genome.fa.s174.2.7.7.80.10.50.1000.3.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

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

This is table  3  of  15  ( 1687 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)
271021--271226	104	2.0	102	86	6	292	29	6	12	51	1.64
270709--271318	332	1.8	337	87	4	926	30	5	13	49	1.64
273878--273921	19	2.2	20	88	4	63	52	0	0	47	1.00
273903--273955	14	3.7	14	75	12	54	50	0	0	49	1.00
274668--274704	19	2.0	18	89	5	56	43	0	0	56	0.99
274713--274772	20	3.0	20	80	4	68	40	0	0	60	0.97
275562--275587	2	13.0	2	100	0	52	50	0	0	50	1.00
277909--277939	6	5.3	6	92	7	55	83	0	16	0	0.64
278507--278564	26	2.1	29	87	9	86	41	0	0	58	0.98
279776--279808	17	1.9	17	93	0	57	54	0	0	45	0.99
280039--280078	12	3.3	13	76	16	50	52	0	0	47	1.00
280638--280700	19	3.4	19	72	14	60	60	0	1	38	1.07
280638--280698	12	4.9	12	80	11	70	62	0	1	36	1.05
280646--280700	23	2.3	24	79	14	69	61	0	1	36	1.06
281241--281273	4	8.2	4	100	0	66	24	0	24	51	1.48
285339--285376	14	2.5	15	91	8	60	65	2	0	31	1.06
285777--285815	19	2.1	19	86	13	55	64	0	0	35	0.94
285782--285815	17	2.0	17	88	0	50	64	0	0	35	0.94
285766--285815	20	2.5	21	78	12	61	60	0	0	40	0.97
286029--286359	178	1.9	178	90	2	540	47	4	4	42	1.45
286683--286723	16	2.6	16	100	0	82	12	7	31	48	1.68
287627--287677	19	2.7	18	82	8	57	50	5	0	43	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
287664--287714	21	2.4	21	87	6	68	41	1	1	54	1.22
287681--287728	21	2.3	20	80	16	53	35	2	4	58	1.29
287778--287852	16	4.7	16	75	9	64	17	13	24	45	1.84
287776--287852	32	2.4	32	86	0	100	18	12	23	45	1.84
287809--287861	16	3.3	16	81	0	70	16	15	26	41	1.88
291920--292253	154	2.2	154	81	5	367	41	17	16	25	1.89
292829--292863	13	2.6	13	95	4	61	22	0	0	77	0.78
294526--294623	35	2.8	35	84	6	128	35	11	20	32	1.88
295730--295769	3	13.3	3	100	0	80	35	0	32	32	1.58
296327--296351	13	1.9	13	100	0	50	32	16	16	36	1.90
296360--296540	52	3.5	52	96	0	326	34	18	17	29	1.94
301696--301771	38	2.0	38	100	0	152	31	18	18	31	1.95
308128--308566	149	2.9	149	93	1	709	40	2	5	51	1.38
308761--308805	11	4.2	11	82	2	56	66	0	4	28	1.11
309048--309073	7	3.7	7	100	0	52	42	0	0	57	0.98
310174--310512	171	2.0	169	87	6	497	45	3	6	44	1.46
310743--310914	74	2.3	74	94	1	301	22	27	15	34	1.95
311065--311195	68	1.9	68	89	3	201	21	11	23	43	1.85
315307--315340	16	2.1	16	94	0	59	55	2	0	41	1.15
315547--315584	14	2.5	15	83	12	51	28	0	0	71	0.87
315551--315586	14	2.5	15	90	4	56	30	0	0	69	0.89
325506--325567	33	1.9	33	84	15	85	62	1	0	35	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327028--327061	16	2.1	17	88	5	52	35	0	0	64	0.94
327025--327305	139	2.0	143	81	8	335	40	2	4	51	1.38
327076--327343	139	1.9	139	81	10	325	41	2	4	52	1.34
328120--328184	33	2.0	33	87	0	94	33	12	13	40	1.82
328140--328164	13	1.9	13	100	0	50	36	16	16	32	1.90
328261--328385	52	2.4	52	94	0	214	36	17	16	28	1.92
332317--332366	14	3.7	14	84	10	61	68	2	0	30	1.01
332318--332373	14	4.2	12	84	10	58	67	1	1	28	1.10
332317--332373	26	2.2	26	81	12	64	66	1	1	29	1.12
332565--333193	164	3.8	163	78	8	573	49	8	10	31	1.67
335344--335374	5	6.0	5	96	3	53	41	0	0	58	0.98
335393--335463	32	2.2	32	80	5	81	40	0	0	59	0.98
335425--335472	23	2.0	24	84	15	64	43	0	0	56	0.99
335412--335473	32	1.9	32	83	6	81	43	0	0	56	0.99
