genome.fa.s238.2.7.7.80.10.50.1000.7.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: Scaffold238
Parameters: 2 7 7 80 10 50 1000
Length:  1453955

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 962 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)
1025719--1025772	20	2.6	21	82	8	65	38	1	1	57	1.20
1035307--1035354	1	48.0	1	93	0	69	93	0	2	4	0.39
1035304--1035354	26	2.0	26	100	0	102	88	0	3	7	0.63
1035308--1035356	25	2.0	25	100	0	98	89	0	2	8	0.55
1035359--1035415	21	2.7	21	97	0	105	33	10	19	36	1.86
1035471--1035538	19	3.9	19	78	21	85	35	11	14	38	1.83
1035492--1035516	13	1.9	13	100	0	50	36	16	16	32	1.90
1035473--1035535	32	2.0	32	96	0	117	34	12	15	36	1.86
1035578--1035603	13	2.0	13	100	0	52	30	15	15	38	1.88
1035558--1035624	33	2.0	33	88	0	98	25	14	16	43	1.86
1038078--1038150	27	2.7	27	87	6	94	23	34	21	20	1.97
1037966--1038407	104	4.2	104	76	7	444	29	26	11	32	1.92
1037969--1038406	51	8.4	51	73	11	305	29	25	11	32	1.92
1038390--1038466	28	2.8	28	87	0	100	23	33	19	23	1.97
1038024--1038545	104	4.9	107	77	11	314	27	27	14	31	1.95
1038420--1038622	79	2.6	79	80	1	219	23	30	17	28	1.97
1051038--1051103	15	4.4	15	79	7	71	86	4	9	0	0.70
1051038--1051087	1	50.0	1	79	0	55	90	6	4	0	0.57
1052069--1052857	55	14.3	55	91	4	1179	28	30	20	20	1.98
1052473--1052561	29	3.2	29	67	20	89	28	33	19	19	1.96
1053454--1053499	1	46.0	1	93	0	65	93	0	2	4	0.41
1053451--1053499	25	2.0	25	100	0	98	87	0	4	8	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053455--1053501	24	2.0	24	100	0	94	89	0	2	8	0.57
1053504--1053560	21	2.7	21	97	0	105	33	10	19	36	1.86
1053616--1053683	19	3.9	19	78	21	85	35	11	14	38	1.83
1053637--1053661	13	1.9	13	100	0	50	36	16	16	32	1.90
1053618--1053680	32	2.0	32	96	0	117	34	12	15	36	1.86
1053723--1053748	13	2.0	13	100	0	52	30	15	15	38	1.88
1053703--1053769	33	2.0	33	88	0	98	25	14	16	43	1.86
1056223--1056295	27	2.7	27	87	6	94	23	34	21	20	1.97
1056111--1056552	104	4.2	104	76	7	444	29	26	11	32	1.92
1056114--1056551	51	8.4	51	73	11	305	29	25	11	32	1.92
1056535--1056611	28	2.8	28	87	0	100	23	33	19	23	1.97
1056169--1056690	104	4.9	107	77	11	314	27	27	14	31	1.95
1056565--1056767	79	2.6	79	80	1	219	23	30	17	28	1.97
1058717--1058755	21	1.9	20	84	5	51	33	23	5	38	1.77
1066170--1066199	13	2.3	13	100	0	60	53	13	26	6	1.64
1067242--1067281	21	1.9	21	89	0	62	25	20	17	37	1.94
1067319--1067394	21	3.7	21	76	13	77	42	13	14	30	1.84
1069865--1070210	79	4.4	79	76	6	299	28	23	12	35	1.91
1069902--1070209	158	1.9	158	83	3	388	30	22	12	35	1.90
1070142--1070251	51	2.2	50	85	4	141	29	23	10	36	1.89
1070062--1070336	130	2.1	131	82	4	324	29	22	11	36	1.90
1076449--1076505	30	1.9	30	88	0	87	24	22	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076522--1077091	123	4.6	122	81	6	609	26	21	19	33	1.97
1076518--1077090	61	9.4	61	80	5	622	26	20	19	33	1.96
1077080--1077219	42	3.4	41	83	5	151	25	26	13	35	1.93
1084094--1084149	27	2.1	27	86	0	76	25	14	37	23	1.92
1087330--1087538	102	2.0	102	99	0	409	39	11	20	29	1.87
1089806--1089905	51	1.9	52	87	2	148	45	12	16	27	1.82
1090704--1091059	52	6.9	52	76	2	214	38	14	21	25	1.91
1090704--1091032	104	3.2	104	76	4	277	38	14	20	26	1.91
1090753--1091001	105	2.4	104	80	2	259	38	14	19	26	1.91
1091108--1091323	32	6.8	32	71	9	147	23	17	28	31	1.97
1091112--1091352	94	2.5	93	78	7	225	24	17	27	30	1.97
1091302--1091572	28	9.2	28	75	10	109	32	15	25	26	1.95
1091234--1091531	28	9.9	28	72	12	112	27	16	27	28	1.97
1091446--1091954	29	17.3	30	77	9	376	32	11	27	27	1.92
1091451--1091954	60	8.5	59	78	8	422	33	11	27	27	1.92
