genome.fa.s228.2.7.7.80.10.50.1000.2.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: Scaffold109
Parameters: 2 7 7 80 10 50 1000
Length:  651366

Tables:   1   2   3   

This is table  2  of  3  ( 246 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)
307468--307888	94	4.7	93	76	13	439	28	26	9	34	1.88
307591--307938	170	2.0	172	97	1	664	33	24	7	35	1.83
307761--307888	47	2.7	47	92	0	202	27	26	9	36	1.87
311724--311797	29	2.6	29	93	0	121	28	32	14	24	1.95
311857--312071	40	5.4	40	91	0	349	27	26	20	25	1.99
311875--311941	23	3.2	23	64	24	65	28	26	19	25	1.99
313543--313725	46	4.0	46	91	0	276	24	31	8	34	1.86
313706--314076	47	7.9	47	94	1	575	25	29	10	34	1.90
316794--316917	39	3.2	39	85	0	167	29	29	18	21	1.97
320506--320757	27	9.3	27	83	1	299	28	23	7	40	1.82
320506--320757	81	3.1	81	87	2	355	28	23	7	40	1.82
320749--320891	27	5.3	26	70	12	85	37	21	11	29	1.89
320747--320888	54	2.7	53	79	6	153	37	21	11	28	1.89
320789--320901	27	4.2	26	76	6	91	41	20	7	30	1.81
320789--320901	54	2.1	54	83	0	136	41	20	7	30	1.81
320797--320976	27	6.6	27	72	9	87	40	18	9	31	1.82
320992--321093	27	3.8	27	70	10	73	37	18	20	23	1.94
321902--321984	25	3.4	24	85	8	96	27	22	24	25	2.00
322119--322210	42	2.2	42	96	0	166	31	14	20	33	1.92
322234--322379	31	4.7	31	92	0	240	28	15	26	30	1.96
323673--323737	15	4.4	15	76	16	64	9	12	13	64	1.49
323669--323737	30	2.3	31	80	14	83	8	11	17	62	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328882--328985	29	3.6	29	92	1	165	25	16	29	27	1.97
336838--336972	49	2.8	47	80	9	130	27	16	29	26	1.97
336836--336922	24	3.6	24	75	3	84	26	16	27	29	1.96
354334--354405	22	3.2	22	82	7	83	25	19	16	38	1.92
354326--354399	23	3.3	22	83	7	78	25	22	17	33	1.96
354594--354653	20	3.0	20	80	4	68	35	11	18	35	1.87
358009--358131	42	2.9	42	74	11	115	34	24	16	25	1.95
362773--362832	19	3.2	19	77	15	63	36	11	26	25	1.90
363780--363842	28	2.2	28	88	0	99	36	9	25	28	1.87
369740--369858	44	2.8	43	77	8	118	34	25	15	24	1.95
370264--370294	9	3.6	9	95	4	55	67	19	0	12	1.22
377242--377334	27	3.4	26	76	14	89	22	25	13	37	1.92
377230--377334	54	1.9	54	84	3	140	20	24	16	38	1.93
385008--385119	27	4.2	26	79	7	107	18	23	20	37	1.94
388961--389055	40	2.4	39	81	10	95	29	26	11	32	1.91
393642--393914	47	5.8	45	72	17	152	28	19	30	22	1.98
393642--393863	46	4.7	47	80	11	206	27	18	30	22	1.98
393647--393904	140	1.8	140	83	4	342	28	18	30	22	1.98
395929--396163	39	6.0	39	90	1	199	30	29	21	17	1.97
395960--396163	39	5.2	39	92	1	320	30	29	22	17	1.97
398740--398799	27	2.3	26	85	2	75	35	20	23	21	1.96
398843--398893	27	1.9	26	84	4	66	35	17	27	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411017--411075	29	2.0	29	90	0	91	27	25	8	38	1.84
416538--416754	47	4.6	45	77	14	203	28	17	29	23	1.97
416530--416753	94	2.4	93	86	6	299	28	18	29	23	1.98
419898--419987	40	2.3	38	82	3	99	34	26	18	20	1.96
423579--423689	57	1.9	58	90	1	179	27	29	19	22	1.98
423864--423932	34	2.0	34	94	0	120	34	33	24	7	1.83
429151--429309	44	3.7	43	79	7	189	31	27	18	22	1.97
429146--429310	86	1.9	85	86	6	235	32	27	18	21	1.96
429687--429901	70	3.1	70	91	0	340	37	16	13	32	1.88
442092--442236	47	3.1	47	87	4	206	33	11	28	26	1.91
442195--442341	50	3.0	50	92	3	235	38	8	23	29	1.84
444799--445440	318	2.0	318	94	0	1124	38	16	15	29	1.89
475380--475541	42	3.8	42	76	3	162	30	17	22	29	1.97
492598--492803	40	5.2	40	91	2	326	28	24	21	24	1.99
