genome.fa.s4355.2.7.7.80.10.50.1000.4.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: scaffold163
Parameters: 2 7 7 80 10 50 1000
Length:  1887244

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 745 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)
904499--904560	31	2.0	31	100	0	124	38	12	16	32	1.86
905906--906033	46	2.8	45	74	9	123	30	23	16	29	1.96
907560--907602	17	2.5	17	84	3	50	72	4	0	23	1.04
908391--908452	29	2.1	31	84	6	83	51	6	4	37	1.49
909065--909133	24	2.9	25	79	14	83	62	2	0	34	1.10
909095--909124	15	1.9	16	93	6	53	63	6	0	30	1.20
910657--910698	15	2.5	18	77	18	54	23	2	4	69	1.20
910880--910915	15	2.3	16	85	4	56	16	0	5	77	0.94
912491--912558	3	21.3	3	88	5	91	61	2	1	33	1.20
913828--913858	3	10.3	3	92	0	53	64	0	3	32	1.09
914646--914964	43	7.3	43	72	10	177	26	21	22	29	1.99
914666--914749	44	1.9	44	87	0	123	23	26	21	28	1.99
914544--914742	87	2.3	85	78	6	206	26	21	20	31	1.98
931708--931738	3	10.3	3	92	0	53	64	0	3	32	1.09
937063--938057	132	7.5	132	86	4	1172	27	25	19	27	1.99
937063--938091	133	7.8	133	86	2	1189	28	25	19	27	1.99
939392--939435	14	3.1	14	78	12	54	15	18	2	63	1.41
942289--942328	19	2.0	20	85	4	55	47	7	20	25	1.75
953807--953885	38	2.0	38	82	4	95	51	5	3	39	1.42
956091--956126	17	2.1	17	89	0	54	2	22	2	72	1.11
957717--957741	9	2.8	9	100	0	50	68	8	0	24	1.16
959679--960452	45	17.7	46	71	16	391	27	22	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959590--960461	218	4.0	218	93	0	1417	27	22	20	29	1.99
959897--960456	89	6.4	88	69	14	211	27	23	20	28	1.99
972886--973140	127	2.0	127	100	0	510	28	27	18	25	1.98
973826--973859	17	2.0	17	88	0	50	11	17	29	41	1.85
980267--980344	24	3.2	24	81	0	84	29	2	10	57	1.45
983550--983596	21	2.2	22	81	11	53	40	21	8	29	1.83
1000232--1000265	3	11.3	3	100	0	68	67	0	32	0	0.91
1008367--1008446	13	6.1	13	72	2	52	45	2	18	33	1.63
1008377--1008471	13	7.2	13	68	7	57	40	3	17	38	1.66
1010255--1010387	71	1.9	71	96	0	248	27	5	21	45	1.73
1011710--1011965	71	3.6	71	77	4	246	30	23	16	30	1.96
1014125--1014550	212	2.0	213	99	0	845	47	11	11	30	1.74
1037080--1037145	28	2.4	28	89	0	96	51	12	7	28	1.66
1037097--1037142	14	3.3	14	75	0	56	54	8	6	30	1.56
1037140--1037254	28	4.1	28	73	4	97	38	11	14	35	1.82
1037140--1037254	56	2.1	56	86	0	158	38	11	14	35	1.82
1037210--1037291	42	2.0	42	85	0	110	41	10	14	32	1.81
1037423--1037493	37	1.9	37	85	0	97	39	19	19	21	1.93
1039853--1039902	22	2.3	22	80	13	59	32	2	18	48	1.59
1041656--1041716	26	2.3	26	83	5	70	36	14	16	32	1.89
1043924--1044002	39	2.0	39	97	0	149	48	1	6	44	1.36
1048696--1048752	29	2.0	29	82	0	69	28	12	26	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052539--1052655	44	2.7	44	82	5	130	28	25	18	27	1.98
1075161--1075480	109	2.9	109	82	7	364	35	17	15	30	1.92
1075506--1075551	21	2.2	21	84	7	58	56	4	13	26	1.55
1086043--1086090	12	4.1	12	74	15	55	47	2	2	47	1.25
1086039--1086084	23	2.0	24	91	4	76	45	2	2	50	1.26
1100189--1100565	125	3.0	124	86	3	533	30	17	21	30	1.96
1103054--1103110	30	1.9	30	88	0	87	33	21	3	42	1.70
1107359--1107383	7	3.6	7	100	0	50	60	12	0	28	1.32
1107554--1107591	20	1.9	20	84	10	51	57	5	2	34	1.35
1108454--1108633	43	4.2	43	94	1	299	28	33	16	21	1.95
1108656--1108705	22	2.2	23	86	10	68	36	2	2	60	1.20
1108783--1109000	115	2.0	102	87	11	301	49	6	5	32	1.51
1108791--1109025	115	2.0	115	83	0	290	51	5	5	30	1.50
1112971--1113082	41	2.7	40	84	5	143	31	33	17	16	1.93
1113116--1113218	40	2.6	40	87	7	149	24	22	18	34	1.96
