genome.fa.s63.2.7.7.80.10.50.1000.8.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

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

This is table  8  of  16  ( 1834 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)
1212807--1212840	15	2.2	16	89	5	52	29	0	2	67	1.05
1212870--1212910	12	3.6	12	84	15	52	48	0	0	51	1.00
1212867--1212933	34	2.0	34	82	11	84	52	0	0	47	1.00
1214081--1215310	509	2.4	497	92	2	2005	33	11	12	42	1.79
1215814--1215960	59	2.5	59	80	3	161	46	6	6	39	1.57
1223777--1224048	148	1.8	148	88	0	418	23	16	15	44	1.85
1226047--1226105	28	2.1	28	81	3	66	50	0	0	49	1.00
1227308--1227347	19	2.0	21	85	9	57	35	0	0	65	0.93
1227674--1227720	3	16.0	3	87	12	71	34	0	0	65	0.93
1227751--1227790	21	1.9	21	89	0	62	52	0	0	47	1.00
1235815--1235857	16	2.7	16	85	7	61	41	0	0	58	0.98
1236131--1236191	28	2.2	27	83	11	79	62	1	0	36	1.05
1236083--1236199	59	1.9	58	81	13	137	57	0	0	41	1.05
1236152--1236200	13	3.6	13	80	5	53	59	2	0	38	1.09
1238741--1238767	2	13.5	2	100	0	54	51	0	0	48	1.00
1240891--1241107	107	2.0	107	100	0	434	29	26	22	21	1.99
1244074--1244116	20	2.0	21	82	13	52	53	0	0	46	1.00
1245073--1245149	35	2.2	35	79	4	84	48	3	3	44	1.39
1245620--1245738	57	2.1	57	93	0	202	42	1	11	44	1.51
1248792--1248879	39	2.3	38	81	14	103	60	1	1	37	1.12
1250425--1250514	5	17.2	5	68	21	51	54	1	2	42	1.20
1250390--1250536	59	2.5	59	88	1	222	50	2	3	43	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251983--1252039	28	2.0	29	83	6	73	29	5	14	50	1.64
1256487--1256566	27	2.9	28	81	3	81	28	7	17	46	1.75
1256522--1256583	28	2.4	28	84	10	78	29	9	16	45	1.79
1258461--1258518	28	2.1	28	83	6	73	37	0	3	58	1.15
1258752--1258843	32	2.7	35	80	12	104	56	0	0	43	0.99
1259813--1259857	11	4.1	11	85	8	65	46	0	0	53	1.00
1259815--1259858	22	2.0	23	91	8	74	47	0	0	52	1.00
1261469--1261504	2	18.0	2	100	0	72	50	0	0	50	1.00
1269550--1269614	28	2.3	27	82	10	76	52	0	1	46	1.10
1269550--1269625	14	5.4	14	73	16	59	53	0	1	44	1.08
1269550--1269625	29	2.7	28	81	6	82	53	0	1	44	1.08
1269770--1269820	20	2.5	20	81	6	59	58	0	0	41	0.98
1269782--1269820	19	2.0	20	85	5	53	56	0	0	43	0.99
1269904--1269951	11	4.3	11	80	15	62	33	0	0	66	0.92
1269901--1269956	18	3.2	18	69	19	55	35	1	0	62	1.06
1274302--1274328	13	2.1	13	100	0	54	48	22	22	7	1.75
1275701--1275754	19	2.8	19	78	16	58	55	1	1	40	1.21
1282146--1282195	26	1.9	26	91	0	82	42	2	0	56	1.11
1283679--1283759	20	4.1	19	68	25	60	45	1	0	53	1.08
1283746--1283788	17	2.5	17	84	3	50	37	0	4	58	1.19
1284310--1284367	24	2.3	25	82	5	73	72	0	1	25	0.94
1284308--1284357	27	1.9	25	92	8	82	74	0	2	24	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284307--1284373	27	2.6	24	80	15	80	71	1	1	25	1.03
1284356--1284478	39	3.3	37	82	17	134	56	0	0	42	1.04
1284356--1284478	19	6.6	19	79	19	136	56	0	0	42	1.04
1287142--1287185	2	22.0	2	100	0	88	50	0	0	50	1.00
1287462--1287495	17	1.9	18	94	5	61	32	0	23	44	1.54
1290511--1290535	13	1.9	13	100	0	50	56	0	40	4	1.18
1293192--1293227	18	2.0	18	89	10	56	55	0	0	44	0.99
1293426--1293455	3	10.0	3	100	0	60	33	0	0	66	0.92
1293750--1293797	21	2.3	21	79	10	55	60	0	0	39	0.97
1297184--1297231	20	2.4	20	89	6	71	50	0	0	50	1.00
1297361--1297437	15	4.8	16	73	19	70	64	0	0	35	0.93
1297384--1297445	20	3.0	20	86	11	81	67	0	0	32	0.91
1297379--1297553	11	16.8	11	68	22	67	58	0	0	40	1.02
1297421--1297541	42	3.0	43	74	21	109	55	0	0	44	0.99
