genome.fa.s223.2.7.7.80.10.50.1000.2.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  2  of  26  ( 3021 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)
177283--177331	15	3.3	14	80	11	53	57	0	4	38	1.18
177599--177644	24	1.9	24	100	0	92	26	4	19	50	1.66
180114--180159	23	2.0	23	100	0	92	21	21	26	30	1.99
184126--184158	2	16.5	2	100	0	66	48	0	0	51	1.00
185205--185256	2	25.0	2	85	14	70	48	5	0	46	1.26
187744--187781	20	1.9	20	94	0	67	63	0	2	34	1.09
188632--188656	2	12.5	2	100	0	50	52	0	0	48	1.00
189206--189239	2	17.0	2	100	0	68	50	0	0	50	1.00
189752--189788	2	18.5	2	94	0	65	51	0	2	45	1.15
195379--195643	129	2.1	129	98	0	512	45	15	15	23	1.85
197126--197211	42	2.0	42	93	0	145	12	48	12	25	1.77
199532--199561	2	15.0	2	92	0	51	46	0	3	50	1.18
199803--199918	58	2.0	59	86	3	162	37	13	18	30	1.90
204941--204977	2	18.5	2	94	0	65	48	0	0	51	1.00
206672--206781	25	4.5	24	71	20	84	58	0	0	41	0.98
206695--206761	16	4.2	17	75	11	70	55	0	0	44	0.99
208822--208854	3	11.0	3	100	0	66	66	0	0	33	0.92
210977--211010	6	5.8	6	86	6	52	32	47	0	20	1.51
212125--212153	2	15.0	2	92	7	51	48	0	51	0	1.00
212981--213017	2	18.5	2	100	0	74	51	0	0	48	1.00
214048--214074	2	13.5	2	100	0	54	48	51	0	0	1.00
224958--224995	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
224995--225022	2	14.0	2	100	0	56	50	0	50	0	1.00
229348--229404	23	2.5	24	88	8	91	40	17	19	22	1.91
230069--230143	34	2.2	35	83	7	100	26	30	12	30	1.92
232007--232073	34	2.0	34	91	5	109	25	14	16	43	1.86
241331--241361	15	2.1	15	93	0	53	19	3	32	45	1.66
241442--241466	1	25.0	1	100	0	50	100	0	0	0	0.00
242282--242551	50	5.4	50	80	4	224	31	16	17	35	1.92
242313--242551	100	2.4	99	80	4	259	32	17	17	32	1.94
243788--243829	21	2.0	21	100	0	84	38	14	23	23	1.92
246929--247141	50	4.3	50	89	2	311	30	18	17	33	1.94
254097--254141	17	2.7	17	83	12	58	33	0	2	64	1.06
254106--254166	10	6.8	9	76	12	54	29	0	3	67	1.07
256832--256861	2	15.0	2	92	0	51	46	0	3	50	1.18
256964--257027	29	2.2	29	85	0	83	54	4	6	34	1.46
260335--260365	2	15.5	2	93	0	53	3	48	0	48	1.17
269414--269457	23	2.0	21	86	8	61	59	2	0	38	1.10
270235--270276	17	2.6	16	81	7	57	57	0	0	42	0.99
276710--276742	2	16.5	2	100	0	66	51	0	48	0	1.00
278643--278673	2	15.5	2	100	0	62	51	0	48	0	1.00
279273--279306	2	17.0	2	100	0	68	50	0	50	0	1.00
281412--281440	14	2.0	15	93	6	51	0	17	0	82	0.66
285085--285126	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286680--286706	3	9.0	3	100	0	54	66	0	0	33	0.92
297024--297070	14	3.4	14	81	0	67	36	0	0	63	0.94
297315--297364	14	3.5	14	76	12	57	66	4	0	30	1.10
298405--298431	2	13.5	2	100	0	54	48	0	0	51	1.00
298499--298529	2	16.0	2	93	6	55	51	0	0	48	1.00
298788--298833	20	2.3	21	81	11	60	63	2	2	32	1.19
298873--298938	29	2.3	28	82	10	71	66	4	4	24	1.29
303499--303525	12	2.2	12	100	0	54	37	22	18	22	1.95
305111--305332	111	2.0	111	100	0	444	36	13	11	37	1.81
306627--306710	27	3.2	26	64	16	66	13	9	47	29	1.74
312068--312148	38	2.2	37	86	8	112	58	4	3	33	1.37
316033--316065	13	2.5	14	90	9	52	60	0	0	39	0.97
319183--319225	18	2.3	19	88	4	61	13	18	6	60	1.55
325317--325347	10	2.9	11	90	9	55	25	0	0	74	0.82
331316--331346	10	3.1	10	90	0	53	64	0	0	35	0.94
335186--335281	49	2.0	49	89	4	149	35	15	23	25	1.94
