genome.fa.s72.2.7.7.80.10.50.1000.28.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  28  of  39  ( 4596 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)
4063059--4063087	13	2.1	14	93	6	51	62	0	0	37	0.96
4063065--4063120	12	4.5	13	77	6	55	67	0	1	30	1.01
4063225--4063269	24	1.9	24	86	4	65	66	2	0	31	1.04
4066883--4066932	24	2.2	23	76	13	59	48	2	2	48	1.24
4067177--4067207	9	3.4	9	100	0	62	90	0	9	0	0.46
4067558--4067595	20	1.9	19	89	5	58	39	0	0	60	0.97
4068133--4068167	15	2.2	16	90	5	54	40	0	0	60	0.97
4068472--4068501	15	2.0	15	93	0	51	43	3	0	53	1.17
4069038--4069086	16	2.9	17	79	14	57	69	0	2	28	1.00
4069034--4069087	18	3.1	18	74	20	60	66	0	1	31	1.02
4069418--4069465	19	2.7	18	77	6	53	52	0	2	45	1.12
4069417--4069512	44	2.3	41	79	15	101	51	0	1	47	1.07
4070277--4070330	14	3.9	14	79	13	58	59	0	0	40	0.98
4070270--4070344	13	5.4	14	71	15	57	54	0	1	44	1.08
4070464--4070501	18	2.1	18	85	9	51	57	0	0	42	0.98
4070458--4070510	14	3.1	19	67	30	55	54	0	0	45	0.99
4071419--4071448	13	2.3	13	94	0	51	0	16	0	83	0.65
4071426--4071477	13	3.8	13	78	9	50	0	28	1	69	0.99
4071989--4072088	27	3.6	27	70	10	76	66	0	1	33	0.99
4072032--4072085	22	2.4	24	79	17	71	66	0	0	33	0.92
4073785--4073892	39	2.6	38	77	15	99	56	0	0	42	1.05
4076512--4076550	18	2.2	18	85	0	51	53	0	2	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4076963--4077010	18	2.8	17	77	22	55	47	2	0	50	1.12
4076982--4077021	18	2.2	18	86	8	55	47	0	0	52	1.00
4078583--4078616	17	2.0	18	88	11	54	55	0	2	41	1.15
4079409--4079434	2	13.0	2	100	0	52	50	0	0	50	1.00
4079977--4080003	2	13.5	2	100	0	54	51	0	0	48	1.00
4084948--4084991	18	2.4	18	81	7	54	2	13	31	52	1.53
4093040--4093082	21	2.1	20	86	4	59	51	0	0	48	1.00
4102071--4102128	21	2.8	21	82	12	75	58	0	0	41	0.98
4102454--4102506	21	2.5	21	77	17	56	50	0	0	49	1.00
4102455--4102524	35	2.1	35	82	15	85	52	0	1	45	1.09
4102695--4102770	10	8.1	9	73	19	50	42	1	0	56	1.07
4102706--4102775	11	6.3	11	75	15	63	41	0	0	58	0.98
4102706--4102767	18	3.6	18	79	14	69	40	0	0	59	0.97
4102715--4102762	13	3.6	13	78	13	53	39	0	0	60	0.97
4102738--4102772	18	1.9	18	94	0	61	40	0	0	60	0.97
4102981--4103048	22	3.0	23	72	10	59	47	0	0	52	1.00
4103008--4103049	22	2.0	21	90	4	66	45	0	0	54	0.99
4103821--4104017	103	2.0	102	86	8	284	36	5	4	54	1.43
4106814--4106851	19	2.1	19	95	5	69	60	0	0	39	0.97
4118331--4118579	36	6.9	36	77	0	219	22	33	17	26	1.96
4118331--4118579	72	3.5	72	77	1	248	22	33	17	26	1.96
4118483--4118602	36	3.3	36	90	2	161	24	35	15	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4123038--4123134	35	2.8	34	84	4	122	30	17	8	43	1.78
4127950--4127978	3	9.7	3	100	0	58	65	0	34	0	0.93
4127976--4128001	2	13.0	2	100	0	52	50	0	50	0	1.00
4128603--4128643	14	2.9	14	81	0	55	39	0	2	58	1.11
4129314--4129372	22	2.5	24	81	13	68	59	1	0	38	1.08
4129347--4129386	14	2.7	15	84	7	55	55	0	0	45	0.99
4129850--4129890	2	20.5	2	100	0	82	0	48	0	51	1.00
4130549--4130594	22	2.1	22	91	0	74	54	0	2	43	1.12
4130579--4130619	22	1.9	21	85	14	57	41	0	2	56	1.13
4130585--4130660	28	2.4	32	72	20	79	52	0	0	47	1.00
4130598--4130659	28	2.2	27	88	11	90	53	0	0	46	1.00
4131449--4131498	26	1.9	26	83	0	64	58	2	0	40	1.10
4131456--4131533	26	2.8	27	82	9	86	52	1	0	46	1.08
4132896--4132997	16	6.2	18	66	15	60	49	0	0	50	1.00
4132894--4132975	34	2.4	32	78	11	85	50	0	0	50	1.00
