genome.fa.s36.2.7.7.80.10.50.1000.20.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  20  of  28  ( 3342 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)
2996572--2996613	21	2.0	22	90	4	68	66	0	0	33	0.92
3000645--3000684	2	19.5	2	89	5	62	50	5	45	0	1.23
3000915--3000996	17	4.9	17	69	23	66	39	1	0	59	1.05
3000912--3000996	33	2.6	32	77	11	91	40	1	0	58	1.05
3001089--3001177	28	3.2	27	76	9	81	38	1	0	60	1.04
3001043--3001262	95	2.3	95	79	13	211	40	0	0	58	1.11
3002672--3002721	20	2.7	19	72	22	52	54	0	0	46	1.00
3002670--3002711	21	2.0	21	86	4	59	52	0	0	47	1.00
3002705--3002759	24	2.3	24	83	0	74	34	0	1	63	1.05
3003008--3003084	32	2.5	31	85	8	95	53	0	1	45	1.08
3003027--3003081	17	3.4	17	72	25	55	56	0	1	41	1.10
3004303--3004511	108	1.9	110	91	3	343	34	6	12	46	1.67
3004499--3004539	15	2.4	18	84	15	52	56	0	0	43	0.99
3005757--3005785	2	14.5	2	100	0	58	51	0	0	48	1.00
3006061--3006099	14	2.9	14	81	18	55	35	0	0	64	0.94
3006577--3006607	15	2.1	15	100	0	62	29	0	0	70	0.87
3010254--3010293	21	1.9	21	85	10	55	30	0	0	70	0.88
3010314--3010368	20	2.8	19	78	21	69	63	0	0	36	0.95
3012987--3013074	44	2.0	44	97	0	167	27	42	3	27	1.71
3013410--3013486	20	4.1	20	69	16	56	50	1	1	46	1.17
3018087--3018121	3	11.3	3	93	6	61	31	0	0	68	0.90
3018680--3018720	12	3.5	12	81	15	50	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3020101--3020152	17	3.0	18	84	13	65	59	0	0	40	0.97
3024321--3024380	30	2.0	31	86	3	86	56	1	1	40	1.19
3024291--3024436	47	3.1	48	75	18	126	58	1	1	39	1.15
3027022--3027067	15	3.2	15	75	6	51	67	0	0	32	0.91
3027068--3027106	16	2.5	15	87	4	51	51	0	0	48	1.00
3027437--3027470	15	2.3	15	89	0	50	14	29	26	29	1.95
3031988--3032020	2	16.5	2	100	0	66	51	0	0	48	1.00
3032832--3032862	14	2.2	14	94	0	53	41	3	0	54	1.16
3033237--3033369	38	3.5	38	84	1	158	30	13	28	27	1.94
3037861--3037976	38	3.1	38	89	0	169	25	13	32	28	1.94
3037964--3037989	7	3.7	7	100	0	52	0	15	53	30	1.42
3040077--3040153	17	4.8	17	71	16	56	36	0	5	58	1.21
3040094--3040153	16	3.8	16	71	4	59	38	0	5	56	1.21
3040095--3040166	31	2.3	30	83	11	83	38	0	5	55	1.23
3040595--3040621	3	9.0	3	100	0	54	33	0	0	66	0.92
3042507--3042565	24	2.3	26	77	11	68	49	0	0	50	1.00
3042516--3042565	24	2.1	24	88	0	73	50	0	0	50	1.00
3042528--3042579	24	2.1	25	82	10	63	51	3	0	44	1.19
3047070--3047109	2	20.0	2	100	0	80	50	0	0	50	1.00
3048682--3048714	2	16.5	2	100	0	66	48	0	0	51	1.00
3049323--3049445	62	2.0	62	88	7	187	47	3	4	45	1.38
3050082--3050163	16	5.4	15	69	29	50	53	1	0	45	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3050119--3050177	11	5.5	11	78	8	50	59	0	0	40	0.97
3050307--3050352	2	23.5	2	86	4	67	50	4	0	45	1.21
3052300--3052351	18	2.9	18	76	0	59	59	1	0	38	1.08
3053218--3053262	21	2.1	21	84	8	56	57	2	0	40	1.11
3053227--3053267	21	2.0	21	85	4	57	58	0	0	41	0.98
3057106--3057136	13	2.3	14	94	5	55	0	9	0	90	0.46
3057106--3057136	16	2.0	16	93	6	55	0	9	0	90	0.46
3058323--3058367	19	2.3	20	85	7	58	62	4	0	33	1.15
3058585--3058624	17	2.4	17	84	12	55	30	0	2	67	1.04
3058824--3058869	11	4.2	11	79	20	60	32	0	0	67	0.91
3058795--3058886	33	2.8	33	78	12	86	40	0	0	59	0.97
3058998--3059048	14	3.4	15	81	8	59	27	1	0	70	0.98
3059076--3059117	12	3.5	12	83	6	50	38	0	0	61	0.96
3059209--3059247	18	2.2	18	85	0	51	33	2	2	61	1.23
3061484--3061579	32	3.0	32	100	0	192	40	15	3	40	1.63
