genome.fa.s12.2.7.7.80.10.50.1000.5.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: Scaffold12
Parameters: 2 7 7 80 10 50 1000
Length:  2382857

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  5  of  12  ( 1413 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)
913144--913230	34	2.5	35	83	3	106	19	43	5	31	1.74
913571--913628	21	2.6	23	81	15	77	43	13	13	29	1.83
913673--913728	20	2.7	22	86	10	82	32	14	10	42	1.80
917486--917533	18	2.8	17	81	6	51	68	4	2	25	1.18
917593--917762	14	9.6	20	64	31	102	45	5	30	17	1.72
917595--917770	35	5.1	35	95	2	313	44	6	31	17	1.73
919166--919516	79	4.4	79	86	2	472	26	27	14	31	1.95
919166--919516	158	2.2	159	89	2	526	26	27	14	31	1.95
924267--924292	13	2.0	13	100	0	52	30	15	15	38	1.88
926644--926690	21	2.3	21	76	23	55	42	4	19	34	1.70
926811--926849	13	3.0	13	92	0	60	33	15	20	30	1.94
926835--926913	20	3.7	20	76	15	68	43	15	16	25	1.87
928649--928679	15	2.1	15	93	0	53	12	22	16	48	1.80
930483--930527	22	2.1	21	84	8	56	22	17	4	55	1.60
932733--932758	13	2.0	13	100	0	52	30	15	15	38	1.88
935300--935746	55	8.0	55	85	4	610	26	28	20	24	1.99
935665--935846	100	1.9	95	87	7	267	23	32	21	23	1.98
935764--936366	55	10.4	54	81	11	564	26	28	19	25	1.99
935764--936366	116	5.2	116	85	6	776	26	28	19	25	1.99
935760--936363	171	3.5	173	85	7	728	26	27	19	25	1.99
936055--936139	27	3.1	27	65	15	75	28	27	16	28	1.97
936229--936519	156	1.9	152	83	10	383	26	28	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
936384--936635	61	4.3	59	83	9	306	26	26	20	26	1.99
936114--936908	272	2.9	270	88	4	1140	25	28	19	26	1.99
936384--936635	116	2.2	120	82	11	319	26	26	20	26	1.99
936440--936846	211	1.9	213	87	5	599	25	28	20	25	1.99
936652--936963	55	5.5	55	81	10	340	25	27	21	25	1.99
936652--936963	116	2.7	117	85	3	425	25	27	21	25	1.99
937863--937910	18	2.8	17	81	6	51	68	4	2	25	1.18
937985--938152	14	9.5	20	64	31	98	45	5	30	17	1.72
937969--938160	35	5.6	35	95	1	345	44	6	31	17	1.74
939213--939633	79	5.3	79	88	0	583	27	26	14	32	1.95
941186--941222	18	2.0	20	89	10	60	72	2	5	18	1.15
942186--942212	14	1.9	14	100	0	54	74	0	25	0	0.83
946175--946241	20	3.7	20	74	25	85	37	11	14	35	1.84
946196--946220	13	1.9	13	100	0	50	36	16	16	32	1.90
946176--946275	33	3.0	33	89	0	146	36	13	13	38	1.83
946318--946353	13	2.8	13	100	0	72	38	16	8	36	1.79
946362--946486	52	2.4	52	95	0	223	36	18	17	28	1.94
947131--947186	24	2.3	24	96	0	103	14	19	8	57	1.63
950403--950433	16	2.0	15	93	6	53	19	22	12	45	1.84
952331--952368	20	1.9	20	89	10	60	34	5	15	44	1.69
952402--952450	22	2.2	21	79	10	53	55	6	4	34	1.44
952598--952853	48	5.3	51	75	16	201	40	1	4	53	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
952666--952855	92	2.1	92	83	10	237	40	1	4	53	1.32
956061--956363	152	2.0	152	89	2	466	22	13	20	43	1.87
962270--962303	16	2.1	17	88	5	52	82	0	11	5	0.83
962270--962303	17	2.0	17	88	0	50	82	0	11	5	0.83
967678--967702	13	1.9	13	100	0	50	36	16	16	32	1.90
967661--967723	33	1.9	32	87	3	90	30	15	20	33	1.94
971100--971225	62	2.0	62	95	0	225	41	17	23	18	1.90
973625--973666	12	3.6	12	81	15	52	21	9	40	28	1.84
974059--974157	52	1.9	52	89	0	153	41	12	16	30	1.84
974260--974309	19	2.5	19	83	6	64	30	18	8	44	1.78
974754--974809	20	2.8	20	86	0	76	39	12	16	32	1.85
978704--978766	19	3.7	18	72	24	64	34	12	15	36	1.86
978690--978779	32	2.8	32	91	0	144	34	13	15	36	1.87
992721--992751	13	2.4	13	94	0	53	90	6	3	0	0.55
994181--994306	28	4.4	29	85	5	150	33	33	16	16	1.92
