genome.fa.s81.2.7.7.80.10.50.1000.9.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: Scaffold81
Parameters: 2 7 7 80 10 50 1000
Length:  1151237

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1060 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)
991866--991908	16	2.7	16	77	0	50	39	13	2	44	1.57
992966--993009	21	2.1	21	100	0	88	25	25	9	40	1.84
994195--994394	99	2.0	99	99	0	391	28	21	21	30	1.98
994461--994491	2	15.5	2	100	0	62	51	0	48	0	1.00
996461--996512	18	2.9	17	75	13	52	50	0	1	48	1.12
997075--997118	24	1.9	23	86	9	63	50	0	2	47	1.13
1001274--1001324	20	2.4	21	80	6	59	45	0	0	54	0.99
1001759--1001797	2	19.5	2	100	0	78	51	0	0	48	1.00
1002285--1002311	2	13.5	2	100	0	54	51	0	0	48	1.00
1002847--1002888	20	2.0	20	90	4	66	52	11	4	30	1.59
1002855--1002892	20	1.9	20	88	0	58	57	13	2	26	1.49
1003367--1003425	24	2.8	20	76	18	73	37	0	8	54	1.31
1003678--1003713	18	1.9	18	88	5	54	30	0	0	69	0.89
1004208--1004241	14	2.2	16	90	10	54	26	0	0	73	0.83
1005212--1005245	15	2.3	15	89	0	50	61	0	2	35	1.11
1005251--1005315	20	3.2	21	70	18	66	53	0	0	46	1.00
1005240--1005323	19	4.6	20	69	20	67	53	0	0	46	1.00
1009181--1009230	5	10.0	5	79	16	59	60	0	0	40	0.97
1009179--1009258	11	7.5	11	76	19	71	58	0	1	40	1.06
1009551--1009599	20	2.5	19	77	6	53	59	0	2	38	1.09
1009837--1010007	16	12.0	14	67	21	63	42	0	0	57	1.03
1009876--1009953	32	2.6	28	75	24	88	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009871--1009938	16	4.2	17	76	23	67	44	0	0	55	0.99
1009832--1009996	60	2.7	61	72	19	146	42	0	0	56	1.03
1009823--1010009	61	2.9	68	72	22	177	43	0	0	56	1.03
1010330--1010383	6	9.3	6	82	8	58	42	0	1	55	1.10
1010334--1010377	22	2.0	22	90	0	70	40	0	2	56	1.11
1010330--1010388	28	2.1	28	90	0	91	42	0	1	55	1.09
1010971--1010995	10	2.5	10	100	0	50	52	0	0	48	1.00
1011231--1011277	20	2.5	19	80	10	60	44	0	0	55	0.99
1012722--1012747	13	2.0	13	100	0	52	30	15	15	38	1.88
1012807--1012879	20	3.6	20	81	3	101	31	17	13	36	1.89
1012786--1012862	21	3.7	21	77	6	86	28	16	11	42	1.84
1012786--1012879	41	2.3	41	94	3	163	29	18	12	39	1.88
1013432--1013527	48	2.0	48	100	0	192	25	29	8	37	1.85
1014991--1015029	13	3.0	13	96	0	69	35	15	17	30	1.91
1017108--1017138	15	2.1	15	93	0	53	12	22	16	48	1.80
1021200--1021225	13	2.0	13	100	0	52	30	15	15	38	1.88
1021285--1021357	20	3.6	20	81	3	101	31	17	13	36	1.89
1021264--1021340	21	3.7	21	77	6	86	28	16	11	42	1.84
1021264--1021357	41	2.3	41	94	3	163	29	18	12	39	1.88
1021775--1021842	31	2.2	32	83	2	84	48	14	4	32	1.64
1022265--1022294	2	15.0	2	92	0	51	53	0	0	46	1.00
1023241--1023319	37	2.2	37	93	2	133	26	17	24	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024492--1024591	34	2.9	34	93	0	173	39	25	9	27	1.85
1024749--1024887	34	4.1	34	85	0	188	26	7	26	38	1.84
1025192--1025254	19	3.3	19	90	0	90	28	17	19	34	1.94
1029320--1029504	34	5.5	34	85	0	246	27	7	25	40	1.82
