genome.fa.s17.2.7.7.80.10.50.1000.7.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: Scaffold17
Parameters: 2 7 7 80 10 50 1000
Length:  1562583

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1002 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)
1163073--1163098	13	2.0	13	100	0	52	30	15	15	38	1.88
1163185--1163215	13	2.4	13	94	0	53	35	16	12	35	1.87
1163169--1163235	33	2.0	33	88	5	100	37	14	14	32	1.88
1164634--1164659	13	2.0	13	100	0	52	30	15	15	38	1.88
1164746--1164771	13	2.0	13	100	0	52	30	15	15	38	1.88
1164726--1164793	33	2.1	32	91	8	111	35	16	16	32	1.91
1166877--1166943	37	1.9	35	88	11	102	29	25	11	32	1.92
1167401--1167426	13	2.0	13	100	0	52	30	15	15	38	1.88
1167465--1167540	21	3.7	21	82	3	109	28	18	11	40	1.86
1167485--1167558	20	3.7	20	81	3	103	31	20	13	35	1.91
1167465--1167558	41	2.3	41	100	0	188	29	19	12	38	1.89
1168175--1168218	21	2.1	21	83	8	54	25	31	4	38	1.76
1169370--1169394	13	1.9	13	100	0	50	32	16	16	36	1.90
1169962--1170008	23	2.0	24	84	12	62	61	19	4	14	1.49
1172554--1172620	37	1.9	35	88	11	102	29	25	11	32	1.92
1173078--1173103	13	2.0	13	100	0	52	30	15	15	38	1.88
1173142--1173217	21	3.7	21	82	3	109	28	18	11	40	1.86
1173162--1173235	20	3.7	20	81	3	103	31	20	13	35	1.91
1173142--1173235	41	2.3	41	100	0	188	29	19	12	38	1.89
1177858--1177882	13	1.9	13	100	0	50	32	16	20	32	1.94
1179774--1179821	24	2.1	24	84	7	64	29	0	31	39	1.57
1180490--1180514	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180469--1180536	33	2.1	33	89	8	104	35	17	16	30	1.92
1183810--1183877	33	2.1	33	88	2	102	32	14	17	35	1.91
1183909--1183961	20	2.6	21	84	3	72	28	15	15	41	1.87
1183963--1184013	20	2.5	20	80	0	57	37	15	11	35	1.84
1185928--1185970	20	2.1	21	86	4	61	4	27	46	20	1.71
1186219--1186259	22	2.0	21	86	13	59	41	4	21	31	1.74
1186391--1186429	13	3.0	13	92	0	69	33	15	20	30	1.94
1186631--1186660	8	3.8	8	100	0	60	60	26	0	13	1.34
1188619--1188670	19	2.7	20	87	6	79	28	13	15	42	1.85
1189173--1189253	39	2.1	39	83	2	99	38	23	3	34	1.73
1193178--1193208	15	2.1	15	93	0	53	12	22	16	48	1.80
1200783--1200828	3	15.3	3	86	0	65	26	34	0	39	1.57
1200783--1200828	9	5.1	9	97	0	74	26	34	0	39	1.57
1202437--1202462	13	2.0	13	100	0	52	38	15	15	30	1.88
1202415--1202482	33	2.1	32	88	2	100	33	14	16	35	1.89
1202514--1202566	20	2.6	21	84	3	72	28	16	15	39	1.89
1202554--1202582	13	2.2	13	100	0	58	37	13	17	31	1.89
1202568--1202618	20	2.5	20	80	0	57	35	15	13	35	1.87
1203303--1203368	34	1.9	34	93	0	114	34	15	13	36	1.87
1203780--1203858	22	3.8	20	81	11	88	30	10	16	43	1.81
1203781--1203858	21	3.8	19	81	13	84	29	10	16	43	1.81
1203904--1203953	20	2.5	20	93	0	82	32	16	14	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206567--1206620	28	1.9	28	88	0	81	31	31	9	27	1.88
1208161--1208327	37	4.5	36	80	3	154	34	22	16	26	1.95
1208168--1208359	74	2.6	75	79	12	200	34	22	16	26	1.95
1210936--1210961	13	2.0	13	100	0	52	38	15	15	30	1.88
1210918--1210981	33	2.0	32	90	3	101	39	20	14	26	1.90
1217107--1217144	13	2.9	13	96	0	67	31	15	18	34	1.92
1219001--1219031	16	1.9	16	93	0	53	38	6	12	41	1.69
1219365--1219390	13	2.0	13	100	0	52	38	15	15	30	1.88
1220295--1220371	20	3.8	20	75	3	73	32	9	10	48	1.69
1220347--1220450	51	2.1	50	92	1	172	27	12	14	45	1.81
1222800--1223638	79	10.6	77	78	7	697	28	23	11	36	1.90
1222800--1223607	158	5.1	156	79	5	795	28	23	11	36	1.90
1222798--1223638	237	3.6	236	85	3	1066	28	23	11	36	1.90
1223574--1223689	51	2.3	51	86	5	164	30	26	8	34	1.86
1223511--1223745	130	1.8	130	85	3	330	28	24	10	36	1.88
