genome.fa.s10.2.7.7.80.10.50.1000.21.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: Scaffold10
Parameters: 2 7 7 80 10 50 1000
Length:  3842500

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   

This is table  21  of  25  ( 2970 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)
3226549--3226612	23	2.8	21	77	15	65	31	1	1	65	1.11
3227216--3227262	20	2.4	19	76	13	51	46	0	0	53	1.00
3227253--3227304	11	5.0	11	77	11	56	28	0	1	69	0.99
3227244--3227322	27	2.9	28	75	17	85	32	1	1	64	1.09
3227254--3227314	19	3.0	22	72	16	67	27	0	1	70	0.97
3227260--3227312	17	3.0	17	76	15	54	26	0	1	71	0.96
3227523--3227553	5	6.0	5	96	3	53	41	0	0	58	0.98
3227591--3227627	19	1.9	19	89	10	58	35	0	0	64	0.94
3232572--3232617	21	2.2	21	85	14	60	4	10	30	54	1.55
3237543--3237653	37	3.1	37	92	2	181	26	8	39	26	1.83
3241412--3241447	2	18.0	2	100	0	72	50	0	50	0	1.00
3241634--3241767	18	7.6	17	66	22	55	61	0	0	38	0.96
3241637--3241685	6	8.0	6	80	11	55	65	0	0	34	0.93
3241653--3241681	11	2.7	11	94	5	51	65	0	0	34	0.93
3241634--3241726	26	3.6	25	73	15	66	62	0	0	37	0.96
3241637--3241741	33	3.1	33	80	13	99	61	0	0	38	0.96
3241708--3241762	20	2.8	20	72	22	55	61	0	0	38	0.96
3243514--3243605	12	7.8	12	74	15	59	34	1	1	63	1.09
3243510--3243560	17	2.8	17	85	8	66	39	0	0	60	0.97
3243487--3243605	62	1.9	62	80	10	136	37	1	1	58	1.18
3243948--3244037	20	4.3	21	76	14	80	34	0	0	65	0.93
3243964--3244079	20	5.8	20	74	12	80	33	0	0	65	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3243986--3244032	16	2.9	17	78	9	53	34	0	0	65	0.93
3244005--3244058	13	3.9	14	72	20	51	24	0	1	74	0.92
3243992--3244067	21	3.6	21	80	18	86	28	0	1	69	0.96
3243992--3244069	16	4.9	17	71	22	62	29	0	1	69	0.97
3244003--3244096	44	2.2	42	78	14	102	26	1	3	69	1.10
3244741--3244805	5	14.4	5	76	20	63	32	1	0	66	1.01
3244737--3244779	11	4.0	11	84	3	61	32	0	0	67	0.91
3244746--3244789	18	2.5	18	92	3	72	29	0	0	70	0.88
3244690--3244821	65	2.0	64	82	7	160	36	1	0	62	1.05
3244761--3244819	26	2.2	28	76	14	70	35	1	0	62	1.05
3245014--3245066	20	2.8	20	71	5	56	35	0	5	58	1.22
3245027--3245055	10	2.9	10	100	0	58	20	0	10	68	1.18
3245062--3245101	16	2.5	16	79	0	53	57	0	0	42	0.98
3245051--3245091	21	2.0	21	85	0	55	51	0	0	48	1.00
3245098--3245137	20	2.0	20	85	9	55	35	0	0	65	0.93
3248054--3248099	18	2.4	19	78	10	58	58	4	4	32	1.37
3249896--3249941	21	2.2	21	84	7	58	6	6	30	56	1.50
3253776--3253952	37	4.8	37	84	4	216	26	7	37	28	1.83
3253776--3253952	74	2.4	74	84	5	252	26	7	37	28	1.83
3257689--3257714	2	13.0	2	100	0	52	50	0	0	50	1.00
3257714--3257739	2	13.0	2	100	0	52	50	0	50	0	1.00
3257926--3258059	18	7.6	17	66	22	55	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3257929--3257977	6	8.0	6	80	11	55	65	0	0	34	0.93
3257945--3257973	11	2.7	11	94	5	51	65	0	0	34	0.93
3257926--3258018	26	3.6	25	73	15	66	62	0	0	37	0.96
3257929--3258033	33	3.1	33	80	13	99	61	0	0	38	0.96
3258000--3258054	20	2.8	20	72	22	55	61	0	0	38	0.96
3259713--3259751	20	2.0	20	85	10	53	53	0	0	46	1.00
3259769--3259848	17	4.8	17	71	18	60	35	1	0	63	1.02
3259794--3259876	19	4.8	18	72	14	68	28	0	1	69	0.96
3262930--3262954	3	8.3	3	100	0	50	68	0	0	32	0.90
3263973--3264013	20	2.0	20	85	4	55	41	0	0	58	0.98
3264715--3264782	25	2.8	25	82	8	70	36	4	1	57	1.28
3265029--3265061	17	1.9	17	93	0	57	69	3	0	27	1.03
3265954--3266003	20	2.5	21	78	12	61	48	0	0	52	1.00
3266126--3266174	23	2.1	23	85	7	64	55	0	0	44	0.99
