genome.fa.s35.2.7.7.80.10.50.1000.24.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   

This is table  24  of  30  ( 3549 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)
3790187--3790329	28	5.2	28	64	18	93	27	26	20	25	1.99
3790186--3790695	55	9.0	55	86	6	630	27	26	21	25	1.99
3790325--3790520	27	7.1	27	62	19	75	26	25	21	26	2.00
3790719--3790885	60	2.9	54	79	15	181	26	26	20	25	1.99
3790737--3790963	60	3.9	59	77	11	234	26	25	20	26	1.99
3791902--3791975	20	3.7	19	80	8	85	29	14	13	41	1.85
3794303--3794441	51	2.7	50	80	5	163	33	22	11	32	1.90
3794430--3794501	28	2.6	28	88	4	101	25	31	16	26	1.96
3794561--3794683	51	2.4	51	89	5	187	30	30	12	26	1.92
3794615--3794800	79	2.4	79	84	3	232	27	25	13	33	1.93
3794453--3794834	210	1.8	208	81	7	468	28	25	13	32	1.93
3799373--3799622	29	8.7	29	85	3	317	31	28	16	22	1.96
3799373--3799622	57	4.3	58	88	2	335	31	28	16	22	1.96
3799373--3799647	115	2.4	114	85	3	338	30	29	17	22	1.96
3799577--3799657	28	2.9	27	83	7	81	32	27	19	20	1.97
3799370--3799647	87	3.2	86	85	3	371	30	29	16	22	1.96
3799709--3799887	49	3.8	49	77	8	208	24	25	17	32	1.96
3799688--3799832	43	3.3	43	77	11	130	26	26	17	29	1.98
3799688--3799890	92	2.2	91	90	0	307	26	24	16	32	1.96
3800451--3800478	13	2.2	13	100	0	56	28	14	17	39	1.89
3810393--3810442	21	2.5	20	90	6	75	50	16	8	26	1.72
3812642--3812691	21	2.3	21	80	10	57	56	4	18	22	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3814477--3814507	15	2.1	15	93	0	53	48	16	22	12	1.80
3816523--3816600	20	3.6	21	74	15	70	28	14	14	43	1.83
3816725--3816770	21	2.2	20	81	11	58	32	19	4	43	1.71
3819108--3819172	34	2.0	33	90	6	105	44	16	10	27	1.81
3822737--3822820	26	3.2	25	74	14	80	79	14	2	3	0.96
3824249--3824289	21	2.0	21	85	9	57	39	12	9	39	1.76
3824329--3824399	20	3.6	19	77	7	70	40	16	12	29	1.86
3824369--3824505	53	2.6	53	95	1	238	37	18	17	26	1.93
3824469--3824505	19	2.0	19	94	5	67	45	16	10	27	1.80
3824586--3824629	20	2.2	20	83	0	52	29	9	20	40	1.83
3824985--3825051	37	1.9	35	85	11	93	34	10	25	29	1.89
3825496--3825720	29	7.8	29	82	3	276	30	28	18	22	1.98
3825496--3825720	57	3.9	58	85	2	285	30	28	18	22	1.98
3825496--3825770	29	9.6	29	80	5	265	31	29	17	21	1.96
3825502--3825770	144	1.9	143	85	2	369	32	29	17	20	1.96
3825832--3826017	49	3.9	49	77	9	206	24	22	18	34	1.96
3825779--3826020	92	2.7	91	88	1	335	24	23	17	34	1.96
3826776--3826845	19	3.6	19	84	3	86	35	11	20	32	1.88
3826899--3826926	13	2.2	13	100	0	56	28	7	17	46	1.75
3831436--3831475	13	3.1	13	82	10	55	85	5	2	7	0.83
3831436--3831497	28	2.3	26	81	8	70	80	3	11	4	0.98
3832586--3833226	62	10.5	61	81	3	662	26	27	17	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3832586--3833229	245	2.6	245	88	0	923	26	27	17	28	1.98
3833824--3833886	13	5.3	13	73	21	66	30	17	12	39	1.87
3833809--3833886	33	2.4	33	93	0	129	29	15	12	42	1.84
3836227--3836476	79	3.2	78	78	5	270	26	25	15	32	1.96
3845726--3845764	13	3.0	13	85	11	53	35	15	15	33	1.89
3847741--3847804	21	2.7	24	74	18	71	34	1	29	34	1.67
3849385--3849604	47	4.7	47	84	3	255	20	20	18	40	1.91
3849345--3849604	93	2.8	94	78	4	292	21	21	17	40	1.92
3849700--3849883	85	2.2	85	86	2	244	17	21	14	47	1.82
3851504--3851528	5	5.0	5	100	0	50	40	0	0	60	0.97
3852423--3852500	37	2.1	37	100	0	156	32	7	11	48	1.68
3852891--3853180	143	2.0	143	85	4	388	36	10	8	44	1.69
3856605--3856658	20	2.7	20	85	8	65	35	7	22	35	1.82
3857217--3857431	98	2.2	98	85	0	297	37	13	22	26	1.91
3862251--3862389	51	2.7	51	82	11	176	39	12	15	31	1.86