1224176--1224208	10	3.4	10	87	8	50	69	9	3	18	1.28
1225392--1225513	55	2.2	56	79	7	131	11	18	13	55	1.68
1240571--1240655	42	2.0	43	82	11	104	82	7	5	4	0.95
1240587--1240656	33	2.2	32	82	17	83	82	7	4	5	0.93
1242082--1242224	28	5.0	28	83	9	173	30	33	17	18	1.94
1242086--1242197	59	1.9	58	90	1	179	29	32	18	19	1.96
1242201--1242467	34	7.8	34	85	3	340	20	32	11	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242300--1242494	34	6.1	29	85	5	99	20	32	12	34	1.90
1242456--1242521	29	2.4	27	82	7	78	25	33	19	21	1.97
1242456--1242536	28	2.9	28	79	15	71	30	32	18	18	1.95
1242489--1242569	28	2.8	30	77	21	84	35	30	14	18	1.91
1242468--1242562	29	3.3	30	73	14	92	34	32	16	15	1.91
1242583--1242898	87	3.5	89	79	5	343	25	25	18	29	1.98
1243699--1243755	13	3.9	13	72	24	51	33	14	19	33	1.91
1243698--1243782	32	2.7	32	94	0	152	31	12	18	36	1.89
1243712--1243774	19	3.7	18	72	24	64	31	12	19	36	1.89
1249112--1249160	21	2.3	21	79	10	55	73	10	10	6	1.25
1251442--1251561	51	2.4	51	85	4	179	33	12	25	29	1.92
1251493--1251643	79	1.9	79	82	2	187	31	13	26	28	1.94
1251257--1251749	130	3.8	130	75	7	441	35	11	23	28	1.90
1251576--1251691	51	2.3	51	84	3	153	31	12	25	30	1.93
1251620--1251809	79	2.4	80	83	5	235	36	14	24	25	1.93
1251254--1251732	260	1.8	259	79	7	558	35	12	24	27	1.91
1254106--1254179	20	3.7	19	83	7	94	43	13	14	28	1.84
1256128--1256201	20	3.7	19	85	7	94	43	13	14	28	1.84
1256772--1257038	55	4.6	60	85	6	317	25	20	29	24	1.99
1256643--1257136	270	1.8	272	88	4	755	26	19	29	24	1.99
1258100--1258187	1	88.0	1	74	0	77	0	1	11	87	0.60
1258107--1258187	17	4.8	17	88	8	112	0	0	12	87	0.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258107--1258187	23	3.6	22	90	8	119	0	0	12	87	0.54
1258100--1258187	40	2.2	40	90	8	135	0	1	11	87	0.60
1268458--1268494	4	9.2	4	87	0	56	70	2	2	24	1.14
1269049--1269116	19	3.9	19	78	21	85	35	11	14	38	1.83
1269051--1269113	32	2.0	32	96	0	117	34	12	15	36	1.86
1269070--1269094	13	1.9	13	100	0	50	36	16	16	32	1.90
1269136--1269198	33	1.9	33	86	0	90	26	12	17	42	1.85
1271720--1271881	52	3.1	53	76	11	156	28	24	14	33	1.94
1271550--1271956	212	1.9	212	86	3	577	27	26	14	31	1.95
1278818--1278851	17	2.0	17	88	0	50	50	17	26	5	1.69
1284315--1284387	15	4.5	15	79	8	65	82	5	12	0	0.83
1284318--1284370	22	2.3	22	81	12	54	83	7	9	0	0.83
1285353--1286580	55	21.9	55	86	6	1507	28	28	20	22	1.99
1285405--1285489	27	3.1	27	61	15	66	28	29	18	23	1.98
1285566--1285656	26	3.4	26	70	14	76	30	31	17	19	1.95
1285679--1285761	27	3.0	27	60	16	62	28	30	19	21	1.98
1286203--1286285	26	3.1	26	63	13	60	33	31	19	15	1.93
1287129--1287191	32	2.0	32	93	0	108	36	11	15	36	1.84
1287148--1287172	13	1.9	13	100	0	50	36	16	16	32	1.90
1287128--1287194	19	3.8	19	74	22	74	37	10	14	37	1.81
1287214--1287276	33	1.9	33	86	0	90	26	12	17	42	1.85
1289739--1289807	27	2.5	27	88	2	93	24	31	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1289794--1289960	52	3.2	52	79	8	178	28	24	13	33	1.93
1289975--1290179	79	2.6	79	83	3	234	24	29	16	29	1.96
1294544--1294617	20	3.7	19	83	7	94	41	12	16	29	1.84
1294656--1294681	13	2.0	13	100	0	52	38	15	15	30	1.88
1294733--1294782	19	2.5	21	87	6	68	30	16	12	42	1.84
1295409--1295440	16	2.0	16	93	0	55	18	0	3	78	0.89
1296306--1296356	24	2.3	23	83	10	61	13	23	29	33	1.93
1296313--1296373	24	2.5	24	89	0	104	9	22	34	32	1.87
1296637--1297390	42	18.0	42	81	4	682	37	18	29	14	1.91
1304998--1305074	38	2.0	38	100	0	154	38	29	2	28	1.70

Tables:   1   2   3   4   5   6   7   8   9