genome.fa.s8.2.7.7.80.10.50.1000.24.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   

This is table  24  of  33  ( 3942 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)
4011403--4011463	30	2.0	30	100	0	122	50	16	9	22	1.74
4011837--4011877	17	2.5	17	77	18	50	43	7	2	46	1.44
4016790--4016869	41	1.9	42	82	7	101	43	2	1	52	1.22
4017093--4017118	1	26.0	1	100	0	52	100	0	0	0	0.00
4017283--4017339	17	3.4	16	76	13	53	64	0	0	35	0.93
4017284--4017330	24	2.0	25	83	8	62	63	0	0	36	0.94
4017352--4017417	29	2.2	30	83	5	80	50	0	1	48	1.10
4017374--4017437	29	2.2	29	83	8	78	51	1	1	45	1.20
4017941--4017973	12	2.8	12	90	4	50	63	0	0	36	0.95
4024354--4024617	133	2.0	131	97	1	501	38	14	18	28	1.90
4027754--4027798	18	2.6	18	85	3	56	55	2	0	42	1.12
4027914--4027952	16	2.4	16	91	4	60	64	0	0	35	0.94
4029852--4029924	38	1.9	38	86	10	105	52	0	1	46	1.09
4031715--4031830	10	12.2	10	65	25	56	39	3	0	56	1.16
4031694--4031754	27	2.2	28	85	8	81	49	0	0	50	1.00
4031717--4031792	34	2.3	34	86	8	104	42	1	0	56	1.07
4031729--4031776	17	2.8	17	76	17	55	43	2	0	54	1.12
4031717--4031792	17	4.6	16	71	19	50	42	1	0	56	1.07
4031741--4031822	28	2.9	28	81	13	73	37	3	0	58	1.16
4032075--4032144	27	2.6	29	73	17	69	42	5	1	50	1.35
4032279--4032323	15	3.1	15	78	15	58	42	2	2	53	1.25
4033164--4033238	29	2.6	29	81	10	82	34	1	5	58	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4035598--4035651	24	2.4	23	87	9	76	50	1	5	42	1.36
4037008--4037045	2	19.0	2	94	0	67	50	2	0	47	1.15
4037878--4037929	22	2.3	23	83	16	72	42	0	0	57	0.98
4043740--4043842	51	2.0	51	84	3	136	40	14	24	20	1.90
4044347--4044391	2	22.5	2	90	0	72	0	53	0	46	1.00
4044735--4044807	33	2.2	33	85	4	94	46	0	0	53	1.00
4048010--4048051	2	21.0	2	100	0	84	50	0	0	50	1.00
4057189--4057220	6	5.7	6	92	7	50	25	0	0	75	0.81
4058207--4058253	24	1.9	25	91	4	78	46	2	4	46	1.34
4058653--4058705	21	2.4	23	81	6	65	24	3	3	67	1.23
4059622--4059680	23	2.6	23	76	7	66	44	0	1	54	1.10
4059630--4059664	18	2.1	18	89	10	56	51	0	2	45	1.16
4062080--4062133	18	3.0	18	72	5	56	42	0	0	57	0.98
4063388--4063430	21	2.0	21	82	8	52	48	4	2	44	1.36
4063876--4063907	16	2.0	16	100	0	64	43	0	6	50	1.27
4063920--4063958	17	2.4	17	87	12	55	41	0	0	58	0.98
4063941--4063977	11	3.4	11	84	0	56	37	0	2	59	1.12
4064948--4064976	2	14.5	2	100	0	58	48	0	0	51	1.00
4065251--4065282	2	16.0	2	93	0	55	50	3	0	46	1.17
4067494--4067527	14	2.5	14	90	4	52	50	11	2	35	1.54
4068989--4069035	21	2.3	21	92	3	78	44	14	21	19	1.86
4072175--4072283	53	2.1	53	98	0	209	37	4	18	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4073132--4073171	21	1.9	21	94	0	71	52	5	12	30	1.60
4074526--4074577	17	3.1	17	80	5	61	48	0	3	48	1.20
4076734--4076780	23	2.0	23	87	4	67	53	0	4	42	1.20
4076799--4076839	20	2.0	21	90	4	66	51	0	7	41	1.30
4077939--4077966	6	4.7	6	100	0	56	14	0	32	53	1.41
4080773--4080833	22	2.7	22	73	16	63	44	0	0	55	0.99
4080836--4080913	41	1.9	41	84	10	106	52	5	1	41	1.32
4088975--4089019	2	22.5	2	100	0	90	51	0	48	0	1.00
4090438--4090463	6	4.3	6	100	0	52	30	0	50	19	1.48
4093307--4093636	170	1.9	172	91	1	538	31	21	12	35	1.90
4096189--4096240	25	2.1	26	89	7	81	36	0	1	61	1.07
4105275--4105308	16	2.1	17	88	5	52	41	5	2	50	1.42
4115060--4115094	9	3.8	9	85	7	52	42	0	0	57	0.99
4115063--4115111	19	2.8	18	87	9	66	38	0	0	61	0.96
4115744--4115786	21	2.0	21	100	0	86	23	27	9	39	1.85
