genome.fa.s106.2.7.7.80.10.50.1000.19.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  19  of  27  ( 3135 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)
3093989--3094032	6	7.0	6	89	5	52	20	0	0	79	0.73
3093986--3094031	13	3.5	13	80	11	58	19	0	0	80	0.71
3093990--3094056	32	2.1	32	85	0	89	26	0	1	71	0.94
3094847--3094883	3	12.3	3	100	0	74	67	0	0	32	0.91
3100191--3100217	4	6.8	4	100	0	54	51	22	0	25	1.48
3101852--3101936	20	4.4	20	74	11	70	35	0	1	63	1.02
3101904--3101973	23	3.0	23	78	13	72	44	0	0	55	0.99
3101900--3101968	16	3.9	17	75	17	61	42	0	0	57	0.98
3101903--3101960	17	3.4	17	76	23	59	41	0	0	58	0.98
3101905--3101969	28	2.3	27	81	10	67	43	0	0	56	0.99
3101904--3101973	12	5.8	13	70	28	57	44	0	0	55	0.99
3102314--3102370	24	2.5	24	82	5	73	52	1	0	45	1.11
3103167--3103212	19	2.5	18	79	6	56	43	0	0	56	0.99
3103269--3103345	39	2.1	37	80	9	86	57	0	0	42	0.99
3103794--3103845	20	2.5	22	75	18	56	46	0	1	51	1.12
3105240--3105313	23	3.1	24	72	18	64	40	1	0	58	1.07
3110999--3111080	22	3.7	22	75	14	62	36	2	0	60	1.10
3111724--3111781	16	3.3	18	72	18	50	31	8	0	60	1.27
3117897--3117992	47	2.0	47	95	0	174	22	6	18	52	1.68
3126490--3126522	3	11.0	3	100	0	66	33	0	0	66	0.92
3127069--3127107	3	13.0	3	100	0	78	33	0	0	66	0.92
3127444--3127488	15	3.3	13	85	14	56	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3127461--3127494	15	2.2	16	94	5	61	35	0	0	64	0.94
3129266--3129316	24	2.1	25	82	7	61	43	1	0	54	1.11
3129573--3129598	2	13.0	2	100	0	52	50	0	0	50	1.00
3129658--3129697	2	20.0	2	100	0	80	50	0	0	50	1.00
3138670--3138714	22	2.0	22	83	8	56	55	4	4	35	1.40
3139828--3139853	12	2.2	12	100	0	52	84	0	0	15	0.62
3147489--3147537	24	2.0	24	100	0	98	36	12	16	34	1.86
3150983--3151020	18	2.0	19	85	10	51	23	18	23	34	1.96
3152424--3152466	2	21.5	2	100	0	86	0	48	0	51	1.00
3152897--3152943	24	2.0	24	87	8	69	55	0	2	42	1.12
3154008--3154048	13	3.0	14	82	13	50	31	0	0	68	0.90
3154380--3154425	22	2.2	22	84	7	60	30	0	4	65	1.12
3154380--3154441	31	2.0	31	87	6	90	33	0	4	61	1.17
3154433--3154548	21	5.5	21	69	15	62	37	6	9	47	1.61
3155814--3155872	29	2.1	28	83	3	73	44	0	1	54	1.10
3156576--3156661	24	3.6	24	77	17	81	65	19	8	6	1.43
3156747--3156798	23	2.3	23	86	0	68	23	9	9	57	1.60
3159116--3159167	19	2.7	20	79	8	54	57	5	0	36	1.23
3169406--3169443	1	38.0	1	100	0	76	0	0	0	100	0.00
3172330--3172362	15	2.1	16	94	5	59	36	6	9	48	1.60
3176696--3176738	15	2.9	15	92	0	77	37	2	0	60	1.10
3176707--3176755	25	2.0	24	84	4	62	38	2	0	59	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3187894--3187931	2	19.0	2	94	0	67	52	0	47	0	1.00
3188544--3188582	18	2.2	17	86	4	51	46	0	0	53	1.00
3188766--3188843	35	2.5	31	73	18	79	61	0	0	38	0.96
3189050--3189096	19	2.5	20	83	13	64	14	10	0	74	1.07
3196168--3196212	16	2.6	17	86	6	56	84	13	2	0	0.72
3196168--3196205	12	3.2	12	85	7	51	86	10	2	0	0.66
3201061--3201100	15	2.6	16	85	14	50	77	2	2	17	0.99
3201491--3201540	11	4.5	11	76	14	50	50	0	0	50	1.00
3201488--3201551	22	2.6	26	73	21	73	50	0	0	50	1.00
3201498--3201540	11	3.8	12	78	12	54	51	0	0	48	1.00
3201501--3201578	39	2.1	36	85	7	102	47	0	0	52	1.00
3201485--3201551	23	2.7	26	73	17	79	47	0	0	52	1.00
3201536--3201573	19	2.0	20	89	5	60	44	0	0	55	0.99
3201461--3201583	49	2.5	47	76	14	124	45	0	0	54	0.99
3206618--3206687	22	3.2	21	80	8	86	40	1	0	58	1.07
