genome.fa.s198.2.7.7.80.10.50.1000.4.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: Scaffold198
Parameters: 2 7 7 80 10 50 1000
Length:  1648337

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

This is table  4  of  11  ( 1234 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)
407971--408029	27	2.1	28	84	6	75	59	0	5	35	1.20
409132--409164	4	8.2	4	100	0	66	72	0	0	27	0.85
406182--411366	774	6.7	777	91	3	8044	39	11	10	38	1.76
411110--411167	23	2.5	23	81	10	64	55	0	3	41	1.17
411750--411774	13	1.9	13	100	0	50	32	16	20	32	1.94
413993--414037	21	2.1	21	84	8	56	53	4	20	22	1.63
415841--415871	15	2.1	15	93	0	53	48	16	22	12	1.80
417878--417955	20	3.7	20	74	15	75	26	15	15	42	1.87
418076--418122	21	2.3	21	79	20	55	34	19	4	42	1.70
418078--418120	20	2.2	19	84	16	52	32	18	4	44	1.71
420484--420508	13	1.9	13	100	0	50	32	16	20	32	1.94
421370--421394	4	6.2	4	100	0	50	72	0	0	28	0.86
422145--422177	4	8.2	4	100	0	66	72	0	0	27	0.85
423338--423395	23	2.5	23	81	10	64	55	0	3	41	1.17
423695--423719	4	6.2	4	100	0	50	72	0	0	28	0.86
424075--424145	27	2.5	28	79	11	72	56	0	5	38	1.23
424107--424164	23	2.5	23	81	10	64	55	0	3	41	1.17
424468--424504	4	9.2	4	100	0	74	72	0	0	27	0.84
424860--424930	27	2.5	28	79	11	72	56	0	5	38	1.23
425252--425284	4	8.2	4	100	0	66	72	0	0	27	0.85
421260--432350	780	14.3	774	91	3	16647	39	10	10	39	1.74
425640--425710	27	2.5	28	79	11	72	56	0	5	38	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426429--426481	27	2.0	27	84	0	70	58	0	5	35	1.22
428749--428787	18	2.1	19	85	4	53	58	0	2	38	1.12
428760--428818	27	2.1	28	84	6	75	57	0	5	37	1.21
431077--431115	18	2.1	19	85	4	53	58	0	2	38	1.12
431847--431885	18	2.1	19	85	4	53	58	0	2	38	1.12
431846--431911	27	2.6	26	79	13	66	57	0	4	37	1.19
432861--432912	26	2.0	25	85	3	68	0	19	0	80	0.71
432862--432914	22	2.4	22	87	0	70	0	20	0	79	0.74
432995--433036	15	2.9	14	83	13	50	57	0	0	42	0.99
441547--441591	21	2.2	21	96	4	83	33	15	0	51	1.44
446359--446429	16	4.4	16	75	12	74	39	25	15	19	1.91
446339--446429	32	2.8	32	88	1	128	40	25	15	18	1.90
448275--448328	24	2.3	23	74	3	54	35	1	1	61	1.18
451669--451721	20	2.6	21	85	11	74	43	11	15	30	1.81
454850--454913	19	3.7	19	72	23	68	35	12	14	37	1.83
454851--455010	32	5.0	32	71	11	121	35	15	15	33	1.90
454870--454894	13	1.9	13	100	0	50	36	16	16	32	1.90
454966--454990	13	1.9	13	100	0	50	32	16	16	36	1.90
454979--455129	52	2.9	52	92	2	241	33	17	17	30	1.94
461746--461786	8	5.0	8	82	5	55	82	2	2	12	0.86
461742--461786	16	2.7	17	86	3	65	82	4	2	11	0.91
463080--463530	44	10.2	43	72	8	257	21	23	15	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463037--463499	177	2.6	176	85	4	592	22	23	15	38	1.93
463035--463499	89	5.2	89	86	1	594	22	23	15	38	1.93
463851--463952	43	2.4	43	81	3	134	15	24	17	42	1.88
466547--466841	162	1.8	162	82	8	377	39	7	9	43	1.65
466987--467023	2	18.5	2	100	0	74	48	0	0	51	1.00
485700--485767	25	2.6	25	88	6	91	83	8	2	4	0.87
485700--485779	8	9.9	8	74	12	65	83	8	2	5	0.87
487000--487798	28	28.0	28	83	6	898	28	29	17	24	1.97
486991--487746	198	3.8	198	86	4	1017	28	29	17	24	1.97
486997--487778	226	3.4	226	87	3	1027	28	29	17	24	1.97
493461--493491	3	10.3	3	92	0	53	35	0	35	29	1.58
496826--496851	13	2.0	13	100	0	52	30	15	15	38	1.88
496806--496869	32	2.0	33	90	3	103	28	14	15	42	1.86
498880--498922	20	2.1	20	86	4	59	9	30	44	16	1.79
499363--499400	13	2.9	13	96	0	67	31	15	18	34	1.92
