genome.fa.s412.2.7.7.80.10.50.1000.31.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   

This is table  31  of  32  ( 3728 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)
4458724--4458767	23	1.9	23	85	0	61	22	0	2	75	0.92
4459298--4459339	19	2.3	19	84	8	52	42	19	2	35	1.64
4463490--4463562	32	2.4	31	86	8	89	20	2	36	39	1.67
4463503--4463568	32	2.1	32	100	0	132	18	3	40	37	1.66
4463514--4463587	32	2.3	32	86	4	96	22	4	37	35	1.74
4464150--4464177	13	2.2	13	100	0	56	39	17	14	28	1.89
4468298--4468332	16	2.2	16	90	10	54	20	0	0	80	0.72
4470580--4470626	17	2.8	17	77	3	51	42	10	23	23	1.85
4470403--4470861	233	2.0	233	91	6	752	28	19	14	38	1.90
4470813--4470864	17	3.1	17	75	5	52	42	9	25	23	1.84
4471040--4471087	17	2.9	16	77	20	53	22	2	2	72	1.05
4471549--4471790	86	2.8	85	75	3	209	35	16	28	19	1.94
4472043--4472097	19	2.9	19	94	0	92	32	10	16	40	1.83
4472137--4472162	13	2.0	13	100	0	52	30	15	15	38	1.88
4472117--4472183	33	2.0	33	88	0	98	25	14	16	43	1.86
4472694--4472723	10	3.1	10	95	4	53	76	23	0	0	0.78
4475769--4476781	42	24.0	42	76	5	591	35	18	28	18	1.94
4475769--4476726	84	11.4	84	79	2	785	35	18	28	18	1.94
4488617--4488658	18	2.3	18	95	0	75	35	21	26	16	1.94
4490770--4490803	18	1.9	18	88	5	52	8	29	14	47	1.75
4491496--4491525	13	2.3	13	100	0	60	23	0	0	76	0.78
4493667--4493716	15	3.4	15	76	13	50	42	0	2	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4495034--4495092	30	2.0	30	86	6	84	67	6	5	20	1.33
4497019--4497058	20	2.0	20	85	9	55	67	5	7	20	1.34
4497448--4497523	40	1.9	40	83	5	100	46	5	0	48	1.24
4499297--4499351	19	2.8	20	77	5	67	40	16	14	29	1.88
4499968--4500010	16	2.6	17	86	13	56	55	4	2	37	1.33
4501799--4501838	13	3.1	13	81	0	53	37	15	15	32	1.88
4508111--4508165	20	2.8	20	88	2	85	38	12	16	32	1.86
4509902--4509955	27	2.1	25	86	10	74	33	7	0	59	1.25
4511647--4511671	13	1.9	13	100	0	50	32	20	16	32	1.94
4511728--4511784	22	2.6	22	94	0	105	38	12	22	26	1.89
4511799--4511934	53	2.6	53	94	2	229	28	18	17	35	1.94
4512014--4512054	21	2.0	21	90	9	66	36	9	14	39	1.79
4512357--4512471	56	2.1	56	96	0	212	30	26	12	31	1.92
4514023--4514095	20	3.6	20	81	3	101	35	13	19	31	1.91
4514041--4514116	21	3.7	21	80	3	100	42	11	17	28	1.84
4514023--4514116	41	2.3	41	98	0	179	39	12	18	29	1.88
4514155--4514180	13	2.0	13	100	0	52	38	15	15	30	1.88
4516396--4516440	21	2.1	21	84	8	56	53	4	20	22	1.63
4518244--4518274	15	2.1	15	93	0	53	48	16	22	12	1.80
4520289--4520367	20	3.7	21	75	15	72	26	13	15	44	1.84
4520354--4520392	13	3.0	13	96	0	69	30	17	15	35	1.91
4522846--4522918	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4522864--4522939	21	3.7	21	80	3	100	42	11	17	28	1.84
4522846--4522939	41	2.3	41	98	0	179	39	12	18	29	1.88
4522978--4523003	13	2.0	13	100	0	52	38	15	15	30	1.88
4526834--4526900	36	1.9	35	85	11	93	31	25	10	32	1.89
4527347--4527389	20	2.2	20	87	8	61	30	11	18	39	1.86
4527369--4527407	13	3.0	13	78	14	53	38	15	15	30	1.88
4527405--4527539	54	2.5	54	78	7	137	38	8	22	31	1.83
4527473--4527529	22	2.6	22	91	0	96	38	10	22	28	1.87
4527517--4527547	10	3.1	10	90	0	53	41	6	29	22	1.78
4527571--4527759	53	3.6	53	97	0	342	29	17	17	34	1.93
4527677--4527759	19	4.6	19	66	27	63	26	16	19	37	1.93
4527730--4527799	20	3.5	20	77	12	74	30	14	17	38	1.89
4527839--4527879	21	2.0	21	90	9	66	36	9	14	39	1.79
4531219--4531290	36	2.0	35	89	2	108	36	16	20	26	1.94
4533556--4533591	16	2.2	17	90	9	58	52	0	2	44	1.15
4538129--4538176	23	2.0	24	84	11	64	4	27	0	68	1.07
