genome.fa.s18.2.7.7.80.10.50.1000.20.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: Scaffold18
Parameters: 2 7 7 80 10 50 1000
Length:  4432388

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   

This is table  20  of  27  ( 3197 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)
3221630--3222082	64	7.4	63	78	11	269	29	26	17	26	1.97
3223108--3223221	51	2.3	50	86	3	158	29	16	8	44	1.78
3227280--3227324	22	2.0	22	83	8	56	8	15	2	73	1.18
3227455--3227508	14	3.9	14	75	17	51	59	1	7	31	1.36
3227712--3228253	157	3.4	157	74	11	424	47	10	11	30	1.72
3227775--3228253	157	3.0	162	75	12	444	48	10	10	30	1.71
3227636--3228377	164	4.6	162	73	12	367	48	9	11	30	1.71
3230272--3230389	58	2.1	57	90	4	184	22	23	15	38	1.92
3234678--3234723	16	2.8	16	86	3	65	21	8	19	50	1.75
3234673--3234765	16	5.8	16	71	11	64	22	7	18	51	1.71
3234673--3234765	48	1.9	49	84	6	127	22	7	18	51	1.71
3235698--3235755	29	2.0	29	93	0	98	41	0	5	53	1.23
3235703--3235765	29	2.2	29	85	2	83	44	1	3	50	1.27
3238011--3238238	120	1.9	119	83	2	296	33	17	19	28	1.95
3241342--3241402	27	2.3	27	97	0	113	44	18	13	24	1.85
3242097--3242122	2	13.0	2	100	0	52	50	0	0	50	1.00
3246493--3247574	360	3.0	359	96	0	1966	37	19	9	33	1.84
3250401--3250454	19	2.7	21	82	5	76	40	12	14	31	1.84
3250483--3250632	20	7.7	20	67	23	77	32	14	13	40	1.85
3250505--3250565	13	5.2	13	74	22	62	31	13	14	40	1.84
3250485--3250560	33	2.3	33	97	0	143	31	14	13	40	1.84
3251461--3251506	21	2.2	20	85	7	65	21	17	17	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3254943--3255000	9	6.1	9	78	9	62	1	18	0	79	0.82
3254936--3254994	29	2.1	29	84	9	79	5	18	0	76	0.97
3254951--3255004	19	2.8	20	83	5	67	1	22	0	75	0.89
3254973--3255004	16	2.0	16	93	0	55	0	28	0	71	0.86
3255659--3255687	11	2.6	11	100	0	58	0	0	6	93	0.36
3256176--3256824	86	7.5	86	86	5	771	22	16	30	30	1.96
3256176--3256822	58	11.2	57	81	7	711	22	16	30	30	1.96
3256176--3256830	28	22.8	28	83	6	650	23	16	30	29	1.96
3257643--3257669	13	2.1	13	100	0	54	40	14	14	29	1.86
3257713--3257773	21	3.0	21	85	7	81	40	9	19	29	1.84
3257717--3257773	20	2.8	19	80	19	71	40	10	17	31	1.84
3257839--3259288	729	2.0	730	91	3	2355	32	23	16	27	1.96
3260868--3261202	52	6.4	53	68	12	199	30	26	10	31	1.90
3260979--3261050	28	2.6	28	82	4	74	23	33	18	25	1.97
3260865--3261312	211	2.1	211	93	0	754	29	28	11	30	1.92
3261217--3261419	79	2.6	79	80	3	212	24	31	15	28	1.96
3263493--3263525	4	8.2	4	93	0	57	24	0	3	72	0.98
3273836--3273878	10	4.2	10	83	13	52	88	4	6	0	0.63
3274859--3275023	55	3.0	54	89	6	244	27	27	21	23	1.99
3275038--3275566	55	9.4	54	84	7	621	26	26	22	24	2.00
3274892--3275332	149	2.9	149	83	8	465	27	28	21	22	1.99
3276017--3276042	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3278262--3278306	21	2.1	21	84	8	56	53	4	20	22	1.63
3280109--3280139	15	2.1	15	93	0	53	48	16	22	12	1.80
3283406--3283457	13	4.0	13	100	0	104	38	15	15	30	1.88
3283916--3284238	55	5.7	55	83	10	366	25	26	22	25	2.00
3283916--3284241	110	2.8	111	84	10	408	24	26	23	25	2.00
3284689--3284714	13	2.0	13	100	0	52	38	15	15	30	1.88
3285450--3285553	40	2.5	41	78	7	113	22	26	14	36	1.92
3286224--3286296	32	2.3	32	87	0	110	36	12	15	35	1.84
3286320--3286345	13	2.0	13	100	0	52	30	15	15	38	1.88
3288598--3288911	52	6.0	52	69	14	180	28	26	11	33	1.92
3288684--3288758	28	2.7	28	85	4	89	24	33	18	24	1.97
3288899--3288971	28	2.6	28	86	0	92	23	34	20	21	1.97
3288602--3289018	211	2.0	211	94	1	739	28	26	12	32	1.93
3288674--3289050	107	3.6	107	72	10	376	26	27	14	31	1.95
