genome.fa.s16.2.7.7.80.10.50.1000.27.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  27  of  35  ( 4175 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)
3895414--3895470	30	1.9	30	96	0	105	24	24	19	31	1.98
3895461--3895891	34	12.9	34	79	12	412	20	31	12	34	1.91
3895545--3895596	27	1.9	27	96	0	95	23	38	17	21	1.93
3895467--3895891	71	6.3	68	82	11	497	20	32	12	34	1.90
3895741--3895839	29	3.2	29	81	12	110	20	33	14	32	1.92
3895475--3895876	100	4.0	99	85	10	516	20	32	12	34	1.91
3895881--3896013	34	4.0	34	93	1	225	29	34	18	18	1.94
3895882--3896013	67	2.0	67	93	3	230	29	34	18	17	1.94
3896013--3896475	49	9.6	49	84	6	599	25	25	18	31	1.97
3896110--3896476	92	3.9	93	93	3	585	24	25	18	31	1.97
3896393--3896778	67	6.8	54	70	15	228	24	24	14	36	1.93
3896393--3896698	55	5.5	55	73	14	225	24	23	15	35	1.94
3896393--3896784	171	2.3	171	94	1	676	24	24	14	36	1.93
3897583--3897649	33	2.0	33	88	0	98	34	11	13	40	1.81
3897603--3897627	13	1.9	13	100	0	50	36	16	16	32	1.90
3897692--3897716	13	1.9	13	100	0	50	32	16	16	36	1.90
3897725--3897844	52	2.3	52	97	0	222	35	18	17	29	1.94
3899877--3899936	30	2.0	30	100	0	120	36	20	16	26	1.93
3900943--3901368	28	14.6	28	76	7	294	29	27	17	25	1.97
3900943--3901368	56	7.3	56	75	9	368	29	27	17	25	1.97
3901172--3901618	33	14.3	31	74	10	261	29	26	17	26	1.98
3901044--3901497	213	2.2	211	82	5	551	29	26	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3903576--3903616	13	3.2	13	89	0	64	41	14	12	31	1.83
3909791--3909816	13	2.0	13	100	0	52	38	15	15	30	1.88
3909801--3909852	19	2.7	20	90	3	79	40	17	17	25	1.90
3910410--3910453	20	2.2	20	84	8	54	34	11	20	34	1.88
3911187--3911380	90	2.2	88	84	7	239	20	20	16	42	1.89
3911134--3911450	47	6.9	45	73	13	236	20	22	17	40	1.91
3911453--3911678	41	5.4	41	72	11	138	12	28	20	37	1.90
3912386--3912495	41	2.6	42	79	1	114	10	28	26	35	1.88
3911935--3912799	42	20.6	42	72	6	214	17	27	19	34	1.95
3914392--3914923	162	3.2	160	84	6	651	27	10	10	51	1.69
3919090--3919281	40	4.7	41	79	5	165	39	13	27	20	1.90
3919101--3919302	81	2.5	82	80	5	205	40	14	26	19	1.90
3919084--3919282	41	4.9	41	77	6	172	40	13	26	19	1.89
3919360--3920210	41	20.8	41	77	6	608	41	13	25	19	1.88
3919360--3920214	123	7.0	122	78	7	692	41	14	25	18	1.88
3925013--3925110	20	4.9	20	80	5	126	39	13	16	30	1.87
3925818--3926001	49	3.8	49	97	0	341	30	20	30	18	1.96
3926077--3926937	28	29.7	28	83	6	843	22	17	29	29	1.97
3926077--3926937	57	14.8	57	82	7	893	22	17	29	29	1.97
3937828--3937869	20	2.1	20	86	0	57	76	7	9	7	1.17
3939249--3939297	17	2.9	17	96	0	89	18	10	20	51	1.75
3942654--3942693	20	2.0	20	95	4	73	35	10	15	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3942746--3942771	13	2.0	13	100	0	52	30	15	15	38	1.88
3945315--3945340	13	2.0	13	100	0	52	38	15	15	30	1.88
3947421--3947451	15	2.1	15	93	0	53	12	22	16	48	1.80
3949255--3949299	21	2.1	21	84	8	56	22	20	4	53	1.63
3951434--3951473	20	2.0	20	95	4	73	35	10	15	40	1.80
3951526--3951551	13	2.0	13	100	0	52	30	15	15	38	1.88
3952580--3952706	31	4.0	31	77	12	141	27	25	14	33	1.94
3953513--3953558	21	2.2	21	84	7	58	32	23	17	26	1.97
3953614--3953773	20	8.7	20	77	20	163	28	16	14	40	1.87
3953652--3953749	33	3.0	33	100	0	196	29	15	15	39	1.88
3953614--3953753	53	2.6	54	76	12	164	27	16	15	40	1.88
3953671--3953734	13	5.4	13	71	21	68	31	14	15	39	1.87
3956782--3958128	61	22.6	60	82	8	1431	24	26	20	28	1.99
3956934--3957147	112	1.9	112	88	1	322	23	26	18	31	1.97
3958815--3958909	20	4.8	20	89	5	138	28	15	13	42	1.85