1297367--1297543	20	8.7	20	67	23	68	58	0	0	41	0.98
1297490--1297549	29	2.0	30	90	9	97	58	0	1	40	1.08
1297824--1297886	31	2.0	32	82	11	78	53	0	1	44	1.10
1297815--1297886	31	2.3	31	79	11	76	54	0	1	44	1.08
1298094--1298198	5	18.2	6	71	21	57	36	0	0	62	1.02
1298089--1298200	13	8.4	14	70	22	73	36	0	0	62	1.02
1298139--1298210	8	9.0	8	73	14	51	31	0	1	66	1.00
1298093--1298222	47	2.8	45	78	12	129	36	0	1	62	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298147--1298235	24	3.7	23	70	8	63	35	0	2	61	1.08
1301679--1301738	21	2.8	21	85	7	68	31	3	0	65	1.09
1301708--1301754	21	2.2	21	85	7	60	38	4	0	57	1.18
1302314--1302348	17	2.1	17	88	0	52	57	2	0	40	1.14
1302315--1302353	20	2.0	20	94	0	69	56	2	0	41	1.13
1302564--1302604	22	1.9	21	90	5	64	21	12	12	53	1.70
1302564--1302620	19	2.8	21	84	7	64	22	10	15	50	1.74
1303482--1303509	14	2.0	14	100	0	56	42	21	0	35	1.53
1305661--1305704	14	3.1	14	81	15	54	29	0	0	70	0.88
1305664--1305727	19	3.3	20	81	14	82	31	0	1	67	1.00
1305663--1305728	24	2.8	24	79	6	71	30	0	1	68	0.99
1305681--1305740	18	3.2	18	79	11	52	28	0	5	66	1.12
1307768--1307810	19	2.2	20	87	4	61	53	2	0	44	1.13
1307776--1307812	20	1.9	18	94	5	56	51	0	0	48	1.00
1307789--1307845	15	3.9	15	76	19	50	54	0	1	43	1.10
1308009--1308047	2	19.5	2	94	0	69	48	2	0	48	1.15
1309099--1309130	16	2.1	15	94	5	55	56	0	0	43	0.99
1309091--1309148	21	2.9	21	73	19	61	53	0	0	46	1.00
1309459--1309508	24	2.0	25	84	7	66	48	0	0	52	1.00
1309938--1310021	40	2.1	40	81	0	96	45	5	9	39	1.61
1316155--1316216	25	2.5	26	78	5	74	46	0	0	53	1.00
1316156--1316211	19	2.9	21	77	17	59	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1318864--1318897	2	17.0	2	100	0	68	50	0	0	50	1.00
1323923--1323974	18	2.9	18	80	8	61	44	0	1	53	1.11
1323990--1324074	15	5.2	16	68	13	57	45	0	0	54	1.00
1323991--1324047	21	2.6	22	83	10	64	52	0	0	47	1.00
1324350--1324382	16	2.1	15	94	5	57	39	3	0	57	1.14
1329190--1329278	40	2.2	41	84	9	114	51	0	0	48	1.00
1329218--1329296	39	1.9	39	82	12	97	53	0	1	45	1.08
1329817--1329934	20	5.9	20	66	22	61	43	0	0	55	1.05
1329811--1329935	40	3.1	39	73	19	105	43	0	0	55	1.11
1329844--1329912	16	4.2	18	67	22	53	47	0	1	50	1.09
1329860--1329935	16	5.4	16	67	29	57	44	0	1	53	1.08
1330209--1330299	15	6.1	15	68	12	62	52	0	0	47	1.00
1330261--1330300	21	1.9	20	85	10	53	45	0	0	55	0.99
1330734--1330784	14	3.6	14	81	7	50	49	0	1	49	1.12
1331613--1331658	17	2.7	18	83	10	60	50	2	0	47	1.13
1331628--1331656	6	5.0	6	91	8	51	48	0	0	51	1.00
1331924--1331957	16	2.3	14	90	10	50	55	0	0	44	0.99
1332037--1332084	20	2.4	20	75	6	53	35	0	2	62	1.07
1332327--1332366	12	3.5	12	86	10	57	72	0	0	27	0.85
1332935--1332974	2	20.0	2	100	0	80	50	0	0	50	1.00
1340169--1340217	2	24.5	2	83	8	64	44	4	2	48	1.33
1340324--1340389	30	2.2	30	97	2	125	27	21	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1340726--1340771	2	23.0	2	95	0	83	50	2	0	47	1.13
1351309--1351352	21	2.2	20	91	4	70	43	0	0	56	0.99
1351315--1351358	21	2.2	20	88	8	63	43	0	0	56	0.99
1351317--1351414	48	2.0	51	86	6	139	40	0	3	56	1.15
1351545--1351588	12	3.8	12	82	8	56	65	2	2	29	1.16
1351545--1351592	22	2.2	22	82	14	55	64	2	2	31	1.16
1352277--1352308	2	16.0	2	93	0	55	46	0	3	50	1.17
1352558--1352618	11	5.2	11	74	18	52	57	0	0	42	0.98
1352553--1352623	25	3.0	25	81	8	94	54	0	0	45	0.99
1352553--1352620	14	5.5	14	72	24	64	54	0	0	45	0.99

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