genome.fa.s7.2.7.7.80.10.50.1000.29.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  29  of  37  ( 4421 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)
5070670--5070694	13	1.9	13	100	0	50	32	16	16	36	1.90
5070783--5070808	13	2.0	13	100	0	52	30	15	15	38	1.88
5070763--5070830	33	2.1	32	91	8	111	35	16	16	32	1.91
5072019--5072890	154	5.6	153	78	6	767	38	19	17	24	1.93
5072200--5072890	309	2.2	309	84	4	881	38	19	17	23	1.93
5073438--5073474	20	1.9	20	88	5	58	24	2	2	70	1.14
5080076--5080490	155	2.7	155	74	7	396	36	19	20	24	1.95
5085681--5085736	21	2.7	21	83	10	71	1	28	0	69	0.98
5086201--5086763	154	3.5	161	76	9	506	50	8	10	30	1.67
5087940--5087993	20	2.7	20	88	5	74	33	12	16	37	1.87
5095876--5095914	20	2.0	20	85	5	53	38	10	10	41	1.73
5095965--5095990	13	2.0	13	100	0	52	30	15	15	38	1.88
5096688--5096731	21	2.1	21	83	8	54	25	31	4	38	1.76
5098535--5098560	13	2.0	13	100	0	52	38	15	15	30	1.88
5098546--5098625	21	3.7	21	75	14	72	45	15	13	26	1.83
5100640--5100670	15	2.1	15	93	0	53	12	22	16	48	1.80
5101516--5101540	13	1.9	13	100	0	50	36	16	16	32	1.90
5101496--5101562	33	2.0	33	88	0	98	34	11	13	40	1.81
5101603--5101627	13	1.9	13	100	0	50	32	16	16	36	1.90
5101636--5101763	52	2.5	52	94	3	224	33	17	17	30	1.94
5109873--5110450	71	9.1	60	75	16	363	20	33	12	32	1.91
5109841--5110483	34	19.9	33	76	16	505	20	33	13	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109839--5110288	71	6.9	67	81	12	387	21	33	13	32	1.92
5109932--5110288	105	3.6	100	82	10	400	21	33	12	32	1.91
5110201--5110374	88	2.0	89	91	2	289	20	32	13	33	1.91
5110315--5110503	104	1.8	104	88	4	292	20	34	11	32	1.89
5110155--5110444	158	1.8	158	92	1	492	20	33	12	33	1.90
5110297--5110483	71	2.7	70	92	5	306	18	33	12	34	1.89
5110087--5110503	229	1.8	228	87	6	619	20	34	11	33	1.89
5110488--5110557	33	2.1	35	94	5	126	25	37	17	20	1.94
5110319--5110536	104	2.1	102	82	8	253	22	35	12	29	1.91
5110557--5110793	52	4.5	52	82	5	282	25	27	15	32	1.96
5110557--5110809	101	2.4	101	87	4	344	25	26	15	32	1.95
5110759--5110885	67	1.9	68	86	1	184	24	25	11	38	1.89
5111630--5111660	15	2.1	15	93	0	53	12	22	16	48	1.80
5112486--5112552	33	2.0	33	88	0	98	34	11	13	40	1.81
5112506--5112530	13	1.9	13	100	0	50	36	16	16	32	1.90
5112593--5112617	13	1.9	13	100	0	50	32	16	16	36	1.90
5112626--5112753	52	2.5	52	94	3	224	33	17	17	30	1.94
5119123--5119161	20	2.0	20	85	5	53	38	10	10	41	1.73
5119212--5119237	13	2.0	13	100	0	52	30	15	15	38	1.88
5124874--5124913	20	2.0	20	85	0	53	37	0	5	57	1.21
5125296--5125873	165	3.5	164	78	8	534	31	9	8	50	1.65
5125438--5126019	165	3.5	165	78	5	530	31	9	9	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5125308--5126019	330	2.2	331	78	6	719	31	9	8	50	1.66
5126351--5126410	11	5.4	10	77	18	57	71	0	26	1	0.95
5126358--5126398	15	2.6	17	81	11	52	73	0	26	0	0.84
5128057--5128397	155	2.2	155	84	4	456	24	17	18	39	1.91
5130237--5130284	21	2.3	21	82	10	62	81	4	14	0	0.84
5130258--5130288	16	1.9	16	100	0	62	83	0	16	0	0.64
5130257--5130288	8	4.0	8	91	0	55	84	0	15	0	0.63
5131495--5131549	27	2.0	27	89	0	83	32	10	9	47	1.70
5133097--5133121	13	1.9	13	100	0	50	36	16	16	32	1.90
5133074--5133141	33	2.1	33	88	2	102	32	14	17	35	1.91
5134369--5134567	95	2.1	95	81	2	229	37	18	19	25	1.94
5134582--5134667	32	2.7	32	80	3	93	37	13	18	30	1.90
5135449--5135474	13	2.0	13	100	0	52	30	15	15	38	1.88
5135874--5135953	32	2.5	32	81	0	97	41	18	12	27	1.87
5137100--5137149	21	2.4	21	80	6	57	42	14	10	34	1.78
