genome.fa.s76.2.7.7.80.10.50.1000.6.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: Scaffold76
Parameters: 2 7 7 80 10 50 1000
Length:  2182696

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

This is table  6  of  13  ( 1456 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)
1083511--1083630	51	2.4	51	80	2	143	30	23	13	32	1.93
1083617--1083687	28	2.5	28	88	0	97	23	29	21	25	1.99
1083617--1083897	109	2.6	106	85	4	350	25	24	17	31	1.97
1083731--1083797	28	2.4	27	85	9	82	23	35	14	25	1.94
1083618--1083904	107	2.6	108	84	5	359	26	25	16	31	1.97
1083833--1083906	28	2.6	29	79	12	82	22	29	21	25	1.99
1083569--1083982	107	3.9	107	77	10	353	27	25	14	31	1.95
1083858--1084099	79	3.1	80	88	3	364	29	27	12	30	1.93
1084050--1084164	51	2.3	51	78	3	124	32	28	8	30	1.87
1083971--1084359	122	3.0	130	78	11	401	29	25	12	32	1.92
1088353--1088378	13	2.0	13	100	0	52	30	15	15	38	1.88
1088333--1088396	32	2.0	33	93	3	112	28	12	15	43	1.83
1088333--1088396	19	3.6	19	72	25	68	28	12	15	43	1.83
1089843--1090384	55	9.6	54	85	9	627	26	26	20	25	1.99
1089983--1090119	27	5.0	27	59	7	69	27	25	21	24	1.99
1090949--1090994	21	2.2	21	84	7	58	32	23	17	26	1.97
1091070--1091143	20	3.7	19	80	7	85	29	14	12	43	1.82
1092791--1092819	10	2.7	11	94	5	51	17	0	6	75	1.01
1093487--1093606	51	2.4	51	80	2	143	30	22	13	33	1.92
1093593--1093663	28	2.5	28	90	0	106	23	30	21	23	1.99
1093593--1093873	109	2.6	107	85	3	350	25	24	18	31	1.97
1093702--1093769	28	2.4	28	80	4	75	22	27	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093594--1093879	107	2.6	107	83	7	346	25	25	17	31	1.97
1093809--1093882	28	2.6	29	79	12	82	22	29	21	25	1.99
1093545--1093958	107	3.9	106	76	10	342	27	25	15	31	1.95
1093834--1094075	79	3.1	80	88	3	364	29	27	12	30	1.93
1094026--1094140	51	2.3	51	80	3	133	32	29	8	29	1.87
1093947--1094305	122	2.8	125	78	11	383	28	26	11	32	1.92
1096095--1096208	51	2.2	52	82	3	133	29	25	11	33	1.91
1096273--1096349	28	2.8	27	88	7	102	22	32	22	23	1.98
1096196--1096456	107	2.4	108	88	5	375	24	26	18	30	1.98
1099084--1100144	27	39.1	27	82	6	909	25	29	14	29	1.95
1099084--1100172	54	20.1	54	82	6	1042	25	29	15	29	1.95
1099503--1099586	42	2.0	42	90	0	132	28	30	15	25	1.96
1099545--1100297	28	27.1	28	86	4	684	27	30	14	27	1.95
1099475--1099614	70	2.0	70	91	2	228	27	31	15	25	1.95
1099554--1100498	28	33.8	28	83	6	670	27	31	14	26	1.95
1100628--1100747	49	2.6	46	80	7	125	21	27	20	30	1.98
1101459--1101513	20	2.7	21	86	8	78	38	10	16	34	1.84
1109245--1109313	27	2.6	27	95	0	129	23	18	33	24	1.97
1111434--1111558	20	5.7	20	71	22	90	40	12	15	31	1.84
1112727--1112751	13	1.9	13	100	0	50	32	8	16	44	1.76
1113640--1113678	20	2.0	19	90	5	60	46	0	15	38	1.46
1115352--1115431	39	2.0	40	83	7	101	56	0	1	42	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116100--1116190	20	4.6	19	73	13	69	34	17	13	35	1.89
1117872--1117906	15	2.3	15	90	0	52	40	0	31	28	1.57
1119484--1121422	968	2.0	968	98	0	3736	38	13	16	31	1.87
1125987--1126044	20	2.9	21	84	5	75	34	15	12	37	1.85
1132152--1132238	43	2.0	43	95	0	156	35	12	18	33	1.89
1133792--1134167	153	2.4	153	84	2	484	36	22	19	21	1.95
1135271--1135357	43	2.0	43	95	0	156	35	12	18	33	1.89
1136918--1137293	153	2.4	153	83	3	468	36	22	18	22	1.95
1138863--1138912	10	4.6	11	78	12	50	2	14	4	80	0.95
1141523--1141573	21	2.4	21	74	6	50	35	15	7	41	1.76
1141617--1141667	20	2.5	21	81	9	70	47	13	7	31	1.72
1147692--1147726	11	3.3	11	88	8	54	40	0	0	60	0.97
1149309--1149346	3	12.7	3	100	0	76	68	0	0	31	0.90
1156411--1156443	2	16.5	2	100	0	66	51	0	48	0	1.00
