genome.fa.s123.2.7.7.80.10.50.1000.8.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: Scaffold123
Parameters: 2 7 7 80 10 50 1000
Length:  1422801

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1028 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)
1202082--1202157	21	3.7	21	78	3	91	30	17	11	40	1.85
1202812--1202858	23	2.0	23	95	0	85	48	12	6	31	1.66
1204643--1204681	13	3.0	13	96	0	69	35	15	17	30	1.91
1204667--1204745	20	3.7	20	75	18	70	45	15	13	25	1.83
1206759--1206789	15	2.1	15	93	0	53	12	22	16	48	1.80
1210815--1210840	13	2.0	13	100	0	52	30	15	15	38	1.88
1210900--1210972	20	3.6	20	81	3	101	31	19	13	35	1.91
1210879--1210972	41	2.3	41	96	0	170	30	18	12	38	1.88
1210879--1210954	21	3.7	21	78	3	91	30	17	11	40	1.85
1211268--1211508	42	5.7	42	74	2	151	29	15	31	24	1.95
1211391--1211532	42	3.4	41	76	1	113	32	14	30	22	1.94
1212058--1212239	78	2.3	78	86	0	238	24	11	32	31	1.91
1212630--1212687	19	3.0	20	77	10	66	36	17	13	32	1.89
1215827--1215933	30	3.6	30	74	11	103	18	15	38	27	1.91
1215808--1215933	58	2.2	58	94	0	216	19	16	37	26	1.93
1216176--1216311	40	3.5	40	73	8	118	10	14	35	39	1.80
1216787--1216843	22	2.5	22	81	13	62	21	1	5	71	1.14
1217760--1218246	42	11.6	42	67	15	130	36	17	27	19	1.93
1217837--1218497	42	15.8	41	70	10	230	37	18	26	18	1.93
1217761--1218497	84	8.8	84	82	1	627	36	18	26	18	1.94
1218741--1218790	21	2.3	22	77	19	52	14	14	14	58	1.65
1220353--1220378	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1220438--1220510	20	3.6	20	81	3	101	31	17	13	36	1.89
1220417--1220493	21	3.7	21	77	6	86	28	16	11	42	1.84
1220417--1220510	41	2.3	41	94	3	163	29	18	12	39	1.88
1225519--1225585	37	1.9	35	88	11	102	29	25	11	32	1.92
1226043--1226068	13	2.0	13	100	0	52	30	15	15	38	1.88
1226128--1226200	20	3.6	20	81	3	101	31	17	13	36	1.89
1226107--1226183	21	3.7	21	77	6	86	28	16	11	42	1.84
1226107--1226200	41	2.3	41	94	3	163	29	18	12	39	1.88
1235496--1235663	20	7.7	20	70	17	120	30	17	13	38	1.88
1243155--1243245	40	2.3	40	86	0	119	9	17	37	35	1.83
1243717--1243771	22	2.5	21	82	8	65	20	1	1	76	0.97
1243731--1243770	19	2.1	19	90	0	62	20	0	0	80	0.72
1243718--1243772	14	3.9	14	78	9	58	20	1	1	76	0.97
1266689--1266715	11	2.5	11	100	0	54	70	11	7	11	1.34
1269135--1269255	52	2.3	52	97	0	224	28	18	18	34	1.94
1269135--1269275	52	2.7	51	90	4	212	30	17	18	33	1.94
1269264--1269288	13	1.9	13	100	0	50	36	16	16	32	1.90
1269354--1269378	13	1.9	13	100	0	50	32	16	16	36	1.90
1269332--1269398	33	2.0	33	88	0	98	40	13	11	34	1.81
1270168--1270552	171	2.3	168	90	5	611	36	14	24	24	1.93
1270239--1270397	49	3.1	49	76	6	147	35	15	23	24	1.94
1270448--1270580	43	3.1	42	81	9	126	33	17	25	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270477--1270672	43	4.5	42	82	11	148	30	18	25	25	1.98
1270511--1271076	49	11.9	49	84	5	754	31	18	26	24	1.97
1270511--1271076	98	6.0	92	94	3	925	31	18	26	24	1.97
1270511--1271076	190	3.0	186	93	4	947	31	18	26	24	1.97
1271106--1271170	33	1.9	34	96	3	123	16	18	36	27	1.93
1271155--1271310	34	4.6	32	83	9	177	32	10	36	20	1.87
1271281--1271425	31	4.7	30	82	6	157	28	17	28	24	1.98
1271249--1271422	93	1.9	93	82	2	224	28	17	31	22	1.97
1271175--1271425	32	7.8	32	83	6	197	31	15	31	22	1.94
1272458--1272491	15	2.3	15	89	0	50	0	8	5	85	0.75
1276382--1276424	21	2.0	21	100	0	86	27	20	23	27	1.99
1277233--1277259	11	2.5	11	100	0	54	70	11	7	11	1.34
1279678--1279798	52	2.3	52	97	0	224	28	18	18	34	1.94
1279678--1279818	52	2.7	51	90	4	212	30	17	18	33	1.94
1279807--1279831	13	1.9	13	100	0	50	36	16	16	32	1.90
