genome.fa.s188.2.7.7.80.10.50.1000.3.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: Scaffold188
Parameters: 2 7 7 80 10 50 1000
Length:  942289

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 599 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)
350435--350474	21	2.0	20	85	9	55	27	10	15	47	1.77
357538--357562	13	1.9	13	100	0	50	36	16	16	32	1.90
366215--366241	13	2.1	13	100	0	54	29	7	14	48	1.71
366225--366281	19	2.9	19	86	2	78	31	14	17	36	1.89
366313--366374	32	1.9	33	90	3	99	37	16	14	32	1.89
370671--371237	167	3.4	165	83	7	641	28	11	7	52	1.64
373423--374163	155	4.8	153	76	8	622	25	17	19	38	1.93
373422--374163	306	2.4	309	80	6	815	25	17	19	38	1.93
376350--376443	42	2.2	42	81	9	102	32	18	26	22	1.97
376375--376719	42	8.3	42	73	7	226	34	17	25	22	1.96
376640--378315	43	39.1	43	75	5	571	32	18	28	20	1.96
377164--377792	343	1.8	343	85	2	897	33	19	27	20	1.96
376648--378048	86	16.4	85	72	6	650	33	18	27	20	1.96
376746--378092	386	3.5	385	78	4	1090	33	18	27	20	1.96
378925--379125	89	2.2	89	88	0	294	29	13	29	26	1.95
380883--380927	22	2.1	22	84	8	58	8	22	0	68	1.16
380930--380971	20	2.1	20	90	0	66	4	16	0	78	0.91
382827--382934	53	2.0	53	90	0	171	32	17	22	27	1.96
382759--383007	132	1.9	131	82	4	313	34	13	25	26	1.93
382880--383263	79	4.9	79	80	5	382	33	13	25	28	1.93
382880--383263	158	2.4	158	83	2	459	33	13	25	28	1.93
385582--385716	50	2.7	50	88	2	191	40	12	19	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
386299--386430	42	3.1	42	81	2	129	42	10	24	22	1.85
386413--386924	61	8.3	61	82	7	538	27	18	27	26	1.98
386468--386923	120	3.8	120	83	6	544	27	18	27	25	1.98
386413--386930	181	2.8	182	84	5	614	27	18	27	26	1.98
388388--388636	79	3.1	80	76	9	231	34	15	23	26	1.94
388592--388664	28	2.6	29	86	6	105	27	19	31	21	1.97
388521--388716	107	1.8	107	84	2	268	33	14	25	27	1.95
388652--388767	51	2.3	51	87	0	160	31	12	24	31	1.93
388782--388896	51	2.3	51	86	4	153	35	12	23	28	1.91
388641--388975	130	2.6	130	84	4	453	34	11	24	29	1.91
388837--389035	79	2.5	78	86	2	274	34	11	24	29	1.91
390666--390715	20	2.5	20	83	6	66	34	12	18	36	1.87
399362--399386	13	1.9	13	100	0	50	32	16	16	36	1.90
399370--399426	19	2.9	19	84	2	78	33	15	17	33	1.92
399367--399508	20	7.0	20	69	13	85	34	15	14	35	1.88
401388--401442	20	2.8	20	94	0	101	45	16	14	23	1.84
402058--402158	41	2.5	41	85	7	134	43	8	29	17	1.80
402162--402585	46	9.7	44	74	12	313	41	12	24	20	1.88
402162--402618	88	5.3	85	74	13	287	41	13	24	20	1.88
402580--403107	62	8.5	62	83	3	636	31	18	26	24	1.98
409251--409548	79	3.8	77	79	5	247	33	13	23	29	1.93
409485--409597	51	2.2	51	80	3	129	34	7	23	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409406--409790	130	3.0	128	78	6	407	32	11	24	30	1.92
409607--409730	51	2.4	50	81	6	126	30	14	25	29	1.95
413256--413474	51	4.3	51	78	2	208	33	11	25	29	1.91
417001--417219	51	4.3	50	77	4	206	31	11	26	30	1.91
420745--420963	51	4.3	50	77	4	206	31	11	26	30	1.91
424489--424603	51	2.3	50	80	4	131	31	8	27	32	1.87
424669--424743	27	2.7	27	89	6	107	22	20	33	24	1.97
424727--425119	51	7.5	51	76	12	336	33	12	24	29	1.92
424723--424947	103	2.2	104	89	4	339	32	12	26	28	1.93
424931--425005	27	2.7	27	89	6	107	22	20	33	24	1.97
427466--427517	19	2.6	21	87	6	72	32	13	13	40	1.83
428410--428781	61	6.3	60	79	8	392	26	19	27	26	1.99
428410--428781	115	3.2	116	84	3	460	26	19	27	26	1.99
428641--428756	62	1.9	61	90	1	187	25	18	29	26	1.98