336541--336574	3	11.3	3	93	0	59	29	0	0	70	0.87
344973--345023	2	25.5	2	100	0	102	49	0	0	50	1.00
345359--345413	28	2.0	28	82	13	69	43	0	1	54	1.10
347596--347623	2	14.0	2	100	0	56	50	0	0	50	1.00
347910--347966	29	1.9	30	86	10	82	52	0	0	47	1.00
348791--348818	2	14.0	2	100	0	56	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354282--354308	2	13.5	2	100	0	54	48	0	0	51	1.00
357780--357820	16	2.5	16	88	11	57	65	0	0	34	0.93
357788--357825	11	3.5	11	85	3	51	63	0	0	36	0.95
357798--357919	34	3.5	35	74	19	98	59	0	0	40	1.03
357833--357913	18	4.1	19	75	15	60	56	1	0	41	1.07
357839--357919	35	2.4	32	77	22	85	59	1	0	39	1.05
358075--358163	44	2.0	45	82	6	110	57	1	0	41	1.06
358098--358182	44	2.0	43	86	6	118	50	0	0	49	1.00
358150--358242	33	2.8	33	81	4	107	49	2	1	47	1.20
359055--359096	19	2.3	19	88	8	61	40	0	0	59	0.97
361378--361529	80	1.9	80	84	2	207	42	10	15	30	1.81
363912--363942	3	10.3	3	100	0	62	0	0	64	35	0.94
363987--364034	21	2.3	21	82	10	62	25	22	22	29	1.99
366331--366367	12	2.8	13	88	12	58	37	13	2	45	1.58
373891--373948	22	2.4	23	77	11	64	53	0	0	46	1.00
374346--374387	18	2.3	19	87	4	59	59	0	0	40	0.97
380667--380705	17	2.3	17	86	8	53	38	0	12	48	1.42
380788--380827	17	2.2	20	86	13	59	52	2	0	45	1.14
381607--381639	2	16.5	2	100	0	66	48	0	0	51	1.00
383007--383163	78	2.0	78	98	0	305	32	12	22	31	1.92
385834--385867	3	11.3	3	100	0	68	35	0	0	64	0.94
391855--391896	22	1.9	22	85	0	57	33	0	2	64	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392043--392086	10	4.2	10	82	5	52	38	4	0	56	1.20
396581--396615	2	17.5	2	100	0	70	51	0	0	48	1.00
403295--403322	2	14.0	2	100	0	56	50	0	0	50	1.00
404545--404569	2	12.5	2	100	0	50	52	0	0	48	1.00
407282--407390	56	1.9	57	88	1	166	23	17	9	49	1.75
412061--412099	19	2.0	21	90	10	64	56	2	5	35	1.35
412889--412922	2	17.0	2	100	0	68	0	50	0	50	1.00
413177--413217	22	1.9	21	85	5	55	36	7	7	48	1.59
413393--413434	20	2.1	20	95	0	75	45	0	0	54	0.99
424404--424434	16	2.0	15	93	6	53	9	6	0	83	0.79
425594--425662	31	2.2	32	79	10	79	52	0	1	46	1.09
426233--426272	2	19.5	2	94	5	71	50	0	2	47	1.14
426619--426661	23	2.0	23	86	9	63	51	0	0	48	1.00
426791--426830	2	20.0	2	100	0	80	50	0	0	50	1.00
428462--428494	2	16.5	2	100	0	66	48	0	0	51	1.00
429042--429069	2	14.0	2	100	0	56	50	0	0	50	1.00
434727--435433	363	2.0	354	87	4	1024	39	12	28	19	1.88
436879--436911	17	1.9	17	93	0	57	21	0	42	36	1.53
437168--437216	2	24.5	2	100	0	98	51	0	0	48	1.00
440103--440142	2	20.0	2	100	0	80	50	0	0	50	1.00
442279--442312	17	1.9	18	88	5	52	64	2	0	32	1.08
442817--442858	21	2.0	21	86	9	59	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442818--442921	11	9.3	11	67	15	52	36	0	0	63	0.95
444172--444214	2	21.5	2	100	0	86	48	0	51	0	1.00
445245--445282	14	2.7	14	95	0	67	42	0	7	50	1.31
459487--459598	35	3.1	36	68	16	113	39	7	10	42	1.67
461107--461154	17	3.0	16	85	8	62	64	0	0	35	0.94
462307--462351	25	1.9	24	86	13	67	48	2	0	48	1.13
463009--463040	2	16.0	2	93	0	55	50	3	0	46	1.17
463131--463202	25	3.0	25	71	16	64	59	0	0	40	0.97
463150--463236	20	4.4	20	67	20	58	58	0	0	41	0.98
463137--463236	22	4.7	21	68	21	66	58	0	0	42	0.98

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