338760--338804	22	2.0	22	83	8	56	48	6	17	26	1.72
338940--339022	44	1.9	42	83	13	107	40	0	1	57	1.06
338928--339019	33	2.7	34	79	14	84	42	0	1	56	1.06
339069--339125	30	1.9	30	85	7	80	54	7	0	38	1.28
339100--339197	50	2.0	50	88	8	146	58	3	0	38	1.14
339100--339197	24	3.9	25	84	8	128	58	3	0	38	1.14
339095--339198	25	4.2	25	80	8	113	56	3	0	39	1.17
339665--339694	15	2.1	15	93	6	53	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
339753--339804	20	2.5	22	78	12	72	36	0	3	59	1.16
339762--339804	20	2.2	20	95	0	77	34	0	4	60	1.17
340066--340114	24	2.1	23	81	11	55	44	0	2	53	1.12
340656--340687	2	16.0	2	100	0	64	50	0	0	50	1.00
342773--342818	18	2.6	18	89	3	67	0	21	0	78	0.76
343146--343192	24	2.0	24	86	0	67	55	2	2	40	1.24
352509--352610	26	4.0	25	80	15	111	61	3	0	34	1.14
352574--352645	35	2.1	35	84	5	92	52	5	0	41	1.24
353208--353250	17	2.4	19	81	18	56	30	13	4	51	1.62
353210--353249	18	2.3	18	87	12	57	30	15	5	50	1.65
356849--356910	18	3.5	18	89	6	83	24	3	0	72	0.99
356849--356904	8	6.6	8	84	8	67	23	3	0	73	0.99
356864--356910	9	5.1	9	89	5	76	21	2	0	76	0.89
358421--358509	34	2.5	34	73	10	81	39	0	2	58	1.11
363970--364010	13	3.1	13	82	6	55	29	4	0	65	1.13
364655--364704	17	2.9	17	77	11	66	38	0	0	62	0.96
366777--366818	22	1.9	22	90	9	68	40	0	2	57	1.12
366811--366850	19	2.1	20	86	9	57	40	0	0	60	0.97
366812--366841	13	2.2	14	94	5	53	36	0	0	63	0.95
369344--369383	19	2.1	19	100	0	80	37	10	20	32	1.85
371914--371966	22	2.4	21	81	12	61	54	0	0	45	0.99
373279--373333	22	2.5	22	77	13	60	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373775--373804	15	2.0	15	93	0	51	23	0	0	76	0.78
373891--374413	265	2.0	254	89	4	785	33	10	13	43	1.78
376924--376957	17	1.9	18	88	5	52	55	0	26	17	1.42
377469--377502	17	2.0	17	88	11	52	20	5	2	70	1.21
378305--378337	2	16.5	2	100	0	66	48	0	0	51	1.00
382552--382591	21	1.9	21	100	0	80	20	25	12	42	1.86
382551--382597	21	2.2	21	88	0	76	17	31	10	40	1.83
385049--385116	16	4.2	16	79	7	75	63	0	0	36	0.95
385079--385179	31	3.5	31	65	30	78	62	0	0	35	1.09
385148--385198	20	2.5	20	80	0	57	56	0	0	43	0.99
391012--391056	9	4.9	9	78	5	54	68	0	0	31	0.89
391009--391082	16	4.8	16	68	18	57	64	2	0	32	1.07
391016--391069	27	2.0	28	88	3	83	66	1	0	31	1.02
391010--391071	28	2.2	26	81	15	79	67	1	0	30	1.00
391559--391669	16	7.0	15	74	12	89	36	0	0	62	1.08
391702--391801	9	11.6	9	69	20	54	39	0	1	60	1.04
391641--391791	60	2.5	61	80	10	159	39	1	2	56	1.25
391713--391891	16	11.9	15	72	18	97	43	0	0	55	1.08
391788--391841	21	2.6	21	85	5	65	40	0	1	57	1.09
391701--391854	16	9.4	16	77	14	118	42	0	1	56	1.07
392233--392294	33	2.0	30	84	15	81	64	1	1	32	1.13
392956--392988	17	1.9	17	88	11	50	66	12	3	18	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393264--393298	2	17.5	2	100	0	70	0	48	0	51	1.00
393775--393808	16	2.1	16	88	0	50	41	0	2	55	1.15
394050--394087	15	2.5	16	83	12	53	55	0	2	42	1.14
394441--394499	21	2.8	21	76	19	59	38	0	0	61	0.96
394450--394499	22	2.4	20	81	15	57	42	0	0	58	0.98
400056--400085	15	1.9	16	93	6	53	43	0	0	56	0.99
400030--400096	35	1.9	35	85	11	93	49	0	0	50	1.00
409861--409906	20	2.3	21	77	11	51	43	0	8	47	1.34
409904--409943	18	2.3	17	86	4	53	30	0	0	70	0.88
410664--410713	16	3.2	16	72	13	50	44	0	0	56	0.99

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