genome.fa.s446.2.7.7.80.10.50.1000.20.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: Scaffold446
Parameters: 2 7 7 80 10 50 1000
Length:  3567220

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  20  of  22  ( 2549 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)
3210238--3210423	79	2.4	79	77	3	194	33	12	25	27	1.93
3210275--3210426	79	1.9	79	84	0	205	34	13	25	27	1.93
3210360--3210476	51	2.3	51	90	0	189	29	11	29	29	1.91
3210492--3210606	50	2.3	50	84	4	151	29	7	28	33	1.85
3210307--3210687	130	2.9	129	83	3	487	32	11	26	29	1.91
3210544--3210935	79	5.0	80	81	5	422	32	12	25	29	1.93
3210544--3210935	159	2.5	158	86	2	529	32	12	25	29	1.93
3211772--3211839	36	1.9	36	91	8	113	30	26	10	32	1.90
3213918--3213984	28	2.4	28	85	5	82	37	11	17	32	1.87
3214103--3214141	13	3.0	13	84	0	60	38	15	12	33	1.85
3215373--3215431	21	2.8	21	82	14	77	20	27	1	50	1.57
3217009--3217094	36	2.6	31	80	12	91	31	23	15	30	1.95
3217533--3217587	20	2.8	20	91	0	83	36	9	14	40	1.78
3218495--3218579	31	2.8	30	85	3	116	25	25	15	32	1.95
3218495--3218592	30	3.2	30	84	2	124	24	24	17	33	1.96
3218607--3219365	62	12.4	62	88	2	957	24	24	20	31	1.98
3218606--3219354	122	6.1	121	85	5	870	24	24	20	31	1.98
3218607--3219359	364	2.1	364	88	3	1093	24	24	20	31	1.98
3219327--3219402	37	2.1	37	87	0	107	22	22	25	30	1.99
3219267--3219460	99	2.0	99	85	2	266	24	22	21	30	1.99
3219364--3219691	62	5.3	62	81	6	344	25	21	17	35	1.95
3219207--3219493	159	1.8	156	86	4	414	24	23	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3219145--3219574	219	2.0	219	87	4	634	23	23	20	31	1.98
3219523--3219714	61	3.1	60	74	8	156	26	19	17	36	1.94
3219698--3219731	17	2.0	17	88	0	50	14	14	20	50	1.78
3219639--3219792	78	2.0	78	87	2	220	22	19	20	37	1.94
3219715--3220211	62	8.1	62	85	2	630	24	21	20	33	1.97
3219364--3220203	183	4.5	184	79	8	771	25	21	19	34	1.96
3219364--3220210	123	6.8	121	77	11	694	25	21	19	34	1.96
3220198--3220418	44	5.1	44	79	5	193	20	26	11	40	1.87
3220198--3220548	43	8.4	43	75	8	260	20	24	12	41	1.87
3220398--3220475	35	2.2	36	86	2	104	19	24	10	46	1.81
3220315--3220578	120	2.2	119	79	5	282	20	23	12	43	1.85
3221573--3221619	23	2.0	23	100	0	94	40	21	12	25	1.89
3223827--3224266	79	5.6	77	77	8	370	27	23	12	35	1.92
3223827--3224266	157	2.8	157	80	4	469	27	23	12	35	1.92
3223827--3224262	236	1.8	236	81	5	533	27	23	12	35	1.92
3224125--3224367	130	1.9	130	82	10	309	28	25	10	35	1.89
3224204--3224320	51	2.3	51	80	5	139	29	29	9	32	1.88
3230539--3230638	29	3.4	29	66	10	87	30	21	22	27	1.98
3234667--3234721	20	2.8	20	94	0	83	36	20	14	29	1.92
3234750--3234805	21	2.8	20	94	5	103	32	19	14	33	1.92
3235371--3235431	30	1.9	31	87	9	88	36	22	3	37	1.71
3236736--3236762	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3240610--3240683	20	3.7	20	80	7	78	27	13	20	39	1.90
3241234--3241265	16	2.0	16	93	0	55	40	18	6	34	1.76
3243121--3243145	13	1.9	13	100	0	50	36	16	16	32	1.90
3243342--3243381	8	4.9	8	96	3	71	62	25	0	12	1.30
3249417--3249471	20	2.7	21	80	8	69	25	14	20	40	1.90
3249460--3249498	20	2.1	18	90	9	60	25	10	23	41	1.86
3250491--3250550	20	3.0	20	78	7	77	35	18	13	33	1.89
3250491--3250546	19	2.8	20	86	2	78	35	17	14	32	1.90
3250531--3250557	13	2.1	13	100	0	54	40	14	14	29	1.86
3254888--3254955	19	3.9	19	78	21	85	35	11	14	38	1.83
3254890--3254952	32	2.0	32	96	0	117	34	12	15	36	1.86
3254909--3254933	13	1.9	13	100	0	50	36	16	16	32	1.90
3254995--3255020	13	2.0	13	100	0	52	30	15	15	38	1.88
3254975--3255041	33	2.0	33	88	0	98	25	14	16	43	1.86
3257466--3257534	27	2.5	27	88	2	93	24	31	21	21	1.98