493801--493846	24	1.9	24	82	8	58	43	23	6	26	1.78
494698--494753	27	2.1	26	96	3	103	50	21	0	28	1.49
496768--496880	24	4.8	24	69	15	76	29	22	15	33	1.94
501377--501796	48	8.8	47	74	10	314	25	27	19	27	1.99
501374--501746	96	3.9	96	84	2	403	24	27	20	27	1.99
501377--501821	96	4.6	95	77	7	389	25	28	19	26	1.99
501375--501825	144	3.1	144	79	4	491	25	28	19	26	1.99
502672--502775	27	3.9	27	69	9	86	36	24	7	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502760--502900	27	5.2	27	86	2	185	35	17	20	26	1.94
503563--503636	27	2.7	27	85	4	87	18	22	20	37	1.94
503764--503832	25	2.7	25	81	2	84	18	17	14	49	1.80
507996--508161	40	4.2	40	87	2	228	25	27	22	24	2.00
507996--508199	40	5.2	40	84	4	218	26	27	22	24	1.99
516057--516242	39	4.7	40	84	7	229	25	27	22	24	2.00
516034--516242	78	2.7	80	82	6	277	25	27	22	24	2.00
516034--516237	39	5.2	40	84	4	220	25	27	22	24	1.99
522513--522698	38	4.9	38	80	12	188	26	26	19	26	1.99
522536--522698	38	4.3	39	85	11	207	26	26	20	25	1.99
522536--522698	74	2.2	75	84	9	208	26	26	20	25	1.99
523842--523952	53	2.1	54	93	5	190	24	21	9	45	1.80
530207--530309	41	2.6	40	89	9	165	28	29	18	24	1.98
530515--530706	43	4.7	40	86	7	235	26	21	27	25	1.99
537288--537409	56	2.2	57	96	1	228	45	9	22	22	1.80
538555--538813	120	2.2	120	81	7	287	25	21	27	25	1.99
538555--538780	40	5.7	40	86	6	289	24	22	27	25	2.00
541643--541683	17	2.4	18	92	8	68	41	31	9	17	1.82
547424--547608	40	4.6	39	80	6	185	25	21	27	25	2.00
547477--547641	79	2.1	79	80	8	176	27	20	26	25	1.99
549862--550014	40	3.9	38	84	6	180	30	25	23	20	1.99
554046--554137	42	2.2	42	82	5	105	31	22	18	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556987--557131	65	2.2	65	93	0	245	24	24	28	22	1.99
562867--562966	28	3.5	28	77	8	121	33	28	16	23	1.95
562867--562995	29	4.5	29	73	12	97	31	27	16	24	1.96
562839--563027	57	3.3	57	81	2	202	30	28	17	23	1.97
563033--563228	40	4.9	40	90	1	297	27	27	22	22	2.00
565466--565597	40	3.3	40	81	8	135	27	28	19	25	1.99
565494--565647	79	1.9	80	81	6	188	25	27	20	25	1.99
565494--565595	39	2.6	40	90	1	152	26	28	18	26	1.98
574578--574699	43	2.9	43	78	7	133	26	22	18	31	1.97
582740--582772	15	2.1	17	88	11	52	27	0	15	57	1.38
582837--582890	27	2.0	27	96	0	99	18	9	14	57	1.64
591319--591583	47	5.6	48	71	12	174	24	27	19	28	1.99
594427--594632	27	7.6	27	86	1	126	34	21	8	34	1.84
594438--594568	54	2.4	54	88	0	190	28	20	9	41	1.84
594546--594818	81	3.4	80	82	5	300	40	21	8	29	1.83
594560--594906	27	12.8	27	76	4	250	40	19	9	30	1.84
594937--595028	27	3.4	27	86	8	125	34	20	26	18	1.96
595827--595910	25	3.4	25	80	6	100	29	19	23	27	1.98
596116--596192	31	2.5	31	89	0	118	31	16	23	28	1.96
599981--600150	46	3.7	46	75	10	184	23	18	27	30	1.98
599975--600145	93	1.8	93	92	0	288	22	19	28	29	1.98
600375--600412	19	2.0	20	85	15	53	36	0	23	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603782--603822	19	2.2	19	100	0	82	39	14	26	19	1.90
604015--604054	21	1.9	21	85	10	55	30	12	10	47	1.74
606092--606279	49	3.8	49	83	5	252	29	26	18	26	1.98
606086--606280	100	2.0	100	95	0	354	29	27	18	25	1.98
606934--606993	30	2.0	30	87	6	86	28	26	8	36	1.85
613579--613658	27	2.9	27	83	5	90	40	15	10	35	1.80
613588--613677	27	3.3	27	85	3	110	40	15	10	34	1.81
613683--613893	27	7.8	27	85	0	242	29	23	7	39	1.82
613744--614023	54	5.2	54	80	2	168	35	20	7	36	1.81
613845--614101	27	9.4	27	77	5	151	39	18	7	34	1.79

Tables:   1   2   3