3061563--3061587	2	12.5	2	100	0	50	52	0	0	48	1.00
3061745--3061795	14	3.6	14	78	5	50	41	0	0	58	0.98
3065928--3066017	16	5.9	16	65	24	52	47	0	0	52	1.00
3065935--3066020	26	3.1	27	82	12	95	48	0	0	51	1.00
3066426--3066467	23	1.9	21	85	9	57	38	0	0	61	0.96
3066467--3066523	27	2.2	26	84	12	73	64	0	0	35	0.93
3069478--3069511	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3070743--3070784	17	2.3	19	88	8	61	57	0	0	42	0.99
3090363--3090418	14	4.2	14	72	21	57	53	1	0	44	1.11
3090368--3090416	25	1.9	26	84	12	66	53	2	0	44	1.12
3090835--3090863	14	2.0	15	93	6	51	41	0	0	58	0.98
3091200--3091306	40	2.7	42	74	20	113	46	0	0	53	1.00
3091200--3091310	39	2.8	38	75	18	104	47	0	0	52	1.00
3091786--3091829	21	2.1	21	82	0	52	43	0	4	52	1.22
3094448--3094520	20	3.6	20	79	17	96	34	13	19	32	1.91
3094466--3094541	21	3.7	21	76	16	86	40	11	17	30	1.85
3094448--3094541	41	2.3	41	96	0	170	38	12	18	30	1.88
3094580--3094605	13	2.0	13	100	0	52	38	15	15	30	1.88
3096819--3096863	21	2.1	21	84	8	56	53	4	20	22	1.63
3100768--3100806	13	3.0	13	96	0	69	30	17	15	35	1.91
3103259--3103331	20	3.6	20	79	17	96	34	13	19	32	1.91
3103277--3103352	21	3.7	21	76	16	86	40	11	17	30	1.85
3103259--3103352	41	2.3	41	96	0	170	38	12	18	30	1.88
3103391--3103416	13	2.0	13	100	0	52	38	15	15	30	1.88
3104726--3104773	24	2.0	25	83	4	62	66	2	4	27	1.21
3105308--3105363	21	2.6	21	73	18	53	51	0	1	46	1.11
3105504--3105534	2	15.5	2	93	0	53	45	0	3	51	1.17
3108864--3108926	21	3.2	20	73	6	65	58	1	0	39	1.07
3109580--3109615	15	2.3	16	90	4	56	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3109827--3109859	3	11.0	3	100	0	66	33	33	33	0	1.58
3113223--3113264	5	8.8	5	82	10	52	42	0	2	54	1.13
3113221--3113264	9	4.7	9	86	8	61	45	0	2	52	1.13
3113220--3113264	19	2.4	19	85	11	65	46	0	2	51	1.13
3113422--3113481	28	2.2	27	82	8	68	40	3	8	48	1.50
3113573--3113644	34	2.1	34	94	2	128	36	20	15	27	1.93
3115215--3115248	2	18.0	2	88	11	54	52	0	0	47	1.00
3115215--3115248	13	2.8	13	91	8	54	52	0	0	47	1.00
3115215--3115248	17	2.0	17	100	0	68	52	0	0	47	1.00
3117108--3117184	14	5.0	16	73	20	58	48	0	0	51	1.00
3117093--3117169	32	2.4	32	81	10	79	46	0	0	53	1.00
3117100--3117194	17	5.5	17	70	16	63	48	0	0	51	1.00
3117664--3117702	2	19.5	2	100	0	78	48	0	0	51	1.00
3119715--3119765	23	2.4	20	77	9	57	47	1	0	50	1.12
3121189--3121214	2	13.0	2	100	0	52	50	0	0	50	1.00
3121882--3121910	3	9.7	3	100	0	58	31	0	0	68	0.89
3121894--3122101	106	2.0	106	95	0	371	28	12	12	46	1.78
3123314--3123339	13	2.0	13	100	0	52	69	15	0	15	1.20
3124175--3124207	14	2.4	14	90	5	50	39	0	0	60	0.97
3124139--3124223	40	2.1	38	81	12	91	48	0	1	50	1.08
3124673--3124700	2	14.0	2	100	0	56	50	0	0	50	1.00
3126091--3126140	25	2.0	25	88	7	75	46	0	4	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3126154--3126206	23	2.3	23	83	6	63	45	0	0	54	0.99
3126209--3126248	20	2.0	21	85	14	57	52	0	0	47	1.00
3126908--3126943	17	2.1	17	94	0	63	55	0	0	44	0.99
3126957--3127006	25	2.0	24	82	17	59	48	4	0	48	1.20
3134061--3134089	14	2.1	14	93	6	51	48	3	0	48	1.18
3135449--3135543	31	3.1	32	75	14	94	36	9	2	51	1.46
3135461--3135558	29	3.3	30	78	9	94	39	9	2	48	1.46
3136020--3136060	19	2.1	20	86	4	57	26	7	0	65	1.18
3138319--3138368	15	3.3	15	94	0	91	56	10	0	34	1.33
3142231--3142301	27	2.6	28	86	2	90	46	22	7	23	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28