genome.fa.s4376.2.7.7.80.10.50.1000.3.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: scaffold348
Parameters: 2 7 7 80 10 50 1000
Length:  1216543

Tables:   1   2   3   

This is table  3  of  3  ( 360 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)
774441--774475	18	2.0	17	88	5	52	54	0	0	45	0.99
788558--788591	13	2.6	13	90	9	52	5	2	8	82	0.93
793002--793044	24	1.9	22	86	13	61	46	13	20	18	1.83
798069--798101	16	2.1	16	100	0	66	39	24	0	36	1.56
816325--816916	296	2.0	296	91	0	950	32	22	21	23	1.98
819838--819871	15	2.1	15	89	10	50	50	0	5	44	1.26
825044--825145	20	5.1	20	67	4	71	33	20	33	12	1.90
832580--832621	3	14.0	3	100	0	84	66	0	0	33	0.92
840105--840428	41	7.7	40	79	7	297	35	25	16	22	1.95
840152--840388	84	2.8	84	95	0	429	37	24	15	21	1.93
842615--842644	15	1.9	16	93	6	53	43	10	0	46	1.37
844948--844983	17	2.1	17	89	0	54	2	11	25	61	1.43
848025--848488	61	7.2	61	71	18	379	39	4	6	50	1.47
847944--848539	130	4.6	130	98	0	1115	39	4	6	50	1.46
852669--852710	20	2.3	19	84	12	52	21	2	4	71	1.16
860185--860308	50	2.5	50	78	5	142	25	23	31	19	1.98
860593--860642	16	3.4	16	76	21	63	52	6	28	14	1.65
860588--860642	28	2.0	28	96	0	101	52	5	27	14	1.63
862225--862419	50	3.9	50	77	8	184	22	26	22	28	1.99
862232--862419	100	1.9	99	80	5	218	21	26	22	29	1.99
863119--864142	519	2.0	519	92	1	1705	34	18	12	34	1.88
864999--865023	12	2.1	12	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
865070--865126	20	2.9	20	82	12	73	56	1	3	38	1.27
865063--865114	25	2.1	25	85	7	70	55	0	1	42	1.10
864999--865169	68	2.4	71	79	10	183	52	3	2	41	1.34
873222--873260	18	2.2	18	100	0	78	20	17	15	46	1.84
876782--876806	3	8.3	3	100	0	50	68	0	32	0	0.90
886879--886940	31	2.0	31	100	0	124	32	9	16	41	1.80
894316--894377	31	2.0	31	100	0	124	32	9	16	41	1.80
899576--899640	34	1.9	34	87	0	94	30	13	16	38	1.88
900827--900890	20	3.4	18	80	18	76	56	7	0	35	1.28
910621--910670	25	2.0	25	92	0	82	56	6	12	26	1.58
912348--912374	3	9.0	3	100	0	54	66	0	0	33	0.92
926043--926069	13	2.1	13	100	0	54	37	14	14	33	1.88
926426--927068	44	14.6	43	69	18	242	28	19	23	28	1.98
926340--926808	217	2.2	217	88	0	715	28	20	22	28	1.98
926648--926938	133	2.2	133	93	1	503	28	19	24	27	1.99
928907--928953	19	2.4	20	78	3	51	31	8	10	48	1.68
932129--932230	50	2.0	50	100	0	204	24	25	15	34	1.95
936690--936747	29	2.0	29	100	0	116	27	27	13	31	1.94
942882--942929	21	2.3	21	88	0	69	39	18	27	14	1.90
948889--948941	16	3.3	16	91	0	88	37	3	33	24	1.74
948923--949011	44	2.0	44	84	4	115	32	4	25	37	1.76
949167--949219	18	3.0	17	91	5	79	56	1	1	39	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953558--953592	17	2.1	17	88	0	52	42	0	5	51	1.25
953720--953789	27	2.6	27	83	0	95	24	34	32	8	1.86
955035--955167	66	2.0	65	88	4	196	56	7	12	23	1.62
955100--955632	158	3.4	158	96	1	948	52	8	9	29	1.64
955660--955696	13	2.8	13	100	0	74	56	13	0	29	1.37
955902--955934	17	1.9	17	93	0	57	9	9	6	75	1.18
956742--956817	38	2.0	38	97	0	143	15	5	25	53	1.62
962163--962188	13	2.0	13	100	0	52	38	23	0	38	1.55
975119--975229	55	2.0	55	98	0	213	42	17	1	38	1.60
981644--981677	17	2.0	17	88	0	50	29	14	5	50	1.67
989850--990003	79	1.9	79	96	0	281	24	5	22	47	1.72
993316--993357	19	2.3	18	80	11	50	54	4	0	40	1.21
1008400--1008437	17	2.2	18	81	13	53	44	5	0	50	1.24
1008406--1008438	17	1.9	17	93	0	57	45	6	0	48	1.27
1011085--1011124	20	2.0	20	90	0	62	40	5	7	47	1.54
