genome.fa.s30.2.7.7.80.10.50.1000.5.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: Scaffold30
Parameters: 2 7 7 80 10 50 1000
Length:  2650045

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  5  of  17  ( 1999 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)
605466--605520	13	4.4	12	82	15	67	0	3	9	87	0.66
605455--605520	22	3.0	21	82	13	80	0	6	9	84	0.76
605441--605519	15	5.1	15	76	11	70	0	8	6	84	0.76
617899--618104	79	2.6	78	80	3	209	28	16	30	24	1.97
618056--618127	28	2.6	28	86	0	90	22	19	36	22	1.95
617977--618181	107	1.9	108	84	3	279	29	15	28	26	1.96
618138--618284	51	2.8	50	82	4	159	33	12	26	27	1.92
618115--618284	52	3.3	50	78	6	171	31	12	27	28	1.93
618216--618393	79	2.2	80	84	6	229	30	16	28	24	1.96
621286--621341	20	2.8	20	88	0	76	30	14	16	39	1.88
621787--621812	13	2.0	13	100	0	52	38	15	15	30	1.88
621765--621832	33	2.1	32	91	2	109	32	13	19	35	1.90
621873--621925	20	2.6	21	84	3	72	28	16	15	39	1.89
621913--621937	13	1.9	13	100	0	50	36	16	16	32	1.90
622493--622537	22	2.0	22	91	8	74	35	28	0	35	1.58
623911--623962	20	2.5	22	81	9	63	5	23	48	23	1.72
624396--624420	13	1.9	13	100	0	50	32	20	16	32	1.94
626318--631021	588	8.0	588	99	0	9131	33	19	13	33	1.90
633977--634043	32	2.1	32	88	5	100	34	13	16	35	1.88
634084--634134	20	2.5	21	83	3	68	27	15	15	41	1.88
636555--636588	13	2.6	13	90	0	59	5	5	2	85	0.83
636560--636601	19	2.2	19	86	0	57	4	7	4	83	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636970--637020	14	3.6	14	92	7	86	5	5	15	72	1.24
636962--637003	22	1.9	22	85	0	57	4	4	14	76	1.12
636970--637028	27	2.1	28	84	3	75	6	10	13	69	1.35
639650--639688	20	1.9	20	89	5	60	38	23	15	23	1.92
639677--639727	20	2.6	19	90	3	75	25	15	17	41	1.89
639678--639727	19	2.5	20	90	3	75	26	16	18	40	1.90
642141--642346	78	2.6	79	82	3	245	28	16	30	23	1.97
642111--642342	78	2.9	77	78	7	243	31	14	28	25	1.95
642298--642369	28	2.6	28	84	0	81	23	19	34	22	1.96
642380--642526	51	2.8	51	83	4	170	33	10	27	28	1.90
642326--642788	183	2.5	183	92	0	712	30	12	28	28	1.93
642410--642658	131	1.9	132	85	5	344	29	12	29	27	1.93
642458--642606	80	1.9	79	88	4	228	26	14	31	26	1.95
642537--642709	52	3.4	50	84	5	229	29	12	30	27	1.93
642641--642978	79	4.3	79	90	1	500	30	15	28	26	1.96
642931--643008	27	2.9	27	86	5	104	23	17	34	24	1.96
642989--643106	51	2.4	49	83	13	154	33	10	23	32	1.88
645451--645476	13	2.0	13	100	0	52	38	15	15	30	1.88
645430--645496	34	2.0	33	91	2	107	44	13	16	25	1.84
645596--645651	21	2.7	21	94	0	94	33	19	10	35	1.87
646389--647436	55	18.3	58	83	9	1177	25	20	27	26	1.99
646388--647436	175	6.1	172	86	7	1297	25	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646929--647018	29	3.2	28	72	20	89	23	20	30	26	1.98
647014--647096	27	3.0	27	60	16	62	21	19	30	28	1.98
647032--647118	27	3.2	27	63	15	70	24	20	28	26	1.99
648421--648468	1	48.0	1	82	0	60	0	2	6	91	0.48
648421--648469	13	3.8	13	86	0	71	0	2	8	89	0.55
656832--656904	20	3.7	20	79	3	76	38	12	13	35	1.83
656827--656904	40	2.0	39	87	2	111	38	14	12	34	1.84
657445--658543	28	38.5	28	88	4	1513	21	17	32	28	1.96
657445--658542	57	19.2	57	89	4	1526	21	17	32	28	1.96
657445--658545	257	4.3	256	91	2	1674	21	17	32	28	1.96
659772--659825	1	54.0	1	81	0	63	0	0	9	90	0.45
659762--659826	10	6.7	10	82	12	82	1	1	10	86	0.72
659763--659821	27	2.2	28	84	9	86	1	1	10	86	0.72
659772--659825	27	2.0	27	96	3	101	0	0	9	90	0.45
