genome.fa.s253.2.7.7.80.10.50.1000.9.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: Scaffold253
Parameters: 2 7 7 80 10 50 1000
Length:  2064896

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

This is table  9  of  13  ( 1496 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)
1122645--1122696	12	4.1	12	77	20	52	65	0	0	34	0.93
1122645--1122694	15	3.5	15	73	13	52	66	0	0	34	0.92
1123153--1123177	2	12.5	2	100	0	50	48	0	0	52	1.00
1123418--1123470	19	2.8	19	85	5	72	56	1	0	41	1.10
1124016--1124057	15	2.8	15	88	0	57	66	2	4	26	1.23
1124369--1124427	14	4.0	14	82	8	64	40	1	0	57	1.09
1124641--1124713	28	2.6	29	75	14	80	46	0	1	52	1.09
1124928--1125068	17	8.5	17	70	19	95	60	0	1	37	1.11
1124973--1125017	20	2.2	20	85	14	58	64	0	0	35	0.94
1124982--1125049	13	5.2	13	71	11	50	58	0	0	41	0.98
1124948--1125036	21	4.3	21	74	18	62	60	0	0	39	0.97
1125173--1125219	19	2.5	20	80	19	57	55	4	0	40	1.19
1127249--1127298	17	2.9	17	79	5	57	46	6	0	48	1.27
1127542--1127697	79	2.0	81	84	2	208	42	11	7	38	1.70
1127925--1127964	18	2.2	19	86	13	57	47	5	0	47	1.24
1128212--1128250	13	3.1	13	85	3	53	41	0	0	58	0.98
1128690--1128725	2	18.0	2	88	0	54	2	47	0	50	1.15
1135888--1135918	13	2.4	13	88	0	53	38	0	0	61	0.96
1137416--1137450	17	2.1	17	88	0	52	37	0	17	45	1.48
1138768--1138804	12	3.0	12	88	7	56	56	2	0	40	1.13
1144019--1144045	2	13.5	2	100	0	54	51	0	0	48	1.00
1146783--1146807	13	1.9	13	100	0	50	32	8	4	56	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146925--1147032	50	2.2	50	84	3	137	43	17	12	26	1.84
1149545--1151529	413	4.8	413	98	0	3808	27	14	19	37	1.92
1151972--1152006	18	1.9	18	88	0	52	62	0	2	34	1.10
1153070--1153099	2	15.0	2	92	0	51	50	3	0	46	1.18
1153110--1153148	9	4.1	9	81	12	51	64	0	0	35	0.94
1156427--1156512	33	2.9	27	72	23	66	53	0	1	45	1.07
1159024--1159096	37	1.9	39	83	10	98	43	0	0	56	0.99
1159474--1159624	14	10.1	15	65	21	57	39	1	0	57	1.15
1159472--1159587	25	4.4	27	71	18	75	41	0	0	57	1.04
1159471--1159561	46	1.9	49	86	6	134	41	0	0	58	0.98
1159467--1159571	46	2.3	45	82	9	133	40	0	0	59	0.98
1159478--1159577	32	3.2	30	75	18	87	43	0	0	57	0.99
1159517--1159577	32	2.0	31	87	6	88	45	0	0	54	1.00
1159496--1159589	27	3.3	26	73	23	75	43	0	1	55	1.06
1160709--1160745	2	18.5	2	100	0	74	51	0	0	48	1.00
1162108--1162137	14	2.2	14	94	5	53	0	16	0	83	0.65
1162445--1162483	19	2.1	19	85	0	51	38	15	12	33	1.85
1163750--1163791	22	1.9	22	90	0	66	40	4	0	54	1.21
1166168--1166198	3	10.3	3	100	0	62	67	0	0	32	0.91
1166460--1166502	11	3.7	11	81	9	50	58	0	0	41	0.98
1166461--1166503	18	2.3	20	88	11	65	58	0	0	41	0.98
1166461--1166550	33	2.7	32	79	16	78	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1166526--1166620	25	3.5	26	74	8	75	65	1	0	33	1.00
1166523--1166573	12	4.2	12	77	5	57	64	0	0	35	0.94
1166757--1166806	16	2.9	16	83	16	57	40	0	0	60	0.97
1166765--1166810	18	2.6	19	83	12	55	36	0	2	60	1.09
1166778--1166835	25	2.2	27	81	6	75	39	1	1	56	1.19
1170619--1171917	228	5.7	225	81	3	1101	23	24	21	30	1.99
1170550--1171916	456	3.0	453	79	3	1395	23	24	21	29	1.99
1172981--1173028	21	2.3	21	85	3	62	41	2	2	54	1.24
1172998--1173031	17	1.9	18	88	5	52	47	0	0	52	1.00
1174323--1174380	30	1.9	30	89	0	89	51	3	18	25	1.62
1174492--1175570	228	4.7	227	84	2	1142	21	25	23	30	1.99
1174492--1175595	456	2.4	455	82	3	1286	21	25	23	29	1.99
1176637--1176677	20	2.1	20	86	4	57	53	0	0	46	1.00