3288925--3289106	79	2.3	79	83	1	222	24	29	15	30	1.96
3290819--3290863	19	2.3	20	88	3	65	4	2	13	80	0.97
3296485--3297675	594	2.0	594	96	0	2195	22	16	25	35	1.94
3298565--3298589	13	1.9	13	100	0	50	32	16	16	36	1.90
3298598--3298726	52	2.5	52	96	0	240	34	18	19	27	1.95
3310457--3310572	51	2.3	51	85	5	146	34	12	25	26	1.92
3310510--3310791	79	3.6	77	80	6	307	34	11	25	28	1.91
3313200--3313275	21	3.8	20	72	8	73	42	11	14	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3313201--3313278	40	1.9	42	89	5	124	39	11	14	34	1.82
3314516--3314540	13	1.9	13	100	0	50	36	16	16	32	1.90
3315096--3315140	22	2.0	22	91	8	74	35	26	2	35	1.69
3317000--3317037	13	2.9	13	96	0	67	34	18	15	31	1.92
3318658--3318715	13	4.0	13	74	23	53	34	15	15	34	1.89
3318787--3318915	52	2.5	52	90	0	213	35	16	17	30	1.92
3324905--3325757	429	2.0	429	98	0	1661	31	20	19	28	1.97
3333243--3333268	13	2.0	13	100	0	52	30	15	15	38	1.88
3333328--3333400	20	3.6	20	81	3	101	31	19	13	35	1.91
3333307--3333400	41	2.3	41	96	0	170	30	18	12	38	1.88
3333307--3333382	21	3.7	21	78	3	91	30	17	11	40	1.85
3338643--3338668	13	2.0	13	100	0	52	30	15	15	38	1.88
3338728--3338800	20	3.6	20	81	3	101	31	19	13	35	1.91
3338707--3338800	41	2.3	41	96	0	170	30	18	12	38	1.88
3338707--3338782	21	3.7	21	78	3	91	30	17	11	40	1.85
3342310--3342336	13	2.1	13	100	0	54	40	14	14	29	1.86
3342291--3342357	33	2.0	34	94	2	118	35	11	14	37	1.84
3342377--3342443	33	2.0	33	88	0	98	40	13	11	34	1.81
3342399--3342423	13	1.9	13	100	0	50	32	16	16	36	1.90
3348100--3348211	19	5.8	19	72	20	90	83	12	2	1	0.84
3348103--3348220	31	3.8	30	82	11	125	83	11	2	2	0.86
3348102--3348211	34	3.4	31	81	15	125	83	11	2	1	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3348102--3348214	33	3.4	32	80	13	122	83	12	2	1	0.84
3348102--3348208	17	6.3	17	72	16	87	84	11	2	1	0.82
3348102--3348208	1	107.0	1	67	0	61	84	11	2	1	0.82
3349661--3349962	27	10.8	27	85	7	363	34	31	16	18	1.93
3349661--3349962	85	3.6	82	84	7	385	34	31	16	18	1.93
3349661--3349962	112	2.7	112	92	2	500	34	31	16	18	1.93
3349943--3350010	33	2.1	32	86	2	91	19	33	16	30	1.93
3349943--3350032	32	2.8	33	81	5	94	18	33	15	32	1.93
3350064--3350144	35	2.4	33	76	15	92	19	25	12	41	1.87
3350225--3350442	49	4.4	49	82	2	256	24	26	18	30	1.98
3356708--3356733	13	2.0	13	100	0	52	30	15	15	38	1.88
3357388--3357511	38	3.3	38	100	0	248	32	26	7	33	1.84
3357356--3357511	76	2.0	78	90	4	246	35	24	6	33	1.81
3357516--3357559	21	2.1	21	83	8	54	27	31	2	38	1.69
3360369--3360399	15	2.1	15	93	0	53	12	22	16	48	1.80
3364355--3364380	13	2.0	13	100	0	52	30	15	15	38	1.88
3367723--3367775	20	2.6	21	82	8	65	30	16	15	37	1.90
3367763--3367787	13	1.9	13	100	0	50	36	16	16	32	1.90
3368108--3368207	34	3.0	34	89	1	148	38	16	13	33	1.86
3372286--3372340	28	2.0	28	89	7	85	36	5	1	56	1.33
3374267--3374777	156	3.3	157	76	8	411	38	19	17	24	1.92
3378790--3378897	54	2.0	54	98	0	207	39	16	19	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3378947--3378985	20	1.9	21	89	5	62	33	15	12	38	1.85
3385134--3385189	19	2.9	19	86	2	76	32	14	21	32	1.93
3386503--3386545	23	1.9	23	90	4	70	4	16	20	58	1.56
3387023--3387090	25	2.7	25	83	0	73	10	27	14	47	1.77
3387049--3387110	25	2.5	25	89	0	88	6	27	20	45	1.76
3387569--3387606	19	2.0	19	94	0	67	15	18	21	44	1.86
3387858--3387896	16	2.4	16	95	0	69	12	2	5	79	1.00
3387846--3387959	14	7.7	14	74	14	79	17	0	5	76	1.02
3387853--3387943	16	5.5	16	73	18	55	14	1	6	78	1.01
3389148--3389197	20	2.5	20	86	0	64	36	22	14	28	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