genome.fa.s148.2.7.7.80.10.50.1000.7.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: Scaffold148
Parameters: 2 7 7 80 10 50 1000
Length:  1464219

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1072 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)
1001873--1002034	39	3.9	39	71	17	137	27	27	19	26	1.99
1002230--1002394	39	4.0	39	71	14	132	28	26	20	24	1.99
1002322--1002483	39	3.9	39	69	17	128	27	26	19	27	1.99
1001697--1002672	449	2.2	449	97	1	1827	26	26	18	28	1.98
1002539--1002716	49	3.6	49	82	0	212	25	24	17	32	1.97
1002531--1002764	98	2.3	100	84	2	292	25	26	16	32	1.96
1009886--1009912	13	2.1	13	100	0	54	29	14	14	40	1.86
1009980--1010006	13	2.1	13	100	0	54	40	7	14	37	1.74
1009964--1010025	33	1.9	32	83	9	81	41	11	14	32	1.81
1015192--1015246	27	2.0	27	100	0	110	30	14	29	25	1.95
1014827--1015643	424	1.9	425	89	1	1255	29	18	15	36	1.92
1016776--1016940	89	1.8	90	85	2	233	33	11	7	46	1.69
1016754--1016948	90	2.2	90	81	4	232	32	13	7	46	1.71
1016892--1017022	65	2.0	65	83	2	165	30	13	9	46	1.75
1016956--1017287	92	3.7	91	85	4	417	33	13	7	45	1.71
1017691--1017780	38	2.4	38	77	7	94	42	8	2	46	1.47
1018989--1019061	37	2.0	36	82	10	87	47	4	0	47	1.21
1019289--1019329	16	2.5	16	88	11	57	34	4	0	60	1.18
1019692--1019743	27	2.0	27	85	11	72	30	0	3	65	1.10
1019665--1019742	33	2.3	32	78	10	77	33	0	2	64	1.08
1019713--1019757	23	2.0	23	86	0	63	35	0	2	62	1.08
1021604--1021672	35	2.0	35	82	0	84	24	27	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023832--1023880	22	2.1	23	85	7	64	61	6	0	32	1.21
1025189--1025227	2	19.5	2	100	0	78	51	0	0	48	1.00
1027612--1027638	13	2.1	13	100	0	54	29	14	14	40	1.86
1030197--1030251	20	2.8	20	100	0	110	32	14	20	32	1.92
1031091--1031269	67	2.7	67	79	8	168	23	15	30	30	1.95
1031429--1031603	71	2.5	71	76	1	199	32	15	24	28	1.95
1035505--1035896	194	2.0	194	99	0	775	29	17	18	33	1.94
1039146--1039172	13	2.1	13	100	0	54	29	14	14	40	1.86
1039239--1039269	13	2.4	13	94	0	53	35	16	12	35	1.87
1039223--1039289	33	2.0	33	88	5	100	34	13	19	32	1.91
1047226--1047329	36	2.9	36	91	2	158	34	2	25	36	1.71
1047274--1047339	17	3.8	17	73	13	62	34	1	30	33	1.67
1047882--1047908	13	2.1	13	100	0	54	29	14	14	40	1.86
1047863--1047927	33	2.0	32	90	3	103	26	13	16	43	1.86
1047891--1047949	19	3.0	20	82	9	84	30	11	16	40	1.85
1047894--1047949	21	2.8	20	86	5	78	30	10	17	41	1.84
1047994--1048024	13	2.4	13	94	0	53	35	16	12	35	1.87
1047978--1048044	33	2.0	32	88	11	100	35	13	17	32	1.89
1050705--1050772	33	2.1	32	86	2	91	32	13	19	35	1.90
1050727--1050752	13	2.0	13	100	0	52	38	15	15	30	1.88
1050813--1050865	20	2.6	21	82	8	65	30	16	15	37	1.90
1050853--1050877	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053298--1053335	13	2.9	13	92	0	58	34	15	15	34	1.90
1058791--1058816	13	2.0	13	100	0	52	38	15	15	30	1.88
1058769--1058836	33	2.1	32	91	2	109	32	13	19	35	1.90
1058866--1058920	20	2.7	21	83	8	69	29	16	14	40	1.88
1059739--1060102	88	4.1	89	73	9	271	38	10	19	31	1.86
1060131--1060166	16	2.2	16	90	0	54	44	2	0	52	1.15
1063028--1063243	66	3.3	65	80	6	177	44	13	24	17	1.85
1063079--1063244	66	2.5	67	83	6	205	45	13	24	16	1.84
1063412--1063524	42	2.7	42	74	8	106	42	12	26	18	1.86
1064120--1064332	67	3.2	67	76	6	207	45	14	16	23	1.84
1065020--1065054	13	2.7	13	95	0	61	14	2	5	77	1.07
1065043--1065118	8	9.9	8	77	5	59	11	3	5	78	1.04
1065032--1065119	7	12.0	7	72	13	61	12	3	5	78	1.05
1065026--1065118	29	3.1	28	80	11	80	11	3	6	78	1.05
