genome.fa.s247.2.7.7.80.10.50.1000.21.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  21  of  29  ( 3470 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)
3205901--3206182	152	1.9	150	87	4	415	24	19	28	27	1.99
3205840--3206879	209	4.9	208	78	13	887	24	20	28	26	1.99
3206051--3206236	55	3.3	55	83	6	232	23	20	27	27	1.99
3206099--3206366	149	1.8	148	89	2	421	27	19	27	25	1.99
3206258--3206500	55	4.3	55	86	8	319	22	21	28	27	1.99
3206258--3206481	115	1.9	115	91	2	369	23	20	29	27	1.99
3205726--3206999	264	4.7	264	80	12	1223	24	20	28	26	1.99
3206374--3206819	154	2.9	148	79	13	396	23	21	28	27	1.99
3206520--3207002	55	8.5	55	85	6	537	23	20	28	27	1.99
3206514--3207002	165	2.8	164	84	10	615	23	20	28	27	1.99
3213311--3213335	13	1.9	13	100	0	50	36	16	16	32	1.90
3213291--3213357	33	2.0	33	88	0	98	32	11	14	40	1.83
3213398--3213422	13	1.9	13	100	0	50	32	16	16	36	1.90
3213431--3213559	52	2.5	52	94	0	222	34	17	17	30	1.94
3216796--3217055	79	3.3	78	88	5	380	33	15	25	25	1.95
3217007--3217081	27	2.8	27	84	10	84	21	21	34	22	1.97
3218495--3218769	35	7.9	35	98	0	532	20	31	5	42	1.75
3218504--3218744	21	13.5	20	62	32	104	19	31	5	43	1.75
3222519--3222658	29	4.9	29	76	10	144	32	18	7	40	1.79
3222518--3222650	57	2.3	56	80	10	153	33	19	7	39	1.80
3228171--3228203	17	2.0	16	94	5	57	30	18	9	42	1.81
3231209--3231267	24	2.5	23	81	8	73	11	1	5	81	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3231504--3231625	49	2.6	46	79	7	129	31	19	27	22	1.98
3231705--3232828	148	7.6	144	77	12	882	24	17	29	29	1.97
3231705--3232828	30	38.1	28	76	12	798	24	17	29	29	1.97
3231705--3232820	351	3.2	350	85	6	1327	24	17	29	29	1.97
3232557--3232848	29	10.0	28	79	5	116	26	16	28	28	1.97
3232816--3232885	34	2.1	34	83	5	88	40	12	27	20	1.88
3241347--3241388	19	2.2	20	83	12	52	19	11	0	69	1.19
3243105--3243499	156	2.5	154	83	4	477	28	13	18	39	1.88
3244109--3244176	25	2.8	24	84	10	84	55	7	8	27	1.57
3245199--3245319	40	3.0	40	76	7	120	54	13	14	17	1.71
3246544--3246617	30	2.6	28	72	17	71	13	5	2	78	1.03
3249274--3249633	155	2.3	155	78	10	385	39	20	14	26	1.90
3249774--3250347	165	3.5	163	81	4	584	40	13	13	32	1.83
3251102--3251143	22	2.0	21	86	13	61	47	0	9	42	1.36
3251066--3251349	155	1.8	154	81	5	351	47	8	10	33	1.67
3257835--3257879	18	2.4	18	85	10	56	55	26	2	15	1.52
3260082--3260125	20	2.1	22	91	8	74	29	9	20	40	1.83
3260180--3260205	13	2.0	13	100	0	52	30	15	15	38	1.88
3260160--3260230	19	4.0	18	72	25	53	26	12	21	39	1.89
3262759--3262784	13	2.0	13	100	0	52	38	15	15	30	1.88
3264852--3264881	15	2.0	15	93	0	51	13	20	16	50	1.78
3268833--3268876	20	2.1	22	91	8	74	29	9	20	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3268911--3268968	19	3.0	19	80	12	73	25	12	22	39	1.89
3271812--3271860	20	2.5	20	89	0	80	48	12	14	24	1.77
3271878--3271932	20	2.7	21	81	15	71	43	10	16	29	1.82
3271920--3271959	20	2.0	20	95	0	71	25	20	12	42	1.86
3272000--3272038	20	2.0	20	94	0	69	33	10	10	46	1.72
3277009--3277422	208	2.0	207	93	0	702	36	11	21	30	1.88
3278190--3278398	103	2.0	103	92	3	348	35	14	11	38	1.81
3278723--3278751	14	2.0	15	93	6	51	68	0	0	31	0.89
3279998--3280062	20	3.4	19	81	10	80	23	1	0	75	0.89
3280026--3280063	13	2.9	13	92	7	60	21	0	0	78	0.74
3280745--3280782	20	1.9	20	100	0	76	31	13	10	44	1.77
3284168--3284192	5	5.0	5	100	0	50	80	0	0	20	0.72
3285598--3285832	101	2.3	103	82	7	266	35	21	9	33	1.86
3292390--3292938	48	11.9	49	74	14	309	30	18	25	24	1.98
3292390--3292937	49	11.9	49	74	14	355	30	18	25	24	1.98