428478--428790	176	1.8	173	84	8	395	27	18	28	25	1.98
429853--429901	14	3.4	14	85	5	62	0	2	10	87	0.62
429861--429898	19	1.9	19	89	5	58	0	0	13	86	0.56
435346--435370	12	2.1	12	100	0	50	32	36	8	24	1.84
442313--442490	79	2.3	79	81	9	195	32	14	26	25	1.95
442442--442513	28	2.6	28	86	0	99	25	19	33	22	1.97
442368--442566	107	1.9	107	82	4	258	32	15	25	27	1.95
442500--442617	51	2.3	51	82	2	148	32	11	25	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442231--442697	237	2.0	237	81	6	554	33	14	25	26	1.94
442628--442919	51	5.7	51	76	9	272	34	11	23	30	1.90
442636--442914	102	2.7	101	83	7	373	35	11	22	29	1.90
442628--442917	52	5.6	51	77	8	293	34	11	23	30	1.90
445623--445652	13	2.3	13	94	0	51	40	13	13	33	1.83
446447--446507	28	2.2	28	85	5	88	3	3	8	85	0.82
446447--446507	16	4.1	16	68	21	51	3	3	8	85	0.82
446449--446494	24	1.9	24	82	8	58	2	4	8	84	0.83
449579--451042	370	4.0	370	99	0	2919	23	20	20	35	1.96
456964--457069	51	2.1	51	94	0	185	44	8	19	27	1.80
457036--457132	20	4.8	20	86	5	133	41	9	15	34	1.79
457839--458007	49	3.5	49	76	6	143	34	18	24	21	1.96
458067--458577	30	17.3	28	79	9	412	22	17	29	29	1.97
458067--458522	58	7.7	59	79	9	419	22	17	30	29	1.97
458050--458529	92	5.4	88	82	9	476	22	18	30	29	1.97
463875--463952	32	2.4	32	86	0	111	33	16	14	35	1.89
463888--463950	19	3.6	19	66	24	57	33	17	14	34	1.90
476438--476515	39	2.0	39	100	0	156	46	28	7	17	1.76
477322--477376	20	2.8	20	85	0	74	41	14	10	32	1.81
482074--482101	4	7.0	4	100	0	56	75	0	0	25	0.81
484325--484667	79	4.3	78	81	4	348	34	12	25	28	1.92
485100--485169	35	2.0	35	100	0	140	45	8	11	34	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490074--490468	157	2.5	157	80	5	426	37	22	17	22	1.94
490074--490501	158	2.7	156	78	7	438	37	22	17	22	1.94
490896--490921	13	2.0	13	100	0	52	38	15	15	30	1.88
490878--490941	32	2.0	33	87	3	94	42	14	14	29	1.84
494809--494840	15	2.1	15	94	0	55	46	15	21	15	1.83
495503--495596	20	4.6	20	80	4	98	38	13	19	28	1.90
495521--495596	21	3.7	21	82	3	109	40	11	18	28	1.86
495503--495596	41	2.3	41	98	0	179	38	13	19	28	1.90
495635--495660	13	2.0	13	100	0	52	38	15	15	30	1.88
497874--497918	21	2.1	21	84	8	56	53	4	20	22	1.63
501768--501845	20	3.6	21	74	15	70	26	14	15	43	1.85
501834--501871	13	2.9	13	96	0	67	34	18	15	31	1.92
504324--504417	20	4.6	20	80	4	98	38	13	19	28	1.90
504342--504417	21	3.7	21	82	3	109	40	11	18	28	1.86
504324--504417	41	2.3	41	98	0	179	38	13	19	28	1.90
504456--504481	13	2.0	13	100	0	52	38	15	15	30	1.88
506943--506980	13	2.9	13	92	0	58	34	15	15	34	1.90
509432--509525	20	4.6	20	80	4	98	38	13	19	28	1.90
509450--509525	21	3.7	21	82	3	109	40	11	18	28	1.86
509432--509525	41	2.3	41	98	0	179	38	13	19	28	1.90
509564--509589	13	2.0	13	100	0	52	38	15	15	30	1.88
512034--512065	13	2.5	13	94	0	55	37	18	15	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514613--514638	13	2.0	13	100	0	52	38	15	15	30	1.88
514595--514658	32	2.0	33	90	3	103	42	15	14	28	1.86
518606--518734	52	2.5	52	98	0	249	27	18	18	34	1.95
518810--518903	19	5.6	18	68	28	73	36	17	11	35	1.86
518829--518885	13	3.9	13	72	24	51	35	17	12	35	1.87
518808--518903	32	3.0	32	93	1	165	36	16	11	35	1.85
519913--520160	129	1.9	130	84	4	333	44	12	10	32	1.76
520026--520600	166	3.5	164	87	4	824	41	10	10	37	1.74
521528--521566	11	3.5	11	89	3	60	2	23	0	74	0.94
522038--522819	166	4.7	166	81	6	777	50	9	10	29	1.69

Tables:   1   2   3   4   5