genome.fa.s50.2.7.7.80.10.50.1000.7.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: Scaffold50
Parameters: 2 7 7 80 10 50 1000
Length:  2541760

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  7  of  16  ( 1865 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)
1116696--1116754	28	2.2	26	82	8	73	84	5	10	0	0.76
1117726--1118529	55	14.1	54	88	4	867	27	28	19	23	1.99
1118296--1118433	27	5.0	27	60	16	68	28	29	19	21	1.98
1118989--1119085	19	5.8	18	70	27	88	34	12	16	37	1.86
1118991--1119093	32	3.2	32	94	0	179	34	12	16	35	1.87
1119010--1119066	13	3.9	13	72	24	51	36	14	15	33	1.88
1119117--1119142	13	2.0	13	100	0	52	30	15	15	38	1.88
1121498--1121607	51	2.2	51	84	12	154	30	22	9	37	1.85
1121608--1121682	27	2.7	27	87	6	98	24	30	20	25	1.98
1121748--1121917	52	3.3	51	80	10	193	31	27	10	31	1.90
1121498--1122116	290	2.2	283	86	5	841	27	26	13	32	1.93
1125470--1125536	1	67.0	1	95	0	107	95	0	1	2	0.30
1125541--1125597	21	2.7	21	97	0	105	33	10	19	36	1.86
1125653--1125720	19	3.9	19	78	21	85	35	11	14	38	1.83
1125674--1125698	13	1.9	13	100	0	50	36	16	16	32	1.90
1125655--1125717	32	2.0	32	96	0	117	34	12	15	36	1.86
1125760--1125785	13	2.0	13	100	0	52	30	15	15	38	1.88
1125740--1125806	33	2.0	33	88	0	98	25	14	16	43	1.86
1128262--1128334	27	2.7	27	87	6	94	23	34	21	20	1.97
1128317--1128487	51	3.3	51	80	4	207	29	26	11	32	1.91
1128475--1128551	28	2.8	27	82	7	93	24	32	15	27	1.95
1143708--1143762	16	3.3	16	89	5	83	90	5	3	0	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1143705--1143762	1	58.0	1	82	0	71	91	5	3	0	0.51
1144744--1146191	55	26.3	55	91	5	2195	28	30	20	20	1.97
1144884--1144971	29	3.1	29	61	26	71	26	35	19	19	1.95
1144901--1145045	26	5.3	26	65	15	87	28	33	18	19	1.96
1145972--1146119	29	5.3	29	59	18	71	28	31	18	21	1.97
1146787--1146851	1	65.0	1	95	0	103	95	0	1	3	0.31
1149189--1149261	27	2.7	27	87	6	94	23	34	21	20	1.97
1149244--1149414	51	3.3	51	80	4	207	29	26	11	32	1.91
1149402--1149478	28	2.8	27	82	7	93	24	32	15	27	1.95
1152137--1152163	13	2.1	13	100	0	54	29	14	14	40	1.86
1156577--1156647	20	3.5	19	75	9	61	39	15	15	29	1.88
1157662--1157717	21	2.8	20	81	10	69	32	16	10	41	1.82
1158028--1158429	30	13.4	30	68	9	201	22	23	13	40	1.89
1158017--1158449	60	7.2	60	77	9	296	23	23	12	40	1.88
1158017--1158449	121	3.6	119	77	8	405	23	23	12	40	1.88
1159201--1159282	33	2.5	33	94	4	139	36	18	9	35	1.84
1159227--1159251	13	1.9	13	100	0	50	40	16	12	32	1.84
1159204--1159263	20	3.3	20	65	29	62	33	18	10	38	1.84
1159371--1159397	13	2.1	13	100	0	54	40	14	14	29	1.86
1160021--1160078	21	2.7	22	76	10	57	36	17	3	43	1.66
1163577--1163746	79	2.2	79	89	0	259	35	14	25	25	1.93
1163636--1163879	130	1.9	130	80	3	285	36	12	22	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163945--1164013	28	2.5	28	92	4	113	26	18	30	24	1.98
1163735--1163987	79	3.2	77	77	7	260	34	13	22	28	1.93
1163865--1164200	107	3.1	107	85	0	431	31	14	25	28	1.95
1175573--1175616	21	2.1	21	83	8	54	25	31	4	38	1.76
1177415--1177440	13	2.0	13	100	0	52	38	15	15	30	1.88
1187937--1188010	28	2.6	28	84	0	85	25	18	29	25	1.98
1187993--1188378	52	7.4	51	72	8	240	32	12	25	29	1.93
1187883--1188383	263	1.9	263	88	2	756	32	13	26	27	1.94
1188197--1188272	27	2.8	26	90	6	107	22	22	32	22	1.98
1190722--1190788	33	2.0	33	85	0	89	43	14	14	26	1.85
1190808--1190881	19	3.9	19	94	0	130	41	14	9	33	1.79
1191606--1192175	55	10.1	55	85	6	655	25	20	27	26	1.99
1191632--1191721	26	3.3	26	66	19	67	20	18	33	27	1.96
1191585--1192176	171	3.5	169	85	7	743	25	20	27	26	1.99
