genome.fa.s498.2.7.7.80.10.50.1000.10.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: Scaffold498
Parameters: 2 7 7 80 10 50 1000
Length:  1804022

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  10  of  17  ( 1953 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)
912180--912221	20	2.0	21	86	13	61	42	0	0	57	0.99
912680--912710	2	15.5	2	100	0	62	51	0	0	48	1.00
912648--912709	18	3.4	18	82	8	72	46	0	1	51	1.10
913494--913533	14	2.9	14	82	14	55	67	2	0	30	1.04
914416--914466	17	2.8	17	80	17	50	45	0	0	54	0.99
916236--916263	4	7.0	4	100	0	56	25	0	0	75	0.81
916408--916498	45	1.9	51	81	16	117	54	1	1	42	1.14
916800--916862	31	2.0	31	96	0	117	39	17	19	23	1.92
917977--918032	29	2.1	28	87	12	82	37	1	1	58	1.19
918452--918657	69	3.0	69	89	0	304	28	15	20	35	1.93
918716--918758	18	2.3	19	84	8	61	48	2	0	48	1.14
918726--918770	21	2.3	21	77	11	51	55	0	0	44	0.99
918762--918836	6	13.0	6	73	23	54	60	1	0	38	1.06
919251--919293	21	2.0	21	82	8	52	39	0	0	60	0.97
919376--919408	12	2.8	12	86	4	50	48	0	0	51	1.00
921159--921216	26	2.2	26	81	6	64	51	0	0	48	1.00
922256--922284	13	2.1	14	93	6	51	3	89	0	6	0.57
928408--928441	2	17.0	2	93	0	59	50	2	47	0	1.16
929371--929401	2	16.0	2	93	6	55	51	0	0	48	1.00
930498--930549	23	2.3	25	75	21	60	32	1	0	65	1.04
930798--930836	2	19.5	2	100	0	78	51	0	0	48	1.00
931977--932017	17	2.3	18	87	4	57	43	7	12	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
932651--932684	13	2.5	13	90	4	50	23	0	11	64	1.26
932697--932742	18	2.7	17	78	18	51	50	0	2	47	1.13
932706--932771	17	4.0	17	74	18	59	51	0	1	46	1.10
933000--933058	31	1.9	29	83	16	75	42	5	0	52	1.23
933435--933470	2	18.0	2	100	0	72	50	0	0	50	1.00
933589--933613	13	1.9	13	100	0	50	12	0	0	88	0.53
934123--934158	2	18.0	2	100	0	72	50	0	0	50	1.00
934899--934926	3	9.3	3	100	0	56	32	0	0	67	0.91
935085--935120	4	9.2	4	87	6	56	72	0	2	25	0.98
935563--935588	5	5.2	5	100	0	52	80	0	0	19	0.71
935721--935750	3	10.0	3	100	0	60	66	0	0	33	0.92
937488--937528	20	2.0	20	86	9	57	31	0	0	68	0.90
938744--938807	22	2.7	24	76	16	71	51	0	0	48	1.00
940372--940427	21	2.6	22	80	8	62	53	1	0	44	1.11
941139--941177	3	13.0	3	100	0	78	66	0	0	33	0.92
946643--946691	2	24.5	2	100	0	98	51	0	0	48	1.00
947281--947305	6	4.2	6	100	0	50	48	0	0	52	1.00
947913--947953	20	2.0	20	85	0	55	53	2	2	41	1.27
949751--949780	13	2.2	14	94	5	53	73	0	0	26	0.84
949749--949795	19	2.5	19	77	19	53	68	2	0	29	1.02
951781--951815	14	2.6	14	90	4	54	62	0	0	37	0.95
952782--952857	39	1.9	39	86	7	109	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954800--954825	13	2.0	13	100	0	52	38	0	0	61	0.96
957583--957641	19	3.1	19	66	22	50	52	5	0	42	1.23
958589--958615	2	13.5	2	100	0	54	48	0	0	51	1.00
959728--959753	3	8.7	3	100	0	52	34	0	0	65	0.93
960257--960288	17	1.9	17	93	6	57	37	0	6	56	1.25
974684--974728	3	15.0	3	95	0	81	66	2	0	31	1.04
976289--976321	17	1.9	17	93	0	57	33	6	0	60	1.21
976330--976360	12	2.6	12	94	0	53	54	0	0	45	0.99
976348--976381	13	2.6	13	90	0	50	61	2	0	35	1.11
976583--976633	17	3.1	16	83	8	66	54	0	1	43	1.11
976607--976684	31	2.5	32	86	10	101	56	0	0	43	0.99
976941--976995	16	3.4	17	75	25	64	41	0	1	56	1.10
976928--976976	18	2.8	18	77	22	59	44	0	2	53	1.12
976938--977017	32	2.6	31	86	7	101	45	0	1	53	1.08
977696--977755	21	2.8	22	72	10	61	55	5	1	38	1.32
