genome.fa.s138.2.7.7.80.10.50.1000.4.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: Scaffold138
Parameters: 2 7 7 80 10 50 1000
Length:  1735418

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

This is table  4  of  11  ( 1296 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)
572228--572292	33	2.0	33	87	0	94	26	15	18	40	1.90
574630--574971	52	6.5	53	69	16	201	30	26	11	32	1.92
574693--575087	107	3.7	106	74	11	324	28	27	13	30	1.94
577061--577290	28	8.1	27	74	9	140	33	23	16	26	1.96
577119--577272	83	1.9	83	83	2	202	33	22	16	26	1.96
577070--577314	56	4.3	56	79	4	199	31	23	17	27	1.97
578696--578720	13	1.9	13	100	0	50	36	16	16	32	1.90
578676--578742	33	2.0	33	85	0	89	32	11	13	41	1.81
578783--578807	13	1.9	13	100	0	50	32	16	16	36	1.90
578816--578944	52	2.5	52	96	0	231	34	18	17	29	1.94
582416--582469	2	27.0	2	81	7	65	46	1	1	50	1.23
582416--582469	23	2.3	23	87	0	72	46	1	1	50	1.23
584590--584639	25	2.1	23	85	14	66	60	6	0	34	1.21
584631--584673	22	2.0	22	85	0	59	53	0	4	41	1.21
584737--584792	20	2.8	20	81	7	62	48	1	0	50	1.11
587404--587488	6	13.0	6	73	18	55	60	0	0	40	0.97
587410--587480	22	3.0	24	83	10	92	59	0	0	40	0.98
587405--587488	13	6.4	13	70	24	61	59	0	0	40	0.97
587405--587508	19	4.8	22	69	23	62	59	0	0	39	1.04
587411--587497	22	4.3	20	76	22	76	58	0	0	41	0.98
587437--587510	37	1.9	39	86	10	109	58	1	0	40	1.07
587409--587497	28	3.0	30	74	11	76	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587825--587867	24	1.9	21	86	13	59	48	0	0	51	1.00
587852--587883	16	2.0	16	93	0	55	34	0	0	65	0.93
588582--588622	20	2.1	19	86	13	57	43	4	0	51	1.23
590147--590282	64	2.1	64	97	1	254	55	10	1	32	1.42
590510--590554	3	15.0	3	100	0	90	66	0	0	33	0.92
591024--591077	27	2.0	27	89	7	83	48	0	0	51	1.00
591027--591088	27	2.4	26	78	13	65	53	0	0	46	1.00
591066--591096	13	2.4	13	100	0	62	58	0	0	41	0.98
591372--591403	2	16.0	2	93	0	55	46	0	3	50	1.17
600282--600307	13	2.0	13	100	0	52	76	0	7	15	0.99
600322--600378	21	2.7	21	97	0	105	33	10	19	36	1.86
600434--600501	19	3.9	19	78	21	85	35	11	14	38	1.83
600455--600479	13	1.9	13	100	0	50	36	16	16	32	1.90
600436--600498	32	2.0	32	96	0	117	34	12	15	36	1.86
600541--600566	13	2.0	13	100	0	52	30	15	15	38	1.88
600521--600587	33	2.0	33	88	0	98	25	14	16	43	1.86
603045--603114	27	2.6	27	88	2	95	25	31	21	21	1.98
603100--603272	52	3.4	51	76	11	172	30	23	11	34	1.90
603252--603333	28	2.9	28	83	7	96	24	32	17	25	1.96
614314--614395	28	2.9	28	83	7	96	24	32	17	25	1.96
617531--617587	2	28.5	2	100	0	114	49	0	0	50	1.00
618385--618441	21	2.7	21	72	17	55	64	3	1	29	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618437--618502	33	2.0	33	85	11	91	59	3	1	36	1.22
618451--618506	18	3.3	18	69	20	57	57	1	1	39	1.20
620094--620128	16	2.2	16	94	0	61	54	17	5	22	1.64
620119--620163	16	2.9	16	83	3	56	48	24	11	15	1.77
620125--620185	16	3.8	16	82	0	68	44	22	13	19	1.85
620098--620194	32	3.0	31	73	5	86	46	22	11	19	1.82
621200--621276	16	4.8	16	74	6	75	40	18	18	23	1.91
621198--621299	32	3.2	30	79	8	96	40	22	16	20	1.91
626423--626468	21	2.2	21	88	0	65	50	0	0	50	1.00
626434--626466	17	2.0	17	88	5	50	45	0	0	54	0.99
628054--628128	20	3.8	20	76	0	78	36	13	10	40	1.79
628054--628131	40	2.0	39	84	2	102	35	12	11	39	1.80
629043--629097	22	2.5	22	100	0	110	18	10	9	61	1.54
629043--629104	22	2.9	21	90	4	63	20	11	9	58	1.61
