genome.fa.s77.2.7.7.80.10.50.1000.3.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: Scaffold77
Parameters: 2 7 7 80 10 50 1000
Length:  1374688

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1055 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)
322476--322556	34	2.7	28	74	20	81	56	0	0	43	0.99
322472--322546	34	2.2	34	92	4	125	60	0	0	40	0.97
323039--323070	17	1.9	16	93	6	55	40	0	3	56	1.15
323687--323745	16	3.6	16	77	9	57	61	0	0	38	0.96
323761--323798	19	2.0	19	89	0	58	34	5	7	52	1.53
324788--324831	20	2.2	20	87	0	61	61	0	0	38	0.96
324811--324879	27	2.4	27	79	13	68	53	2	1	42	1.24
329675--329715	2	20.5	2	94	0	73	51	2	0	46	1.14
333253--333317	28	2.3	28	89	0	94	46	6	13	33	1.69
336774--336813	21	2.0	20	85	9	55	27	10	17	45	1.80
339136--339191	21	2.7	21	100	0	112	35	10	17	35	1.85
339249--339273	13	1.9	13	100	0	50	36	16	16	32	1.90
339229--339295	33	2.0	33	88	0	98	32	11	14	40	1.83
339315--339342	13	2.2	13	100	0	56	28	14	17	39	1.89
339348--339472	52	2.4	52	95	0	223	36	18	17	28	1.94
345309--345367	30	1.9	31	86	3	84	38	6	6	47	1.57
345624--345658	16	2.2	16	89	0	52	48	0	0	51	1.00
346855--346912	23	2.4	23	83	11	64	60	0	3	36	1.14
346914--346954	21	2.0	21	85	9	57	63	2	0	34	1.08
346923--346962	21	1.9	21	84	0	53	62	2	0	35	1.09
346925--346997	36	2.0	37	84	7	96	67	4	0	28	1.09
347329--347410	20	4.2	19	73	6	65	59	1	0	39	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347293--347360	30	2.4	28	75	17	70	66	0	1	32	1.01
347368--347424	18	2.8	20	74	15	55	54	1	1	42	1.21
348547--348614	19	3.9	19	78	21	85	35	11	14	38	1.83
348568--348592	13	1.9	13	100	0	50	36	16	16	32	1.90
348549--348611	32	2.0	32	96	0	117	34	12	15	36	1.86
348654--348679	13	2.0	13	100	0	52	30	15	15	38	1.88
348634--348700	33	2.0	33	88	0	98	26	14	14	43	1.85
351047--351171	51	2.4	50	82	6	151	33	24	12	30	1.91
351160--351231	28	2.6	28	84	4	83	22	33	19	25	1.97
353759--353837	20	3.9	20	69	14	63	41	0	0	58	0.98
354261--354321	30	2.0	30	84	15	81	47	1	0	50	1.10
354309--354333	7	3.6	7	100	0	50	44	0	0	56	0.99
355222--355274	18	3.1	18	73	13	58	41	1	0	56	1.10
355491--355530	21	2.0	20	85	5	53	52	7	0	40	1.30
358540--358589	24	2.0	25	92	3	84	46	6	0	48	1.27
359972--360017	2	23.0	2	100	0	92	50	0	0	50	1.00
360559--360616	20	2.9	19	71	16	55	32	1	0	65	1.03
360570--360618	18	2.5	19	83	12	64	32	2	0	65	1.04
360943--360983	22	1.9	21	90	5	64	39	0	0	60	0.96
361998--362032	17	2.0	18	94	5	63	31	0	0	68	0.90
361998--362050	17	3.3	17	82	15	60	33	0	0	66	0.92
363570--363613	2	22.0	2	92	0	70	52	0	2	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369231--369273	22	2.0	22	86	9	61	48	0	4	46	1.22
370280--370327	15	3.1	15	77	11	53	58	0	0	41	0.98
370279--370331	16	3.4	16	75	19	58	56	0	0	43	0.99
370429--370458	15	2.1	14	93	6	51	60	0	0	40	0.97
373506--373553	15	3.3	15	75	16	55	50	12	4	33	1.59
374071--374291	34	6.5	33	81	9	257	40	26	7	25	1.82
374073--374291	68	3.2	67	85	3	287	40	26	7	25	1.82
374071--374291	102	2.2	101	88	1	343	40	26	7	25	1.82
378362--378401	19	2.1	19	95	0	71	30	17	17	35	1.93
378692--378915	34	6.6	33	80	9	236	41	25	6	25	1.79
378699--378915	68	3.2	67	84	3	274	41	25	6	25	1.80
378700--378915	102	2.1	101	90	2	335	41	25	6	25	1.80
380403--380445	19	2.3	19	84	8	52	37	0	2	60	1.10
382105--382129	13	1.9	13	100	0	50	32	0	4	64	1.12