3207242--3207291	19	2.6	19	78	9	57	60	0	0	40	0.97
3207248--3207297	20	2.4	22	80	10	59	58	0	2	40	1.10
3208291--3208336	24	1.9	24	83	16	60	71	4	2	21	1.14
3208327--3208391	21	3.4	20	75	19	59	58	1	1	38	1.17
3208348--3208437	33	2.7	32	81	11	94	53	2	1	43	1.20
3208364--3208431	17	4.0	18	71	21	56	51	1	0	47	1.09
3208385--3208452	14	4.5	15	73	22	54	52	1	0	45	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3209266--3209299	2	17.0	2	93	0	59	50	2	0	47	1.16
3212166--3212201	17	2.1	17	100	0	72	16	11	16	55	1.68
3215881--3215926	3	15.3	3	100	0	92	32	0	0	67	0.91
3220713--3220890	87	2.0	90	85	4	245	37	14	30	17	1.90
3221680--3221761	41	2.0	41	97	0	155	30	24	18	26	1.98
3222462--3222490	15	1.9	15	100	0	58	93	6	0	0	0.36
3222466--3222490	13	1.9	13	100	0	50	96	4	0	0	0.24
3229320--3229360	3	13.7	3	100	0	82	65	0	0	34	0.93
3229990--3230045	21	2.8	21	72	17	57	33	0	0	66	0.92
3231098--3231146	16	3.4	15	76	23	52	48	0	2	48	1.12
3236012--3236077	34	1.9	34	90	0	105	36	4	10	48	1.58
3236268--3236312	20	2.4	19	81	7	56	60	0	0	40	0.97
3242549--3242575	3	9.0	3	100	0	54	33	0	0	66	0.92
3243987--3244018	2	16.0	2	100	0	64	50	0	0	50	1.00
3244200--3244226	2	13.5	2	100	0	54	51	0	0	48	1.00
3244607--3244665	26	2.3	26	80	14	68	49	1	0	49	1.11
3244607--3244676	25	2.7	25	82	8	70	44	2	0	52	1.15
3244884--3244969	19	4.3	22	76	19	75	45	0	0	54	0.99
3244902--3244978	18	4.4	19	70	26	71	45	0	0	54	0.99
3245443--3245469	2	13.5	2	100	0	54	48	0	0	51	1.00
3251815--3251885	37	1.9	37	82	0	88	42	11	4	42	1.60
3251978--3252031	27	2.0	27	85	10	74	53	3	0	42	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3253575--3253618	2	22.0	2	100	0	88	50	0	0	50	1.00
3254192--3254217	2	13.0	2	100	0	52	50	0	0	50	1.00
3258460--3258524	22	3.0	20	78	22	69	52	3	0	44	1.16
3258456--3258529	24	3.2	24	75	16	75	48	2	0	48	1.15
3258510--3258551	10	4.1	10	82	14	50	30	2	0	66	1.04
3261648--3261688	2	20.5	2	100	0	82	51	0	0	48	1.00
3263519--3263568	24	2.1	25	81	7	59	52	0	8	40	1.31
3265127--3265171	24	1.9	23	86	13	65	42	0	0	57	0.98
3267073--3267174	51	2.0	51	98	0	195	34	9	8	47	1.68
3268797--3268839	2	21.5	2	95	0	77	53	0	0	46	1.00
3270032--3270110	39	2.1	39	95	2	142	39	12	13	34	1.83
3278313--3278347	2	17.5	2	100	0	70	48	0	0	51	1.00
3278482--3278507	6	4.3	6	100	0	52	19	0	0	80	0.71
3279380--3279424	18	2.5	18	92	0	72	53	0	0	46	1.00
3282052--3282091	16	2.5	16	83	0	62	42	0	2	55	1.13
3282174--3282206	3	11.0	3	93	0	57	30	0	3	66	1.06
3283233--3283303	11	6.3	11	74	18	56	64	1	1	32	1.11
3283233--3283298	23	2.9	23	79	0	69	65	1	1	31	1.11
3283575--3283631	28	2.0	29	83	10	73	50	1	1	45	1.22
3284055--3284088	2	17.0	2	100	0	68	50	0	0	50	1.00
3284338--3284365	2	14.0	2	100	0	56	50	0	0	50	1.00
3285418--3285468	22	2.5	22	87	9	72	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3286907--3287847	475	2.0	477	98	0	1814	29	21	16	31	1.95
3298120--3298161	20	2.2	20	86	4	59	64	0	11	23	1.27
3298125--3298176	20	2.5	20	84	6	59	61	1	11	25	1.40
3298828--3298891	24	2.6	26	78	16	73	51	1	0	46	1.10
3299843--3299892	22	2.2	23	85	7	66	52	0	4	44	1.20
3299916--3299958	19	2.3	19	84	8	52	51	0	4	44	1.22
3300229--3300256	3	9.3	3	100	0	56	32	0	0	67	0.91
3304758--3304806	23	2.2	21	82	7	53	46	0	0	53	1.00
3304762--3304808	15	3.1	15	80	14	53	46	0	0	53	1.00
3318714--3318785	24	3.0	25	75	22	73	43	0	2	54	1.15

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