3266461--3266514	26	2.1	26	100	0	108	24	0	25	50	1.50
3266525--3266562	15	2.5	15	100	0	76	55	5	0	39	1.23
3271268--3271386	2	59.5	2	82	0	130	40	0	7	52	1.30
3272250--3272280	6	5.0	6	96	4	53	19	0	0	80	0.71
3273614--3273651	20	1.9	20	88	0	58	42	2	13	42	1.57
3275238--3275267	2	15.0	2	92	0	51	46	0	0	53	1.00
3276078--3276106	8	3.6	8	100	0	58	48	24	0	27	1.51
3276499--3276542	23	2.0	22	83	12	56	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3277447--3277526	33	2.6	32	76	7	85	42	0	1	56	1.07
3277471--3277510	13	2.9	14	85	14	57	40	0	0	60	0.97
3277848--3277906	17	3.3	18	76	19	52	50	0	0	49	1.00
3280075--3280126	26	2.0	26	88	3	77	51	9	0	38	1.35
3282451--3282488	2	19.0	2	94	0	67	50	0	2	47	1.15
3284391--3284425	5	6.6	5	96	3	52	77	0	5	17	0.96
3284654--3284747	51	1.9	49	85	12	131	40	0	0	59	0.97
3285658--3285686	6	4.8	6	100	0	58	34	0	0	65	0.93
3287433--3287473	17	2.4	16	88	8	55	53	0	0	46	1.00
3287487--3287520	16	2.1	16	89	10	52	64	2	0	32	1.08
3287919--3287960	18	2.3	19	80	12	52	45	2	0	52	1.13
3287892--3287951	19	3.0	20	82	4	68	41	1	0	56	1.09
3288027--3288072	21	2.1	22	88	11	69	39	6	0	54	1.26
3288256--3288280	5	5.0	5	100	0	50	20	0	0	80	0.72
3296490--3296551	29	2.1	29	91	5	99	41	12	12	32	1.81
3296867--3296891	13	1.9	13	100	0	50	48	0	28	24	1.52
3301581--3301605	2	12.5	2	100	0	50	52	0	0	48	1.00
3301923--3301959	15	2.4	16	82	8	51	70	0	0	29	0.88
3302123--3302162	20	2.0	21	85	14	57	57	0	2	40	1.12
3303032--3303124	27	3.5	26	72	16	75	47	0	4	48	1.21
3303031--3303108	27	3.0	27	75	17	76	47	0	3	48	1.20
3302998--3303201	88	2.2	93	80	10	226	49	1	3	45	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3303492--3303545	18	2.9	19	76	15	60	48	0	0	51	1.00
3303635--3303662	3	9.3	3	100	0	56	32	0	0	67	0.91
3306190--3306296	53	2.0	54	98	1	207	40	11	16	31	1.84
3308657--3308701	1	45.0	1	90	0	72	0	95	0	4	0.26
3308665--3308708	20	2.2	20	95	0	79	2	93	0	4	0.42
3308657--3308701	22	2.0	22	100	0	90	0	95	0	4	0.26
3310718--3310746	2	14.5	2	100	0	58	51	0	0	48	1.00
3312086--3312178	43	2.1	44	90	5	145	31	9	3	55	1.48
3314693--3314754	29	2.1	29	91	5	99	41	12	12	32	1.81
3315070--3315094	13	1.9	13	100	0	50	48	0	28	24	1.52
3322303--3322359	27	2.0	29	83	12	75	52	0	0	47	1.00
3322301--3322367	32	2.1	33	85	2	91	52	0	0	47	1.00
3322735--3322823	18	4.8	18	75	13	65	56	0	0	43	0.99
3322704--3322823	41	3.0	40	79	14	99	55	0	0	44	1.05
3322786--3322842	24	2.3	26	77	17	68	57	1	0	40	1.09
3323120--3323194	29	2.6	28	71	8	71	41	0	0	58	0.98
3323184--3323475	145	2.0	145	97	0	548	45	6	3	44	1.47
3325274--3325347	25	3.2	25	73	17	70	45	0	0	54	1.00
3325764--3325807	17	2.5	18	85	3	63	61	0	0	38	0.96
3327798--3327869	27	2.8	25	68	10	65	58	0	1	40	1.07
3327924--3327949	4	6.5	4	100	0	52	76	0	0	23	0.78
3327950--3327998	20	2.4	20	83	12	64	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3328267--3328330	32	2.0	32	84	3	85	50	0	3	46	1.17
3333880--3333921	2	21.0	2	100	0	84	50	0	50	0	1.00
3336354--3336395	3	14.0	3	100	0	84	66	0	0	33	0.92
3336497--3336533	16	2.2	17	90	4	58	35	0	0	64	0.94
3336728--3336793	23	3.0	22	80	10	73	51	0	1	46	1.10
3336866--3336902	18	2.1	18	89	0	56	72	2	0	24	0.97
3341577--3341630	2	27.0	2	88	0	63	50	9	0	40	1.35
3341578--3341634	18	3.2	18	92	0	96	50	10	0	38	1.37
3344006--3344081	40	1.9	39	94	2	134	27	7	9	55	1.59
3346050--3346127	30	2.8	28	79	15	81	43	0	0	56	0.99

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