386075--386100	11	2.4	11	100	0	52	76	0	0	23	0.78
386600--386627	14	2.0	14	100	0	56	42	0	0	57	0.99
386606--386660	22	2.4	23	79	11	60	41	1	0	56	1.10
386735--386789	28	2.0	28	88	0	83	41	7	0	50	1.30
387352--387397	18	2.6	17	83	10	56	32	2	0	65	1.05
387704--387740	16	2.4	16	86	13	51	45	0	0	54	1.00
387690--387742	24	2.3	22	87	6	70	45	0	0	54	0.99
388045--388102	13	3.9	15	74	17	57	58	1	0	39	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388261--388363	30	3.4	29	79	12	109	49	1	3	44	1.31
388530--388581	15	3.3	16	78	10	63	67	0	0	32	0.91
388534--388603	25	2.7	25	77	18	72	67	0	0	32	0.91
388533--388603	24	2.7	25	77	20	74	66	0	0	33	0.92
388539--388584	13	3.5	13	83	13	58	71	0	0	28	0.86
388534--388611	24	3.2	24	80	10	70	65	1	0	33	1.01
388762--388816	28	1.9	28	81	3	65	41	0	1	56	1.10
388950--389002	25	2.0	27	79	17	67	41	1	0	56	1.10
389334--389383	18	2.7	18	82	17	59	38	2	4	56	1.30
389423--389465	20	2.2	20	83	8	52	39	2	0	58	1.11
389662--389756	32	3.0	31	85	3	118	55	4	1	38	1.26
390095--390188	43	2.1	48	82	9	117	43	2	2	52	1.25
390153--390230	11	7.0	11	81	12	70	37	0	0	62	0.95
390115--390250	37	4.0	33	74	20	106	38	0	0	59	1.08
390151--390193	20	2.2	20	83	8	52	41	0	0	58	0.98
390160--390246	16	4.8	18	69	27	60	35	0	0	64	0.94
390162--390238	23	3.2	23	80	12	84	36	0	0	63	0.95
390206--390247	18	2.5	16	88	7	57	33	0	0	66	0.92
390685--390740	16	3.2	17	75	22	53	41	0	3	55	1.17
391620--391657	12	3.2	12	85	7	51	31	0	0	68	0.90
392872--393018	11	13.0	11	70	18	88	40	0	0	59	0.97
392873--393008	44	3.0	46	76	15	147	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392889--393017	35	3.6	34	75	20	118	41	0	0	58	0.98
392892--393030	75	1.9	75	86	8	203	42	0	0	56	1.04
393448--393519	32	2.2	34	80	14	89	54	0	1	44	1.08
393441--393485	20	2.4	18	77	7	54	48	0	0	51	1.00
393765--393796	14	2.4	14	94	5	57	56	0	0	43	0.99
393873--393951	33	2.4	33	80	13	92	36	1	0	62	1.04
393830--393943	60	1.9	59	82	5	140	37	2	0	58	1.18
393873--393944	18	4.1	18	68	13	51	36	1	0	62	1.04
395025--395053	12	2.5	12	94	5	51	62	0	0	37	0.96
396174--396266	42	2.3	42	82	14	115	52	1	0	46	1.07
396275--396357	7	12.3	7	71	12	57	62	2	1	33	1.16
396274--396386	35	3.3	35	74	16	103	59	1	0	38	1.14
396325--396404	17	4.6	17	74	13	65	57	0	0	42	0.98
396350--396424	18	4.6	18	68	21	56	50	0	0	49	1.00
397239--397286	17	3.0	17	82	11	66	8	14	0	77	0.99
397250--397294	17	2.6	17	86	13	74	6	13	0	80	0.91
397240--397296	8	6.9	8	73	15	53	5	14	0	80	0.87
397935--398017	9	9.7	9	68	18	52	66	1	1	31	1.07
397946--398008	27	2.6	23	85	10	72	66	1	1	30	1.10
397957--398008	23	2.3	22	84	12	70	65	1	1	30	1.14
397946--398015	25	2.8	25	77	16	74	67	1	1	30	1.08
398268--398315	17	2.8	17	80	17	55	41	0	6	52	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398371--398430	16	3.8	16	76	8	50	51	20	8	20	1.72
398418--398994	297	1.9	296	97	0	1100	43	7	6	41	1.60
399872--399952	27	3.0	27	80	8	83	40	1	0	58	1.06
400399--400462	5	13.4	5	78	15	73	35	0	0	64	0.94
400392--400464	13	5.6	13	74	19	64	34	0	0	65	0.93
400396--400463	26	2.6	25	86	11	93	33	0	0	66	0.92
400404--400446	11	3.8	11	87	9	52	32	0	0	67	0.91
400400--400461	7	9.4	7	73	19	62	37	0	0	62	0.95
400654--400713	31	1.9	32	90	10	97	56	5	1	36	1.31
400724--400765	14	2.8	15	79	20	52	64	0	0	35	0.94

Tables:   1   2   3   4   5   6   7   8   9