genome.fa.s412.2.7.7.80.10.50.1000.29.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: 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  29  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)
4125982--4126060	17	4.5	17	81	9	88	3	1	7	87	0.71
4125982--4126059	28	2.9	26	86	7	102	3	1	7	87	0.72
4141690--4141715	13	2.0	13	100	0	52	30	15	15	38	1.88
4144070--4144116	21	2.3	21	76	23	55	42	4	19	34	1.70
4144237--4144275	13	3.0	13	96	0	69	35	15	17	30	1.91
4144261--4144339	20	3.7	20	78	15	77	44	15	15	25	1.85
4146354--4146384	15	2.1	15	93	0	53	12	22	16	48	1.80
4148190--4148234	21	2.1	21	84	8	56	22	20	4	53	1.63
4150452--4150477	13	2.0	13	100	0	52	30	15	15	38	1.88
4152109--4152266	28	5.6	28	81	10	173	29	15	29	26	1.96
4152111--4152266	56	2.8	56	88	1	224	29	15	28	26	1.96
4153697--4153803	20	5.7	19	76	18	100	42	13	16	28	1.86
4153717--4153786	33	2.1	33	94	0	122	41	12	18	27	1.87
4153697--4153801	53	2.0	53	85	7	142	41	12	17	28	1.85
4153830--4153886	20	2.8	20	94	0	105	49	15	10	24	1.76
4155245--4155296	22	2.4	23	84	12	67	25	9	26	38	1.86
4155322--4155416	44	2.2	44	82	3	111	35	9	11	43	1.74
4156681--4156734	26	2.1	26	92	0	90	29	14	5	50	1.66
4158962--4158997	2	18.0	2	100	0	72	50	0	0	50	1.00
4163304--4163336	16	2.1	16	88	11	50	69	3	9	18	1.28
4164729--4164778	22	2.3	22	79	6	57	52	4	16	28	1.61
4165083--4165125	22	2.0	22	90	0	68	58	2	6	32	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4165911--4165944	15	2.3	15	94	0	59	76	2	0	20	0.92
4165785--4166171	211	1.8	210	89	2	616	48	9	7	34	1.65
4166119--4166148	16	1.9	16	93	6	53	73	0	0	26	0.84
4166921--4166962	22	1.9	22	85	0	57	76	0	9	14	1.02
4174048--4174114	33	2.0	33	88	0	98	34	11	13	40	1.81
4174068--4174092	13	1.9	13	100	0	50	36	16	16	32	1.90
4174155--4174182	13	2.2	13	100	0	56	28	14	17	39	1.89
4174188--4174368	52	3.5	52	96	0	326	34	18	18	29	1.94
4189636--4189841	30	7.0	29	82	6	209	27	31	16	24	1.96
4189817--4189908	35	2.7	35	81	5	107	19	30	13	36	1.90
4189911--4189991	41	2.1	38	86	6	108	22	23	19	34	1.96
4189908--4190197	97	3.1	92	82	7	284	24	25	18	31	1.98
4189949--4190162	48	4.3	49	84	3	261	24	27	18	30	1.98
4191031--4191211	52	3.5	52	93	0	299	34	18	18	29	1.94
4204346--4204422	20	3.9	19	76	6	73	33	12	12	40	1.82
4204346--4204423	40	2.0	39	84	2	102	33	12	14	39	1.84
4205336--4205392	22	2.5	24	88	11	100	17	10	8	63	1.51
4205345--4205399	22	2.6	21	88	5	58	20	9	9	61	1.52
4207688--4207743	20	2.8	20	80	2	67	25	19	12	42	1.86
4208957--4208982	13	2.0	13	100	0	52	30	15	15	38	1.88
4211334--4211380	21	2.3	21	76	23	55	42	4	19	34	1.70
4211501--4211577	20	3.6	20	77	16	73	42	15	15	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4213574--4213604	15	2.1	15	93	0	53	12	22	16	48	1.80
4215570--4215610	20	2.0	20	90	0	64	43	14	7	34	1.73
4217735--4217779	21	2.1	21	84	8	56	53	4	20	22	1.63
4219584--4219614	15	2.1	15	93	0	53	48	16	22	12	1.80
4221627--4221706	20	3.8	20	75	15	79	26	15	15	43	1.85
4221692--4221730	13	3.0	13	96	0	69	30	17	15	35	1.91
4221851--4221897	21	2.3	21	79	20	55	34	19	4	42	1.70
4221853--4221895	20	2.2	19	84	16	52	32	18	4	44	1.71
4226999--4227255	138	1.9	138	94	2	453	46	9	14	29	1.76
4233628--4233693	23	2.9	23	90	0	87	59	24	12	4	1.52
4236838--4236910	20	3.6	20	81	3	101	35	13	19	31	1.91
4236856--4236931	21	3.7	21	78	3	91	40	11	17	30	1.85
4236838--4236931	41	2.3	41	96	0	170	38	12	18	30	1.88
4236970--4236995	13	2.0	13	100	0	52	38	15	15	30	1.88
4239209--4239253	21	2.1	21	84	8	56	53	4	20	22	1.63
