genome.fa.s60.2.7.7.80.10.50.1000.18.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  18  of  21  ( 2419 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)
2939365--2939415	5	10.0	5	80	16	52	56	1	0	41	1.10
2939363--2939437	25	3.0	26	81	13	86	54	2	0	42	1.14
2941356--2941391	2	18.0	2	94	0	63	47	0	0	52	1.00
2943732--2943765	2	17.0	2	100	0	68	50	0	0	50	1.00
2943937--2944027	5	19.4	5	69	18	54	37	0	0	62	0.95
2943959--2944016	17	3.4	17	80	7	73	31	0	0	68	0.89
2947759--2947828	21	3.2	22	73	13	65	52	1	0	45	1.09
2951278--2951318	21	1.9	22	90	5	66	34	0	0	65	0.93
2951622--2951651	2	15.0	2	92	0	51	53	0	0	46	1.00
2955572--2955605	10	3.4	10	88	12	52	88	0	11	0	0.52
2956489--2956526	15	2.5	15	91	0	58	42	2	47	7	1.46
2958792--2958834	18	2.4	18	80	7	52	34	2	44	18	1.63
2960712--2960792	5	15.6	5	77	12	67	77	1	19	1	0.90
2960697--2960782	6	13.5	6	74	16	66	75	2	20	1	0.98
2960712--2960792	19	4.2	19	71	9	74	77	1	19	1	0.90
2963715--2963810	27	3.7	27	77	4	90	45	15	9	29	1.77
2968256--2968307	24	2.2	24	86	10	72	51	7	3	36	1.49
2968256--2968348	24	3.8	23	74	14	71	53	5	2	38	1.36
2968255--2968343	26	3.4	27	77	14	89	55	5	2	37	1.36
2968279--2968354	26	2.8	26	86	6	89	52	3	1	42	1.28
2968296--2968355	27	2.3	25	83	11	75	50	1	1	46	1.21
2968610--2968677	35	2.0	35	88	2	102	16	16	16	51	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2976229--2976267	2	19.5	2	100	0	78	48	0	0	51	1.00
2982645--2982685	16	2.5	17	88	7	59	31	2	0	65	1.05
2985205--2985237	6	5.5	6	96	0	57	72	0	15	12	1.12
2986032--2986062	3	10.3	3	92	0	53	0	29	0	70	0.87
2986984--2987031	23	2.2	21	85	7	60	64	0	0	35	0.94
2988277--2988317	19	2.2	19	86	4	57	41	0	2	56	1.13
2988672--2988727	28	2.0	28	82	6	69	62	1	1	33	1.16
2989200--2989246	3	15.7	3	100	0	94	68	0	0	31	0.90
2989245--2989287	3	14.3	3	100	0	86	67	0	32	0	0.91
2991171--2991212	18	2.3	18	95	0	75	73	0	26	0	0.83
2991373--2991441	35	1.9	35	82	5	84	63	0	0	36	0.94
2991405--2991469	26	2.5	26	100	0	130	58	0	0	41	0.98
2994958--2994988	2	15.5	2	100	0	62	48	0	0	51	1.00
2995440--2995481	8	5.1	8	81	16	50	57	0	0	42	0.99
2995440--2995484	17	2.7	17	80	16	58	60	0	0	40	0.97
2996101--2996133	13	2.6	13	90	4	50	69	0	0	30	0.88
2998375--2998402	4	7.0	4	100	0	56	50	0	0	50	1.00
3000622--3000646	2	12.5	2	100	0	50	48	0	0	52	1.00
3009628--3009686	25	2.3	27	77	11	70	32	0	0	67	0.91
3010370--3010436	7	9.1	8	71	15	56	61	0	0	38	0.96
3010356--3010435	22	3.4	23	75	15	76	61	0	0	38	0.96
3012162--3012206	3	15.0	3	95	0	81	64	0	2	33	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3013283--3013352	17	4.1	17	74	5	52	45	0	1	52	1.09
3014108--3014135	2	14.0	2	100	0	56	50	0	50	0	1.00
3015724--3015799	15	5.1	15	75	15	59	57	1	0	40	1.07
3015753--3015791	14	2.8	14	81	14	53	66	0	0	33	0.92
3015744--3015801	22	2.7	23	79	17	70	62	0	0	37	0.96
3023001--3023072	20	3.5	20	76	12	74	31	1	2	63	1.17
3023022--3023083	19	3.0	20	72	23	65	32	0	3	64	1.09
3023014--3023083	21	3.3	21	75	16	81	35	0	2	61	1.11
3022995--3023083	42	2.1	43	91	2	144	34	1	2	61	1.15
3023411--3023448	20	1.9	20	88	0	58	44	2	0	52	1.14
3024373--3024477	53	2.0	53	92	0	174	26	15	28	29	1.96
3025025--3025078	21	2.5	21	93	3	90	42	7	0	50	1.30
3028041--3028074	16	2.1	16	88	0	50	76	0	5	17	0.98
3033106--3033130	2	12.5	2	100	0	50	48	0	0	52	1.00
3041724--3041749	2	13.0	2	100	0	52	0	50	0	50	1.00
