genome.fa.s115.2.7.7.80.10.50.1000.8.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: Scaffold115
Parameters: 2 7 7 80 10 50 1000
Length:  1475684

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

This is table  8  of  10  ( 1122 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)
1126235--1126388	79	1.9	79	81	2	184	36	12	22	29	1.90
1129146--1129170	13	1.9	13	100	0	50	32	20	16	32	1.94
1129221--1129251	16	2.0	15	93	6	53	45	12	22	19	1.84
1134739--1134763	13	1.9	13	100	0	50	32	20	16	32	1.94
1134814--1134844	16	2.0	15	93	6	53	45	12	22	19	1.84
1140332--1140356	13	1.9	13	100	0	50	32	20	16	32	1.94
1140407--1140437	16	2.0	15	93	6	53	45	12	22	19	1.84
1141095--1141135	20	2.0	21	90	4	66	43	7	19	29	1.78
1142185--1142309	61	2.0	61	84	3	162	40	14	22	23	1.90
1142928--1143048	32	3.7	33	80	3	120	19	17	32	30	1.95
1144620--1144658	16	2.5	16	84	15	55	7	0	5	87	0.68
1157135--1157192	20	2.9	20	78	0	71	31	17	12	39	1.86
1157218--1157273	19	2.9	19	83	2	76	39	12	16	32	1.85
1158047--1158073	13	2.1	13	100	0	54	37	7	7	48	1.59
1161074--1161229	78	2.0	78	98	0	303	25	16	16	42	1.88
1166249--1166295	19	2.4	19	89	3	67	42	10	19	27	1.84
1170180--1170261	39	2.1	39	97	0	155	28	18	18	35	1.94
1170052--1170389	167	2.0	167	98	0	649	36	14	17	31	1.91
1170219--1170458	128	1.9	128	97	0	426	37	14	17	30	1.90
1171550--1171660	55	2.0	55	100	0	222	28	18	18	35	1.94
1174533--1174557	13	1.9	13	100	0	50	32	16	16	36	1.90
1174512--1174576	32	2.0	33	87	3	96	27	16	16	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174640--1174693	24	2.2	24	86	0	72	25	24	9	40	1.85
1174649--1174704	10	5.2	10	76	16	58	25	25	8	41	1.84
1174648--1174694	24	2.0	24	91	0	76	25	23	8	42	1.82
1175655--1175866	76	2.8	76	69	11	189	27	14	11	46	1.79
1176356--1177179	64	12.9	64	71	8	257	23	20	14	41	1.88
1176312--1176766	193	2.4	192	79	5	452	23	21	13	41	1.88
1176528--1176854	129	2.5	129	82	5	376	24	19	14	41	1.89
1186701--1186747	25	2.0	23	91	8	76	59	0	0	40	0.97
1187430--1187498	11	6.4	11	76	19	65	69	2	0	27	1.02
1187449--1187509	16	3.8	16	81	12	72	65	3	0	31	1.09
1187434--1187500	27	2.5	27	83	9	84	68	2	0	28	1.04
1187425--1187509	32	3.0	27	75	18	82	67	4	0	28	1.11
1187554--1187610	19	2.9	19	82	15	71	64	0	0	35	0.93
1189876--1189926	10	5.2	10	77	11	52	41	0	0	58	0.98
1189875--1189935	16	3.6	16	74	22	61	42	0	0	57	0.98
1189889--1189935	12	3.9	12	81	10	60	44	0	0	55	0.99
1190502--1190545	18	2.5	18	81	3	54	56	0	0	43	0.99
1190552--1190616	25	2.5	27	82	9	73	56	0	0	43	0.99
1190566--1190614	21	2.3	21	82	6	64	63	0	0	36	0.95
1191861--1191942	28	2.9	28	80	7	96	26	17	31	24	1.97
1191925--1192095	51	3.3	51	79	4	198	32	11	26	29	1.92
1192078--1192153	27	2.8	28	88	6	102	21	21	34	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194619--1194644	13	2.0	13	100	0	52	38	15	15	30	1.88
1194598--1194664	33	2.0	33	88	0	98	43	16	14	25	1.86
1194684--1194751	19	3.9	18	76	23	83	38	14	11	35	1.83
1194706--1194730	13	1.9	13	100	0	50	32	16	16	36	1.90
1194687--1194749	32	2.0	32	96	0	117	36	15	12	34	1.86
1194807--1194863	21	2.7	21	97	0	105	36	19	10	33	1.86
1194875--1194906	16	2.0	16	100	0	64	12	6	0	81	0.87
1195162--1195199	20	1.9	19	89	5	58	50	7	0	42	1.31
1195271--1195314	18	2.5	18	85	3	63	52	0	0	47	1.00
1201053--1201090	13	2.7	14	84	12	51	52	2	0	44	1.14
1201557--1201598	20	2.0	21	90	4	68	11	26	0	61	1.30
1201870--1201906	18	2.0	20	89	10	60	45	0	5	48	1.25
1203414--1203470	26	2.1	27	90	3	89	52	0	3	43	1.18
1204350--1204388	18	2.2	18	86	9	53	56	10	0	33	1.33
1205071--1205128	21	2.8	21	78	0	62	44	1	17	36	1.59
