genome.fa.s36.2.7.7.80.10.50.1000.21.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  21  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)
3146808--3146871	27	2.3	28	91	2	103	50	17	4	28	1.66
3148364--3148396	3	11.0	3	100	0	66	33	0	0	66	0.92
3148391--3148471	37	2.1	37	84	13	103	49	0	6	44	1.27
3148398--3148484	38	2.3	38	80	11	99	52	0	5	41	1.25
3150623--3150730	36	3.0	36	100	0	216	47	19	13	19	1.83
3152784--3152813	15	1.9	15	93	6	51	40	0	0	60	0.97
3153545--3153588	13	3.4	14	77	22	51	68	4	0	27	1.09
3153754--3153827	14	5.4	14	69	16	57	4	20	1	74	1.06
3153801--3153832	16	2.0	16	93	0	55	0	15	0	84	0.63
3153918--3153942	2	12.5	2	100	0	50	48	0	0	52	1.00
3154252--3154299	20	2.4	19	89	10	69	43	12	6	37	1.68
3154262--3154301	20	2.0	20	100	0	80	45	15	5	35	1.68
3157575--3157641	20	3.7	20	67	22	65	55	0	0	44	0.99
3158937--3158984	16	2.7	18	75	12	55	54	0	0	45	0.99
3158996--3159029	10	3.4	10	88	12	52	52	0	0	47	1.00
3159287--3159340	2	27.0	2	100	0	108	50	0	0	50	1.00
3160548--3160601	3	18.3	3	92	3	92	29	0	0	70	0.88
3162050--3162096	15	3.0	16	78	12	53	53	0	0	46	1.00
3162058--3162101	23	1.9	23	81	9	54	54	2	0	43	1.12
3163139--3163217	23	3.3	23	71	16	63	53	1	0	45	1.08
3164964--3165007	17	2.4	19	88	11	65	31	0	0	68	0.90
3165381--3165436	23	2.3	24	84	9	69	50	0	5	44	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3165386--3165443	23	2.6	21	76	15	53	46	0	6	46	1.29
3165578--3165646	31	2.3	30	84	2	84	55	1	7	36	1.37
3171657--3171688	2	16.0	2	100	0	64	50	0	0	50	1.00
3171789--3171903	60	1.9	60	96	3	214	32	18	15	33	1.92
3172786--3172850	31	2.2	30	78	8	71	52	3	1	43	1.26
3174289--3174396	30	3.6	30	79	10	98	52	4	4	37	1.43
3177077--3177117	16	2.5	17	88	4	57	65	2	4	26	1.25
3177083--3177132	21	2.6	18	78	15	55	68	0	4	28	1.08
3177084--3177138	26	2.2	25	86	3	74	63	0	5	30	1.17
3177119--3177216	26	3.8	26	73	17	64	57	0	4	38	1.18
3181229--3181298	27	2.6	28	71	13	67	41	1	0	57	1.08
3182239--3182271	2	16.5	2	100	0	66	48	0	0	51	1.00
3183161--3183208	22	2.3	20	83	16	62	41	0	0	58	0.98
3183169--3183216	22	2.1	22	85	11	62	43	0	0	56	0.99
3183197--3183235	15	2.6	15	83	0	51	46	0	0	53	1.00
3184893--3184928	2	18.0	2	100	0	72	50	0	0	50	1.00
3185374--3185404	16	1.9	16	100	0	62	25	0	12	61	1.32
3185614--3185674	31	2.0	30	83	3	77	26	14	8	50	1.71
3185764--3185823	30	2.1	30	90	6	97	43	0	0	56	0.99
3185799--3185841	13	3.2	13	80	3	50	58	0	0	41	0.98
3186730--3186914	34	5.5	34	88	0	264	25	7	26	40	1.82
3187221--3187283	19	3.3	19	90	0	90	28	17	19	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3191349--3191533	34	5.5	34	88	0	264	25	7	26	40	1.82
3191899--3191941	16	2.8	16	82	3	52	74	0	4	20	1.00
3191897--3191943	24	2.0	24	82	0	58	72	0	4	23	1.02
3192175--3192215	20	2.0	21	90	4	66	43	0	0	56	0.99
3197052--3197083	2	15.5	2	93	6	55	50	3	0	46	1.17
3198590--3198617	2	14.0	2	100	0	56	50	0	0	50	1.00
3198758--3198804	24	1.9	25	86	4	69	40	0	0	59	0.97
3199262--3199313	11	4.7	10	77	17	50	9	3	1	84	0.82
3200489--3200521	5	6.6	5	96	0	57	45	33	0	21	1.52
3200743--3200799	27	2.0	29	83	10	73	26	0	5	68	1.11
3204443--3204498	26	2.3	23	82	11	67	51	0	0	48	1.00
3204440--3204499	23	2.6	23	75	17	61	50	0	0	50	1.00
3205896--3205928	15	2.2	15	89	10	50	81	0	18	0	0.68
3207310--3207338	11	2.5	12	94	5	51	65	0	0	34	0.93
3209288--3209324	19	1.9	19	100	0	74	29	0	0	70	0.88
