genome.fa.s212.2.7.7.80.10.50.1000.9.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: Scaffold212
Parameters: 2 7 7 80 10 50 1000
Length:  1080337

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  9  of  10  ( 1126 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)
959270--959313	21	2.1	21	87	8	63	54	2	0	43	1.12
961804--961844	21	2.0	20	85	4	55	48	0	0	51	1.00
961894--961958	17	3.3	20	77	18	64	21	0	6	72	1.06
962262--962307	23	2.0	23	82	0	56	45	2	0	52	1.13
962274--962361	17	5.4	16	72	11	63	44	5	2	47	1.39
972811--972864	26	2.1	26	89	6	83	57	0	1	40	1.09
973774--973803	7	4.1	7	91	8	51	86	0	0	13	0.57
973774--973803	15	2.0	15	100	0	60	86	0	0	13	0.57
975101--975271	86	2.0	86	90	0	270	45	13	5	35	1.68
977076--977197	64	1.9	64	87	0	181	45	4	3	46	1.38
977675--977703	2	14.5	2	100	0	58	51	0	0	48	1.00
978408--978444	11	3.5	11	82	10	51	40	0	2	56	1.13
978440--978481	19	2.1	21	86	8	61	54	2	0	42	1.13
978841--978881	21	2.0	21	85	0	55	48	0	0	51	1.00
978858--978931	9	8.2	9	76	16	73	44	0	0	55	0.99
978835--978931	15	6.5	15	70	9	63	46	0	0	53	1.00
978891--978947	25	2.2	25	81	9	62	50	0	0	49	1.00
978857--978972	54	2.2	54	82	10	143	44	0	0	54	1.06
980094--980140	20	2.4	19	92	7	76	46	0	0	53	1.00
981027--981064	11	3.2	12	85	11	51	55	0	0	44	0.99
981032--981067	12	3.1	12	88	8	56	58	0	0	41	0.98
981029--981098	30	2.4	27	76	21	70	55	1	0	42	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
981488--981519	10	3.1	10	95	4	55	43	0	0	56	0.99
981652--981696	18	2.6	17	86	6	56	35	2	2	60	1.22
981693--981755	15	3.7	17	69	18	51	42	1	7	47	1.42
982073--982131	24	2.5	24	81	8	68	55	0	0	44	0.99
983539--983563	2	12.5	2	100	0	50	52	0	0	48	1.00
984204--984232	2	14.5	2	100	0	58	48	0	0	51	1.00
986148--986237	24	3.7	24	71	11	76	51	1	0	47	1.08
988523--988564	12	3.4	13	83	9	52	40	0	0	59	0.97
988751--988782	2	17.0	2	87	12	50	50	0	0	50	1.00
989901--989930	15	2.0	15	100	0	60	53	6	6	33	1.53
990115--990221	21	4.5	25	70	19	77	57	0	0	42	0.99
990181--990224	22	2.1	20	83	8	52	61	0	0	38	0.96
990782--990818	2	18.5	2	100	0	74	48	0	0	51	1.00
992483--992510	14	2.0	14	100	0	56	14	14	21	50	1.78
994306--994363	26	2.2	26	84	6	73	27	1	1	68	1.08
994415--994452	20	1.9	20	84	10	51	31	5	0	63	1.17
995008--995072	19	3.7	18	73	15	55	43	6	3	47	1.43
995013--995060	19	2.6	18	86	6	60	45	8	2	43	1.45
1001278--1001318	2	20.5	2	100	0	82	48	0	0	51	1.00
1001378--1001441	29	2.2	27	79	15	74	62	0	1	35	1.05
1001401--1001457	5	11.2	5	74	10	53	63	0	0	36	0.95
1001396--1001513	10	12.2	10	72	15	61	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1001377--1001462	31	2.8	29	85	7	100	61	0	1	37	1.04
1001387--1001463	20	3.8	21	72	17	65	62	0	1	36	1.04
1001378--1001457	11	7.5	11	75	16	71	62	0	1	36	1.03
1001400--1001463	20	3.2	20	77	14	78	62	0	0	37	0.95
1001396--1001462	30	2.2	29	89	7	98	62	0	0	37	0.95
1001652--1001681	2	15.0	2	100	0	60	50	0	0	50	1.00
1002412--1002454	3	14.3	3	95	0	77	65	0	0	34	0.93
1002910--1002940	3	10.3	3	100	0	62	67	0	0	32	0.91
1003675--1003742	32	2.2	29	84	7	82	44	4	4	47	1.43
1004306--1004335	14	2.2	13	94	5	51	46	0	0	53	1.00
1006623--1006718	47	2.1	46	94	2	165	57	5	8	29	1.50
1008771--1008868	51	1.9	50	83	2	124	46	10	16	26	1.78
1009031--1009078	19	2.4	20	89	6	71	45	0	0	54	0.99
1009248--1009319	26	2.7	26	77	12	74	51	0	0	48	1.00
1009620--1009667	19	2.5	19	80	10	53	64	0	0	35	0.94