1013601--1013643	21	2.0	23	86	9	63	44	16	0	39	1.48
1014835--1014863	14	2.1	14	100	0	58	41	20	6	31	1.79
1017706--1017863	78	2.0	78	97	0	298	36	3	18	41	1.68
1020160--1020192	15	2.1	16	94	5	59	66	6	0	27	1.15
1022937--1022977	21	2.0	21	85	0	55	41	14	4	39	1.67
1040942--1041121	41	4.4	41	87	2	238	18	24	7	48	1.74
1040942--1041121	81	2.2	81	87	2	245	18	24	7	48	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043121--1043187	27	2.5	27	92	4	109	62	11	1	23	1.37
1043320--1043352	15	2.3	15	90	10	52	48	0	0	51	1.00
1043442--1043485	20	2.3	18	85	14	70	59	9	0	31	1.29
1045590--1046035	223	2.0	223	95	0	804	29	12	24	32	1.92
1050450--1050523	36	2.1	36	89	5	114	39	13	22	24	1.90
1054742--1054771	7	4.4	7	91	8	53	26	0	0	73	0.84
1054742--1054771	13	2.2	14	94	5	53	26	0	0	73	0.84
1057284--1057309	2	13.0	2	100	0	52	50	0	0	50	1.00
1059592--1059630	20	2.0	20	89	0	60	28	12	28	30	1.93
1062276--1062385	56	2.0	56	92	0	184	32	12	16	38	1.86
1067579--1067624	22	2.0	22	83	4	56	23	15	10	50	1.75
1068943--1068999	30	1.9	29	85	3	78	36	3	22	36	1.72
1069341--1069472	50	2.6	50	83	2	158	27	23	26	22	2.00
1079002--1079216	75	2.9	75	99	0	423	34	6	19	39	1.77
1081014--1081234	109	2.0	110	99	0	435	42	6	12	38	1.68
1083110--1083171	6	10.3	6	73	13	56	19	32	3	45	1.66
1083666--1083723	20	2.7	22	79	12	59	53	3	0	43	1.17
1083692--1083750	9	6.2	9	73	11	55	59	0	0	40	0.97
1083691--1083731	11	3.9	11	84	9	59	56	0	0	43	0.99
1083715--1083760	17	2.7	17	89	0	65	60	0	0	39	0.97
1086181--1086223	23	1.9	22	85	4	59	60	11	0	27	1.31
1093955--1093991	18	2.0	19	89	5	58	45	5	16	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094856--1094894	15	2.6	15	100	0	78	43	7	17	30	1.77
1103422--1103462	18	2.3	18	87	8	57	26	12	12	48	1.75
1103942--1103979	15	2.5	15	95	0	67	21	23	0	55	1.44
1104163--1104200	15	2.5	15	95	0	67	21	23	0	55	1.44
1103831--1104267	221	2.0	222	92	0	732	24	16	11	47	1.79
1111248--1111426	50	3.6	50	81	2	173	27	21	27	22	1.99
1111598--1111640	20	2.2	20	87	8	61	60	2	20	16	1.46
1114856--1114994	41	3.4	41	86	0	179	18	22	25	33	1.97
1122791--1122820	15	2.0	15	93	0	51	63	13	0	23	1.29
1124968--1125021	24	2.2	26	83	6	67	35	3	5	55	1.41
1132505--1132551	23	2.0	24	84	12	62	68	0	10	21	1.20
1135806--1135932	64	2.0	64	87	3	184	25	20	19	34	1.96
1135909--1135979	25	3.0	23	81	4	70	21	21	18	39	1.93
1139038--1139076	20	2.0	20	85	10	53	79	0	12	7	0.93
1140464--1140519	21	2.6	21	81	13	60	26	0	3	69	1.04
1143856--1143888	14	2.4	14	94	0	57	15	60	9	15	1.58
1144466--1144571	44	2.4	44	91	1	167	19	6	30	43	1.77
1145978--1146176	73	2.7	73	97	0	371	34	9	16	40	1.81
1146308--1146345	14	2.7	14	84	8	51	47	5	0	47	1.24
1146273--1146339	34	1.9	35	85	8	93	50	7	2	38	1.46
1168608--1168661	23	2.3	23	81	9	56	40	1	1	55	1.21
1169820--1169858	18	2.2	17	86	4	51	66	12	12	7	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177122--1177157	16	2.2	16	90	0	54	11	33	2	52	1.51
1180317--1180354	14	2.7	14	88	8	51	39	13	5	42	1.66
1191527--1191652	50	2.5	50	85	0	153	30	21	26	20	1.98
1202476--1202597	43	2.8	43	77	11	124	34	27	17	20	1.95
1205099--1205165	19	3.5	19	78	13	66	61	2	0	35	1.12
1206754--1206819	19	3.4	20	76	14	66	62	3	7	27	1.37
1208288--1208378	42	2.2	42	95	0	164	27	15	8	48	1.74
1212560--1212589	7	4.4	7	95	4	53	40	0	13	46	1.43
1213330--1213365	5	7.2	5	93	0	63	19	2	0	77	0.88
1213554--1213653	50	2.0	50	98	0	191	21	33	28	18	1.96

Tables:   1   2   3

The End!