genome.fa.s64.2.7.7.80.10.50.1000.42.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   

This is table  42  of  45  ( 5312 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)
7398486--7398556	32	2.2	32	97	0	133	32	9	18	39	1.83
7398603--7398627	13	1.9	13	100	0	50	36	16	8	40	1.77
7411560--7411622	1	63.0	1	77	0	63	88	7	3	0	0.60
7411560--7411622	11	5.6	11	82	14	76	88	7	3	0	0.60
7411560--7411620	17	3.6	17	93	4	97	88	8	3	0	0.61
7411560--7411636	17	4.4	17	85	4	73	85	6	7	0	0.73
7411560--7411636	14	5.6	14	80	13	63	85	6	7	0	0.73
7412729--7413241	61	8.5	61	81	4	531	26	27	18	27	1.98
7412735--7413241	246	2.1	238	85	3	656	26	27	19	27	1.99
7413814--7414178	183	2.0	183	98	0	712	32	17	13	36	1.88
7414776--7414829	23	2.2	24	83	6	65	50	11	14	24	1.75
7416062--7416108	20	2.3	20	88	0	76	31	14	8	44	1.76
7421048--7421087	22	2.0	21	85	14	57	57	10	15	17	1.64
7424677--7425019	52	6.9	50	74	11	233	36	13	24	25	1.92
7424657--7425019	105	3.6	103	78	7	335	36	13	24	25	1.92
7425086--7425226	31	4.5	31	84	0	183	19	17	31	31	1.94
7426696--7426762	10	6.4	11	81	13	79	5	0	7	86	0.70
7426676--7426761	31	2.9	29	83	8	111	5	1	8	84	0.81
7426676--7426762	29	3.0	29	85	11	115	5	1	8	85	0.80
7426676--7426762	1	87.0	1	69	0	57	5	1	8	85	0.80
7435244--7435320	31	2.5	32	83	12	90	61	1	2	35	1.18
7435506--7435537	11	2.9	11	100	0	64	37	6	0	56	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7435983--7436013	15	2.0	16	93	6	55	58	0	0	41	0.98
7437042--7437075	15	2.3	15	90	5	52	52	0	8	38	1.33
7437451--7437547	16	5.5	17	73	18	90	56	4	0	39	1.18
7443739--7443779	15	2.7	14	88	11	55	65	0	0	34	0.93
7443739--7443790	19	2.7	19	82	8	70	63	0	1	34	1.06
7445255--7445282	2	14.0	2	100	0	56	50	0	0	50	1.00
7445296--7445350	4	13.8	4	92	0	92	49	23	0	27	1.51
7446105--7446139	13	2.5	14	90	9	54	0	17	2	80	0.84
7446111--7446143	10	3.3	10	87	12	50	0	18	0	81	0.68
7447085--7447116	2	16.0	2	93	0	55	46	0	3	50	1.17
7447155--7447367	75	2.8	76	80	5	216	35	16	17	30	1.92
7447157--7447353	38	5.2	37	75	6	153	36	17	17	28	1.93
7447873--7447907	17	2.1	17	89	10	54	62	5	2	28	1.32
7448136--7448180	20	2.2	20	80	7	56	53	2	4	40	1.33
7453793--7453913	38	3.1	39	82	7	140	41	13	17	28	1.87
7453834--7453983	38	3.9	40	73	13	93	38	14	14	32	1.87
7454476--7454537	32	1.9	32	86	3	88	29	14	14	41	1.85
7454617--7454718	43	2.4	43	93	0	168	33	18	16	31	1.94
7457029--7457066	20	1.9	20	94	0	67	42	10	15	31	1.81
7462299--7462348	16	3.1	16	88	0	82	18	12	22	48	1.80
7463241--7463271	16	1.9	16	93	0	53	22	12	16	48	1.80
7463319--7463384	14	4.4	15	80	14	66	48	0	1	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7463885--7463940	17	3.4	17	78	9	62	48	0	1	50	1.11
7463841--7463957	32	3.7	33	75	15	104	44	0	0	54	1.05
7477764--7477816	19	2.7	20	88	2	72	37	18	13	30	1.89
7486556--7486611	19	2.9	19	83	2	67	35	17	14	32	1.90
7488054--7488103	15	3.4	15	86	5	66	22	12	24	42	1.87
7488099--7488129	14	2.2	14	94	0	53	22	12	22	41	1.88
7488181--7488253	14	5.1	14	73	15	60	30	15	24	30	1.95
7488181--7488342	28	5.7	28	71	5	92	30	14	20	34	1.93
7488176--7488311	57	2.4	57	76	2	148	30	13	22	33	1.93
7488485--7488516	14	2.3	14	94	0	55	25	21	25	28	1.99
7488181--7488649	214	2.2	214	83	1	573	32	15	18	33	1.93
7488627--7488657	14	2.2	14	94	0	53	16	19	29	35	1.93
7493221--7493264	18	2.4	18	85	7	54	63	0	0	36	0.95
7493542--7493593	21	2.4	21	80	6	59	51	1	0	46	1.12
7496227--7496476	91	2.7	90	85	4	331	32	14	12	41	1.82
