genome.fa.s13.2.7.7.80.10.50.1000.12.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: Scaffold13
Parameters: 2 7 7 80 10 50 1000
Length:  2744999

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  12  of  15  ( 1714 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)
2296825--2296891	19	3.8	19	70	22	65	37	14	10	37	1.81
2296828--2296890	32	2.0	32	90	0	99	36	15	11	36	1.84
2304839--2304893	20	2.8	20	88	5	76	32	14	12	40	1.84
2320396--2320421	13	2.0	13	100	0	52	38	15	15	30	1.88
2320467--2320550	32	2.6	32	92	0	141	38	16	10	34	1.84
2320492--2320548	13	3.9	13	74	24	51	33	19	12	35	1.89
2321402--2321478	39	2.0	39	92	0	127	25	23	23	27	2.00
2321580--2321641	21	2.9	22	67	13	56	33	17	20	27	1.96
2321582--2321649	21	3.2	21	64	17	50	33	16	22	27	1.95
2321729--2322175	28	15.7	28	84	6	544	21	17	31	30	1.96
2321729--2322175	86	5.2	84	88	6	575	21	17	31	30	1.96
2321755--2322175	57	7.4	56	84	6	535	21	17	31	29	1.96
2324589--2324622	10	3.2	10	88	12	50	85	11	0	2	0.71
2325645--2325729	37	2.3	37	95	0	152	24	14	16	44	1.84
2326094--2326331	29	8.4	28	84	6	259	33	28	17	20	1.96
2326087--2326331	57	4.3	55	81	10	262	32	29	17	20	1.95
2326283--2326341	31	2.0	30	84	12	79	33	27	16	22	1.95
2326348--2326700	52	7.0	49	73	8	255	22	24	17	34	1.96
2327348--2327373	13	2.0	13	100	0	52	38	15	15	30	1.88
2335115--2335170	10	5.2	10	78	16	58	82	3	10	3	0.92
2336593--2336894	33	9.0	34	81	8	295	29	28	17	24	1.97
2336636--2336894	36	7.7	36	84	6	210	29	29	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2336593--2336894	69	4.5	68	78	12	297	29	28	17	24	1.97
2336917--2337047	58	2.2	59	86	1	174	23	25	16	34	1.95
2337021--2337797	53	14.8	52	71	7	390	26	22	14	36	1.93
2337043--2337388	105	3.3	104	73	7	304	27	22	13	36	1.91
2337414--2337687	105	2.6	104	85	2	345	28	20	14	36	1.92
2342409--2342482	21	3.6	21	78	7	62	41	12	16	29	1.84
2342507--2342563	20	2.8	21	86	2	80	40	10	15	33	1.82
2344938--2345335	79	5.0	78	78	9	344	28	25	10	35	1.90
2345001--2345338	158	2.1	158	82	6	418	29	25	10	34	1.89
2345289--2345359	28	2.5	28	81	4	90	29	28	14	28	1.95
2345228--2345432	107	1.9	105	83	6	261	28	20	12	37	1.90
2345134--2345483	186	1.9	187	82	5	449	29	23	10	36	1.89
2345631--2345759	59	2.2	59	94	1	224	27	19	6	46	1.74
2348760--2348793	3	11.3	3	87	0	50	26	2	0	70	1.01
2350319--2350404	23	3.7	23	76	14	72	0	27	0	72	0.85
2350339--2350410	4	19.0	4	71	23	50	0	26	0	73	0.83
2350347--2350410	17	4.4	14	81	14	69	0	26	0	73	0.84
2350312--2350413	46	2.2	46	83	13	122	0	25	0	74	0.82
2350308--2350410	54	1.9	54	84	7	138	0	25	0	74	0.82
2351506--2351630	47	2.6	47	83	1	151	30	34	21	13	1.92
2351597--2351737	56	2.5	56	85	1	192	37	35	19	7	1.79
2362827--2362865	13	3.0	13	92	0	51	35	17	12	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2363741--2364764	101	10.9	101	80	9	620	31	17	25	25	1.97
2363741--2364764	49	21.8	49	72	15	646	31	17	25	25	1.97
2364087--2364298	87	2.4	91	81	3	243	30	19	25	25	1.98
2364227--2364336	39	2.8	39	78	0	112	28	20	22	29	1.98
2364141--2364424	127	2.2	126	82	1	354	29	20	23	26	1.99
2364353--2364660	39	7.0	40	74	17	206	27	19	26	25	1.99
2364392--2364761	48	7.9	47	76	13	341	29	18	26	25	1.98
2364087--2364693	214	2.7	218	84	6	758	29	19	25	25	1.98
2364300--2364561	87	3.0	87	92	0	443	28	19	25	25	1.99
2364480--2364764	52	5.8	50	81	10	279	30	18	25	24	1.98
2364573--2364770	43	4.3	43	81	10	171	30	18	25	25	1.98
2364764--2365149	34	12.0	33	77	12	314	34	12	33	19	1.89
2364786--2365017	66	3.6	67	79	9	205	37	11	31	18	1.87