4124644--4124688	22	2.0	22	86	0	63	46	0	0	53	1.00
4125429--4125467	18	2.2	18	86	9	53	56	0	2	41	1.13
4126335--4126390	18	3.1	18	80	16	55	66	0	0	33	0.92
4130374--4130408	2	17.5	2	100	0	70	51	0	0	48	1.00
4138687--4138742	28	2.0	29	85	3	78	46	1	1	50	1.22
4138712--4138775	32	2.0	32	84	6	85	51	0	0	48	1.00
4138718--4138769	21	2.5	21	75	6	61	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4147937--4147986	24	2.0	25	88	3	75	52	2	2	44	1.24
4148895--4150222	545	2.5	523	80	10	1360	43	6	7	41	1.60
4150664--4150711	23	2.1	24	85	14	66	39	0	0	60	0.97
4150664--4150711	24	2.0	24	88	11	73	39	0	0	60	0.97
4160458--4160507	18	2.7	19	78	6	57	64	0	0	36	0.94
4160450--4160516	22	3.3	20	72	16	57	59	0	0	40	0.97
4165272--4165309	16	2.3	17	95	4	69	39	15	21	23	1.92
4169682--4169736	10	5.6	10	70	12	51	32	0	0	67	0.91
4171167--4171227	30	2.0	30	90	0	95	29	4	3	62	1.32
4176179--4176247	34	2.0	34	100	0	138	34	14	11	39	1.82
4183561--4183597	19	2.0	19	89	5	58	70	10	10	8	1.35
4183566--4183616	25	2.1	23	82	10	57	76	5	9	7	1.15
4185809--4185864	28	2.0	29	85	3	78	50	0	1	48	1.11
4186636--4186683	23	2.2	23	85	7	64	52	4	0	43	1.20
4194412--4194482	2	35.5	2	84	5	90	5	45	1	47	1.35
4199076--4199177	53	1.9	52	88	5	152	34	16	24	24	1.95
4199506--4199545	21	1.9	21	89	0	62	50	0	0	50	1.00
4203486--4203547	20	3.0	21	75	22	67	30	3	0	66	1.08
4204498--4204536	19	2.0	20	90	5	62	20	12	12	53	1.71
4205256--4205303	16	3.0	16	82	11	62	31	0	0	68	0.90
4207360--4207385	1	26.0	1	100	0	52	0	100	0	0	0.00
4212237--4212261	9	2.8	9	100	0	50	60	8	0	32	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4212284--4212321	18	2.1	19	85	14	53	68	0	0	31	0.90
4218356--4218390	12	3.0	12	91	4	54	91	0	8	0	0.42
4222059--4222218	31	5.3	29	68	16	85	37	1	1	60	1.13
4222168--4222237	33	2.2	33	84	7	90	37	0	1	61	1.05
4222254--4222319	10	6.5	10	73	14	55	28	1	3	66	1.15
4222138--4222360	16	14.9	15	65	20	83	34	0	2	62	1.14
4222566--4222591	2	13.0	2	100	0	52	50	0	50	0	1.00
4223759--4223830	32	2.3	31	76	11	74	56	2	0	40	1.13
4228699--4228775	39	2.0	37	82	12	93	55	1	0	42	1.07
4229603--4229628	12	2.2	12	100	0	52	50	7	0	42	1.31
4238825--4238852	2	14.0	2	100	0	56	50	0	0	50	1.00
4239343--4239381	2	19.5	2	89	0	60	46	0	5	48	1.24
4241173--4241202	2	15.0	2	100	0	60	50	0	50	0	1.00
4241411--4241462	26	2.0	25	85	7	68	46	0	1	51	1.12
4242104--4242130	2	13.5	2	100	0	54	48	0	0	51	1.00
4242850--4242891	2	21.0	2	100	0	84	50	0	0	50	1.00
4251980--4252014	18	1.9	18	100	0	70	51	0	0	48	1.00
4251978--4252016	18	2.2	18	90	0	69	56	0	0	43	0.99
4251961--4252030	29	2.4	30	79	18	85	48	1	1	48	1.19
4252385--4252422	2	19.0	2	100	0	76	50	0	0	50	1.00
4254110--4254136	2	13.5	2	100	0	54	51	0	0	48	1.00
4258116--4258154	20	2.0	20	84	0	51	61	7	2	28	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4259454--4259483	2	15.0	2	92	0	51	46	0	3	50	1.18
4263075--4263121	17	2.6	17	81	18	60	27	4	0	68	1.08
4263074--4263118	18	2.4	18	82	17	56	28	4	0	66	1.11
4268644--4268690	2	23.5	2	100	0	94	0	48	0	51	1.00
4270373--4270413	3	13.7	3	100	0	82	31	0	0	68	0.90
4271505--4271531	2	13.5	2	100	0	54	51	0	0	48	1.00
4279862--4279918	19	2.9	19	78	17	55	47	1	0	50	1.11
4279964--4280055	48	1.9	47	91	2	148	31	16	6	45	1.72
4290433--4290480	24	2.0	25	84	12	64	58	4	2	35	1.29
4303280--4303336	29	1.9	30	82	3	71	52	0	0	47	1.00

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