7496400--7496549	73	2.1	73	88	2	221	30	15	12	42	1.83
7496726--7496782	15	3.6	15	73	13	51	63	8	1	26	1.34
7498646--7498766	50	2.4	50	83	4	154	29	19	10	39	1.86
7498713--7499092	79	4.8	79	76	7	290	27	25	13	33	1.94
7498747--7499040	158	1.9	158	80	5	344	26	25	15	32	1.95
7501298--7501357	21	2.9	21	76	0	66	53	5	3	38	1.39
7507332--7507395	27	2.4	26	76	7	65	29	29	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7514177--7514209	16	2.1	16	88	5	50	36	12	3	48	1.56
7516594--7516627	18	1.9	18	88	5	52	61	0	5	32	1.20
7516627--7516665	20	1.9	20	84	5	51	30	7	2	58	1.39
7517224--7517267	23	2.0	23	90	4	72	47	0	0	52	1.00
7517654--7517712	30	1.9	31	86	10	86	54	0	0	45	0.99
7518178--7518238	16	3.9	15	72	17	52	57	0	1	40	1.08
7518569--7518602	17	1.9	18	94	5	61	32	0	0	67	0.91
7518569--7518617	17	2.9	16	85	8	55	28	0	2	69	1.00
7520003--7520125	40	3.0	40	95	2	219	52	2	5	39	1.39
7519999--7520127	41	3.2	41	95	2	233	51	2	5	40	1.37
7523474--7523531	17	3.5	17	73	15	59	48	1	0	50	1.11
7523474--7523531	15	3.6	15	76	9	53	48	1	0	50	1.11
7523474--7523529	7	8.0	7	73	15	53	50	1	0	48	1.11
7526492--7526574	34	2.5	33	76	21	91	54	0	2	43	1.13
7526580--7526614	11	3.2	11	92	8	54	60	0	0	40	0.97
7526513--7526628	39	3.1	38	76	17	127	56	0	2	41	1.13
7526620--7526671	19	2.6	19	85	14	61	69	0	3	26	1.06
7526635--7526695	29	2.3	27	80	11	72	68	0	3	27	1.05
7527107--7527142	6	6.0	6	86	0	54	80	13	0	5	0.88
7527871--7527901	3	10.3	3	92	0	53	64	0	35	0	0.94
7528652--7528700	16	3.2	15	80	11	55	65	2	20	12	1.35
7532666--7532742	20	3.8	20	85	0	109	32	11	14	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7532726--7532835	31	3.5	31	98	0	211	25	18	10	45	1.82
7533707--7533745	20	1.9	21	84	5	53	20	10	10	58	1.59
7536609--7536650	20	2.1	20	86	0	57	11	9	7	71	1.31
7547437--7548105	28	22.9	28	82	7	604	30	29	16	23	1.96
7547437--7548091	57	11.2	58	82	8	672	30	29	16	23	1.96
7547437--7548091	85	7.5	85	79	8	642	30	29	16	23	1.96
7548886--7549010	20	5.7	20	72	18	88	30	14	12	42	1.83
7549868--7549905	20	1.9	20	88	0	58	21	10	10	57	1.61
7553488--7553546	16	3.4	16	71	24	57	18	0	8	72	1.09
7553482--7553546	21	3.4	21	68	24	70	20	0	7	72	1.09
7553477--7553546	36	1.9	36	94	0	122	20	0	10	70	1.16
7554840--7554897	14	4.3	13	75	12	55	55	3	3	37	1.34
7554840--7554897	27	2.1	27	84	6	73	55	3	3	37	1.34
7554862--7554897	14	2.6	14	86	4	56	61	0	2	36	1.11
7558140--7558198	2	29.5	2	89	0	73	49	5	3	42	1.41
7560893--7560931	21	1.9	20	84	5	51	5	15	2	76	1.06
7562281--7562322	18	2.3	18	83	4	57	38	0	7	54	1.28
7563703--7563738	17	2.2	17	90	5	56	13	22	13	50	1.77
7569963--7570003	2	20.5	2	100	0	82	48	0	0	51	1.00
7571217--7571251	2	17.5	2	100	0	70	51	0	0	48	1.00
7574915--7574946	12	2.7	12	95	0	55	50	15	3	31	1.60
7575790--7575834	2	22.5	2	90	0	72	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7576631--7576659	2	14.5	2	100	0	58	48	0	0	51	1.00
7576746--7576785	14	2.7	15	84	11	55	30	0	0	70	0.88
7576744--7576778	17	2.0	17	88	5	52	31	0	0	68	0.90
7577768--7577844	16	4.8	16	79	7	68	36	1	5	57	1.30
7577767--7577842	32	2.4	32	84	4	91	36	1	6	55	1.34
7577784--7577844	32	1.9	32	89	0	95	36	0	4	59	1.19
7577987--7578047	31	1.9	31	83	12	79	39	1	0	59	1.08
7578226--7578272	24	2.0	23	88	8	69	55	2	0	42	1.12
7578320--7578346	14	1.9	14	100	0	54	81	7	3	7	0.97
7580922--7580946	6	4.2	6	100	0	50	16	48	20	16	1.82

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45