genome.fa.s111.2.7.7.80.10.50.1000.6.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: Scaffold111
Parameters: 2 7 7 80 10 50 1000
Length:  1194829

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 716 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)
1058048--1058137	42	2.1	42	87	4	128	17	25	14	42	1.87
1058300--1058365	28	2.4	28	97	0	123	36	33	21	9	1.85
1058998--1059126	20	6.8	19	78	16	117	31	16	12	40	1.85
1059000--1059126	40	3.4	39	78	14	149	29	16	12	40	1.85
1059037--1059106	33	2.1	33	97	0	131	28	18	12	40	1.88
1059057--1059087	13	2.4	13	94	0	53	32	16	12	38	1.86
1059020--1059126	53	2.0	53	85	7	146	28	16	13	41	1.86
1061409--1061545	51	2.6	52	81	2	168	29	27	13	29	1.94
1061413--1061545	53	2.6	51	82	8	162	29	27	13	30	1.94
1061524--1061600	28	2.8	26	78	11	84	23	29	22	24	1.99
1061528--1061600	27	2.6	28	80	6	87	23	30	21	24	1.99
1061552--1061758	79	2.6	79	92	3	337	24	27	17	30	1.97
1061714--1061784	28	2.5	28	88	11	110	23	29	18	28	1.98
1061636--1061862	107	2.1	107	81	3	260	26	26	14	31	1.95
1061475--1061891	186	2.2	185	81	5	482	27	25	15	32	1.95
1061743--1061910	79	2.1	80	81	8	193	29	23	13	33	1.93
1063096--1063161	20	3.7	20	73	26	83	27	15	15	42	1.86
1063114--1063173	13	5.1	13	73	22	69	28	15	15	41	1.86
1063096--1063173	33	2.4	33	100	0	156	28	15	15	41	1.87
1063263--1063287	13	1.9	13	100	0	50	36	16	16	32	1.90
1063243--1063307	33	2.0	33	85	11	89	33	16	18	30	1.94
1065365--1066152	56	14.2	55	70	10	421	39	15	18	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065406--1065977	168	3.4	166	77	7	482	38	15	19	26	1.91
1065380--1066152	112	7.0	110	72	9	471	39	15	19	26	1.91
1065852--1066144	111	2.6	112	74	8	267	39	17	17	25	1.91
1074487--1074511	13	1.9	13	100	0	50	36	16	16	32	1.90
1075308--1075424	49	2.4	49	95	0	207	35	16	25	23	1.95
1075479--1075776	49	6.1	52	82	11	176	33	17	23	25	1.96
1075546--1075821	43	6.1	43	85	10	372	30	18	25	25	1.98
1075509--1075816	92	3.3	92	97	1	571	30	18	24	25	1.98
1075809--1076630	65	12.8	65	86	5	1091	19	18	34	28	1.95
1075809--1076630	97	8.5	97	87	4	1130	19	18	34	28	1.95
1076667--1077395	34	21.8	34	79	8	764	32	12	34	20	1.90
1076667--1077395	128	5.4	130	80	7	652	32	12	34	20	1.90
1077105--1077369	99	2.7	98	86	5	372	32	12	34	20	1.90
1076667--1077404	65	11.0	65	79	9	662	33	12	34	20	1.89
1077333--1077674	31	11.0	30	83	9	350	30	16	30	22	1.96
1077318--1077674	62	5.7	62	85	6	406	30	16	30	22	1.96
1078976--1079016	14	3.2	13	86	10	57	4	12	7	75	1.16
1086008--1086032	13	1.9	13	100	0	50	36	16	16	32	1.90
1086075--1086127	20	2.7	20	88	2	81	41	15	11	32	1.82
1087313--1087409	36	3.0	32	76	16	94	27	24	14	32	1.94
1087846--1087920	32	2.3	32	93	0	123	37	6	25	30	1.82
1088973--1089722	167	4.5	167	79	2	709	37	13	30	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088971--1089722	83	9.0	83	78	4	618	37	13	29	19	1.90
1089494--1089615	42	3.0	41	74	10	122	38	13	29	18	1.89
1088981--1089722	335	2.2	333	82	2	896	37	13	29	19	1.90
1090159--1090196	20	1.9	19	89	5	58	34	13	13	39	1.83
1102597--1102651	20	2.8	20	85	0	74	41	14	10	32	1.81
1102547--1102681	70	1.9	70	89	4	209	45	13	13	28	1.81
1103750--1104154	59	7.0	56	76	8	262	24	17	29	29	1.97
1103782--1104141	89	4.2	86	78	10	265	24	16	30	29	1.96
1103750--1104154	28	14.0	29	77	11	280	24	17	29	29	1.97
1106521--1107004	165	2.9	163	85	4	648	51	8	10	29	1.66
1108274--1108331	8	7.4	8	81	9	57	84	8	0	6	0.78
1108277--1108325	18	2.7	17	84	12	62	83	8	0	8	0.81