1176637--1176702	24	2.6	24	83	13	71	54	0	0	45	0.99
1176870--1176923	18	2.9	18	73	10	54	53	0	0	46	1.00
1177141--1177174	16	2.1	17	94	5	61	67	0	0	32	0.91
1177141--1177183	16	2.6	16	82	10	52	62	0	2	34	1.08
1177419--1177462	18	2.4	18	76	0	52	43	2	6	47	1.42
1180351--1180384	2	17.0	2	100	0	68	50	0	0	50	1.00
1199657--1199737	42	1.9	42	94	0	144	48	4	7	39	1.53
1199881--1199931	17	3.1	16	75	13	50	60	3	1	33	1.26
1204653--1204679	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206393--1206460	31	2.2	30	79	7	75	48	2	1	47	1.26
1207454--1207491	18	2.0	20	90	10	62	50	2	0	47	1.15
1208061--1208108	15	3.1	15	85	11	62	39	0	0	60	0.97
1208063--1208109	8	6.0	8	78	14	53	38	0	0	61	0.96
1211374--1211422	20	2.5	19	80	6	62	36	2	0	61	1.08
1220450--1220486	17	2.2	17	90	9	58	10	5	5	78	1.08
1220450--1220485	16	2.2	17	90	5	56	11	5	5	77	1.10
1220461--1220508	19	2.5	19	82	3	51	16	2	4	77	1.03
1222435--1222487	24	2.3	23	76	3	61	41	1	1	54	1.22
1222728--1222802	40	1.9	37	82	15	89	30	9	5	54	1.54
1223808--1223858	2	26.0	2	84	4	68	50	0	5	43	1.26
1224002--1224053	20	2.7	19	76	8	52	46	0	1	51	1.12
1224796--1224828	3	11.0	3	93	0	57	30	0	0	69	0.88
1225005--1225036	2	16.0	2	100	0	64	50	0	0	50	1.00
1226818--1226861	17	2.4	18	82	17	56	45	2	0	52	1.13
1227524--1227549	2	13.0	2	100	0	52	50	0	0	50	1.00
1228388--1228430	3	14.3	3	90	0	68	0	4	65	30	1.13
1229004--1229034	2	15.5	2	100	0	62	51	0	0	48	1.00
1231014--1231179	84	2.0	84	84	2	217	31	10	9	49	1.68
1231232--1231271	17	2.4	17	83	4	55	42	0	0	57	0.98
1231257--1231295	20	2.0	19	95	5	69	61	0	0	38	0.96
1231272--1231356	43	2.0	41	82	11	100	60	1	0	38	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231521--1231606	25	3.3	25	74	15	84	39	13	2	44	1.57
1231830--1231890	26	2.4	24	75	17	61	55	0	1	42	1.09
1232812--1232857	23	2.0	24	87	12	69	58	2	0	39	1.10
1233200--1233242	20	2.3	19	88	11	63	67	0	0	32	0.91
1233382--1233438	30	1.9	30	82	13	73	59	0	1	38	1.08
1233580--1233610	15	2.1	15	93	0	53	64	0	0	35	0.94
1240043--1240106	22	2.9	22	74	4	58	40	0	1	57	1.08
1241334--1241405	27	2.7	27	80	4	83	30	4	16	48	1.65
1244856--1244930	27	3.0	25	84	5	89	25	6	18	49	1.72
1248200--1248241	17	2.3	19	76	8	52	54	0	0	45	0.99
1248807--1248842	16	2.2	17	95	5	65	61	0	0	38	0.96
1248815--1248869	22	2.6	21	85	5	83	69	0	0	30	0.89
1248949--1248977	2	14.5	2	100	0	58	48	0	0	51	1.00
1253408--1253438	15	2.0	16	93	6	55	35	0	0	64	0.94
1253410--1253453	23	1.9	23	90	9	72	34	0	0	65	0.93
1253817--1253857	20	2.0	20	85	0	55	60	0	0	39	0.96
1253861--1253899	19	2.0	20	85	14	55	56	0	0	43	0.99
1253860--1253905	21	2.2	21	78	21	53	56	0	0	43	0.99
1254489--1254527	16	2.4	17	86	4	53	48	0	2	48	1.15
1255097--1255159	31	1.9	33	87	9	94	68	0	1	30	0.99
1256005--1256194	74	2.6	74	89	0	292	34	16	5	43	1.72
1256322--1256355	6	5.3	6	89	10	50	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256349--1256626	153	1.8	153	94	1	495	46	7	7	37	1.61
1257435--1257460	2	13.0	2	100	0	52	50	0	0	50	1.00
1260729--1260761	2	16.5	2	100	0	66	48	0	0	51	1.00
1260881--1260932	22	2.4	22	78	15	54	53	1	5	38	1.36
1261713--1261774	21	3.0	21	76	6	56	67	1	0	30	1.00
1261798--1261854	21	2.5	23	76	17	57	38	3	0	57	1.16
1262632--1262689	29	2.0	29	86	6	82	62	6	1	29	1.31
1264741--1264826	27	3.1	27	80	11	86	62	1	0	36	1.03
1264760--1264826	30	2.4	27	81	15	84	64	0	0	35	0.94
1264768--1264833	30	2.2	30	83	2	80	65	0	0	34	0.93

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