641471--641529	13	4.7	12	83	10	73	88	10	1	0	0.60
641473--641539	30	2.2	31	89	7	102	86	8	2	1	0.73
641472--641529	1	58.0	1	78	0	62	89	8	1	0	0.55
642759--643690	28	32.6	29	85	5	1120	28	31	17	22	1.97
642760--643690	144	6.5	141	85	5	1126	28	31	17	22	1.97
644296--644370	20	3.8	20	76	0	78	36	12	12	40	1.79
645285--645337	22	2.5	22	96	3	99	18	9	9	62	1.52
648588--648617	2	15.0	2	92	0	51	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649267--649322	20	2.7	22	76	21	66	41	5	12	41	1.66
650541--650584	17	2.4	18	88	7	63	25	2	0	72	0.96
651483--651524	22	1.9	22	85	0	57	38	4	4	52	1.44
656250--656530	79	3.5	79	74	8	246	29	20	11	38	1.87
659521--659917	200	2.0	201	89	1	618	43	11	8	36	1.72
663224--663289	30	2.2	31	83	8	82	56	0	0	43	0.99
663265--663291	8	3.4	8	100	0	54	62	0	0	37	0.95
663609--663676	26	2.7	26	78	15	79	48	0	1	50	1.10
663900--663927	2	14.0	2	100	0	56	50	0	0	50	1.00
665013--665045	15	2.2	15	94	0	57	51	3	0	45	1.16
665576--665624	24	2.0	24	84	7	64	20	0	6	73	1.04
668008--668146	52	2.7	51	84	5	156	30	12	12	44	1.79
669956--669999	21	2.0	22	86	4	63	34	15	2	47	1.58
670559--670619	30	2.0	31	83	3	79	22	27	14	34	1.94
670589--670664	35	2.2	33	83	4	98	22	27	14	35	1.93
670651--671463	31	25.3	32	73	11	520	30	31	16	22	1.96
670720--671547	161	5.1	160	80	4	794	30	30	16	21	1.96
670738--671447	31	22.0	32	75	7	521	29	31	16	21	1.96
670946--671370	129	3.3	127	77	7	321	30	31	16	20	1.95
670740--671541	321	2.5	322	80	5	820	30	31	16	22	1.96
670656--671547	32	27.7	32	73	10	552	30	30	16	21	1.96
671632--671758	52	2.4	53	80	3	132	25	19	15	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672510--672597	29	3.0	29	75	8	88	23	34	14	27	1.94
672646--672854	32	6.5	32	77	6	156	32	24	16	26	1.96
672648--673772	64	17.5	64	72	9	506	30	28	16	24	1.96
673209--673368	32	4.9	34	74	10	127	26	28	18	25	1.98
672648--673683	160	6.5	159	74	11	572	30	28	16	24	1.96
673197--673624	191	2.2	190	80	4	466	30	29	16	23	1.96
673022--673772	352	2.1	352	80	2	819	31	29	15	23	1.95
672691--673772	31	33.8	32	72	8	504	30	29	15	23	1.96
673531--673772	65	3.8	64	78	5	204	32	28	15	23	1.95
673392--673772	160	2.4	160	82	2	458	32	30	14	22	1.94
674170--674994	32	25.5	32	75	8	512	30	31	15	22	1.95
674356--674993	31	19.7	32	76	7	169	30	32	15	22	1.94
674170--674995	161	5.1	160	76	6	650	30	31	15	22	1.95
674197--674994	130	6.2	128	74	9	510	30	31	15	22	1.95
681073--681136	30	2.1	30	85	0	83	60	1	3	34	1.22
681311--681344	16	2.2	16	89	5	52	52	0	2	44	1.16
681763--681908	73	2.0	73	94	0	256	47	11	25	15	1.79
681984--682030	2	23.5	2	100	0	94	51	0	48	0	1.00
683119--683153	3	11.7	3	87	0	52	25	0	2	71	1.00
686753--686795	1	43.0	1	95	0	77	0	97	0	2	0.16
687879--688004	47	2.9	41	73	21	121	34	2	3	60	1.26
687969--688007	18	2.2	18	95	0	69	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
687936--688096	32	5.1	32	70	17	106	37	1	1	59	1.17
688040--688091	14	3.4	14	71	19	50	48	1	0	50	1.12
689362--689408	21	2.3	19	80	16	58	42	0	2	55	1.12
689367--689408	21	2.0	22	90	4	68	40	0	2	57	1.12
689475--689569	12	7.4	12	67	20	50	42	0	1	56	1.06
689484--689540	28	2.0	28	86	6	80	38	0	1	59	1.08
689475--689567	39	2.4	40	82	12	106	40	0	1	58	1.05
689592--689630	21	2.0	20	85	10	53	38	0	2	58	1.12
692920--692951	2	16.0	2	93	0	55	46	0	3	50	1.17
693268--693308	3	13.7	3	100	0	82	65	0	34	0	0.93

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