1156885--1156911	2	13.5	2	100	0	54	48	0	51	0	1.00
1158568--1158641	30	2.5	30	88	4	105	24	20	10	44	1.83
1163808--1164103	148	2.0	148	83	3	373	40	6	7	45	1.58
1164239--1164286	22	2.2	22	84	0	60	75	0	2	22	0.91
1164239--1164287	17	3.1	16	77	13	50	73	0	2	24	0.94
1174052--1174093	11	3.7	11	87	9	50	73	2	21	2	1.06
1185993--1186113	60	2.0	60	95	0	215	28	18	20	33	1.96
1189297--1189347	9	5.4	9	83	6	66	86	9	0	3	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189297--1189373	27	2.9	27	77	14	88	83	9	1	6	0.87
1189297--1189360	28	2.4	28	87	10	89	85	7	0	6	0.73
1189328--1189384	23	2.4	24	88	2	89	80	10	3	5	0.98
1189329--1189385	12	4.8	12	73	16	55	82	8	3	5	0.93
1190155--1190589	28	14.8	28	84	3	357	29	29	18	22	1.97
1190155--1190381	64	3.7	62	86	6	286	30	32	17	18	1.95
1190573--1190604	15	2.1	15	94	0	55	28	34	25	12	1.92
1190588--1190858	28	9.6	27	86	2	272	28	30	18	22	1.97
1190588--1190879	57	5.1	57	89	2	410	29	30	17	22	1.96
1190588--1190879	85	3.4	85	89	1	442	29	30	17	22	1.96
1190992--1191101	49	2.3	47	80	6	125	22	26	18	32	1.97
1191758--1191832	20	3.8	20	87	0	114	32	14	13	40	1.85
1194099--1194173	27	2.8	27	97	0	141	22	34	18	24	1.96
1201081--1201199	52	2.3	52	88	7	179	32	17	17	31	1.94
1201104--1201219	52	2.2	52	86	6	155	34	18	17	30	1.93
1201205--1201232	13	2.2	13	100	0	56	39	17	14	28	1.89
1201274--1201328	20	2.8	20	85	0	74	45	12	10	30	1.77
1205361--1205439	20	3.9	21	84	1	90	39	15	10	35	1.81
1206325--1206349	13	1.9	13	100	0	50	32	16	16	36	1.90
1220920--1221124	79	2.6	78	81	3	223	29	16	29	24	1.97
1221076--1221147	28	2.6	28	84	4	92	25	19	33	22	1.97
1221135--1221302	52	3.3	51	80	2	201	30	10	28	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221236--1221415	80	2.3	80	84	4	231	27	15	30	26	1.96
1221368--1221437	27	2.5	28	84	9	90	21	18	34	25	1.96
1221392--1221444	27	2.0	27	96	0	97	22	16	33	26	1.96
1221426--1221542	51	2.4	51	83	12	138	33	11	23	31	1.90
1221445--1221542	51	1.9	51	86	12	139	35	10	22	31	1.88
1223347--1223376	10	3.1	10	95	4	53	0	0	23	76	0.78
1223541--1223570	10	3.1	10	95	4	53	0	0	23	76	0.78
1223255--1223635	194	2.0	194	100	0	762	22	7	29	41	1.80
1224100--1224125	13	2.0	13	100	0	52	38	15	15	30	1.88
1224079--1224145	34	2.0	34	94	2	118	46	13	16	23	1.82
1225367--1225957	55	10.3	56	85	6	630	24	20	28	26	1.99
1226927--1226989	21	2.9	21	79	13	65	0	12	6	80	0.88
1226927--1226988	7	8.4	7	77	19	56	0	12	4	82	0.82
1226927--1226988	15	4.1	15	76	15	65	0	12	4	82	0.82
1239504--1239575	28	2.6	28	84	4	92	25	19	33	22	1.97
1239563--1239730	52	3.3	50	78	5	183	31	10	27	29	1.90
1239664--1239843	80	2.3	80	84	4	231	27	15	30	26	1.96
1239796--1239867	27	2.6	28	82	8	85	20	19	33	26	1.97
1239854--1239970	51	2.4	48	83	12	132	33	11	23	30	1.91
1242395--1243039	55	11.3	56	86	5	686	23	20	28	27	1.99
1244024--1244086	1	63.0	1	75	0	54	0	4	7	87	0.67
1244024--1244086	14	4.4	14	86	13	76	0	4	7	87	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244024--1244084	19	3.3	18	82	17	72	0	4	8	86	0.69
1244006--1244085	10	8.2	10	75	9	67	0	10	6	83	0.80
1253125--1253294	52	3.3	50	79	4	187	31	11	27	29	1.92
1253160--1253294	51	2.6	52	79	1	164	33	12	26	27	1.93
1253228--1253405	80	2.2	80	85	4	227	29	15	28	25	1.96
1253358--1253435	27	2.9	27	88	1	111	25	19	32	23	1.98
1253416--1253533	51	2.4	49	82	13	145	33	11	24	30	1.91
1255336--1255365	10	3.1	10	95	4	53	0	0	23	76	0.78
1255897--1255922	13	2.0	13	100	0	52	38	15	15	30	1.88
1255876--1255942	34	2.0	34	91	2	109	44	13	17	23	1.85

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