1033837--1033873	19	1.9	19	100	0	74	35	16	16	32	1.91
1034179--1034535	34	10.5	34	85	3	459	40	26	7	26	1.82
1034177--1034535	172	2.1	169	96	3	682	40	26	7	25	1.82
1038609--1038665	19	3.0	19	94	0	96	33	15	17	33	1.92
1038969--1039153	34	5.5	34	87	3	257	40	26	7	25	1.82
1040999--1041027	14	2.0	15	93	6	51	41	0	0	58	0.98
1044817--1044841	2	12.5	2	100	0	50	52	0	0	48	1.00
1048362--1048413	15	3.3	15	81	7	68	53	0	0	46	1.00
1048790--1048831	16	2.7	16	81	3	50	35	0	0	64	0.94
1048812--1048890	27	3.0	26	77	12	65	44	1	2	51	1.23
1058629--1058657	15	2.0	15	93	6	51	75	0	10	13	1.04
1062684--1062743	17	3.6	16	78	13	59	63	0	0	36	0.95
1062661--1062739	27	3.0	27	80	14	76	60	1	0	37	1.05
1062603--1062743	8	16.4	9	67	21	72	60	0	0	39	1.02
1062692--1062743	15	3.4	15	82	15	54	63	0	0	36	0.95
1064261--1064289	2	15.0	2	92	7	51	51	0	0	48	1.00
1065249--1065320	25	2.8	25	74	6	72	52	0	0	47	1.00
1070199--1070235	2	18.5	2	100	0	74	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070959--1070993	17	2.1	17	100	0	70	34	5	22	37	1.78
1079541--1079588	22	2.1	23	88	3	71	33	0	2	64	1.05
1080004--1080132	65	2.0	65	90	0	204	35	10	5	48	1.60
1083649--1083708	29	2.1	29	96	3	113	65	10	13	11	1.49
1093529--1093761	52	4.5	52	85	0	268	26	13	26	33	1.93
1093535--1093791	52	4.9	52	84	0	253	25	13	27	33	1.94
1106034--1106070	17	2.2	17	95	0	65	29	0	0	70	0.88
1111145--1111185	2	20.5	2	94	0	73	51	0	0	48	1.00
1113723--1113751	2	14.5	2	100	0	58	48	0	0	51	1.00
1114081--1114131	24	2.2	22	82	6	57	33	1	0	64	1.05
1114318--1114355	19	2.0	20	89	5	60	52	2	2	42	1.29
1114356--1114398	16	2.8	16	86	10	54	46	2	0	51	1.13
1115696--1115723	2	14.0	2	100	0	56	50	0	0	50	1.00
1119018--1119045	14	2.0	14	100	0	56	42	14	14	28	1.84
1120794--1120826	15	2.2	15	94	0	57	30	9	15	45	1.77
1125078--1125182	18	5.3	18	69	24	52	62	2	0	34	1.10
1125090--1125178	8	11.4	8	70	20	55	61	3	0	34	1.12
1125086--1125180	21	4.7	21	68	18	60	62	3	0	34	1.11
1126664--1126702	2	19.5	2	100	0	78	48	0	0	51	1.00
1126793--1126826	2	17.0	2	100	0	68	50	0	0	50	1.00
1126941--1126984	2	23.0	2	90	9	74	52	0	0	47	1.00
1128050--1128091	14	3.0	14	85	0	57	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128157--1128221	26	2.5	26	83	13	89	33	0	1	64	1.03
1128189--1128253	21	3.0	21	81	6	67	32	3	4	60	1.33
1130988--1131132	75	1.9	75	83	2	184	33	12	19	34	1.89
1131766--1131794	2	14.5	2	100	0	58	0	51	0	48	1.00
1131794--1131821	2	14.0	2	100	0	56	50	50	0	0	1.00
1132556--1132593	18	2.1	18	100	0	76	50	10	5	34	1.59
1132619--1132652	2	17.0	2	93	0	59	47	0	0	52	1.00
1132902--1132927	5	5.2	5	100	0	52	42	0	38	19	1.51
1133036--1133071	2	18.0	2	100	0	72	50	0	50	0	1.00
1138445--1138477	15	2.2	15	100	0	66	18	6	6	69	1.30
1145134--1145196	2	31.5	2	86	0	72	3	39	0	57	1.15
1149643--1149668	13	2.0	13	100	0	52	38	15	15	30	1.88

Tables:   1   2   3   4   5   6   7   8   9

The End!