503449--503489	20	2.1	20	86	4	57	31	9	19	39	1.84
505251--505275	13	1.9	13	100	0	50	32	16	16	36	1.90
507358--507399	21	2.0	21	85	0	57	23	28	4	42	1.74
509020--509060	20	2.1	20	86	4	57	31	9	19	39	1.84
512300--512325	13	2.0	13	100	0	52	30	15	15	38	1.88
512280--512343	32	2.0	33	87	3	94	28	14	14	43	1.83
518207--518384	48	3.8	48	85	1	216	35	15	25	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518253--518418	46	3.6	46	82	4	138	35	15	25	24	1.94
518493--519140	30	21.9	28	78	11	480	23	18	29	29	1.97
518507--519140	117	5.4	115	77	10	575	23	17	29	29	1.97
518505--519140	89	7.2	87	79	10	548	23	17	29	29	1.97
518494--519076	147	3.9	147	87	3	773	22	18	29	29	1.97
520394--520476	19	4.4	18	77	16	80	0	0	18	81	0.68
520394--520476	10	8.7	10	76	18	72	0	0	18	81	0.68
520394--520478	27	3.0	27	81	6	98	0	0	18	81	0.70
520425--520475	11	4.6	11	85	4	68	0	0	15	84	0.63
527192--527230	16	2.3	18	83	16	57	28	12	7	51	1.67
537371--537425	20	2.8	20	85	0	83	29	14	12	43	1.82
539746--539841	50	1.9	50	85	4	131	27	22	11	38	1.89
539864--540035	79	2.2	79	84	2	211	26	28	15	30	1.96
546935--547039	50	2.1	52	82	7	126	25	20	12	40	1.88
547046--547230	78	2.4	78	79	10	209	26	24	14	34	1.94
547216--547365	79	1.9	80	84	1	203	28	23	15	33	1.95
549437--549471	4	8.8	4	100	0	70	22	0	0	77	0.78
560902--561038	61	2.4	57	82	7	170	29	27	16	26	1.97
560931--561117	61	3.1	61	80	6	211	25	27	18	28	1.98
561121--561314	61	3.2	61	89	3	275	24	25	20	29	1.99
560958--561278	162	2.0	161	90	3	511	24	27	17	29	1.97
560810--561304	216	2.3	216	88	3	713	26	27	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560810--561328	223	2.4	216	87	3	707	26	27	18	27	1.98
562006--562079	20	3.7	20	96	0	130	27	14	13	44	1.83
562842--562897	20	2.8	20	83	0	67	37	14	16	32	1.88
562898--562950	20	2.6	21	90	3	81	41	15	16	26	1.88
563002--563026	13	1.9	13	100	0	50	32	16	16	36	1.90
562982--563049	33	2.1	33	88	2	102	36	17	11	33	1.86
564911--565142	79	2.9	79	79	5	254	31	14	27	26	1.95
565098--565168	28	2.5	28	86	4	90	23	19	35	21	1.96
567538--567938	55	7.0	55	81	10	407	24	19	28	27	1.98
567563--567939	116	3.3	116	86	8	511	24	19	29	27	1.98
567569--567935	177	2.1	172	86	5	497	24	19	28	27	1.99
567853--568037	100	1.9	100	88	2	282	27	20	29	23	1.98
569011--569086	1	76.0	1	73	0	53	0	3	10	85	0.72
569023--569086	14	4.6	14	87	11	80	0	1	12	85	0.66
569034--569076	17	2.6	17	96	3	79	0	0	13	86	0.58
573434--573634	52	3.9	52	92	1	332	30	16	19	32	1.94
573623--573647	13	1.9	13	100	0	50	36	16	16	32	1.90
573711--573735	13	1.9	13	100	0	50	32	16	16	36	1.90
585180--585253	28	2.6	28	95	0	130	28	22	27	21	1.99
585096--585356	107	2.4	107	83	3	303	31	16	28	23	1.96
585287--585362	28	2.7	27	84	8	82	23	18	35	22	1.96
585347--585741	52	7.6	51	72	9	251	31	11	26	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585346--585566	51	4.3	51	83	2	264	32	11	26	29	1.91
585549--585625	28	2.8	28	85	0	91	22	19	35	23	1.96
585239--585730	262	1.9	262	93	0	858	31	12	27	28	1.93
588070--588126	21	2.8	21	86	2	80	47	12	15	24	1.80
588447--588484	19	2.0	19	94	0	67	42	0	34	23	1.55
588514--588553	21	1.9	21	84	0	53	32	2	35	30	1.71
589105--589133	13	2.2	13	100	0	58	31	17	13	37	1.89
589121--589173	21	2.6	21	90	3	81	43	15	15	26	1.85
589225--589249	13	1.9	13	100	0	50	32	16	16	36	1.90
589205--589272	33	2.1	33	91	2	111	36	17	13	32	1.89

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