994181--994294	30	3.9	30	87	4	162	30	34	17	17	1.93
994297--994530	68	3.4	69	84	5	294	20	30	11	37	1.88
994290--994530	34	7.0	35	80	6	242	21	30	10	37	1.87
994498--994584	27	3.1	27	86	4	102	25	34	17	22	1.96
994290--994530	104	2.3	103	81	4	288	21	30	10	37	1.87
994508--994625	29	4.2	29	81	10	113	31	34	16	17	1.92
994552--994635	28	2.9	30	78	20	90	34	30	15	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
994802--994954	39	3.7	39	70	14	126	24	25	22	26	2.00
994748--994953	87	2.4	88	85	0	288	25	24	22	27	2.00
995737--995832	19	5.7	18	77	22	102	32	12	17	37	1.87
995722--995845	46	2.6	49	89	7	191	32	12	16	37	1.87
999216--999556	53	6.5	52	80	3	317	36	12	23	27	1.90
999216--999564	105	3.3	105	78	5	366	36	12	23	28	1.91
999720--999883	33	5.1	32	85	4	197	23	18	28	29	1.97
999732--999905	32	5.4	33	78	10	159	22	18	28	29	1.98
999890--999981	29	3.1	29	87	1	121	32	11	29	26	1.92
1000370--1000587	52	4.2	52	78	3	188	36	17	23	22	1.95
1000402--1000591	104	1.8	103	81	1	236	35	18	23	21	1.95
1001877--1001934	24	2.4	23	75	11	55	5	3	17	74	1.15
1001897--1001927	11	2.7	12	95	5	55	0	0	22	77	0.77
1011466--1011540	20	3.8	20	83	0	96	33	13	13	40	1.83
1011830--1011861	16	2.0	16	100	0	64	43	31	0	25	1.55
1015411--1015467	20	2.7	22	86	7	84	31	14	8	45	1.75
1022673--1022729	22	2.6	23	68	18	57	3	12	38	45	1.59
1023006--1023095	38	2.3	39	85	9	114	16	21	8	53	1.70
1023093--1023138	22	2.1	22	87	0	65	17	28	13	41	1.86
1023093--1023148	22	2.4	23	80	14	62	17	30	10	41	1.84
1023155--1023199	17	2.6	17	100	0	90	37	13	13	35	1.84
1023310--1023369	3	21.7	3	78	13	58	28	1	0	70	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023313--1023371	14	4.1	14	78	18	68	27	1	0	71	0.96
1023308--1023372	30	2.1	31	86	8	89	26	1	0	72	0.94
1023316--1023374	13	4.2	13	78	21	66	27	1	0	71	0.96
1023308--1023373	14	4.4	14	74	20	62	25	1	0	72	0.93
1026664--1027217	167	3.3	163	77	10	435	28	11	11	48	1.74
1027427--1027465	17	2.5	16	88	12	55	30	0	0	69	0.89
1028780--1028846	33	2.0	33	91	5	109	35	17	13	32	1.89
1028808--1028845	20	1.9	20	94	0	67	39	18	10	31	1.85
1028800--1028825	13	2.0	13	100	0	52	38	15	15	30	1.88
1029481--1029532	22	2.4	22	86	0	77	25	32	7	34	1.84
1029539--1029619	40	2.0	40	92	0	135	23	29	8	38	1.85
1037654--1037716	33	1.9	33	90	0	99	30	14	17	38	1.89
1037749--1037821	20	3.7	19	88	3	92	38	19	13	28	1.90
1039865--1039934	34	2.1	33	89	7	106	34	14	20	31	1.92
1040468--1040535	34	2.0	33	85	2	91	30	13	16	39	1.86
1040576--1040601	13	2.0	13	100	0	52	30	15	15	38	1.88
1040589--1040713	52	2.4	52	94	0	214	36	17	17	28	1.93
1047690--1047721	16	2.0	16	93	0	55	78	21	0	0	0.76
1049031--1050070	34	32.4	33	76	13	747	20	35	12	30	1.91
1049340--1049975	27	20.6	27	72	20	309	21	36	13	29	1.92
1049035--1050051	215	4.6	215	79	12	871	20	35	13	31	1.91
1049036--1050051	95	10.6	94	76	14	822	20	35	13	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050056--1050124	33	2.1	34	94	2	122	26	31	17	24	1.97
1050122--1050543	52	8.8	49	77	13	378	26	25	16	31	1.96
1050177--1050497	43	7.0	43	75	10	192	26	26	16	29	1.97
1050128--1050394	93	2.8	93	86	3	365	26	27	16	29	1.96
1050122--1050499	188	2.0	182	80	7	418	26	26	16	31	1.96
1050226--1050543	144	2.2	145	89	1	487	25	26	16	31	1.96
1050358--1050548	92	2.0	94	90	3	305	25	24	16	32	1.96
1050450--1050574	52	2.3	51	86	6	169	25	24	13	36	1.92
1051267--1051302	10	3.6	10	85	14	56	30	11	8	50	1.67
1051261--1051302	20	2.1	20	100	0	84	28	14	9	47	1.75

Tables:   1   2   3   4   5   6   7   8   9   10   11   12