1108276--1108331	27	2.2	24	87	9	76	83	8	0	7	0.80
1111730--1111784	20	2.8	20	85	0	74	41	14	10	32	1.81
1111679--1111814	72	1.9	70	87	3	200	43	13	13	28	1.83
1112859--1112938	32	2.5	31	84	4	106	25	18	27	28	1.98
1112915--1113496	28	20.5	28	81	8	556	23	16	30	29	1.97
1112915--1113496	85	6.8	84	80	11	528	23	16	30	29	1.97
1125315--1125369	20	2.8	20	85	0	74	40	14	10	34	1.81
1126113--1126232	49	2.6	45	84	5	141	35	21	23	20	1.96
1126324--1126671	28	12.1	28	89	4	416	25	16	28	29	1.97
1126324--1126696	84	4.3	85	85	4	464	25	16	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126324--1126772	28	15.6	28	86	5	404	25	15	27	31	1.96
1127982--1128064	9	8.8	9	77	16	80	3	1	12	83	0.84
1127982--1128065	38	2.2	39	85	6	109	3	1	11	83	0.83
1128028--1128068	22	1.9	23	90	5	52	0	2	12	85	0.70
1127982--1128063	29	2.8	30	84	10	100	3	1	12	82	0.85
1128009--1128065	10	5.8	10	83	4	71	0	1	12	85	0.66
1141320--1141396	20	3.8	20	83	6	102	40	14	15	29	1.87
1148460--1148533	20	3.7	20	83	0	103	37	13	16	32	1.87
1150917--1151029	58	1.9	58	89	3	174	23	9	18	47	1.78
1151175--1151326	58	2.6	58	89	0	214	25	11	20	43	1.84
1151175--1151349	58	3.0	58	82	5	131	26	11	18	44	1.83
1154025--1154071	24	1.9	25	86	4	69	76	2	21	0	0.89
1154023--1154071	12	4.0	12	86	2	62	75	2	22	0	0.90
1154035--1154074	19	2.0	20	90	4	64	80	0	20	0	0.72
1154127--1154167	22	1.9	22	85	14	59	7	17	12	63	1.50
1155512--1156649	154	7.3	152	78	6	997	22	17	21	37	1.94
1155543--1156638	309	3.5	308	80	4	1150	22	17	22	37	1.94
1161146--1161283	44	3.1	44	71	7	109	23	18	13	44	1.85
1161097--1161327	89	2.6	89	80	4	252	21	19	14	44	1.86
1161807--1161987	78	2.3	78	88	2	258	25	25	17	30	1.97
1162641--1163567	43	21.6	43	78	2	779	16	28	17	37	1.92
1163592--1163707	42	2.7	43	81	4	128	19	31	18	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163956--1164051	42	2.3	42	80	5	104	16	31	12	39	1.86
1165444--1165903	165	2.8	165	83	5	556	30	11	8	50	1.67
1166552--1166597	12	3.8	12	88	2	65	76	2	21	0	0.90
1166564--1166604	20	2.0	20	90	9	66	80	0	19	0	0.71
1170745--1170848	48	2.2	48	92	3	174	30	3	36	28	1.75
1172140--1172319	43	3.7	49	83	10	219	32	19	25	22	1.97
1172128--1172319	52	4.0	49	82	9	234	32	18	25	22	1.97
1172229--1172296	21	3.2	21	62	25	52	32	19	25	23	1.97
1172323--1172602	27	10.0	27	80	10	298	20	17	29	32	1.95
1172323--1172602	55	5.0	55	86	5	343	20	17	29	32	1.95
1172961--1173045	37	2.3	37	95	0	152	42	14	16	27	1.86
1173383--1174471	154	7.0	154	80	5	1005	23	18	21	37	1.94
1173372--1174477	308	3.6	305	79	6	1118	23	18	20	37	1.94
1177265--1177299	17	2.1	17	100	0	70	54	5	22	17	1.64
1180799--1181309	60	8.5	60	77	6	410	23	23	12	40	1.89
1181123--1181272	30	5.0	30	67	16	87	22	22	12	43	1.86
1181938--1181993	16	3.4	16	72	13	60	57	10	5	26	1.54
1181954--1182003	16	3.0	17	66	16	50	50	12	6	32	1.64
1181938--1182003	33	2.0	33	100	0	132	51	12	6	30	1.63
1183095--1183119	13	1.9	13	100	0	50	32	16	16	36	1.90
1184045--1184344	166	1.8	164	80	5	361	30	10	11	48	1.72
1184842--1184887	10	4.6	10	81	10	58	78	0	19	2	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189828--1189868	18	2.3	18	86	0	55	0	7	4	87	0.65
1190954--1190994	20	2.0	20	95	0	73	24	17	9	48	1.76
1192563--1192630	16	4.3	16	79	3	66	41	27	14	16	1.87
1192555--1192630	16	4.8	16	77	3	64	40	30	14	14	1.86
1192555--1192630	31	2.4	32	84	4	100	40	30	14	14	1.86
1192624--1192667	23	2.0	22	83	16	56	43	18	13	25	1.86

Tables:   1   2   3   4   5   6

The End!