1071838--1071900	21	3.0	21	82	11	67	26	1	3	68	1.14
1071859--1072038	4	44.5	4	68	18	52	20	6	4	68	1.29
1071837--1071877	11	3.8	11	78	15	50	19	2	4	73	1.13
1071954--1072023	26	2.7	26	75	12	72	18	7	4	70	1.28
1072016--1072045	13	2.3	13	94	0	51	33	3	0	63	1.11
1074028--1074060	17	2.0	16	94	5	57	21	0	0	78	0.75
1074029--1074070	8	5.2	8	77	11	50	23	0	2	73	0.94
1074029--1074066	17	2.2	17	86	9	51	21	0	2	76	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075779--1075824	21	2.2	21	92	3	76	34	6	4	54	1.46
1075862--1075887	3	8.7	3	100	0	52	34	0	0	65	0.93
1078703--1078758	27	2.1	27	96	0	103	42	23	1	32	1.64
1083374--1083515	20	6.6	20	73	17	106	42	11	14	30	1.81
1084074--1084954	57	15.4	56	85	5	1076	24	17	29	29	1.97
1084087--1084954	28	30.5	28	85	5	1014	24	16	29	29	1.97
1084087--1084954	85	10.2	85	87	3	1192	24	16	29	29	1.97
1086171--1086237	15	4.1	17	78	21	72	1	1	11	85	0.75
1086174--1086238	17	3.9	17	81	16	66	1	1	10	86	0.72
1086186--1086231	15	3.1	15	87	12	76	0	0	13	86	0.56
1086173--1086238	25	2.6	25	86	6	89	1	1	10	86	0.71
1086173--1086238	10	6.5	10	84	8	80	1	1	10	86	0.71
1086173--1086229	1	57.0	1	75	0	51	1	1	8	87	0.68
1089459--1089541	40	2.0	41	97	2	159	26	16	22	33	1.96
1101099--1101123	13	1.9	13	100	0	50	32	16	16	36	1.90
1101111--1101163	20	2.6	21	82	8	65	37	15	16	30	1.90
1101224--1101249	13	2.0	13	100	0	52	30	15	15	38	1.88
1101204--1101271	33	2.1	32	91	2	109	35	19	14	30	1.92
1104479--1104506	13	2.2	13	100	0	56	39	17	14	28	1.89
1104549--1104613	33	2.0	33	87	0	94	40	13	12	33	1.82
1104569--1104593	13	1.9	13	100	0	50	32	16	16	36	1.90
1110782--1110819	13	2.9	13	96	0	67	31	15	18	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1113268--1113292	13	1.9	13	100	0	50	32	16	16	36	1.90
1113393--1113418	13	2.0	13	100	0	52	30	15	15	38	1.88
1113373--1113438	33	2.0	33	88	2	98	36	18	13	31	1.90
1117705--1117743	12	2.9	13	85	14	53	38	0	0	61	0.96
1117673--1117742	28	2.5	29	76	4	81	41	0	0	58	0.98
1118969--1118996	2	14.0	2	100	0	56	50	0	0	50	1.00
1118996--1119031	2	18.0	2	94	0	63	0	0	52	47	1.00
1120555--1120579	13	1.9	13	100	0	50	32	16	16	36	1.90
1120680--1120705	13	2.0	13	100	0	52	30	15	15	38	1.88
1120660--1120727	33	2.1	32	88	2	100	35	17	13	33	1.89
1122809--1122838	2	15.0	2	92	0	51	46	0	3	50	1.18
1128643--1128681	15	2.6	15	100	0	78	12	10	38	38	1.78
1129160--1129276	51	2.3	50	85	1	144	41	12	15	30	1.85
1129191--1129484	141	2.1	141	83	2	367	39	14	12	33	1.84
1130272--1130390	59	2.0	59	83	0	148	31	15	14	38	1.87
1130990--1131031	18	2.4	17	81	18	50	45	0	2	52	1.13
1131129--1131180	18	2.7	20	79	5	63	44	5	1	48	1.38
1131297--1131335	17	2.2	18	86	4	53	46	5	2	46	1.38
1131533--1131588	21	2.8	20	81	10	69	41	7	14	37	1.73
1132172--1132206	17	2.1	16	89	5	52	11	5	28	54	1.59
1134391--1134444	17	3.3	17	72	25	53	59	0	1	38	1.08
1134431--1134486	28	2.0	28	86	6	78	58	8	0	32	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135903--1135979	27	2.8	26	82	11	82	68	3	22	5	1.26
1135921--1135993	27	2.5	30	81	16	84	69	0	26	4	1.06
1135893--1135993	27	3.6	29	79	14	79	69	2	23	3	1.19
1136296--1136351	20	2.8	20	83	2	58	35	0	1	62	1.06
1136406--1136451	21	2.2	21	84	7	58	43	0	10	45	1.39
1136725--1136789	29	2.3	28	79	12	71	32	7	6	53	1.54
1136887--1136933	26	1.9	26	83	12	64	51	4	8	36	1.52
1140394--1140422	2	14.5	2	100	0	58	51	0	0	48	1.00
1140801--1140877	37	2.1	36	88	7	111	38	3	5	51	1.42
1142100--1142154	20	2.8	20	100	0	110	36	14	10	38	1.81

Tables:   1   2   3   4   5   6   7   8   9