1113577--1113631	11	4.9	11	75	20	60	41	1	30	25	1.66
1113577--1113631	22	2.5	22	83	16	69	41	1	30	25	1.66
1117278--1117406	45	2.9	45	78	2	134	42	13	22	21	1.87
1117484--1117596	27	4.2	27	82	0	118	38	8	26	26	1.86
1117556--1117679	54	2.3	54	80	2	142	42	13	19	24	1.87
1128909--1129127	92	2.3	94	80	7	232	34	11	11	42	1.79
1129237--1129282	20	2.4	19	82	10	58	71	8	0	19	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129920--1129971	20	2.5	21	84	12	63	61	7	3	26	1.41
1129921--1129969	23	2.2	22	82	7	55	65	8	4	22	1.37
1130194--1130265	27	2.7	26	79	12	76	68	5	2	23	1.24
1130194--1130264	26	2.7	26	81	10	74	69	5	1	23	1.18
1143985--1144037	20	2.7	20	84	0	79	39	15	22	22	1.91
1145738--1145762	12	2.1	12	100	0	50	24	28	0	48	1.52
1145921--1145948	5	5.6	5	100	0	56	0	17	0	82	0.68
1146863--1146906	18	2.4	18	84	3	52	15	13	4	65	1.41
1153162--1153215	18	2.9	19	76	12	60	35	1	1	61	1.18
1156265--1156307	19	2.4	18	92	7	70	34	16	11	37	1.85
1156480--1156695	45	4.9	44	87	6	276	26	24	19	28	1.99
1156473--1156695	89	2.5	89	84	7	276	26	25	19	28	1.99
1156706--1157340	210	3.0	210	75	9	757	26	22	20	29	1.98
1157001--1157122	45	2.8	44	83	8	158	27	27	19	26	1.99
1157005--1157122	44	2.6	45	83	9	152	27	27	19	25	1.99
1157177--1157426	132	1.9	133	90	0	403	26	24	20	29	1.99
1169305--1169822	273	1.9	273	92	0	874	28	19	20	31	1.97
1169930--1169998	17	4.2	16	82	12	70	82	7	1	8	0.90
1169952--1170002	16	3.1	16	85	2	66	78	9	0	11	0.97
1169933--1170002	16	4.7	16	75	13	60	80	8	1	10	0.98
1170024--1170068	6	7.3	6	95	5	81	80	0	20	0	0.72
1170024--1170073	19	2.6	19	90	9	84	78	0	22	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171317--1171342	13	2.0	13	100	0	52	38	0	30	30	1.58
1172030--1172593	50	11.3	50	69	9	389	35	24	17	22	1.95
1172021--1172575	100	5.6	100	95	1	997	35	24	17	22	1.95
1172633--1172682	25	2.0	25	84	0	64	36	20	18	26	1.95
1172533--1172770	125	1.9	125	91	0	386	36	19	18	25	1.95
1173509--1173533	13	1.9	13	100	0	50	12	0	0	88	0.53
1176065--1176114	26	2.0	26	92	4	84	58	4	8	30	1.45
1176379--1176440	19	3.3	19	93	0	106	38	12	8	40	1.73
1181864--1181967	37	2.9	36	80	5	111	26	14	13	45	1.82
1183346--1183409	32	2.0	33	96	3	121	26	17	28	28	1.97
1186590--1186628	13	2.9	13	85	14	53	74	0	7	17	1.05
1187388--1187484	44	2.2	45	78	9	110	22	18	21	37	1.95
1187565--1188148	44	13.7	42	68	11	287	24	21	23	31	1.98
1187537--1188153	129	4.8	129	93	1	981	23	20	23	31	1.98
1187517--1188367	128	6.6	129	85	5	426	24	21	22	31	1.98
1188243--1188452	44	4.8	44	68	12	110	24	23	20	31	1.98
1188140--1188455	131	2.4	131	89	2	472	25	23	20	30	1.99
1188578--1188760	50	3.7	50	80	0	231	25	23	22	28	1.99
1188570--1188761	100	1.9	100	92	0	321	25	23	22	29	1.99
1188832--1189037	44	4.7	44	69	9	125	27	25	16	31	1.97
1188755--1189058	131	2.3	131	89	1	448	27	24	17	30	1.97
1189901--1189954	28	2.0	27	82	10	65	3	14	1	79	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1190396--1190452	16	3.4	16	75	13	53	3	7	5	84	0.87
1190389--1190453	29	2.3	28	80	12	71	4	6	6	83	0.92
1194611--1194721	58	1.9	59	83	5	145	46	4	11	36	1.61
1194708--1194761	23	2.3	23	81	6	56	40	0	16	42	1.48
1195572--1195610	13	2.9	13	85	14	53	74	0	7	17	1.05
1196216--1197326	554	2.0	554	99	0	2206	28	17	17	36	1.93
1200999--1201024	9	2.9	9	100	0	52	80	7	0	11	0.89
1201033--1201110	6	13.7	6	78	14	67	70	0	20	8	1.14
1201066--1201110	11	4.0	11	83	11	56	75	0	22	2	0.91
1201044--1201107	23	2.8	23	81	11	78	68	0	23	7	1.15

Tables:   1   2   3   4   5   6   7