0	0	61	0.96
1258796--1258847	20	2.7	20	80	11	56	38	0	0	61	0.96
1259483--1259523	20	2.2	18	83	12	55	56	0	0	43	0.99
1259774--1259822	9	5.3	9	81	13	64	65	0	0	34	0.93
1259769--1259822	28	1.9	28	85	7	74	66	0	0	33	0.92

Tables:   1   2   3   4   5   6   7   8