genome.fa.s138.2.7.7.80.10.50.1000.2.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: Scaffold138
Parameters: 2 7 7 80 10 50 1000
Length:  1735418

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  2  of  11  ( 1296 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)
183676--183716	15	2.7	15	82	14	57	48	0	4	46	1.23
183714--183767	23	2.4	23	75	9	58	44	1	0	53	1.11
184155--184200	22	2.1	22	87	0	65	36	4	6	52	1.47
186036--186120	34	2.5	33	92	3	143	43	27	5	23	1.76
190529--190746	34	6.4	34	85	2	251	41	24	7	27	1.81
190529--190746	102	2.1	102	85	2	287	41	24	7	27	1.81
191465--191510	23	2.0	23	91	0	74	32	6	15	45	1.71
192941--192994	17	3.0	19	76	13	60	59	0	0	40	0.98
200928--200966	20	2.0	20	94	0	69	12	38	12	35	1.82
208167--208199	16	2.1	16	100	0	66	33	18	12	36	1.88
209177--209223	2	23.5	2	82	8	60	48	0	2	48	1.13
209257--209284	2	14.0	2	100	0	56	50	0	0	50	1.00
213427--213478	13	3.5	13	73	26	50	36	17	13	32	1.89
213435--213499	19	3.7	19	73	23	70	40	16	10	32	1.84
213427--213497	32	2.2	32	94	0	124	38	18	11	32	1.86
215394--215448	26	2.1	26	93	0	92	29	14	12	43	1.82
218485--218522	2	19.0	2	94	0	67	47	0	2	50	1.15
224116--224180	27	2.4	28	82	15	82	26	7	21	44	1.79
226205--226262	15	3.7	16	73	19	59	46	0	1	51	1.11
226970--227033	4	16.0	4	93	0	74	40	0	9	50	1.35
226980--227033	24	2.2	24	100	0	108	38	0	11	50	1.38
230215--230309	19	4.9	19	81	12	113	34	18	13	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
230215--230306	39	2.4	39	94	0	157	34	19	13	32	1.90
234120--234145	13	2.0	13	100	0	52	38	15	15	30	1.88
234098--234165	33	2.1	33	86	2	93	33	13	16	36	1.87
234197--234249	20	2.6	21	84	3	72	28	16	15	39	1.89
234251--234301	20	2.5	20	83	0	57	33	11	15	39	1.84
234817--234869	21	2.5	21	93	0	88	24	39	1	33	1.66
236726--236750	13	1.9	13	100	0	50	36	16	16	32	1.90
242920--242987	33	2.1	32	88	2	100	33	14	16	35	1.89
242942--242967	13	2.0	13	100	0	52	38	15	15	30	1.88
243019--243071	20	2.6	21	84	3	72	28	16	15	39	1.89
243059--243087	13	2.2	13	100	0	58	37	13	17	31	1.89
243073--243123	20	2.5	20	87	0	66	33	15	15	35	1.90
249120--249187	34	2.0	34	85	0	91	36	17	4	41	1.70
251049--251084	17	2.2	16	90	5	54	50	0	0	50	1.00
251061--251151	22	4.0	24	76	11	75	51	1	1	46	1.15
251061--251141	22	3.6	23	78	9	78	51	1	1	45	1.16
251049--251188	23	5.9	23	67	17	72	49	2	0	47	1.18
251663--251718	26	2.1	28	83	6	71	48	0	1	50	1.11
251681--251723	17	2.4	18	84	7	61	41	0	0	58	0.98
251721--251793	24	3.0	25	90	8	114	45	0	2	52	1.15
252664--252725	19	3.5	17	81	16	72	43	0	0	56	0.99
252668--252704	17	2.2	17	95	4	67	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
252667--252726	20	3.2	20	84	15	76	41	0	0	58	0.98
252869--252913	14	3.0	14	76	17	54	55	0	0	44	0.99
252866--252931	17	4.0	16	76	16	64	53	0	0	46	1.00
252883--252938	18	3.1	18	78	17	53	53	0	0	46	1.00
258309--258341	2	16.5	2	100	0	66	48	0	0	51	1.00
263154--263193	2	20.0	2	100	0	80	50	0	0	50	1.00
264491--264520	2	15.0	2	92	0	51	46	0	0	53	1.00
265030--265065	17	2.1	18	94	5	65	27	11	8	52	1.65
265084--265159	23	3.0	23	71	21	64	56	0	2	40	1.13
267032--267060	14	2.0	15	93	6	51	20	34	6	37	1.80
275192--275253	30	2.1	29	84	6	79	46	1	3	48	1.28
275259--275301	14	2.9	15	82	6	61	37	0	0	62	0.95
275328--275382	20	2.8	20	75	13	60	52	1	7	38	1.40
275675--275736	31	2.0	32	83	3	81	30	0	0	69	0.89