1279897--1279921	13	1.9	13	100	0	50	32	16	16	36	1.90
1279875--1279941	33	2.0	33	88	0	98	40	13	11	34	1.81
1280711--1281095	171	2.3	168	90	5	611	36	14	24	24	1.93
1280782--1280940	49	3.1	49	76	6	147	35	15	23	24	1.94
1280991--1281123	43	3.1	42	81	9	126	33	17	25	24	1.96
1281020--1281215	43	4.5	42	82	11	148	30	18	25	25	1.98
1281054--1281619	49	11.9	49	84	5	754	31	18	26	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281054--1281619	98	6.0	92	94	3	925	31	18	26	24	1.97
1281054--1281619	190	3.0	186	93	4	947	31	18	26	24	1.97
1281649--1281713	33	1.9	34	96	3	123	16	18	36	27	1.93
1281698--1281853	34	4.6	32	83	9	177	32	10	36	20	1.87
1281824--1281968	31	4.7	30	82	6	157	28	17	28	24	1.98
1281792--1281965	93	1.9	93	82	2	224	28	17	31	22	1.97
1281718--1281968	32	7.8	32	83	6	197	31	15	31	22	1.94
1282998--1283031	15	2.3	15	89	0	50	0	8	5	85	0.75
1286922--1286964	21	2.0	21	100	0	86	27	20	23	27	1.99
1287773--1287799	11	2.5	11	100	0	54	70	11	7	11	1.34
1290218--1290338	52	2.3	52	97	0	224	28	18	18	34	1.94
1290218--1290358	52	2.7	51	90	4	212	30	17	18	33	1.94
1290347--1290371	13	1.9	13	100	0	50	36	16	16	32	1.90
1290437--1290461	13	1.9	13	100	0	50	32	16	16	36	1.90
1290415--1290481	33	2.0	33	88	0	98	40	13	11	34	1.81
1290903--1291063	31	5.2	30	70	7	90	26	31	26	15	1.96
1291041--1291210	86	2.0	86	83	5	218	32	21	23	22	1.98
1291721--1291746	13	2.0	13	100	0	52	38	15	15	30	1.88
1292867--1292922	20	2.9	19	92	5	94	33	17	12	35	1.88
1293412--1293451	12	3.3	12	85	0	53	30	27	2	40	1.70
1293912--1293949	19	2.0	19	85	10	51	21	15	13	50	1.78
1305198--1305322	52	2.4	52	94	2	216	29	17	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305198--1305342	52	2.8	50	87	8	193	31	17	18	33	1.94
1305398--1305466	20	3.8	19	73	26	78	47	11	11	28	1.75
1305422--1305479	13	3.9	13	73	26	53	39	13	13	32	1.85
1305400--1305499	33	3.0	33	94	0	164	42	13	12	33	1.80
1306258--1306822	171	3.3	171	96	0	1022	37	14	23	24	1.92
1306500--1306658	49	3.1	49	77	6	156	35	15	23	25	1.94
1306738--1307206	49	9.6	49	84	8	575	32	17	25	24	1.97
1306670--1307206	101	5.4	101	90	6	734	32	17	25	24	1.96
1307211--1307303	33	2.8	33	90	6	154	16	19	35	29	1.93
1307377--1307498	37	3.4	35	88	7	176	33	13	35	18	1.89
1307308--1307912	71	8.4	69	72	15	392	32	12	34	20	1.90
1307421--1307590	87	1.9	88	91	1	279	31	14	33	20	1.93
1307508--1307929	33	12.2	33	83	10	499	32	12	34	20	1.91
1307886--1308064	31	5.8	30	85	7	207	27	17	31	22	1.96
1307588--1307929	138	2.5	136	85	10	225	31	12	34	20	1.90
1307892--1308064	62	2.8	63	87	5	237	26	17	31	23	1.97
1309286--1309377	14	6.7	13	76	15	78	0	0	17	82	0.67
1309286--1309379	18	5.6	16	78	14	91	0	0	17	82	0.66
1316494--1316534	21	2.0	21	85	9	57	39	12	9	39	1.76
1316594--1316667	20	3.7	20	81	3	103	35	13	20	31	1.91
1316612--1316687	21	3.7	21	82	3	109	40	11	18	28	1.86
1316594--1316687	41	2.3	41	100	0	188	38	12	19	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316726--1316751	13	2.0	13	100	0	52	38	15	15	30	1.88
1317210--1317276	37	1.9	35	88	11	102	32	11	25	29	1.92
1320453--1320477	13	1.9	13	100	0	50	36	16	16	32	1.90
1320728--1320756	1	29.0	1	100	0	58	100	0	0	0	0.00
1321336--1321387	21	2.5	21	96	0	95	38	3	23	34	1.73
1322146--1322186	21	2.0	21	85	9	57	39	12	9	39	1.76
1322246--1322319	20	3.7	20	81	3	103	35	13	20	31	1.91
1322264--1322339	21	3.7	21	82	3	109	40	11	18	28	1.86
1322246--1322339	41	2.3	41	100	0	188	38	12	19	29	1.89
1322378--1322403	13	2.0	13	100	0	52	38	15	15	30	1.88

Tables:   1   2   3   4   5   6   7   8   9