genome.fa.s316.2.7.7.80.10.50.1000.3.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: Scaffold316
Parameters: 2 7 7 80 10 50 1000
Length:  597962

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 496 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)
341964--341996	13	2.4	14	95	5	59	51	0	0	48	1.00
342352--342416	29	2.2	29	80	0	76	44	1	3	50	1.26
343136--343176	2	20.5	2	94	0	73	51	0	0	48	1.00
343448--343503	27	2.0	29	86	6	80	50	0	0	50	1.00
343918--343960	14	3.3	13	81	9	52	46	2	0	51	1.13
345653--345697	22	2.0	23	91	4	74	44	0	4	51	1.21
346633--346735	29	3.6	28	81	8	120	62	0	0	36	1.02
346646--346706	10	5.9	11	71	19	51	60	1	0	37	1.07
346670--346730	21	2.9	21	82	7	70	57	0	0	42	0.98
347196--347242	24	2.0	24	83	8	60	63	2	0	34	1.06
349293--349346	16	3.3	16	84	2	72	40	0	1	57	1.09
350265--350380	61	1.9	61	87	0	169	37	6	10	45	1.63
352228--352296	29	2.6	28	80	11	74	47	1	1	49	1.19
352530--352650	28	4.2	28	74	10	93	34	7	1	56	1.37
352622--352741	31	3.9	31	83	6	147	40	11	0	47	1.40
352565--352727	31	5.5	29	78	7	132	37	9	1	51	1.43
353035--353072	19	2.0	19	89	0	58	47	2	5	44	1.39
353939--354001	23	2.6	24	73	9	58	49	0	0	50	1.00
354236--354374	19	7.7	18	67	24	62	58	0	0	40	1.08
354284--354374	17	5.3	17	73	19	82	56	0	1	42	1.06
354316--354375	10	5.8	10	71	13	50	55	0	0	45	0.99
354393--354419	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355151--355182	13	2.5	13	94	0	55	75	0	25	0	0.81
355925--355961	2	18.5	2	88	0	56	43	0	5	51	1.24
359557--359626	30	2.3	30	87	0	95	31	15	7	45	1.73
359570--359628	30	2.0	30	93	0	100	30	13	6	49	1.68
366245--366287	2	21.5	2	95	0	77	48	0	51	0	1.00
366856--366887	3	10.7	3	100	0	64	34	0	34	31	1.58
369640--369669	9	3.2	9	95	4	51	13	0	0	86	0.57
369820--369860	17	2.5	17	82	17	52	68	0	0	31	0.90
369808--369861	14	3.7	14	75	18	56	64	0	0	35	0.94
369888--369960	28	2.7	28	85	10	91	49	2	1	46	1.24
370017--370049	3	11.0	3	100	0	66	33	0	0	66	0.92
370279--370323	14	3.3	14	81	12	58	51	0	0	48	1.00
369663--370729	345	3.0	344	83	10	1263	40	5	5	47	1.51
370521--370572	13	3.8	13	75	20	52	63	0	0	36	0.95
371137--371175	21	1.9	21	94	5	71	25	5	0	69	1.09
371289--371336	10	4.7	10	78	2	51	68	0	27	4	1.07
371284--371332	20	2.5	20	73	3	55	69	0	26	4	1.06
374319--374363	18	2.4	19	88	11	74	53	0	15	31	1.43
375737--375771	2	17.5	2	100	0	70	48	0	0	51	1.00
381733--381769	19	1.9	19	88	0	56	37	0	0	62	0.96
382074--382109	12	3.0	12	91	0	54	69	0	2	27	1.02
382120--382199	20	4.6	18	73	25	66	50	0	1	48	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382126--382187	32	2.0	31	87	3	88	50	0	1	48	1.10
382120--382217	52	2.0	47	86	9	133	53	0	1	45	1.07
382120--382190	25	2.8	24	75	12	70	49	0	1	49	1.09
391248--391293	2	23.0	2	95	0	83	50	2	0	47	1.13
392804--392901	33	2.9	34	82	11	112	52	0	0	47	1.00
396457--396494	3	12.7	3	83	10	51	39	0	0	60	0.97
396934--396965	2	16.0	2	100	0	64	50	0	50	0	1.00
397069--397133	17	3.9	17	76	21	59	56	3	0	40	1.15
397088--397126	19	2.1	19	85	9	53	56	2	0	41	1.13
397366--397414	2	24.5	2	95	0	89	48	0	2	48	1.12
399038--399077	12	3.3	12	83	10	55	30	5	0	65	1.14
399038--399097	24	2.5	24	79	10	61	28	3	3	65	1.25
399518--399597	27	3.2	27	76	21	102	13	26	0	60	1.34
399525--399569	20	2.2	20	96	0	81	15	31	0	53	1.43