1191605--1192149	232	2.4	229	91	2	882	26	20	27	26	1.99
1192037--1192121	27	3.1	27	61	15	66	23	18	29	28	1.98
1195820--1196388	55	10.1	55	86	7	673	24	20	27	26	1.99
1195846--1195935	26	3.3	26	66	19	67	20	18	33	27	1.96
1195872--1195960	29	3.2	29	65	26	82	21	19	31	28	1.97
1195799--1196389	171	3.5	169	85	7	761	25	20	27	26	1.99
1195819--1196388	231	2.5	229	90	4	904	25	20	27	26	1.99
1196250--1196334	27	3.1	27	63	21	68	24	16	29	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1197368--1197428	13	4.8	13	84	9	72	0	6	9	83	0.80
1209877--1210099	52	4.3	51	76	6	187	32	13	25	28	1.94
1209767--1210268	264	1.9	264	88	2	758	31	14	26	27	1.94
1210141--1210263	51	2.3	53	83	6	153	33	11	23	31	1.90
1212626--1212651	13	2.0	13	100	0	52	38	15	15	30	1.88
1212605--1212671	33	2.0	33	88	0	98	43	16	14	25	1.86
1212691--1212758	19	3.9	18	76	23	83	38	14	11	35	1.83
1212713--1212737	13	1.9	13	100	0	50	32	16	16	36	1.90
1212694--1212756	32	2.0	32	96	0	117	36	15	12	34	1.86
1213483--1214052	55	10.1	55	85	6	646	25	20	27	27	1.99
1213462--1214053	171	3.5	169	84	7	727	25	20	26	27	1.99
1213482--1214026	232	2.4	229	92	2	882	25	20	26	26	1.99
1213958--1214042	28	3.1	28	64	16	77	16	18	30	34	1.93
1213934--1214017	27	3.1	27	64	16	73	22	20	29	27	1.98
1214906--1215028	52	2.4	50	82	6	140	31	24	11	32	1.91
1215011--1215082	28	2.6	28	84	8	85	25	27	19	27	1.99
1217372--1217573	79	2.6	79	83	1	235	29	16	29	25	1.97
1217533--1217605	28	2.6	27	85	8	85	26	19	28	26	1.98
1217589--1217974	52	7.4	51	69	9	179	32	13	24	28	1.93
1217681--1217810	51	2.5	52	81	1	154	33	15	23	26	1.95
1217479--1217979	263	1.9	263	87	2	729	32	13	25	28	1.94
1217793--1217868	27	2.8	26	84	6	89	23	21	31	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217852--1217974	51	2.3	53	83	6	153	33	11	23	31	1.90
1218927--1219496	55	10.1	55	85	6	655	25	20	27	27	1.99
1218906--1219497	171	3.5	169	84	7	736	25	20	26	27	1.99
1218926--1219470	232	2.4	229	92	2	891	25	20	26	26	1.99
1220350--1220472	51	2.4	50	82	6	140	30	24	12	32	1.92
1220455--1220526	28	2.6	28	84	8	85	25	27	19	27	1.99
1220574--1220601	7	4.0	7	100	0	56	42	42	0	14	1.45
1224451--1224476	13	2.0	13	100	0	52	38	15	15	30	1.88
1226690--1226734	21	2.1	21	84	8	56	53	4	20	22	1.63
1228538--1228568	15	2.1	15	93	0	53	48	16	22	12	1.80
1230633--1230658	13	2.0	13	100	0	52	30	15	15	38	1.88
1233211--1233236	13	2.0	13	100	0	52	38	15	15	30	1.88
1242772--1242801	15	1.9	16	93	6	53	86	6	6	0	0.70
1242773--1242818	18	2.5	18	80	16	58	84	8	6	0	0.77
1243802--1244577	59	13.3	59	87	6	876	26	28	20	24	1.99
1245284--1245337	21	2.6	21	87	0	81	33	9	16	40	1.80
1245392--1245446	19	2.9	19	97	0	101	34	10	14	40	1.81
1245466--1245520	20	2.8	20	82	0	74	23	14	16	45	1.84
1247863--1247986	51	2.4	50	81	5	140	32	24	11	32	1.90
1247970--1248046	28	2.8	28	83	0	91	23	31	19	25	1.98
1255611--1255659	8	5.9	8	79	9	53	75	0	8	16	1.03
1255611--1255659	17	2.8	18	75	12	66	75	0	8	16	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259296--1259486	34	5.6	34	76	4	145	29	13	16	40	1.86
1259295--1259475	69	2.6	68	79	2	193	29	14	15	40	1.87
1262406--1262446	21	2.0	21	85	9	57	41	12	7	39	1.70
1262486--1262556	20	3.6	19	77	7	70	40	16	12	29	1.86
1262526--1262662	53	2.6	53	96	1	247	37	18	17	27	1.93
1262686--1262716	10	3.1	10	90	0	53	22	29	6	41	1.78
1262704--1262763	21	2.8	21	97	2	111	26	25	10	38	1.87
1262750--1262794	23	2.0	22	86	4	63	24	28	8	37	1.86
1262848--1262873	13	2.0	13	100	0	52	30	15	23	30	1.95
1263926--1264601	167	4.0	163	80	8	560	29	9	8	52	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16