275708--275740	10	3.3	10	88	12	50	30	0	0	69	0.88
275694--275745	21	2.5	22	81	6	54	28	0	0	71	0.87
275708--275746	20	2.0	20	85	10	53	33	0	0	66	0.92
276248--276286	18	2.2	18	100	0	78	41	10	0	48	1.37
276277--276312	2	18.0	2	100	0	72	50	0	0	50	1.00
277910--277944	18	1.9	18	88	0	52	80	5	0	14	0.89
283993--284041	18	2.5	21	81	15	61	30	2	4	63	1.24
284106--284130	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
297922--298435	269	1.9	270	91	2	847	33	13	14	38	1.85
305398--305424	2	13.5	2	100	0	54	51	0	0	48	1.00
306616--306674	28	2.1	28	84	12	77	66	0	1	32	1.02
307012--307089	32	2.3	32	85	12	95	56	1	0	42	1.07
307072--307110	20	2.0	19	85	5	51	61	0	0	38	0.96
307080--307113	16	2.1	16	89	10	52	61	0	0	38	0.96
314053--314086	16	2.2	16	89	5	52	38	0	0	61	0.96
315346--315462	55	2.1	55	81	10	132	20	12	23	43	1.86
323506--323543	3	12.7	3	100	0	76	65	0	0	34	0.93
325648--326204	47	11.5	50	70	18	252	51	5	3	39	1.41
325706--325844	51	2.8	48	83	10	145	49	2	2	45	1.29
325749--326204	98	4.7	97	79	8	455	51	5	3	39	1.43
325749--326204	196	2.3	197	81	7	511	51	5	3	39	1.43
325802--326191	144	2.7	140	77	12	326	51	6	3	38	1.45
326040--326144	54	2.0	53	86	5	149	54	8	3	33	1.49
328038--328095	22	2.8	20	85	10	80	43	3	1	51	1.28
328102--328147	20	2.2	22	77	18	53	54	6	8	30	1.56
328437--328480	19	2.2	21	88	8	65	52	0	0	47	1.00
328428--328592	46	3.2	46	68	23	141	48	1	1	47	1.23
328545--328588	19	2.2	21	88	8	65	52	0	0	47	1.00
328386--328604	108	2.0	109	98	1	422	48	2	2	45	1.31
328587--328815	102	2.2	100	86	6	300	40	0	4	55	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328718--328754	16	2.4	16	90	4	58	35	0	0	64	0.94
329092--329130	14	2.9	14	85	11	55	64	0	0	35	0.94
329110--329152	23	2.0	21	86	9	59	62	2	0	34	1.08
329087--329141	18	3.2	17	78	14	60	63	0	0	36	0.95
329139--329247	57	1.9	57	90	0	173	47	2	0	48	1.22
329196--329244	22	2.3	20	80	16	55	53	0	0	46	1.00
329203--329245	22	1.9	23	90	4	70	53	0	0	46	1.00
336683--336726	15	2.9	15	86	0	70	22	47	11	18	1.80
337180--337423	75	3.3	75	88	0	353	31	8	20	39	1.82
338223--338325	43	2.3	45	75	11	106	33	0	3	63	1.13
340563--340626	27	2.5	26	80	9	69	71	4	0	23	1.04
340573--340638	27	2.5	25	83	11	78	74	3	0	22	0.96
340576--340636	15	4.2	14	73	26	56	72	3	0	24	1.00
341704--341733	15	2.0	15	93	0	51	26	0	23	50	1.50
346627--346664	15	2.5	15	82	0	58	23	50	10	15	1.75
346767--346825	27	2.2	27	90	0	91	27	38	3	30	1.73
349367--349618	127	2.0	127	96	0	459	31	12	28	28	1.93
355079--355153	32	2.3	33	77	8	84	20	29	25	25	1.99
356912--356958	22	2.0	24	84	12	62	23	6	4	65	1.33
360490--360554	33	2.0	33	84	6	87	35	13	18	32	1.90
369181--369206	13	2.0	13	100	0	52	38	15	7	38	1.76
376465--376489	12	2.1	12	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376566--376684	14	8.5	15	70	26	100	24	21	6	47	1.74
376557--376690	58	2.3	58	100	0	268	23	20	7	47	1.75
376612--376765	44	3.5	44	79	11	206	25	20	7	46	1.77
376713--376759	11	3.5	15	67	27	50	25	21	6	46	1.74
376557--376738	14	13.5	14	69	23	99	25	21	7	45	1.78
376728--376793	29	2.2	30	84	10	82	28	22	9	39	1.85
376669--376825	75	2.1	73	88	9	237	29	20	7	42	1.79
377222--377264	22	2.0	22	86	9	61	20	37	20	20	1.95
377427--377481	22	2.5	22	82	5	58	23	43	14	18	1.87
377503--377551	22	2.2	22	92	0	80	32	40	10	16	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11