659784--659831	22	2.1	23	88	3	71	0	0	14	85	0.60
692847--692894	21	2.3	21	92	0	78	39	14	18	27	1.90
696295--697197	40	22.3	40	74	4	482	39	15	26	18	1.90
696295--696827	81	6.6	81	78	3	423	38	15	27	17	1.91
696295--696792	121	4.1	121	76	3	340	39	16	27	17	1.90
696845--697121	81	3.4	80	76	7	236	41	13	24	21	1.89
696972--697157	82	2.3	82	79	5	189	41	14	23	19	1.89
697901--698907	90	11.4	90	82	5	865	29	14	26	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
700768--700890	42	3.0	43	89	4	173	37	13	21	27	1.91
701002--701130	34	3.9	33	80	8	138	30	24	13	32	1.93
701705--701766	32	1.9	33	90	3	99	33	16	20	29	1.94
702392--702469	36	2.2	35	82	13	90	38	24	3	33	1.74
707218--707334	34	3.5	34	81	10	136	29	23	11	35	1.89
707710--707761	20	2.6	20	100	0	104	40	13	11	34	1.81
708451--708492	14	2.9	14	83	16	50	4	2	9	83	0.88
712247--712581	157	2.1	157	81	7	387	40	20	16	23	1.91
712293--712706	157	2.6	158	78	6	419	41	19	15	23	1.89
713828--713892	11	5.7	12	74	17	57	64	7	18	9	1.46
713827--713903	34	2.3	34	100	0	154	64	7	18	9	1.45
713989--714045	22	2.5	22	82	2	78	3	19	8	68	1.31
714254--714367	43	2.6	44	87	1	167	24	17	14	42	1.87
714157--714369	44	4.9	43	77	4	178	23	21	12	42	1.87
715622--715667	25	2.0	23	84	16	60	34	0	15	50	1.44
716257--716285	14	2.0	15	93	6	51	55	0	20	24	1.44
716633--716923	145	2.0	145	95	1	521	39	20	11	28	1.88
717148--717197	22	2.2	23	82	10	59	6	18	0	76	0.99
718597--718622	13	2.0	13	100	0	52	38	15	15	30	1.88
718579--718642	32	2.0	33	90	3	103	39	18	14	28	1.90
721894--721956	32	2.0	32	87	0	90	41	19	14	25	1.89
724156--724205	21	2.3	21	80	10	57	56	4	18	22	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
728108--728135	13	2.2	13	100	0	56	32	17	14	35	1.90
728256--728301	21	2.2	20	81	11	58	32	19	4	43	1.71
737419--738173	166	4.5	165	82	5	803	31	9	7	50	1.64
737500--738154	329	2.0	323	81	3	711	31	9	8	50	1.64
738595--738633	16	2.6	15	88	11	62	79	0	20	0	0.73
738595--738633	15	2.6	16	84	8	55	79	0	20	0	0.73
739705--739741	9	4.3	9	80	13	51	70	0	2	27	1.01
739690--739742	21	2.6	20	77	13	54	71	1	3	22	1.12
739710--739756	16	2.8	17	87	9	62	70	0	6	23	1.10
740562--740594	5	6.4	5	93	6	57	21	0	0	78	0.75
743273--743310	20	1.9	20	100	0	76	55	15	7	21	1.66
743486--743535	20	2.5	20	87	3	66	32	16	16	36	1.90
745176--745206	15	2.1	15	93	0	53	45	0	25	29	1.54
750071--750196	52	2.4	52	95	0	225	27	17	19	35	1.94
750071--750219	52	2.9	51	89	4	210	29	17	19	33	1.95
750561--750751	35	5.9	34	77	20	223	42	6	32	17	1.75
750596--750776	27	6.1	27	76	21	168	43	6	32	17	1.75
750531--750784	62	4.1	62	93	5	433	42	6	32	18	1.76
750658--750776	26	4.2	26	76	21	121	43	6	31	17	1.75
750684--750751	36	1.9	35	96	3	127	42	5	33	17	1.74
752007--752131	53	2.4	50	81	13	139	28	26	13	31	1.94
752060--752367	157	2.0	158	91	0	501	26	25	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
752060--752367	79	3.9	79	93	0	492	26	25	15	32	1.95
753421--753518	19	5.8	18	68	28	72	36	16	12	34	1.86
753416--753516	32	3.1	32	92	1	166	35	16	11	35	1.86
753440--753496	13	3.9	13	76	24	60	33	17	14	35	1.90
754293--755071	49	16.1	49	82	9	931	31	17	25	24	1.97
754293--755073	144	5.4	146	83	9	876	31	17	25	24	1.97
754293--755071	101	8.0	99	87	6	923	31	17	25	24	1.97
755071--755338	33	8.2	33	89	5	404	20	17	34	27	1.95
755340--755498	34	4.8	33	80	7	137	33	13	31	22	1.92
755340--755468	34	3.8	33	83	6	143	34	13	31	20	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17