1097265--1097301	13	2.6	14	91	8	58	18	27	0	54	1.44
1097329--1097869	157	3.4	155	70	12	391	32	16	14	35	1.89
1097717--1098850	475	2.4	473	84	2	1465	31	18	13	37	1.89
1101330--1101990	159	4.2	157	69	11	434	35	13	19	31	1.90
1100444--1102067	475	3.4	474	86	3	2099	36	13	18	31	1.90
1101417--1102042	159	4.0	157	69	13	438	34	13	19	32	1.90
1101790--1102354	287	2.0	286	85	2	767	35	11	20	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1102615--1102689	20	3.8	19	82	3	87	34	12	12	41	1.79
1102615--1102692	40	2.0	39	85	7	104	34	11	12	41	1.80
1103296--1103330	17	2.1	17	100	0	70	17	5	31	45	1.71
1105425--1107621	476	4.7	472	80	6	2374	37	13	18	30	1.89
1106000--1107393	456	3.0	452	79	7	1564	37	12	18	30	1.89
1105525--1107393	930	2.0	931	84	3	2465	37	13	18	30	1.89
1106454--1107621	474	2.5	474	81	4	1347	37	13	17	30	1.89
1107384--1107894	273	1.9	273	81	4	627	39	14	16	29	1.88
1108135--1110087	476	4.1	474	82	4	2223	37	13	18	30	1.90
1110466--1112102	159	10.3	157	65	13	459	36	14	17	31	1.90
1110087--1117135	476	15.0	475	80	6	7000	36	13	18	31	1.90
1118011--1118743	159	4.6	159	65	14	389	39	12	17	31	1.86
1117228--1119670	476	5.2	475	86	3	2675	37	12	17	31	1.88
1120572--1120598	13	2.1	13	100	0	54	29	14	14	40	1.86
1120553--1120617	32	2.0	32	90	3	103	26	16	16	40	1.90
1120582--1120638	19	2.9	19	89	2	87	31	15	17	35	1.92
1129273--1129299	13	2.1	13	100	0	54	29	14	14	40	1.86
1129254--1129318	32	2.0	32	90	3	103	26	16	16	40	1.90
1129283--1129339	19	2.9	19	89	2	87	31	15	17	35	1.92
1129369--1129421	20	2.7	19	88	11	72	37	13	18	30	1.89
1129726--1129793	19	3.9	19	78	21	85	35	11	14	38	1.83
1129747--1129771	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1129728--1129790	32	2.0	32	96	0	117	34	12	15	36	1.86
1129813--1129867	20	2.8	20	82	0	74	23	14	16	45	1.84
1132312--1132387	27	2.8	28	81	2	91	23	31	21	23	1.98
1132203--1132540	52	6.4	52	70	15	196	29	25	12	32	1.93
1132203--1132604	212	1.9	212	89	3	621	28	26	13	32	1.94
1145082--1145150	10	6.9	10	87	12	106	91	8	0	0	0.43
1145083--1145149	19	3.4	20	91	8	111	91	8	0	0	0.43
1145082--1145150	30	2.3	30	95	5	122	91	8	0	0	0.43
1145080--1145150	1	71.0	1	82	0	88	91	8	0	0	0.42
1146154--1146646	55	9.0	55	89	4	748	27	30	20	21	1.98
1147465--1147532	19	3.9	19	78	21	85	35	11	14	38	1.83
1147486--1147510	13	1.9	13	100	0	50	36	16	16	32	1.90
1147467--1147529	32	2.0	32	96	0	117	34	12	15	36	1.86
1147552--1147606	20	2.8	20	82	0	74	23	14	16	45	1.84
1150049--1150124	27	2.8	28	89	2	109	23	34	21	21	1.97
1149940--1150275	104	3.2	104	69	14	283	30	25	12	31	1.92
1149940--1150276	52	6.4	52	70	14	176	30	25	12	31	1.92
1150260--1150336	28	2.8	28	85	0	91	23	32	19	24	1.97
1149940--1150341	212	1.9	212	89	3	630	28	26	13	31	1.94
1153172--1153197	13	2.0	13	100	0	52	38	15	15	30	1.88
1153156--1153217	32	1.9	33	90	3	99	43	16	12	27	1.84
1156117--1156508	211	1.9	209	90	1	622	37	14	18	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156326--1158669	475	5.0	474	82	5	2672	36	13	17	31	1.89
1156326--1158669	940	2.5	939	82	6	2798	36	13	17	31	1.89
1158668--1165693	475	14.9	473	82	5	7435	37	13	18	31	1.89
1158730--1163685	158	31.3	156	65	13	1003	37	13	18	31	1.89
1166524--1166613	19	4.6	19	79	10	85	36	13	18	31	1.90
1166883--1169823	476	6.2	474	84	2	3554	37	13	18	31	1.89
1167000--1169770	159	17.5	159	66	12	810	37	13	18	31	1.89
1166883--1169823	950	3.1	947	86	2	3910	37	13	18	31	1.89
1169424--1170218	399	2.0	399	88	1	1198	37	12	17	32	1.88
1169907--1170559	158	4.1	159	65	14	360	36	14	17	31	1.90

Tables:   1   2   3   4   5   6   7   8   9