3042789--3042817	2	14.5	2	100	0	58	0	0	48	51	1.00
3055959--3056019	19	3.2	19	82	13	72	40	3	0	55	1.16
3055974--3056021	21	2.3	22	82	10	64	39	4	0	56	1.19
3057348--3057390	17	2.4	18	81	14	54	51	4	2	41	1.35
3057690--3057739	19	2.5	21	75	15	52	56	0	6	38	1.24
3059829--3059905	37	2.1	36	85	7	102	44	0	0	55	0.99
3059829--3059891	17	3.5	17	77	12	72	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)
3065541--3065616	28	2.7	28	76	15	68	30	1	3	64	1.20
3066256--3066282	2	13.5	2	100	0	54	48	0	0	51	1.00
3068195--3068254	27	2.2	28	77	16	65	60	0	0	40	0.97
3075213--3075263	12	4.0	12	78	14	57	45	0	0	54	0.99
3078879--3078932	24	2.3	24	81	9	67	48	0	5	46	1.25
3078920--3078993	28	2.7	29	81	8	91	54	0	0	45	1.00
3078929--3078973	20	2.3	20	85	11	58	51	0	0	48	1.00
3080529--3080583	27	2.1	26	83	6	67	61	0	3	34	1.13
3080773--3080825	27	1.9	28	81	11	65	45	5	15	33	1.69
3081430--3081495	27	2.4	27	87	2	87	22	4	24	48	1.69
3086005--3086075	27	2.6	27	88	6	99	22	7	23	46	1.76
3087032--3087080	23	2.2	21	82	7	53	18	0	6	75	1.00
3093739--3093775	2	18.5	2	94	0	65	48	2	48	0	1.15
3099607--3099876	137	1.9	139	79	8	300	38	17	17	26	1.92
3103485--3103513	14	2.1	14	93	6	51	31	0	0	68	0.89
3103516--3103567	18	2.9	17	75	11	50	57	0	1	40	1.10
3103660--3103717	22	2.8	20	84	15	73	51	0	3	44	1.18
3110178--3110246	34	2.0	34	91	0	111	43	14	17	24	1.86
3111202--3111327	17	7.6	16	65	21	55	45	0	0	54	0.99
3111207--3111319	27	4.0	26	70	20	77	45	0	0	54	0.99
3111215--3111269	17	3.3	18	70	29	59	43	0	0	56	0.99
3111212--3111291	32	2.5	32	90	6	119	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3111281--3111338	22	2.6	22	81	8	64	39	1	0	58	1.08
3111850--3111971	61	2.0	61	96	0	226	43	4	20	31	1.71
3112134--3112196	25	2.6	25	85	9	78	34	0	3	61	1.12
3112331--3112372	16	2.6	16	92	0	66	26	2	7	64	1.32
3112767--3112862	28	3.3	27	72	16	77	35	0	1	63	1.01
3112767--3112843	31	2.6	30	80	10	77	36	0	1	62	1.04
3113120--3113148	3	9.7	3	100	0	58	65	0	0	34	0.93
3125056--3125130	29	2.6	29	81	10	91	38	0	1	60	1.06
3138588--3138623	6	6.0	6	96	0	63	2	50	16	30	1.60
3139297--3139333	2	18.5	2	100	0	74	48	0	0	51	1.00
3146784--3146817	2	17.0	2	100	0	68	50	0	0	50	1.00
3153372--3153414	13	3.2	13	76	3	50	53	0	0	46	1.00
3154916--3154961	16	2.8	17	70	9	51	34	0	0	65	0.93
3155639--3155684	17	2.8	16	81	12	58	47	0	0	52	1.00
3159956--3160000	21	2.1	21	84	8	56	35	0	0	64	0.94
3163952--3163992	21	1.9	22	85	5	57	41	4	0	53	1.22
3164071--3164131	32	1.9	32	82	0	77	14	6	27	50	1.68
3164424--3164807	190	2.0	190	94	0	678	33	14	12	39	1.84
3166128--3166171	22	2.0	22	82	8	54	38	0	2	59	1.10
3166130--3166172	14	2.9	14	86	6	50	34	0	4	60	1.17
3166130--3166157	8	3.5	8	100	0	56	35	0	0	64	0.94
3170009--3170106	49	2.0	49	97	0	187	20	10	15	54	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3173229--3173264	17	2.1	17	100	0	72	25	5	16	52	1.65
3173593--3173636	20	2.2	20	87	0	61	47	6	0	45	1.29
3173605--3173645	20	2.0	20	90	4	64	51	2	0	46	1.14
3179195--3179256	30	2.1	30	96	0	115	35	9	14	40	1.79
3204325--3204393	33	2.1	33	88	0	102	44	1	1	52	1.19
3204339--3204403	18	3.8	18	70	29	61	46	1	0	52	1.10
3210270--3210303	13	2.5	14	90	4	52	50	0	8	41	1.34
3223057--3223115	24	2.5	24	81	10	68	52	0	0	47	1.00
3223724--3223751	2	14.0	2	100	0	56	50	0	50	0	1.00
3223753--3223787	4	8.8	4	87	0	52	2	2	68	25	1.17

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21