4540013--4540053	19	2.2	19	86	8	57	48	4	24	21	1.69
4540404--4540626	48	4.9	47	79	7	174	43	17	19	20	1.89
4540356--4540824	44	10.2	44	79	8	368	44	15	19	20	1.87
4548155--4548227	20	3.6	20	81	3	101	31	17	13	36	1.89
4548134--4548210	21	3.7	21	77	6	86	28	16	11	42	1.84
4548134--4548227	41	2.3	41	94	3	163	29	18	12	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4548825--4549120	157	1.9	160	82	4	377	52	8	11	27	1.65
4551046--4551095	20	2.5	20	80	3	55	38	6	16	40	1.73
4551150--4551199	20	2.5	20	83	0	64	38	14	12	36	1.83
4551914--4551975	31	2.0	31	87	0	88	29	19	17	33	1.95
4551922--4551987	31	2.3	28	82	10	80	34	15	16	33	1.90
4552476--4552502	13	2.1	13	100	0	54	29	14	14	40	1.86
4561863--4561915	21	2.7	20	77	8	63	35	16	11	35	1.85
4564851--4564908	19	3.1	19	79	13	66	37	12	15	34	1.85
4564939--4564990	21	2.5	21	87	9	72	36	13	19	30	1.90
4566982--4567161	78	2.3	79	85	0	272	34	13	25	26	1.93
4567097--4567212	51	2.3	51	83	1	144	34	12	25	27	1.92
4567144--4567585	79	5.5	79	76	9	385	34	13	24	28	1.93
4567153--4567581	164	2.7	157	77	10	384	35	13	23	27	1.93
4569926--4570043	50	2.4	51	81	7	143	39	11	20	27	1.88
4570443--4570505	33	1.9	32	84	12	83	34	17	11	36	1.85
4570535--4570588	20	2.8	20	83	5	67	38	16	11	33	1.84
4570971--4571032	32	2.0	32	87	3	90	35	19	3	41	1.67
4574854--4574942	44	2.0	44	100	0	178	33	13	15	37	1.87
4578524--4578561	20	2.0	20	94	5	69	36	15	10	36	1.82
4578683--4578756	20	3.8	19	78	8	69	39	14	13	32	1.86
4579811--4580125	41	7.4	41	78	6	238	40	13	23	22	1.89
4580106--4580807	62	11.4	62	82	4	834	29	19	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4580106--4580807	244	2.9	244	85	4	905	29	19	25	25	1.98
4581253--4581279	13	2.1	13	100	0	54	29	14	14	40	1.86
4581234--4581298	32	2.0	32	90	3	103	26	16	16	40	1.90
4581263--4581320	19	2.9	19	87	5	80	32	15	17	34	1.91
4584060--4584124	19	3.8	18	75	24	77	32	12	16	38	1.86
4584062--4584132	32	2.2	32	97	0	133	32	12	18	36	1.88
4584081--4584105	13	1.9	13	100	0	50	36	16	16	32	1.90
4584197--4584326	52	2.5	52	93	1	224	33	17	20	28	1.95
4585177--4585215	20	2.0	20	89	0	60	23	17	12	46	1.83
4591210--4591238	13	2.2	13	100	0	58	27	13	17	41	1.87
4593587--4593651	32	2.0	32	87	3	94	26	18	15	40	1.90
4593616--4593670	19	2.8	19	86	5	74	32	16	16	34	1.91
4593724--4593782	13	5.0	13	72	19	58	37	13	15	33	1.86
4593702--4593802	33	3.0	33	92	1	166	38	12	16	31	1.87
4593737--4593802	20	3.7	20	71	26	74	40	12	16	30	1.85
4602712--4602844	1	133.0	1	78	0	131	88	9	1	0	0.57
4609718--4609770	22	2.4	22	93	0	88	62	11	7	18	1.52
4610029--4610184	79	2.0	79	82	2	188	33	11	25	29	1.91
4610138--4610302	51	3.2	50	80	3	168	33	13	23	28	1.93
4610239--4610523	79	3.6	77	75	10	236	33	12	23	29	1.92
4622585--4622660	7	10.3	7	80	17	75	82	1	13	2	0.83
4622585--4622662	8	10.4	8	77	10	76	82	1	14	2	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4622585--4622662	15	5.2	15	81	10	97	82	1	14	2	0.85
4624217--4624337	34	3.6	34	75	10	122	29	30	11	28	1.92
4624233--4624350	36	3.4	36	73	11	129	28	29	14	27	1.95
4624227--4624390	67	2.4	67	89	4	240	28	27	14	29	1.95
4624225--4624337	31	3.4	34	76	11	133	30	30	12	26	1.93
4624227--4624467	67	3.7	66	83	9	237	29	29	15	26	1.96
4624147--4624467	33	9.6	33	74	10	160	28	28	15	27	1.96
4624361--4624467	32	3.3	32	85	3	117	31	28	17	21	1.96
4624650--4625134	53	9.1	53	73	6	313	24	21	15	38	1.92
4624624--4625134	106	4.8	104	74	7	350	25	21	15	38	1.92

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