4243101--4243180	20	3.8	20	75	15	79	26	15	15	43	1.85
4243166--4243204	13	3.0	13	96	0	69	30	17	15	35	1.91
4245657--4245729	20	3.6	20	81	3	101	35	13	19	31	1.91
4245675--4245750	21	3.7	21	78	3	91	40	11	17	30	1.85
4245657--4245750	41	2.3	41	96	0	170	38	12	18	30	1.88
4245789--4245814	13	2.0	13	100	0	52	38	15	15	30	1.88
4247457--4247609	79	1.9	79	82	6	193	39	16	15	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4248776--4248818	18	2.5	17	80	20	54	69	0	4	25	1.07
4255570--4255708	66	2.1	66	76	0	143	28	16	19	35	1.94
4255892--4256008	33	3.5	33	75	3	119	35	17	13	33	1.89
4257503--4257559	30	2.0	27	86	10	78	29	19	7	43	1.77
4258828--4258966	20	6.8	20	70	18	108	25	15	15	43	1.85
4258866--4258895	13	2.3	13	100	0	60	30	16	13	40	1.87
4258948--4258977	13	2.3	13	100	0	60	30	16	13	40	1.87
4258928--4258993	33	2.0	33	85	5	89	30	18	13	37	1.89
4258964--4259019	20	2.8	19	78	7	67	32	17	12	37	1.88
4261037--4261160	51	2.4	51	81	2	142	28	28	12	30	1.93
4261301--4261373	28	2.6	27	87	8	103	21	31	20	26	1.98
4273924--4273966	21	2.0	22	90	4	70	81	6	2	9	0.95
4273926--4273971	20	2.3	20	80	0	56	86	6	2	4	0.75
4274973--4275254	55	5.0	55	83	7	320	28	27	19	24	1.99
4275059--4275143	28	3.1	28	61	10	66	27	23	20	29	1.99
4275293--4275715	61	7.1	62	82	7	427	25	25	19	30	1.98
4275273--4275647	116	3.2	115	79	10	402	26	24	20	28	1.99
4275706--4275828	45	2.8	44	77	11	119	20	25	11	43	1.85
4274939--4275743	444	1.8	436	83	5	983	25	26	19	28	1.99
4275685--4275866	42	4.3	42	73	13	137	21	25	13	40	1.89
4276555--4276611	20	2.8	20	89	0	87	28	15	14	42	1.86
4276638--4276692	20	2.8	20	86	5	76	29	16	12	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4276675--4276704	13	2.3	13	94	0	51	33	16	10	40	1.82
4279034--4279155	51	2.4	51	84	0	163	28	27	13	29	1.95
4279138--4279209	28	2.5	29	86	2	92	22	29	20	27	1.99
4279135--4279189	28	2.0	28	96	0	101	21	29	18	30	1.97
4279297--4279362	28	2.4	28	84	7	89	21	27	22	28	1.99
4279047--4279348	159	1.9	159	88	1	453	27	27	13	32	1.94
4279404--4279480	28	2.8	27	86	7	102	22	31	20	25	1.98
4279464--4279633	51	3.3	51	85	0	214	29	27	12	30	1.93
4279248--4279527	110	2.6	107	77	8	307	27	25	14	33	1.94
4281477--4281516	13	3.1	13	85	0	62	42	15	12	30	1.83
4281624--4281706	42	2.0	42	97	0	157	40	27	6	25	1.79
4288146--4288265	37	3.2	36	73	11	116	39	16	14	30	1.88
4288625--4288651	13	2.1	13	100	0	54	29	14	14	40	1.86
4288635--4288691	19	2.9	19	89	2	87	31	17	17	33	1.93
4288741--4288789	13	4.2	13	75	24	63	32	12	18	36	1.88
4288720--4288789	33	2.1	34	89	7	108	32	12	20	34	1.90
4292000--4292078	39	2.0	39	100	0	158	44	15	7	32	1.74
4296797--4296908	50	2.2	50	100	0	224	42	1	23	32	1.64
4296902--4296968	20	3.4	19	71	22	57	35	2	31	29	1.73
4297511--4297537	13	2.1	13	100	0	54	29	14	14	40	1.86
4297521--4297577	19	2.9	19	89	2	87	31	17	17	33	1.93
4297627--4297675	13	4.2	13	75	24	63	32	12	18	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4297606--4297675	33	2.1	34	89	7	108	32	12	20	34	1.90
4298419--4298609	75	2.6	74	81	10	244	39	13	13	34	1.83
4298441--4298655	37	5.7	38	71	11	133	39	13	13	33	1.84
4301936--4301983	24	2.0	24	91	0	78	54	2	12	31	1.49
4303812--4303859	3	16.0	3	100	0	96	33	0	0	66	0.92
4304393--4304428	2	18.0	2	100	0	72	50	0	0	50	1.00
4309959--4310110	76	2.0	76	94	0	268	44	18	15	22	1.87
4312887--4312927	16	2.5	16	84	4	55	0	14	0	85	0.60
4319488--4319534	21	2.2	22	84	3	60	55	0	2	42	1.12
4319728--4319777	16	3.1	17	74	8	50	22	12	22	44	1.85

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