1205373--1205422	26	1.9	26	88	8	75	46	0	4	50	1.20
1207362--1207452	21	4.3	21	72	8	62	36	8	1	53	1.39
1207362--1207452	42	2.2	41	78	7	94	36	8	1	53	1.39
1213156--1213182	2	13.5	2	100	0	54	48	0	0	51	1.00
1218491--1218575	32	2.7	32	92	0	143	24	22	14	38	1.91
1218622--1218646	13	1.9	13	100	0	50	32	16	20	32	1.94
1223530--1224000	159	2.9	156	83	7	529	40	14	10	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1225577--1226188	165	3.7	165	83	3	759	50	8	10	30	1.65
1225578--1226234	329	2.0	330	84	5	864	50	8	10	30	1.66
1225577--1226301	165	4.4	166	79	7	669	50	7	10	30	1.65
1227429--1227892	44	10.6	44	75	6	377	41	15	22	20	1.90
1227401--1227758	87	4.1	88	80	8	329	40	15	23	19	1.91
1227517--1227890	131	2.9	132	80	6	368	41	15	21	21	1.89
1227523--1227911	87	4.4	87	81	4	381	42	14	21	20	1.88
1231638--1231692	20	2.8	20	100	0	110	36	18	10	34	1.86
1233498--1233547	19	2.6	19	100	0	100	36	12	16	36	1.85
1233599--1233626	13	2.2	13	100	0	56	28	14	17	39	1.89
1233579--1233644	33	2.0	33	88	5	98	30	13	13	42	1.83
1240655--1240695	11	3.7	12	81	12	52	82	17	0	0	0.66
1241972--1242206	61	3.9	61	79	7	228	23	28	15	32	1.95
1241965--1242171	30	6.7	30	78	6	209	23	29	14	33	1.93
1241965--1242186	94	2.4	92	82	2	275	22	29	14	34	1.93
1242181--1242714	33	16.8	33	79	8	495	20	31	13	34	1.91
1242181--1242721	60	8.6	60	79	12	521	20	31	12	34	1.91
1241972--1242259	155	1.9	154	82	5	363	22	29	14	33	1.93
1242208--1242722	126	4.0	126	86	4	631	20	31	12	34	1.90
1242695--1242818	58	2.2	57	85	7	162	32	33	16	17	1.93
1242695--1242818	29	4.3	29	79	11	139	32	33	16	17	1.93
1242845--1243595	48	16.7	48	70	15	426	26	25	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242844--1243595	135	5.6	134	74	13	629	26	25	18	29	1.98
1243028--1243648	87	7.0	87	86	5	796	25	25	18	30	1.98
1243159--1243547	39	9.0	39	70	17	211	25	25	20	28	1.99
1242988--1243648	263	2.4	266	85	6	868	25	25	18	30	1.98
1243460--1243700	49	4.9	49	79	6	157	24	26	16	33	1.96
1246038--1246469	236	1.8	236	96	0	810	27	18	15	38	1.91
1253300--1253326	13	2.1	13	100	0	54	40	14	7	37	1.74
1254293--1254331	15	2.6	15	87	0	51	10	7	33	48	1.66
1254302--1254409	41	2.6	41	83	2	135	17	10	25	46	1.80
1260389--1260931	158	3.5	152	78	7	415	41	14	10	33	1.80
1260456--1260951	158	3.1	156	83	4	566	42	13	10	34	1.78
1262254--1262281	2	14.0	2	100	0	56	50	0	50	0	1.00
1262520--1263141	166	3.8	166	81	5	649	51	7	10	30	1.64
1262520--1263141	326	1.9	333	84	5	843	51	7	10	30	1.64
1262551--1263223	326	2.0	332	80	7	773	52	7	9	30	1.62
1263945--1263977	16	2.1	16	100	0	66	24	18	6	51	1.68
1266476--1266523	23	2.1	22	84	7	60	37	4	6	52	1.46
1268896--1268943	21	2.3	21	82	7	62	39	22	8	29	1.83
1275598--1275677	27	3.0	27	83	0	106	45	18	10	26	1.81
1277559--1277604	21	2.1	22	84	4	58	21	28	17	32	1.96
1280126--1280241	27	4.5	27	76	11	91	43	18	7	29	1.78
1280150--1280251	27	3.9	26	78	7	100	47	19	7	25	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281856--1281887	16	2.0	16	93	0	55	65	0	0	34	0.93
1282398--1282448	6	8.5	6	78	21	54	50	0	0	49	1.00
1282389--1282448	12	5.2	11	79	18	52	51	0	1	46	1.10
1282488--1282535	19	2.5	19	80	10	53	50	0	0	50	1.00
1283134--1283173	22	1.9	21	90	10	64	50	0	0	50	1.00
1283330--1283364	15	2.4	15	85	4	54	77	5	5	11	1.12
1283507--1283546	20	2.0	20	85	5	53	52	2	0	45	1.14
1284333--1284591	125	2.1	125	99	0	509	44	8	13	33	1.73
1290132--1290183	27	2.0	26	81	11	61	23	34	15	26	1.94
1293823--1293947	52	2.4	52	95	0	232	25	19	20	35	1.95

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