4132992--4133048	15	3.6	15	78	7	60	54	0	0	45	0.99
4137595--4137658	25	2.5	26	77	10	69	32	0	4	62	1.16
4137901--4137975	38	1.9	39	91	2	125	41	5	5	48	1.49
4146373--4146444	17	4.2	17	72	16	60	34	0	0	65	0.93
4146350--4146442	42	2.2	42	80	14	104	37	0	0	62	0.96
4146373--4146444	8	8.5	8	73	14	56	34	0	0	65	0.93
4146380--4146453	19	4.3	18	74	8	57	31	0	2	66	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4148263--4148341	40	2.0	38	83	9	97	55	2	0	41	1.13
4148568--4148618	18	2.9	17	80	8	57	70	0	1	27	0.98
4148523--4148595	26	2.8	27	76	12	71	75	0	2	21	0.93
4148523--4148597	8	8.9	8	70	11	51	74	0	2	22	0.94
4148523--4148611	44	2.0	44	88	0	133	73	0	3	23	0.99
4148537--4148622	24	3.8	24	69	18	76	69	0	2	27	1.00
4148547--4148614	16	4.5	15	72	18	52	70	0	2	26	1.01
4148571--4148720	32	4.7	31	74	16	110	59	0	0	39	1.07
4148633--4148724	18	4.7	19	71	24	75	57	1	0	41	1.06
4148635--4148723	25	3.4	25	73	13	65	58	1	0	40	1.05
4148612--4148674	18	3.6	19	70	27	59	52	0	0	47	1.00
4148637--4148722	23	3.9	23	70	11	72	58	1	0	40	1.06
4149092--4149138	11	3.7	13	78	21	55	40	0	0	59	0.97
4149103--4149150	25	1.9	25	83	8	62	41	2	0	56	1.11
4152205--4152242	2	19.0	2	100	0	76	50	0	0	50	1.00
4153873--4153899	2	13.5	2	100	0	54	48	0	0	51	1.00
4154149--4154183	17	2.1	17	88	0	52	28	2	0	68	1.04
4154164--4154216	28	1.9	28	84	3	72	47	0	0	52	1.00
4157690--4157752	21	2.8	22	78	9	74	49	0	1	49	1.10
4158958--4158989	10	3.1	10	95	4	55	59	0	0	40	0.97
4166099--4166156	26	2.3	26	93	3	100	39	15	6	37	1.74
4167336--4167379	19	2.2	20	88	11	65	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4177074--4177098	2	12.5	2	100	0	50	48	0	0	52	1.00
4178606--4178677	32	2.4	29	82	13	76	51	2	2	43	1.30
4179137--4179184	24	2.0	24	100	0	96	29	4	8	58	1.46
4182270--4182312	2	22.0	2	95	4	79	51	0	0	48	1.00
4183863--4183909	17	2.8	17	75	12	51	61	0	4	34	1.15
4184144--4184191	11	4.4	11	76	10	53	68	0	0	31	0.90
4184127--4184191	33	1.9	33	87	6	94	67	1	1	29	1.09
4184156--4184230	39	1.9	39	81	10	91	60	1	2	36	1.20
4184178--4184232	20	2.8	20	77	2	58	56	1	3	38	1.28
4184233--4184273	20	2.2	20	82	8	50	48	4	0	46	1.23
4184309--4184368	25	2.4	26	83	13	81	1	30	0	68	0.99
4184309--4184372	24	2.6	25	85	11	80	1	29	0	68	0.99
4184608--4184642	18	1.9	18	94	0	61	62	0	0	37	0.95
4185931--4185972	22	1.9	22	85	0	57	40	0	0	59	0.97
4191796--4191847	26	2.0	26	85	7	70	44	1	0	53	1.11
4192501--4192543	22	1.9	23	86	13	63	46	2	0	51	1.13
4195417--4195482	6	11.8	6	75	15	54	39	0	0	60	0.97
4195422--4195462	21	1.9	21	90	5	64	34	0	0	65	0.93
4195468--4195535	13	3.9	19	70	26	53	48	0	0	51	1.00
4195496--4195541	24	2.0	22	87	12	65	47	0	0	52	1.00
4195453--4195520	16	4.3	15	76	22	59	47	0	0	52	1.00
4195411--4195545	16	7.0	20	66	26	51	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4199994--4200032	16	2.4	16	91	0	60	33	10	12	43	1.77
4204392--4204420	2	14.5	2	100	0	58	0	48	0	51	1.00
4207866--4207908	18	2.3	18	84	4	50	39	0	2	58	1.11
4208087--4208116	2	15.0	2	92	0	51	50	3	0	46	1.18
4208748--4208864	57	2.1	57	90	3	182	23	23	22	30	1.99
4211976--4212010	18	2.0	18	94	5	63	37	22	17	22	1.94
4213514--4213585	15	4.8	15	80	11	76	47	0	2	50	1.15
4213518--4213594	14	5.2	15	76	13	70	45	0	2	51	1.14
4213618--4213661	22	1.9	22	86	9	61	38	6	6	47	1.57
4213809--4213864	22	2.5	23	77	8	62	48	0	3	48	1.19

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