977761--977803	16	2.9	15	83	10	52	58	9	0	32	1.30
977964--978008	14	3.1	14	84	15	56	68	2	2	26	1.12
977946--978007	16	4.1	15	75	20	58	62	4	1	30	1.25
984181--984221	21	1.9	22	90	5	66	51	0	0	48	1.00
984458--984512	22	2.5	22	85	5	67	43	1	1	52	1.22
985884--985947	14	4.4	15	78	13	64	60	1	1	35	1.15
986106--986143	18	2.1	19	90	9	62	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988607--988637	9	3.3	9	95	4	53	61	0	0	38	0.96
991751--991805	26	2.1	26	83	12	69	47	3	5	43	1.44
992438--992477	22	2.0	21	85	14	57	40	2	0	57	1.12
1001253--1001314	22	2.9	22	86	9	76	50	1	0	48	1.10
1001661--1001705	16	2.8	16	90	6	65	53	0	0	46	1.00
1003662--1003694	15	2.2	15	89	10	50	33	0	3	63	1.10
1004882--1004914	16	1.9	18	88	11	52	60	0	3	36	1.12
1005274--1005318	22	2.0	23	83	12	58	53	4	2	40	1.33
1005520--1005561	14	3.0	14	89	0	66	42	0	0	57	0.99
1006472--1006511	18	2.2	18	91	8	64	27	10	5	57	1.52
1007296--1007340	3	14.7	3	90	4	72	35	0	0	64	0.94
1007296--1007340	22	2.1	22	91	4	74	35	0	0	64	0.94
1007814--1007847	13	2.6	14	90	9	54	82	0	2	14	0.79
1007889--1007981	29	3.2	28	79	10	98	35	1	1	62	1.10
1007906--1007980	28	2.6	29	83	10	100	37	0	1	61	1.05
1010393--1010685	143	2.0	148	93	4	506	24	18	17	39	1.92
1010852--1010890	2	19.5	2	100	0	78	51	0	0	48	1.00
1013220--1013250	3	10.3	3	100	0	62	67	0	0	32	0.91
1020465--1020507	14	3.0	14	80	6	50	27	0	6	65	1.18
1020796--1020846	21	2.5	21	80	3	59	37	0	5	56	1.23
1020796--1020837	20	2.0	20	86	4	57	33	0	7	59	1.25
1020948--1021003	20	2.8	19	86	8	67	39	1	3	55	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021433--1021480	14	3.5	13	78	21	53	54	0	0	45	0.99
1021433--1021480	21	2.3	20	79	10	51	54	0	0	45	0.99
1021961--1022015	23	2.4	22	77	19	67	41	3	5	49	1.43
1022352--1022399	26	2.0	25	84	12	64	45	0	4	50	1.21
1025045--1025075	13	2.4	13	100	0	62	61	6	0	32	1.21
1025045--1025093	13	3.6	13	88	5	53	65	4	0	30	1.11
1027528--1027571	19	2.2	20	80	11	56	65	0	2	31	1.05
1027525--1027580	26	2.2	26	87	6	80	60	0	1	37	1.07
1027675--1027737	23	2.8	24	69	9	60	47	3	0	49	1.17
1027662--1027742	23	3.6	23	69	12	53	45	3	0	50	1.19
1028003--1028077	27	2.8	28	80	9	86	54	0	1	44	1.08
1028180--1028226	21	2.2	22	88	11	71	51	0	2	46	1.13
1032850--1032883	2	17.0	2	100	0	68	50	0	0	50	1.00
1033784--1033843	22	2.8	21	77	7	66	48	1	1	48	1.21
1034987--1035020	16	2.2	15	89	5	50	17	14	26	41	1.88
1035100--1035183	40	2.1	40	82	12	102	48	0	0	51	1.00
1035545--1035615	25	2.8	25	79	10	65	52	0	1	46	1.09
1035876--1035939	33	2.0	32	81	9	76	53	0	0	46	1.00
1036387--1036424	2	19.0	2	100	0	76	50	0	0	50	1.00
1037654--1037686	2	16.5	2	100	0	66	51	0	0	48	1.00
1037813--1037866	22	2.3	23	81	9	65	57	0	0	42	0.98
1040575--1040604	13	2.3	13	94	0	51	36	0	3	60	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040542--1040613	29	2.4	31	83	6	94	40	0	4	55	1.19
1040542--1040613	16	4.7	16	68	16	53	40	0	4	55	1.19
1041304--1041355	18	2.7	19	72	19	54	51	1	1	44	1.23
1041733--1041787	15	3.5	15	78	9	56	21	5	1	70	1.16
1042026--1042105	2	39.5	2	75	18	51	42	1	6	50	1.35
1042266--1042298	2	16.5	2	100	0	66	51	0	0	48	1.00
1042928--1042983	15	3.7	16	69	11	55	35	1	0	62	1.06
1043843--1043875	5	6.8	5	86	6	50	81	0	18	0	0.68
1046720--1046758	16	2.2	17	86	13	53	48	0	2	48	1.15
1047748--1047797	21	2.3	21	86	3	73	28	8	0	64	1.22

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17