1009829--1009873	2	22.5	2	100	0	90	48	0	0	51	1.00
1010089--1010243	8	19.1	8	69	18	72	60	1	0	37	1.10
1010151--1010245	43	2.2	44	78	14	99	56	1	0	42	1.06
1010948--1010997	21	2.5	21	84	15	70	40	0	0	60	0.97
1012135--1012173	13	2.8	14	88	7	53	46	28	7	17	1.76
1012989--1013085	15	6.3	15	71	18	56	61	1	0	37	1.03
1012966--1013015	25	2.0	25	81	11	59	56	0	2	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013001--1013086	16	5.6	14	73	23	59	61	1	0	37	1.04
1012989--1013056	31	2.1	33	86	10	97	60	1	0	38	1.06
1012989--1013041	17	3.3	17	70	21	51	60	1	0	37	1.08
1013029--1013085	23	2.5	23	88	2	89	64	0	0	35	0.93
1012998--1013077	33	2.4	33	80	10	92	60	1	0	38	1.05
1013029--1013087	29	2.1	28	87	9	84	64	0	0	35	0.94
1013374--1013425	15	3.6	15	84	5	72	63	0	0	36	0.95
1013617--1013683	17	3.9	17	72	14	57	61	1	0	37	1.05
1013848--1013904	19	2.8	19	76	19	62	33	0	0	66	0.92
1017323--1017360	3	13.0	3	94	5	69	68	0	0	31	0.90
1017780--1017863	41	2.0	42	84	11	111	35	0	3	60	1.14
1017885--1017911	10	2.7	10	100	0	54	22	0	11	66	1.22
1018926--1018950	8	3.1	8	100	0	50	24	0	0	76	0.80
1019448--1019476	12	2.3	13	94	5	51	37	0	0	62	0.96
1019452--1019549	17	5.3	18	71	14	67	45	1	2	51	1.19
1020930--1020982	16	3.2	16	76	23	65	52	0	0	47	1.00
1020922--1020987	33	2.0	33	90	0	105	50	1	0	48	1.10
1020931--1020984	17	3.2	17	78	21	69	53	0	0	46	1.00
1021778--1021850	19	3.8	18	79	13	67	34	2	0	63	1.09
1021808--1021856	23	2.2	21	89	7	71	28	2	0	69	1.00
1021777--1021870	28	3.3	29	85	7	106	31	2	0	65	1.04
1024178--1024232	17	3.4	17	78	14	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024185--1024234	14	3.4	14	76	15	55	66	0	0	34	0.92
1024146--1024232	31	2.9	30	73	21	83	63	0	2	34	1.07
1024150--1024234	28	3.1	27	78	13	93	63	0	2	34	1.07
1024185--1024243	15	4.0	14	76	10	55	61	0	0	38	0.96
1024239--1024291	16	3.2	16	73	23	56	54	0	0	45	0.99
1024214--1024296	33	2.6	33	82	3	98	51	0	0	48	1.00
1024247--1024296	25	2.0	24	85	11	66	54	0	0	46	1.00
1024242--1024312	26	2.9	24	75	18	67	53	0	0	46	1.00
1025010--1025130	8	15.0	8	65	17	54	38	0	1	60	1.07
1025019--1025154	9	14.0	10	68	13	52	36	0	1	61	1.11
1025006--1025135	47	2.7	47	80	10	129	39	0	1	58	1.13
1025058--1025160	14	6.9	15	69	21	56	37	0	0	60	1.10
1025042--1025160	18	6.7	18	70	18	72	39	0	0	58	1.10
1025009--1025135	33	4.0	32	69	21	88	38	0	1	59	1.13
1025012--1025153	33	4.5	32	67	20	84	36	0	1	61	1.10
1025091--1025160	28	2.5	27	78	13	88	37	1	0	61	1.05
1026411--1026444	13	2.5	13	85	4	50	64	0	0	35	0.94
1028088--1028141	20	2.7	19	77	11	56	53	0	0	46	1.00
1028155--1028186	2	15.5	2	93	6	55	50	3	0	46	1.17
1028384--1028424	21	2.0	20	85	4	55	36	0	2	60	1.10
1028473--1028520	18	2.6	18	80	9	53	45	0	0	54	0.99
1028537--1028582	16	2.8	16	78	15	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028876--1028932	17	3.5	17	79	16	66	66	0	0	33	0.92
1028882--1028949	27	2.5	28	83	11	88	69	0	0	30	0.89
1028878--1028941	12	5.2	12	74	22	53	67	0	0	32	0.91
1028875--1028950	11	6.9	12	73	23	62	67	0	0	32	0.91
1028960--1029020	20	3.1	19	77	15	61	50	0	0	49	1.00
1029169--1029245	16	4.8	17	69	20	58	41	0	0	58	0.98
1029184--1029292	32	3.1	35	73	17	102	39	0	0	58	1.10
1029640--1029749	39	2.8	37	80	10	105	60	1	2	34	1.21
1029667--1029717	14	3.6	14	80	15	59	64	0	0	35	0.94
1029666--1029718	25	2.2	24	86	3	70	64	0	0	35	0.94

Tables:   1   2   3   4   5   6   7   8   9   10