399506--399634	47	2.7	49	83	11	176	20	21	0	56	1.47
399890--399952	24	2.5	26	87	10	87	68	0	0	31	0.90
399913--399967	18	3.0	17	76	19	65	63	0	0	36	0.95
401905--401963	28	2.0	30	87	12	86	30	5	0	64	1.15
402971--403015	21	2.1	21	87	4	63	75	0	0	24	0.80
403550--403590	15	2.6	16	84	7	57	51	0	0	48	1.00
403828--403876	2	24.5	2	100	0	98	51	0	0	48	1.00
412737--412767	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413227--413267	20	2.0	21	85	4	57	63	0	0	36	0.95
415048--415113	32	2.0	33	85	2	89	42	0	0	57	0.98
415513--415573	20	3.0	20	85	7	70	54	0	9	36	1.34
417213--417240	3	9.3	3	100	0	56	67	0	0	32	0.91
417529--417576	20	2.4	20	82	6	62	52	0	2	45	1.12
418254--418292	11	3.1	14	75	24	50	25	0	0	74	0.82
418246--418292	24	2.0	23	91	4	76	25	0	0	74	0.82
418251--418345	25	3.6	25	72	18	68	34	0	1	64	1.01
418288--418338	23	2.2	24	82	3	59	41	0	1	56	1.10
418269--418347	34	2.5	33	82	13	94	35	0	1	63	1.03
418318--418400	27	3.1	27	87	1	123	46	1	1	50	1.16
419178--419238	32	2.0	30	87	12	88	37	1	3	57	1.25
419807--419833	4	6.8	4	100	0	54	0	0	22	77	0.76
421208--421245	17	2.1	19	90	9	62	50	0	0	50	1.00
423942--423977	2	18.0	2	100	0	72	50	0	0	50	1.00
425073--425147	4	19.8	4	82	10	68	49	18	0	32	1.48
425093--425171	2	39.5	2	81	0	86	50	10	0	39	1.36
425085--425171	18	4.9	18	83	5	115	50	11	0	37	1.39
425089--425159	34	2.1	34	91	0	115	50	12	0	36	1.41
426345--426505	5	32.8	5	66	21	51	37	0	2	60	1.10
426425--426515	21	5.1	18	69	28	61	30	0	1	68	0.97
426423--426505	21	3.8	22	80	16	77	30	0	1	68	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426445--426495	16	3.7	14	78	21	63	27	0	0	72	0.85
426465--426506	11	3.7	11	81	12	50	30	0	0	69	0.89
426422--426507	15	5.8	14	74	16	66	31	0	1	67	0.98
426470--426524	24	2.3	23	81	12	65	36	0	1	61	1.06
427478--427521	2	22.5	2	83	4	54	43	2	2	52	1.26
434707--434738	9	3.4	9	91	8	55	87	0	12	0	0.54
435680--435733	27	2.0	28	85	3	74	66	0	1	31	1.02
435789--435819	12	2.7	11	90	9	53	48	3	0	48	1.17
436449--436491	17	2.6	16	85	10	59	81	0	0	18	0.69
436451--436491	14	3.2	13	83	10	57	82	0	0	17	0.66
437512--437567	19	2.8	20	72	5	69	30	3	14	51	1.59
437512--437586	39	1.9	39	88	0	114	29	4	17	49	1.65
437545--437681	58	2.3	58	85	3	168	31	4	13	51	1.60
440121--440167	2	23.5	2	100	0	94	48	0	0	51	1.00
441321--441449	64	2.0	64	93	0	222	27	14	15	42	1.86
448139--448213	20	3.8	20	80	3	80	40	12	13	34	1.81
448136--448213	40	2.0	39	87	2	111	39	12	12	34	1.82
450878--450918	20	2.0	20	86	9	57	58	0	0	41	0.98
451678--451723	2	23.5	2	86	4	67	45	0	4	50	1.21
454702--454768	21	3.2	21	77	10	68	47	8	5	37	1.59
456657--456719	29	2.2	28	77	8	65	55	1	1	41	1.19
457001--457051	20	2.8	18	77	13	50	54	0	1	43	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457218--457270	22	2.4	21	85	14	72	56	0	0	43	0.99
459288--459404	2	62.0	2	77	11	95	47	2	3	46	1.33
459462--459503	21	2.0	21	90	0	66	45	7	0	47	1.30
459451--459513	21	2.7	23	76	16	58	49	6	0	44	1.28
460842--460874	2	16.5	2	100	0	66	51	0	0	48	1.00
462704--462752	18	2.7	19	76	17	59	44	0	0	55	0.99
462729--462776	24	2.0	25	84	8	64	58	0	0	41	0.98
463226--463278	24	2.3	22	75	18	54	41	1	3	52	1.30
464863--464936	32	2.3	32	79	4	78	41	5	10	41	1.63
465946--465997	19	2.7	20	80	14	56	38	0	1	59	1.08

Tables:   1   2   3   4   5