3257411--3257804	107	3.7	105	72	11	307	27	28	14	29	1.95
3257521--3257690	52	3.3	53	78	11	181	28	25	13	32	1.94
3257353--3257689	104	3.2	103	69	13	272	29	26	12	31	1.93
3257679--3257750	28	2.6	28	86	4	92	20	36	20	22	1.96
3257351--3257757	212	1.9	212	87	3	604	28	27	13	30	1.94
3261931--3262007	20	3.8	20	83	6	93	40	12	14	32	1.84
3262927--3265667	28	95.9	28	81	5	2777	23	17	30	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3264314--3264389	14	5.4	14	68	12	57	17	14	36	31	1.90
3265587--3265715	27	4.7	27	90	3	179	30	15	29	24	1.96
3265541--3265749	82	2.5	85	83	5	255	31	14	28	25	1.95
3265541--3265746	55	3.7	55	80	8	211	30	15	28	25	1.95
3265242--3265749	228	2.2	228	81	2	520	26	17	29	26	1.97
3266993--3267065	35	2.1	35	82	12	87	6	10	9	72	1.27
3267360--3267416	28	2.0	28	100	0	114	38	7	31	22	1.81
3276077--3276433	156	2.3	156	80	3	380	40	20	14	24	1.89
3276372--3276557	100	1.9	100	98	0	363	36	20	13	29	1.92
3278114--3278173	25	2.4	25	100	0	120	0	21	20	58	1.40
3278374--3278403	15	1.9	16	93	6	53	0	16	20	63	1.31
3278516--3278540	10	2.5	10	100	0	50	0	0	8	92	0.40
3278532--3278572	19	2.2	19	86	8	57	21	0	12	65	1.25
3278663--3278719	14	4.2	13	79	14	62	68	0	1	29	1.00
3278849--3278880	17	1.9	16	93	6	55	81	3	3	12	0.93
3280179--3280661	31	15.1	31	73	9	299	24	20	25	29	1.99
3280253--3280826	31	17.2	35	72	12	238	24	19	26	30	1.98
3280636--3280847	37	5.9	37	78	6	204	25	15	25	33	1.95
3280636--3280842	74	2.9	74	81	8	237	23	15	26	34	1.95
3280999--3281110	55	2.0	55	82	0	134	31	9	25	33	1.88
3282127--3282158	15	2.1	15	94	0	55	40	9	34	15	1.80
3287132--3287197	33	2.0	33	85	5	89	39	13	15	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3287228--3287281	21	2.7	19	80	5	63	35	16	11	37	1.84
3291430--3291479	26	2.0	26	92	4	84	34	18	26	22	1.96
3291546--3291606	27	2.3	27	97	0	113	22	19	31	26	1.98
3292106--3292274	87	1.9	87	92	2	286	24	15	13	46	1.81
3296390--3296599	32	6.5	32	80	3	188	22	15	29	32	1.95
3296411--3296616	64	3.1	63	81	5	223	24	16	28	30	1.97
3296443--3296638	65	3.0	64	79	12	200	23	16	28	31	1.96
3296910--3296967	14	4.3	13	80	6	53	37	18	10	32	1.85
3300706--3300762	19	2.9	19	86	2	78	31	15	15	36	1.90
3300708--3300844	20	6.8	20	70	14	77	31	18	16	33	1.93
3302436--3302469	3	11.3	3	87	0	50	38	0	32	29	1.58
3311424--3313398	475	4.2	476	83	4	2362	36	13	17	31	1.90
3314167--3314826	159	4.2	158	70	9	426	37	13	17	31	1.88
3314035--3314994	476	2.0	476	87	2	1390	37	13	17	31	1.89
3314242--3314938	159	4.4	158	69	10	468	37	14	17	31	1.90
3314930--3315065	69	2.0	69	95	0	245	34	5	20	38	1.77
3316132--3318371	476	4.7	476	85	2	2924	37	13	17	31	1.89
3316259--3318346	159	13.2	158	67	7	800	37	13	17	31	1.89
3316132--3318371	947	2.4	951	90	1	3544	37	13	17	31	1.89
3320786--3322844	475	4.3	474	85	3	2636	36	14	17	31	1.90
3322917--3323025	55	2.0	55	100	0	218	47	7	21	23	1.75
3323727--3323766	13	3.1	13	81	0	53	35	12	15	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3323894--3323945	21	2.4	22	84	9	63	44	13	7	34	1.72
3330662--3330686	12	2.1	12	100	0	50	24	36	0	40	1.55
3332340--3332393	19	2.8	20	88	2	74	37	14	16	31	1.89
3332704--3334190	475	3.1	473	84	3	1883	36	14	18	30	1.91
3334192--3342279	476	17.1	476	81	3	8892	36	14	18	31	1.90
3334540--3335715	158	7.4	157	67	14	490	36	14	18	30	1.91
3342165--3342421	142	1.8	142	85	1	363	33	14	20	31	1.93
3341683--3342896	618	2.0	617	86	1	1682	35	14	18	31	1.91
3342299--3345606	475	7.0	474	81	3	3622	36	13	18	31	1.89
3345604--3349261	476	7.7	475	80	4	3816	36	13	18	31	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22