3864597--3864675	28	2.8	28	92	0	131	29	17	27	25	1.98
3864721--3864782	28	2.2	28	100	0	124	27	25	25	20	1.99
3864602--3864857	107	2.4	104	86	1	332	29	17	27	25	1.97
3864737--3865060	76	4.2	76	86	3	479	31	15	26	26	1.96
3864737--3865056	155	2.1	153	90	4	502	32	14	26	26	1.95
3870836--3870907	28	2.6	27	84	10	92	25	33	16	25	1.96
3870941--3871014	28	2.6	30	79	10	86	22	28	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3870823--3871031	108	1.9	109	85	2	287	25	24	15	34	1.95
3870999--3871110	51	2.2	51	90	3	172	31	23	12	33	1.92
3871049--3871271	79	2.8	79	79	6	245	28	21	13	36	1.92
3875571--3875595	12	2.1	12	100	0	50	32	32	0	36	1.58
3875813--3876062	29	8.7	29	81	3	272	31	29	17	21	1.96
3875810--3876062	57	4.4	57	85	2	301	31	30	16	21	1.96
3875811--3876088	87	3.2	87	83	5	332	31	30	16	21	1.96
3876112--3876331	49	4.9	43	77	10	217	26	24	17	31	1.97
3876159--3876337	49	3.8	49	80	8	226	24	24	17	33	1.96
3876112--3876282	43	3.9	43	79	10	155	26	25	18	29	1.98
3876107--3876340	92	2.5	91	90	1	360	26	23	16	33	1.96
3885947--3886001	23	2.4	23	84	6	67	83	14	0	1	0.73
3885946--3886001	27	2.1	27	90	6	87	83	14	0	1	0.72
3887420--3887612	29	6.7	29	85	2	246	31	29	17	22	1.97
3887427--3887638	87	2.5	87	87	3	286	31	29	18	20	1.96
3887419--3887638	116	1.9	116	86	3	318	30	30	17	21	1.97
3887420--3887638	58	3.8	57	83	4	226	30	29	17	21	1.97
3887710--3887882	49	3.7	49	79	9	214	23	23	18	34	1.96
3887643--3887885	92	2.7	91	89	1	355	25	23	17	34	1.96
3888639--3888711	19	3.7	19	87	3	101	38	12	17	31	1.87
3893279--3893347	9	7.2	9	76	16	52	82	2	10	4	0.91
3893279--3893319	20	2.1	19	86	4	55	87	2	2	7	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3894433--3895073	62	10.5	61	84	3	761	25	27	18	28	1.98
3894433--3895073	183	3.5	181	84	3	789	25	27	18	28	1.98
3894433--3895096	245	2.7	244	87	1	927	26	27	18	28	1.98
3895657--3895681	13	1.9	13	100	0	50	36	16	8	40	1.77
3895685--3895714	13	2.3	13	94	0	51	30	20	13	36	1.90
3898042--3898165	50	2.5	50	85	1	149	26	20	13	38	1.90
3898105--3898479	79	4.8	79	78	2	371	28	25	13	32	1.94
3898105--3898490	158	2.4	156	81	5	445	28	25	13	32	1.94
3899763--3899844	35	2.4	34	78	11	96	73	0	19	7	1.07
3902885--3902951	33	2.0	33	88	0	98	34	11	13	40	1.81
3902905--3902929	13	1.9	13	100	0	50	36	16	16	32	1.90
3902992--3903016	13	1.9	13	100	0	50	32	16	16	36	1.90
3911288--3911326	13	3.0	13	85	11	53	35	15	15	33	1.89
3913084--3913135	14	3.3	15	73	26	54	26	7	7	57	1.54
3914906--3915197	47	6.2	47	78	4	223	21	21	15	40	1.91
3914946--3915192	93	2.6	94	77	5	243	21	21	16	41	1.90
3915264--3915399	42	3.2	42	71	10	132	15	22	14	47	1.81
3915257--3915417	85	1.9	85	90	0	259	16	22	14	46	1.83
3915257--3915445	85	2.2	85	86	0	252	17	21	14	47	1.83
3918862--3918886	13	1.9	13	100	0	50	36	16	16	32	1.90
3918839--3918906	33	2.1	33	88	2	102	32	14	17	35	1.91
3918938--3918989	20	2.6	20	81	0	68	30	13	13	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3918977--3919001	13	1.9	13	100	0	50	36	16	16	32	1.90
3919625--3919901	142	2.0	141	88	3	414	36	11	8	43	1.70
3945348--3945504	54	2.9	53	83	4	199	27	29	21	21	1.99
3945336--3945514	54	3.3	52	76	9	175	28	27	22	21	1.99
3945455--3945643	61	3.1	62	78	2	195	26	28	16	28	1.97
3945519--3946090	155	3.7	153	84	4	701	26	28	18	26	1.98
3945957--3946150	55	3.4	55	78	6	194	26	27	20	25	1.99
3945984--3946165	55	3.1	60	79	8	205	24	26	19	29	1.99
3946155--3946318	42	3.8	44	75	10	142	18	27	13	40	1.88
3946211--3946334	42	3.0	41	80	9	135	16	23	16	43	1.87

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