3210133--3210171	2	19.5	2	100	0	78	51	0	0	48	1.00
3211336--3211498	84	1.9	84	91	0	263	33	20	13	32	1.91
3212300--3212353	28	1.9	28	84	0	72	42	16	5	35	1.72
3212528--3212565	20	1.9	20	88	0	58	47	13	2	36	1.56
3213367--3213396	2	15.0	2	100	0	60	50	0	0	50	1.00
3213396--3213422	2	13.5	2	100	0	54	0	0	48	51	1.00
3215551--3215586	3	12.0	3	100	0	72	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3217336--3217376	19	2.1	18	86	13	55	58	0	0	41	0.98
3217985--3218031	22	2.2	20	82	14	51	42	4	2	51	1.33
3218024--3218107	35	2.4	37	75	22	90	38	2	0	59	1.10
3218132--3218178	17	2.7	18	80	9	62	34	0	0	65	0.93
3218117--3218190	22	3.4	22	76	16	73	32	1	1	64	1.10
3220296--3220328	2	16.5	2	87	12	50	51	3	0	45	1.16
3221670--3221707	2	19.0	2	100	0	76	50	0	0	50	1.00
3228904--3228952	12	3.9	12	77	17	55	24	0	0	75	0.80
3228902--3228952	23	2.1	25	85	10	70	23	0	0	76	0.79
3228901--3228952	19	2.8	18	77	11	61	23	0	0	76	0.78
3228901--3228956	20	2.7	21	78	21	64	23	0	0	76	0.78
3234606--3234636	11	2.7	11	95	5	53	54	12	0	32	1.38
3234663--3234810	72	2.1	72	96	0	269	45	16	13	23	1.83
3238130--3238236	21	4.8	21	69	20	58	55	0	1	42	1.10
3241313--3241339	1	27.0	1	100	0	54	0	0	0	100	0.00
3242799--3242843	24	1.9	23	86	4	63	37	0	2	60	1.09
3242876--3242944	30	2.2	33	85	12	101	52	0	0	47	1.00
3242885--3242925	21	2.0	21	86	13	59	56	0	0	43	0.99
3247876--3247909	16	2.1	16	89	10	52	29	0	2	67	1.05
3249170--3249218	12	4.0	12	76	5	53	40	2	6	51	1.38
3249628--3249682	27	2.0	28	82	10	69	50	1	0	47	1.11
3249649--3249752	19	5.3	20	69	26	71	41	1	0	56	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3249637--3249691	28	2.0	27	86	10	76	50	0	0	49	1.00
3249696--3249771	39	2.0	39	82	10	95	34	3	0	61	1.14
3249696--3249775	18	4.4	17	72	18	54	33	3	0	62	1.13
3249689--3249776	26	3.6	25	75	17	71	34	3	0	62	1.12
3249735--3249784	26	1.9	26	84	8	66	36	2	0	62	1.07
3252211--3252247	15	2.4	16	95	4	67	43	0	0	56	0.99
3252560--3252612	21	2.6	21	80	11	58	56	0	0	43	0.99
3256406--3256444	17	2.2	18	86	4	53	38	0	0	61	0.96
3258443--3258512	17	4.5	17	71	18	55	38	0	0	61	0.96
3258566--3258592	2	13.5	2	100	0	54	51	0	0	48	1.00
3261006--3261058	2	26.5	2	100	0	106	49	0	0	50	1.00
3261046--3261155	57	1.9	57	83	7	143	37	17	6	39	1.75
3264509--3264545	2	18.5	2	94	0	65	48	0	2	48	1.15
3265118--3265158	3	13.7	3	100	0	82	31	0	0	68	0.90
3265808--3265849	21	2.0	21	100	0	84	33	19	9	38	1.84
3266090--3266122	2	16.5	2	100	0	66	48	0	0	51	1.00
3267449--3267488	2	20.0	2	100	0	80	50	0	0	50	1.00
3270967--3271004	2	19.0	2	94	0	67	52	0	0	47	1.00
3271843--3271875	16	2.1	16	94	0	57	27	12	0	60	1.32
3272794--3272828	3	11.3	3	87	6	52	0	31	0	68	0.90
3276706--3276741	15	2.3	15	90	9	54	52	0	0	47	1.00
3279251--3279285	2	17.5	2	100	0	70	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)
3280769--3280837	28	2.4	29	75	18	72	53	1	0	44	1.09
3280990--3281030	14	3.1	14	75	13	50	46	0	0	53	1.00
3284637--3284970	165	2.0	165	100	0	668	32	20	17	29	1.96
3286180--3286204	3	8.3	3	100	0	50	32	0	0	68	0.90
3286513--3286564	20	2.5	19	77	22	52	51	0	0	48	1.00
3286517--3286599	19	4.5	19	70	23	52	50	1	0	48	1.08
3286560--3286595	16	2.3	16	90	4	56	47	2	0	50	1.15
3295347--3295411	18	3.4	18	72	12	58	15	41	7	35	1.76
3297057--3297101	20	2.2	20	80	0	54	48	0	0	51	1.00
3297997--3298046	20	2.4	22	80	19	70	62	0	0	38	0.96

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