3292299--3292627	151	2.2	151	82	7	398	34	18	24	23	1.96
3292387--3292617	102	2.3	98	84	3	291	34	19	24	22	1.96
3292589--3292927	39	7.9	38	73	19	228	28	19	26	25	1.99
3292540--3292937	87	4.5	87	93	1	607	29	19	26	25	1.99
3292954--3293509	28	19.7	27	87	5	616	22	17	29	30	1.97
3292954--3293509	85	6.6	85	87	5	754	22	17	29	30	1.97
3292954--3293509	113	4.9	113	88	5	804	22	17	29	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3300177--3300250	19	3.8	19	80	10	78	37	12	17	32	1.87
3300281--3300306	13	2.0	13	100	0	52	30	15	15	38	1.88
3302663--3303058	52	7.6	51	70	11	228	30	25	11	32	1.92
3302785--3302855	28	2.6	27	82	8	81	22	32	18	26	1.97
3302838--3303058	51	4.3	51	79	2	210	30	24	12	32	1.92
3302674--3303168	262	1.9	262	86	0	713	28	26	12	31	1.93
3302993--3303199	107	1.9	108	82	4	258	28	28	13	30	1.94
3313127--3313152	13	2.0	13	100	0	52	38	15	15	30	1.88
3313847--3313912	15	4.0	16	72	12	62	24	22	16	36	1.94
3315342--3315385	22	2.0	22	86	13	63	34	0	6	59	1.24
3320415--3320453	21	1.9	20	84	5	51	38	7	2	51	1.44
3322568--3322626	26	2.3	26	82	2	66	42	3	5	49	1.41
3324978--3325022	16	2.8	16	82	0	54	46	2	4	46	1.35
3327565--3327732	62	2.7	61	81	8	189	43	7	2	47	1.43
3327860--3327906	20	2.4	20	75	3	51	65	8	0	25	1.20
3328400--3328453	25	2.3	23	78	12	56	42	1	1	53	1.22
3331743--3332034	112	2.9	96	77	13	253	29	11	18	40	1.86
3331779--3332135	112	3.1	112	91	2	545	29	12	18	39	1.87
3350680--3350849	86	2.0	86	97	0	322	22	19	22	35	1.96
3354410--3354468	17	3.6	17	75	15	61	3	16	1	77	0.98
3354421--3354470	25	2.0	25	84	0	64	4	20	2	74	1.08
3357598--3357686	27	3.5	26	76	17	98	16	4	38	40	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3357616--3357657	21	2.0	21	90	0	66	11	2	40	45	1.54
3357598--3357690	48	1.9	48	88	0	141	16	4	37	41	1.68
3357644--3357703	27	2.2	27	81	0	66	16	3	40	40	1.65
3366191--3366236	23	2.0	23	91	0	74	17	26	13	43	1.85
3371764--3371882	42	2.8	42	92	0	193	8	46	2	42	1.47
3371797--3371872	12	6.9	11	75	15	52	9	48	2	39	1.49
3371788--3371873	24	3.8	24	72	17	85	10	45	2	41	1.51
3371779--3371849	18	3.6	18	69	20	52	9	43	2	43	1.52
3374358--3374662	115	2.7	115	93	2	526	25	8	27	38	1.85
3375539--3375571	2	16.5	2	100	0	66	48	0	0	51	1.00
3377608--3377703	48	2.0	48	100	0	192	29	22	8	39	1.83
3392417--3392478	32	1.9	32	90	0	97	37	16	12	33	1.87
3393342--3393606	49	5.6	48	72	15	205	29	15	27	27	1.96
3393341--3393605	88	2.9	90	82	7	311	29	16	27	27	1.97
3393425--3393605	47	3.7	51	80	8	205	29	16	27	27	1.97
3393622--3393704	28	2.9	28	79	15	82	19	15	30	34	1.93
3395183--3395272	32	2.8	33	74	14	89	47	2	0	50	1.13
3396093--3396133	22	1.9	21	85	14	57	65	0	0	34	0.93
3396778--3396802	13	1.9	13	100	0	50	32	16	16	36	1.90
3403109--3403155	21	2.3	20	82	10	60	31	19	4	44	1.70
3405563--3405589	13	2.1	13	100	0	54	40	14	14	29	1.86
3406485--3406534	24	2.1	24	85	7	66	58	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3407606--3407635	2	15.0	2	100	0	60	50	0	0	50	1.00
3416495--3416543	23	2.2	22	78	10	55	75	4	18	2	1.06
3417694--3417719	2	13.0	2	100	0	52	50	0	0	50	1.00
3418405--3418436	14	2.1	16	88	11	50	56	6	6	31	1.49
3418480--3418755	151	1.8	152	89	3	441	39	4	10	45	1.59
3419271--3419305	16	2.2	16	90	5	54	74	0	17	8	1.06
3419591--3419637	16	3.0	15	84	9	58	19	19	2	59	1.48
3419742--3419769	2	14.0	2	100	0	56	50	0	0	50	1.00
3422612--3422948	76	4.4	76	78	3	354	27	22	13	36	1.92
3422760--3422817	28	2.2	25	85	11	80	18	25	17	37	1.93

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