3961236--3961356	51	2.4	51	87	6	183	32	27	11	28	1.92
3961289--3961550	78	3.3	78	77	6	296	27	25	14	32	1.94
3961289--3961591	79	3.8	78	77	6	308	27	26	14	31	1.95
3961305--3961591	157	1.8	158	82	5	375	27	26	14	32	1.95
3962330--3962388	32	1.9	30	83	13	75	59	10	10	20	1.58
3962660--3962685	13	2.0	13	100	0	52	30	15	15	38	1.88
3962640--3962703	32	2.0	33	87	3	94	28	14	17	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3966261--3966309	24	2.1	24	88	3	73	36	24	0	38	1.56
3967895--3967931	19	1.9	19	94	0	65	32	16	18	32	1.93
3971895--3971925	16	1.9	16	93	0	53	35	19	0	45	1.51
3975330--3976596	322	4.0	322	93	4	2208	20	21	19	38	1.94
3975998--3976592	297	2.0	297	97	0	1136	20	21	20	37	1.94
3977647--3977683	19	1.9	19	100	0	74	35	16	16	32	1.91
3979040--3979064	13	1.9	13	100	0	50	32	16	20	32	1.94
3979524--3979601	32	2.5	31	89	6	113	28	14	24	33	1.94
3979524--3979614	30	3.0	29	82	9	110	29	13	24	32	1.93
3980373--3980397	8	3.1	8	100	0	50	52	12	24	12	1.72
3981183--3981241	21	2.8	21	86	0	73	62	1	20	15	1.40
3984445--3984485	21	2.0	20	85	9	55	43	7	4	43	1.53
3984444--3984495	21	2.8	18	81	18	54	42	7	3	46	1.51
3985841--3985895	20	2.8	20	83	5	67	30	16	10	41	1.83
3988220--3988334	51	2.3	48	82	4	131	26	26	13	33	1.93
3988271--3988543	79	3.5	77	85	4	361	28	24	13	34	1.93
3988271--3988560	158	1.9	155	85	3	402	28	24	13	33	1.93
3988426--3988811	130	3.0	128	79	13	445	29	24	12	33	1.92
3993331--3993360	14	2.1	14	100	0	60	53	33	6	6	1.53
3994260--3994309	28	2.0	25	81	18	59	44	2	32	22	1.64
3994478--3994572	36	2.8	35	84	7	126	28	25	13	32	1.94
3995006--3995080	32	2.3	32	88	0	105	40	12	22	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3995013--3995055	22	2.0	22	81	9	52	37	9	25	27	1.87
3997246--3997315	21	3.4	21	73	15	65	27	17	18	37	1.93
3997356--3997425	20	3.5	20	78	2	77	31	14	11	42	1.81
4003897--4003995	51	1.9	51	91	0	162	33	10	25	31	1.89
4003935--4004311	79	4.8	79	88	0	522	31	15	25	27	1.96
4004247--4004478	51	4.5	51	85	3	306	32	12	24	31	1.92
4004243--4004478	102	2.3	102	88	1	348	32	12	25	30	1.92
4007542--4007643	42	2.4	42	83	8	127	46	11	26	15	1.81
4007414--4007634	119	1.9	117	82	7	277	41	14	23	21	1.89
4007578--4007675	42	2.3	42	85	5	124	39	13	26	20	1.89
4007660--4007947	61	4.9	61	82	9	312	27	20	26	26	1.99
4007660--4008333	121	6.0	115	75	15	378	28	20	25	25	1.99
4007837--4007919	26	3.1	26	65	19	71	27	21	24	26	1.99
4007779--4007961	54	3.3	54	91	6	269	24	22	25	27	2.00
4007990--4008364	55	6.4	58	82	8	408	29	20	24	26	1.99
4007990--4008364	60	6.4	59	83	7	423	29	20	24	26	1.99
4007681--4008304	330	1.9	329	84	5	848	28	20	25	25	1.99
4009334--4009375	16	2.6	16	85	14	59	0	2	11	85	0.68
4018508--4018550	17	2.6	16	92	7	68	88	9	2	0	0.60
4018508--4018543	11	3.3	11	88	0	54	88	11	0	0	0.50
4019615--4019696	27	3.0	27	63	10	67	29	23	20	26	1.99
4019522--4019898	61	6.4	58	81	8	385	26	24	19	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4019522--4019901	121	3.2	119	82	8	449	26	24	20	29	1.99
4019927--4020109	54	3.3	54	87	11	269	27	25	22	24	2.00
4019969--4020051	26	3.1	26	65	19	71	26	24	21	27	1.99
4019593--4020207	330	1.9	329	84	5	846	25	25	20	27	1.99
4019925--4020228	61	5.2	58	86	7	304	26	25	21	26	1.99
4019648--4020168	269	1.9	271	85	6	732	25	25	20	28	1.99
4020213--4020311	42	2.3	42	85	5	126	20	27	13	39	1.89
4020243--4020346	42	2.5	42	85	6	131	15	25	11	47	1.79
4021045--4021096	21	2.6	21	84	6	63	38	13	11	36	1.81
4023410--4023641	51	4.5	51	85	3	306	31	24	12	32	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   
          33   34   35