5144652--5144953	79	3.8	79	76	7	272	33	12	25	28	1.93
5144828--5145059	108	2.2	107	82	6	283	32	12	24	30	1.92
5144936--5145091	78	2.0	79	81	3	181	34	10	23	31	1.89
5147433--5147534	50	2.1	49	83	5	125	40	12	18	28	1.87
5150663--5150712	20	2.4	21	83	3	66	42	10	12	36	1.76
5151615--5151652	12	3.0	13	92	7	69	39	15	15	28	1.89
5155204--5155289	27	3.1	27	62	15	68	27	30	18	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5155098--5155829	171	4.3	171	93	2	1169	27	28	20	24	1.99
5155098--5155848	116	6.7	109	85	8	936	27	27	20	23	1.99
5155692--5155774	27	3.0	28	64	22	75	28	31	20	19	1.97
5155095--5155848	55	13.4	54	86	7	961	27	27	20	24	1.99
5156552--5156583	16	2.0	16	100	0	64	75	0	0	25	0.81
5156682--5156812	19	7.9	18	70	28	103	32	11	18	38	1.86
5156703--5156791	13	5.9	13	70	27	61	32	12	19	35	1.89
5156684--5156810	32	4.0	32	95	0	227	32	11	18	37	1.88
5157104--5157234	51	2.5	53	81	8	169	31	25	10	32	1.90
5157218--5157293	27	2.8	28	83	4	91	19	34	22	23	1.97
5160737--5160787	19	2.6	20	90	3	77	31	11	11	45	1.77
5162001--5162074	19	3.7	19	80	8	69	27	17	17	37	1.92
5162119--5162149	13	2.4	13	94	0	53	35	16	12	35	1.87
5162103--5162169	33	2.0	32	88	11	100	35	13	17	32	1.89
5168317--5168345	13	2.2	13	100	0	58	27	13	17	41	1.87
5170196--5170246	19	2.5	22	78	18	72	35	1	41	21	1.65
5170205--5170245	19	2.2	19	95	0	73	34	2	36	26	1.70
5171596--5171626	10	3.1	10	95	0	53	64	9	6	19	1.45
5172891--5172928	15	2.5	15	83	8	51	50	2	15	31	1.58
5179512--5179538	13	2.1	13	100	0	54	29	7	14	48	1.71
5179523--5179577	19	2.8	19	86	2	65	30	18	12	38	1.88
5182047--5182174	65	2.0	65	98	0	247	36	14	10	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5182971--5183050	36	2.2	36	97	2	151	31	22	21	25	1.98
5190862--5190924	29	2.2	29	100	0	126	28	19	11	41	1.85
5192097--5192147	2	25.5	2	95	0	84	47	0	52	0	1.00
5204585--5204634	25	2.0	25	100	0	100	48	24	16	12	1.79
5206992--5207082	45	2.1	44	91	4	148	34	20	16	28	1.95
5208952--5209030	39	2.1	38	92	2	131	34	16	15	34	1.90
5219427--5219457	15	2.1	15	100	0	62	35	19	12	32	1.90
5221881--5221914	17	1.9	18	88	5	52	35	5	0	58	1.22
5222259--5222313	16	3.4	16	71	19	51	58	0	0	41	0.98
5222237--5222291	27	2.1	26	86	3	74	61	0	0	38	0.96
5222272--5222315	22	2.1	20	84	16	54	63	0	0	36	0.95
5222260--5222355	32	3.0	32	76	18	94	59	1	0	39	1.04
5222938--5222990	3	18.0	3	84	11	74	37	0	0	62	0.96
5223882--5224009	67	1.9	67	85	3	177	39	6	17	35	1.75
5224039--5224266	90	2.6	88	84	10	297	42	8	14	34	1.77
5224198--5224411	71	3.0	71	87	3	306	44	9	16	28	1.79
5227710--5227735	13	2.0	13	100	0	52	30	15	15	38	1.88
5227774--5227849	21	3.7	21	80	3	100	28	17	11	42	1.84
5227795--5227867	20	3.6	20	81	3	101	31	19	13	35	1.91
5227774--5227867	41	2.3	41	98	0	179	29	18	12	39	1.88
5230766--5230930	84	2.0	84	82	7	201	24	19	3	52	1.62
5232964--5232989	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5233028--5233103	21	3.7	21	80	3	100	28	17	11	42	1.84
5233049--5233121	20	3.6	20	81	3	101	31	19	13	35	1.91
5233028--5233121	41	2.3	41	98	0	179	29	18	12	39	1.88
5237106--5237505	163	2.4	167	84	7	466	30	11	8	50	1.67
5237132--5237581	163	2.7	163	82	9	431	28	11	9	51	1.68
5238155--5238205	22	2.3	23	83	10	61	72	1	19	5	1.15
5239864--5239915	27	2.0	26	85	10	72	25	25	15	34	1.95
5239918--5240096	97	1.8	97	93	2	315	31	27	11	29	1.91
5240580--5240612	17	1.9	17	100	0	66	54	21	6	18	1.64
5242289--5242329	21	2.0	21	85	9	57	39	12	9	39	1.76

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