2364826--2365149	124	2.6	121	83	9	370	35	12	31	20	1.89
2365019--2365101	27	3.0	27	89	3	121	27	14	34	22	1.93
2365075--2366027	33	30.0	34	78	12	299	34	14	28	21	1.93
2365038--2365264	116	2.0	113	79	8	242	33	12	30	22	1.92
2365171--2366021	33	26.7	33	83	6	1021	34	15	28	22	1.94
2365171--2366019	128	6.6	126	86	4	1066	34	15	28	22	1.94
2365226--2366029	288	2.8	286	90	3	1222	34	14	28	21	1.93
2371470--2371881	42	9.7	43	86	1	548	13	31	19	35	1.91
2371854--2371908	27	2.0	27	85	3	74	12	30	18	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2371878--2372268	42	9.2	42	86	0	458	13	29	19	37	1.90
2371786--2371993	112	1.8	112	90	3	337	13	30	19	36	1.91
2371513--2372243	366	2.0	367	87	1	1056	13	30	19	36	1.90
2371878--2372260	127	3.0	125	86	2	541	13	29	19	37	1.90
2372725--2372756	14	2.2	15	94	5	57	78	3	6	12	1.06
2373398--2373527	47	2.8	46	80	6	147	29	32	20	17	1.96
2373654--2373695	20	2.0	20	86	9	57	38	40	16	4	1.70
2380175--2380343	87	1.9	89	86	6	245	42	9	8	39	1.67
2380801--2380845	17	2.6	17	96	3	81	42	0	0	57	0.98
2380804--2380851	17	2.9	16	90	3	51	41	2	0	56	1.11
2382799--2382852	28	1.9	28	96	0	99	38	11	20	29	1.87
2383797--2383854	28	2.2	26	84	6	71	68	0	12	18	1.19
2386801--2386845	18	2.6	18	89	3	65	31	0	0	68	0.89
2389568--2389668	5	19.8	5	74	21	70	36	0	0	63	0.95
2389568--2389668	22	4.7	22	78	16	104	36	0	0	63	0.95
2389574--2389665	7	12.6	7	69	13	51	35	0	0	64	0.94
2389568--2389673	43	2.5	41	79	13	115	36	0	0	62	1.02
2390426--2390474	14	3.5	14	83	8	64	38	2	0	59	1.09
2390426--2390468	19	2.3	19	80	11	54	37	2	0	60	1.10
2391406--2391450	21	2.1	21	84	8	56	28	0	4	66	1.11
2391439--2391474	19	1.9	19	94	5	65	41	0	0	58	0.98
2391412--2391475	18	3.4	18	76	20	60	35	0	1	62	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2396526--2396568	13	3.5	13	75	12	54	48	9	11	30	1.71
2396526--2396574	24	2.0	24	100	0	98	48	8	12	30	1.69
2396732--2396832	48	2.1	48	92	0	166	31	13	21	32	1.93
2403417--2403685	143	1.9	142	83	6	357	43	21	10	23	1.84
2403742--2403791	7	7.6	7	84	8	61	84	2	14	0	0.72
2403740--2403796	13	4.4	12	83	14	69	84	1	14	0	0.71
2403743--2403796	6	8.7	6	84	8	72	83	1	14	0	0.73
2404606--2404878	68	4.0	67	85	4	352	47	2	2	46	1.29
2404606--2404870	137	1.9	136	90	3	426	48	1	2	47	1.27
2405165--2405203	15	2.5	15	83	4	51	41	0	5	53	1.23
2405752--2405790	17	2.3	17	86	0	51	56	0	5	38	1.22
2406228--2406279	27	1.9	27	84	0	68	25	5	9	59	1.51
2406273--2406346	25	3.1	23	72	16	69	48	0	1	50	1.09
2406487--2406528	3	14.0	3	94	0	75	30	0	2	66	1.04
2406747--2406798	15	3.3	16	74	12	54	44	0	7	48	1.31
2406758--2406793	17	2.1	18	89	5	56	47	0	8	44	1.33
2407152--2407245	25	3.8	25	77	17	90	53	1	1	44	1.14
2407838--2407871	14	2.4	14	85	0	50	64	11	0	23	1.26
2407820--2407890	30	2.3	31	82	4	81	59	14	1	25	1.43
2408183--2408210	13	2.2	13	100	0	56	57	7	0	35	1.26
2409698--2409753	16	3.5	16	87	0	76	39	32	21	7	1.80
2410231--2410261	16	2.0	15	93	6	53	58	0	12	29	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2411180--2411221	16	2.6	16	81	7	50	38	30	21	9	1.85
2411826--2411851	11	2.4	11	100	0	52	50	0	0	50	1.00
2417296--2417344	22	2.1	24	88	7	75	61	0	0	38	0.96
2417299--2417356	22	2.6	22	79	15	59	62	0	0	37	0.96
2427167--2427208	2	21.0	2	100	0	84	50	0	50	0	1.00
2427625--2427665	2	21.0	2	95	5	75	0	48	0	51	1.00
2428862--2428894	10	3.3	10	84	16	50	18	0	0	81	0.68
2428866--2428905	16	2.3	18	91	8	66	20	0	0	80	0.72
2428862--2428902	20	2.1	19	90	4	64	19	0	0	80	0.71
2428859--2428905	24	2.0	24	91	8	78	21	0	0	78	0.75

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15